Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 69 of 182
Found at i:21033281 original size:25 final size:22
Alignment explanation
Indices: 21033227--21033283 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
21033217 CACGATTTCA
*
21033227 TTTCCCCAATTTCCCAACTTCT
1 TTTCCCCAATTTCCCAACTTAT
*
21033249 TTTCCCCCAATTTCCCCCAAGTTAT
1 TTT-CCCCAATTT--CCCAACTTAT
21033274 TCTTCCCCAA
1 T-TTCCCCAA
21033284 AGTATTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 9 0.31
25 15 0.52
26 2 0.07
ACGTcount: A:0.19, C:0.42, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTCCCCAATTTCCCAACTTAT
Found at i:21033295 original size:14 final size:15
Alignment explanation
Indices: 21033259--21033297 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
21033249 TTTCCCCCAA
*
21033259 TTTCCCCCAAGTTAT
1 TTTCCCCAAAGTTAT
21033274 TCTTCCCCAAAG-TAT
1 T-TTCCCCAAAGTTAT
21033289 TTTCCCCAA
1 TTTCCCCAA
21033298 TTTCCCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (15 bp):
TTTCCCCAAAGTTAT
Found at i:21033561 original size:33 final size:33
Alignment explanation
Indices: 21033519--21033586 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
21033509 CATCTATGTT
*
21033519 ATTCGAGTTAAATGAGATGAGTGTTGGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
*
21033552 ATTCGAGTTAAATGAGATTAGTGTTAGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
21033585 AT
1 AT
21033587 ATATGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (33 bp):
ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
Found at i:21033849 original size:17 final size:17
Alignment explanation
Indices: 21033827--21033864 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
21033817 ATCCCAGGAA
21033827 CTTGCAGCCTCTACTTC
1 CTTGCAGCCTCTACTTC
*
21033844 CTTGCAGCCTTTACTTC
1 CTTGCAGCCTCTACTTC
21033861 CTTG
1 CTTG
21033865 TGAACTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.37, G:0.13, T:0.39
Consensus pattern (17 bp):
CTTGCAGCCTCTACTTC
Found at i:21035361 original size:24 final size:24
Alignment explanation
Indices: 21035334--21035386 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
21035324 TATTTGTATA
21035334 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
21035358 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
21035382 ATATT
1 ATATT
21035387 ATAAAATACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:21035538 original size:22 final size:22
Alignment explanation
Indices: 21035493--21035538 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
21035483 AACTTAATTA
*
21035493 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTGAC
21035515 ATTAATATTATACATAGA-TGAC
1 ATTAATATTATACATA-ACTGAC
21035537 AT
1 AT
21035539 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTGAC
Found at i:21035594 original size:22 final size:22
Alignment explanation
Indices: 21035549--21035594 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
21035539 AACTTAATTA
* *
21035549 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATGAC
21035571 ATTAATATTATACATAAATGAC
1 ATTAATATTATACATAAATGAC
21035593 AT
1 AT
21035595 AACTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAAATGAC
Found at i:21035614 original size:34 final size:34
Alignment explanation
Indices: 21035571--21035779 Score: 150
Period size: 34 Copynumber: 6.7 Consensus size: 34
21035561 CATAACTTAC
*
21035571 ATTAATATTATACATAAATGACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
21035605 ATTAATATTATACATAACTTAC---A-TTAA-T-
1 ATTAATATTATACATAAATTACATAACTTAATTA
* * * *
21035633 ATT-ATA-CATAAATGACA-T--A-AC-TTAATTA
1 ATTAATATTATACAT-AAATTACATAACTTAATTA
* *
21035661 ATTAATATTATACATAACTTACATAAATTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
* *
21035695 GTT-A-A-TATACATAAATTACATAACTT-A--C
1 ATTAATATTATACATAAATTACATAACTTAATTA
* * *
21035723 ATTAATATGATACATAAATGACATAACTTAGTTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
21035757 ATTAATATTATACATAACTTACA
1 ATTAATATTATACATAAATTACA
21035780 ACTTACATAA
Statistics
Matches: 133, Mismatches: 24, Indels: 36
0.69 0.12 0.19
Matches are distributed among these distances:
26 10 0.08
27 5 0.04
28 8 0.06
29 6 0.05
30 12 0.09
31 39 0.29
32 2 0.02
33 2 0.02
34 49 0.37
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (34 bp):
ATTAATATTATACATAAATTACATAACTTAATTA
Found at i:21035650 original size:22 final size:22
Alignment explanation
Indices: 21035605--21035650 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
21035595 AACTTAATTA
* *
21035605 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATGAC
21035627 ATTAATATTATACATAAATGAC
1 ATTAATATTATACATAAATGAC
21035649 AT
1 AT
21035651 AACTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAAATGAC
Found at i:21035685 original size:9 final size:9
Alignment explanation
Indices: 21035671--21035899 Score: 60
Period size: 9 Copynumber: 26.7 Consensus size: 9
21035661 ATTAATATTA
21035671 TACATAACT
1 TACATAACT
*
21035680 TACATAAAT
1 TACATAACT
* *
21035689 TA-ATTAGT
1 TACATAACT
21035697 TA-AT-A-T
1 TACATAACT
*
21035703 -ACATAAAT
1 TACATAACT
21035711 TACATAACT
1 TACATAACT
*
21035720 TACATTAATAT
1 TACA-TAA-CT
*
21035731 GATACATAAAT
1 --TACATAACT
*
21035742 GACATAACT
1 TACATAACT
**
21035751 TAGTTAA-T
1 TACATAACT
*
21035759 TA-AT-ATT
1 TACATAACT
21035766 ATACATAACT
1 -TACATAACT
21035776 TAC--AACT
1 TACATAACT
21035783 TACATAACT
1 TACATAACT
**
21035792 TACATATTTT
1 TACATA-ACT
*
21035802 TA-ATTA-T
1 TACATAACT
* *
21035809 T-CGTAAAT
1 TACATAACT
21035817 TACATAACT
1 TACATAACT
* *
21035826 TACTTAATT
1 TACATAACT
*
21035835 TTCATAA--
1 TACATAACT
*
21035842 TAAATAACT
1 TACATAACT
*
21035851 TACATAAAT
1 TACATAACT
* *
21035860 AAC-T-TCT
1 TACATAACT
21035867 TACATAACT
1 TACATAACT
** *
21035876 TATGTGACT
1 TACATAACT
21035885 TACATAACT
1 TACATAACT
21035894 TACATA
1 TACATA
21035900 GCATAATTTT
Statistics
Matches: 159, Mismatches: 39, Indels: 44
0.66 0.16 0.18
Matches are distributed among these distances:
5 1 0.01
6 4 0.03
7 23 0.14
8 18 0.11
9 95 0.60
10 8 0.05
11 3 0.02
12 3 0.02
13 4 0.03
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:21035708 original size:56 final size:56
Alignment explanation
Indices: 21035478--21035684 Score: 405
Period size: 56 Copynumber: 3.7 Consensus size: 56
21035468 TATTGTAAGG
*
21035478 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAGAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
21035534 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
21035590 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
21035646 GACATAACTTAATTAATTAATATTATACATAACTTACAT
1 GACATAACTTAATTAATTAATATTATACATAACTTACAT
21035685 AAATTAATTA
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 150 1.00
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.39
Consensus pattern (56 bp):
GACATAACTTAATTAATTAATATTATACATAACTTACATTAATATTATACATAAAT
Found at i:21035748 original size:96 final size:90
Alignment explanation
Indices: 21035571--21035779 Score: 310
Period size: 96 Copynumber: 2.3 Consensus size: 90
21035561 CATAACTTAC
* * * *
21035571 ATTAATATTATACATAAATGACATAACTTAATTAATTAATATTATACATAACTTACATTAATATT
1 ATTAATATTATACATAACTTACATAAATTAATTAATTAATATTATACATAACTTACATTAATATG
21035636 ATACATAAATGACATAACTTAATTA
66 ATACATAAATGACATAACTTAATTA
*
21035661 ATTAATATTATACATAACTTACATAAATTAATTAGTTAATATACATAAATTACATAACTTACATT
1 ATTAATATTATACATAACTTACATAAATTAATTAATTAATAT---T--A-TACATAACTTACATT
*
21035726 AATATGATACATAAATGACATAACTTAGTTA
60 AATATGATACATAAATGACATAACTTAATTA
21035757 ATTAATATTATACATAACTTACA
1 ATTAATATTATACATAACTTACA
21035780 ACTTACATAA
Statistics
Matches: 107, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
90 38 0.36
93 1 0.01
95 1 0.01
96 67 0.63
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (90 bp):
ATTAATATTATACATAACTTACATAAATTAATTAATTAATATTATACATAACTTACATTAATATG
ATACATAAATGACATAACTTAATTA
Found at i:21035854 original size:34 final size:34
Alignment explanation
Indices: 21035779--21035857 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
21035769 CATAACTTAC
* * ***
21035779 AACTTACATAACTTACATATTTTTAATTATTCGT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* * *
21035813 AAATTACATAACTTACTTAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
21035847 AACTTACATAA
1 AACTTACATAA
21035858 ATAACTTCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:21035930 original size:25 final size:25
Alignment explanation
Indices: 21035901--21035956 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
21035891 ACTTACATAG
* *
21035901 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
21035926 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
21035951 CATAAT
1 CATAAT
21035957 ACATAACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:21035956 original size:16 final size:16
Alignment explanation
Indices: 21035937--21035970 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21035927 ATAATTTGGG
21035937 TAATAAATAACTTACA
1 TAATAAATAACTTACA
*
21035953 TAATACATAACTTACA
1 TAATAAATAACTTACA
21035969 TA
1 TA
21035971 GCTTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAATAACTTACA
Found at i:21043203 original size:66 final size:65
Alignment explanation
Indices: 21043109--21043279 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
21043099 GAGCAAATTA
* * * * *
21043109 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
21043173 G
65 G
*
21043174 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCTA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
21043239 G
65 G
* * * * *
21043240 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
21043280 CGGCAGTGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 85 0.92
67 5 0.05
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:21043323 original size:21 final size:21
Alignment explanation
Indices: 21043251--21043362 Score: 107
Period size: 21 Copynumber: 5.3 Consensus size: 21
21043241 AGCAGCTTAG
* * *
21043251 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCTGCAGCGAGAGA
* *
21043272 AGCAGAGGCGGCAGTGAGAGA
1 AGCAGAGGCTGCAGCGAGAGA
* * **
21043293 AGAACAGGCTGCAGTAAGAGA
1 AGCAGAGGCTGCAGCGAGAGA
**
21043314 AGCAGAGGCTAAAGCGAGAGA
1 AGCAGAGGCTGCAGCGAGAGA
* *
21043335 AGCAAAGGCTGCAGCGAGGGA
1 AGCAGAGGCTGCAGCGAGAGA
21043356 AGCAGAG
1 AGCAGAG
21043363 CAGCGTCAAA
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.38, C:0.16, G:0.40, T:0.05
Consensus pattern (21 bp):
AGCAGAGGCTGCAGCGAGAGA
Found at i:21043333 original size:42 final size:42
Alignment explanation
Indices: 21043261--21043362 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
21043251 AGCAGATGCG
** *
21043261 GCAGCAAGAGAAGCAGAGGCGGCAGTGAGAGAAG-AACAGGCT
1 GCAGCAAGAGAAGCAGAGGCGAAAGCGAGAGAAGCAA-AGGCT
* *
21043303 GCAGTAAGAGAAGCAGAGGCTAAAGCGAGAGAAGCAAAGGCT
1 GCAGCAAGAGAAGCAGAGGCGAAAGCGAGAGAAGCAAAGGCT
* *
21043345 GCAGCGAGGGAAGCAGAG
1 GCAGCAAGAGAAGCAGAG
21043363 CAGCGTCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 49 0.96
43 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.40, T:0.05
Consensus pattern (42 bp):
GCAGCAAGAGAAGCAGAGGCGAAAGCGAGAGAAGCAAAGGCT
Found at i:21043715 original size:43 final size:42
Alignment explanation
Indices: 21043667--21043872 Score: 229
Period size: 43 Copynumber: 4.7 Consensus size: 42
21043657 ATCTGCCAAA
*
21043667 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTC
1 TTTAGCGGCGTTTTTGG-AAAAGCGCCGCTATAGATCAGGGTC
** *
21043710 TTTAGCGGCGTTTTTGCGCGAAGCGCCGCTATATAGA-CAAAGGGTA
1 TTTAGCGGCGTTTTTG-GAAAAGCGCCGC--TATAGATC--AGGGTC
* *
21043756 TTTAGCAGCGTTTTCTGGATAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTT-TGGAAAAGCGCCGCTATAGATCAGGGTC
*
21043799 TATT-GCGGCGTTTTCTGGATAAGCGCCGCTATAGATCAGGGTC
1 T-TTAGCGGCGTTTT-TGGAAAAGCGCCGCTATAGATCAGGGTC
21043842 TATT-GCGGCGTTTTTGGTAAAAGCGCCGCTA
1 T-TTAGCGGCGTTTTTGG-AAAAGCGCCGCTA
21043873 AAGGCCATGA
Statistics
Matches: 144, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 3 0.02
43 95 0.66
44 9 0.06
45 7 0.05
46 28 0.19
47 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTATAGATCAGGGTC
Found at i:21043823 original size:89 final size:89
Alignment explanation
Indices: 21043666--21043872 Score: 250
Period size: 89 Copynumber: 2.4 Consensus size: 89
21043656 AATCTGCCAA
* * *
21043666 ATTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTCTTTAGCGGCGTTTTTGCGCGA
1 ATTTAGCAGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTGCGAGA
21043731 AGCGCCGCTATATAGACAAAGGGT
66 AGCGCCGCTATATAGACAAAGGGT
*
21043755 ATTTAGCAGCGTTTTCTGG-ATAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTTCTG-G
1 ATTTAGCAGCGTTTT-TGGTAAAAGCGCCGCTATAGATCAGGGTCT-TTAGCGGCGTTTT-TGCG
*
21043817 ATAAGCGCCGC--TATAGATC--AGGGT
63 AGAAGCGCCGCTATATAGA-CAAAGGGT
* *
21043841 CTATT-GCGGCGTTTTTGGTAAAAGCGCCGCTA
1 AT-TTAGCAGCGTTTTTGGTAAAAGCGCCGCTA
21043873 AAGGCCATGA
Statistics
Matches: 104, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
85 3 0.03
86 27 0.26
87 8 0.08
88 1 0.01
89 58 0.56
90 7 0.07
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (89 bp):
ATTTAGCAGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGTTTTTGCGAGA
AGCGCCGCTATATAGACAAAGGGT
Found at i:21043912 original size:43 final size:43
Alignment explanation
Indices: 21043860--21044008 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 43
21043850 CGTTTTTGGT
* *
21043860 AAAAGCGCCGCTAAAGGCCATGATCTATAGCGGCGCTTATATA
1 AAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTATATA
* * * **
21043903 AAAAACGCCGCTAAAAACCCTGATCTATAGCGGCACTTATCCA
1 AAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTATATA
* * * *
21043946 GAAAACACCGCTAAAGACACCA--ATCTATAGCGGCGGTTATATT
1 AAAAACGCCGCTAAAG--ACCATGATCTATAGCGGCGCTTATATA
*
21043989 AAAAACGCCGCTATAGACCA
1 AAAAACGCCGCTAAAGACCA
21044009 ACACCTTTAG
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
41 4 0.05
43 78 0.92
45 3 0.04
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTATATA
Found at i:21044083 original size:22 final size:22
Alignment explanation
Indices: 21044055--21044097 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
21044045 TTGCGGCGCT
*
21044055 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
21044077 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
21044098 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:21044273 original size:30 final size:30
Alignment explanation
Indices: 21044209--21044288 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
21044199 TTACAATATT
* **
21044209 AATAATAATAGTAAATAATAACAAACAAGT
1 AATAATAATAGTAAATAACAACAAACAAAA
*
21044239 AATAAT-ATAGTATAATAACAACAAATAAAA
1 AATAATAATAGTA-AATAACAACAAACAAAA
21044269 AATAATTAAATAGTGAAATA
1 AATAA-T-AATAGT-AAATA
21044289 GTTTTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
29 6 0.15
30 24 0.59
31 1 0.02
33 9 0.22
34 1 0.02
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.25
Consensus pattern (30 bp):
AATAATAATAGTAAATAACAACAAACAAAA
Found at i:21044491 original size:28 final size:28
Alignment explanation
Indices: 21044437--21044494 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
21044427 GTTGCGCAGC
*
21044437 AACATAGACCAAATTAAAACAGTAATAA
1 AACATAGACCAAATTAAAACAGAAATAA
**
21044465 AACATACGACCAAATTTTAA-AGAAATAA
1 AACATA-GACCAAATTAAAACAGAAATAA
21044493 AA
1 AA
21044495 GACCGATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (28 bp):
AACATAGACCAAATTAAAACAGAAATAA
Found at i:21047599 original size:36 final size:36
Alignment explanation
Indices: 21047448--21047617 Score: 166
Period size: 35 Copynumber: 4.8 Consensus size: 36
21047438 ATTGATGTTC
* *
21047448 TGATTCGCATGTTAAACATGTTAATAT-TCTGATATTT
1 TGATTCGCATGTTAAGCATGTTATTATATCT-A-ATTT
** * *
21047485 TGATTCGTGTGTTAAGCATGCTATTA-ATCTGATTT
1 TGATTCGCATGTTAAGCATGTTATTATATCTAATTT
** *
21047520 TGGCTCGCATGTTAAGCATGTTATTA-ATCTGATTT
1 TGATTCGCATGTTAAGCATGTTATTATATCTAATTT
* ** * *
21047555 TGACTCGCATGTTAAGCATGCCATTATTTTTAATTT
1 TGATTCGCATGTTAAGCATGTTATTATATCTAATTT
*
21047591 TGATTCGCATGTTAAGCATGTCATTAT
1 TGATTCGCATGTTAAGCATGTTATTAT
21047618 GTTAAATCAA
Statistics
Matches: 112, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
35 57 0.51
36 31 0.28
37 24 0.21
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (36 bp):
TGATTCGCATGTTAAGCATGTTATTATATCTAATTT
Found at i:21047843 original size:31 final size:31
Alignment explanation
Indices: 21047763--21047845 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
21047753 TGAGTAAGCC
* **
21047763 ATCGTTGTCGGGCAACCCAGGGTGGAGGGTT
1 ATCGTTGTCGGGCAACCCGGGGTGGAGAATT
* * *
21047794 ATCATTGTCGAGCAACCCGGGGTGGTGAATT
1 ATCGTTGTCGGGCAACCCGGGGTGGAGAATT
21047825 ATCGTTGTCGGGCAACCCGGG
1 ATCGTTGTCGGGCAACCCGGG
21047846 ATAATTTAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.18, C:0.22, G:0.37, T:0.23
Consensus pattern (31 bp):
ATCGTTGTCGGGCAACCCGGGGTGGAGAATT
Found at i:21051089 original size:37 final size:37
Alignment explanation
Indices: 21051039--21051112 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
21051029 TCATTTTTGG
21051039 TGGTTTTAACACCATGGGATGGATGCACCAGGAGTAA
1 TGGTTTTAACACCATGGGATGGATGCACCAGGAGTAA
21051076 TGGTTTTAACACCATGGGATGGATGCACCAGGAGTAA
1 TGGTTTTAACACCATGGGATGGATGCACCAGGAGTAA
21051113 AGGGGCTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (37 bp):
TGGTTTTAACACCATGGGATGGATGCACCAGGAGTAA
Found at i:21056336 original size:47 final size:47
Alignment explanation
Indices: 21056267--21056360 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
21056257 TGCTTCGATT
*
21056267 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
21056314 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
21056361 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:21061290 original size:35 final size:35
Alignment explanation
Indices: 21061244--21061481 Score: 290
Period size: 35 Copynumber: 6.9 Consensus size: 35
21061234 CCAGTCGTTC
21061244 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
* *
21061279 TTGCAGGGAATCTCTCCTGTTCACACATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
* * * *
21061314 TTACAGGGAATCTTTCCTGTTCA--CATCA-TTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
21061346 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTTG
* *
21061382 TTGCAGGGAATCTTTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
* * *
21061417 TTGCAGGGAATCTCTCCTGCTCA--CATCA-TTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
* * * *
21061449 TTGCAGGAAATCTCTCATGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
21061482 CTTTTTGGAC
Statistics
Matches: 173, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
32 46 0.27
33 7 0.04
34 7 0.04
35 82 0.47
36 31 0.18
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (35 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
Found at i:21061424 original size:103 final size:103
Alignment explanation
Indices: 21061241--21061481 Score: 376
Period size: 103 Copynumber: 2.3 Consensus size: 103
21061231 AAACCAGTCG
21061241 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTTGTTGCAGGGAATCTCTCCTGTTCACAC
1 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTTGTTGCAGGGAATCTCTCCTGTTCACAC
* *
21061305 ATTATTCTGTTACAGGGAATCTTTCCTGTTCACATCAT
66 ATTATTCTGTTACAGGGAATCTCTCCTGCTCACATCAT
* **
21061343 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTTGTTGCAGGGAATCTTTCCTGTTCACGG
1 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTTGTTGCAGGGAATCTCTCCTGTTCACAC
* *
21061408 ATTATTTTGTTGCAGGGAATCTCTCCTGCTCACATCAT
66 ATTATTCTGTTACAGGGAATCTCTCCTGCTCACATCAT
* * * *
21061446 TTCTTGCAGGAAATCTCTCATGTTCATGTATTATTT
1 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
21061482 CTTTTTGGAC
Statistics
Matches: 127, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
102 33 0.26
103 94 0.74
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (103 bp):
TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTTGTTGCAGGGAATCTCTCCTGTTCACAC
ATTATTCTGTTACAGGGAATCTCTCCTGCTCACATCAT
Found at i:21061479 original size:67 final size:68
Alignment explanation
Indices: 21061241--21061481 Score: 276
Period size: 67 Copynumber: 3.5 Consensus size: 68
21061231 AAACCAGTCG
21061241 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA-C
1 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATC
21061305 ATT
66 ATT
* * * *
21061308 ATTCTGTTACAGGGAATCTTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCAC
1 -TTC--TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCA-
*
21061370 GCATTATTT
62 -CATCA-TT
* * * *
21061379 TTGTTGCAGGGAATCTTTCCTGTTCACGGATTATTTTGTTGCAGGGAATCTCTCCTGCTCACATC
1 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATC
21061444 A-T
66 ATT
* * * *
21061446 TTCTTGCAGGAAATCTCTCATGTTCATGTATTATTT
1 TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
21061482 CTTTTTGGAC
Statistics
Matches: 146, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
67 57 0.39
68 29 0.20
69 6 0.04
70 27 0.18
71 27 0.18
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (68 bp):
TTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATC
ATT
Found at i:21074558 original size:35 final size:35
Alignment explanation
Indices: 21074512--21074656 Score: 197
Period size: 35 Copynumber: 4.2 Consensus size: 35
21074502 NNNNNNNNNN
* *
21074512 CAACAAAATAATGTGTGAACAGGAGAGATTCCCTG
1 CAACAAAATAATGCGTGAACAGGAAAGATTCCCTG
*
21074547 CAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 CAACAAAATAATGCGTGAACAGGAAAGATTCCCTG
* *
21074582 CAA-GAAATGAT--GTGAACAGGAAAGATTCCCTG
1 CAACAAAATAATGCGTGAACAGGAAAGATTCCCTG
* *
21074614 CAACAGAATAATGCGTGAACAGGAAATATTCCCTG
1 CAACAAAATAATGCGTGAACAGGAAAGATTCCCTG
*
21074649 CAAGAAAA
1 CAACAAAA
21074657 GACAAGTGAA
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
32 23 0.24
33 5 0.05
34 6 0.06
35 63 0.65
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (35 bp):
CAACAAAATAATGCGTGAACAGGAAAGATTCCCTG
Found at i:21074633 original size:67 final size:66
Alignment explanation
Indices: 21074521--21074655 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 66
21074511 NCAACAAAAT
* *
21074521 AATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAG
1 AATGTGTGAACAGGAAAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAAG
21074586 A
66 A
* *
21074587 AATGATGTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGCAA
1 AATG-TGTGAACAGGAAAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAA
21074652 GA
65 GA
21074654 AA
1 AA
21074656 AGACAAGTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
66 4 0.06
67 60 0.94
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (66 bp):
AATGTGTGAACAGGAAAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAAG
A
Found at i:21075501 original size:21 final size:22
Alignment explanation
Indices: 21075477--21075521 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
21075467 AGAAAAAGAG
21075477 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
21075498 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
21075520 AA
1 AA
21075522 CAATTTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:21076540 original size:10 final size:9
Alignment explanation
Indices: 21076499--21076544 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
21076489 TTCAACCCAC
21076499 AATTTTTTT
1 AATTTTTTT
*
21076508 TATTTTTTT
1 AATTTTTTT
*
21076517 ATCTTTTTTT
1 A-ATTTTTTT
21076527 AATTTTTTT
1 AATTTTTTT
21076536 CAATTTTTT
1 -AATTTTTT
21076545 GGGGAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (9 bp):
AATTTTTTT
Found at i:21076542 original size:19 final size:19
Alignment explanation
Indices: 21076498--21076544 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
21076488 ATTCAACCCA
*
21076498 CAATTTTTTTTATTTTTTT
1 CAATTTTTTTAATTTTTTT
*
21076517 -ATCTTTTTTTAATTTTTTT
1 CA-ATTTTTTTAATTTTTTT
21076536 CAATTTTTT
1 CAATTTTTT
21076545 GGGGAAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (19 bp):
CAATTTTTTTAATTTTTTT
Found at i:21078621 original size:71 final size:71
Alignment explanation
Indices: 21078532--21078700 Score: 214
Period size: 71 Copynumber: 2.4 Consensus size: 71
21078522 TTGAGTAATC
* *** ** *
21078532 TTGCAGATTCTCAACAGCTTGAGTGAGCAA-TATCGAATCATTATTTAGTGGTGGTTGAGATCCA
1 TTGCAGATTCTCAACAGCTTGAGTGAG-AAGCATCGAATCATTATTTAGCAATGACTAAGATCCA
21078596 ACATAAG
65 ACATAAG
* * *
21078603 TTGCGGATTCTCAACAGCTTGAATGAGAAGCATTGAATCATTATTTAGCAATGACTAAGATCCAA
1 TTGCAGATTCTCAACAGCTTGAGTGAGAAGCATCGAATCATTATTTAGCAATGACTAAGATCCAA
21078668 CATAAG
66 CATAAG
* *
21078674 TTGTAGATTCTCGACAGCTTGAGTGAG
1 TTGCAGATTCTCAACAGCTTGAGTGAG
21078701 TTGCATCAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
70 2 0.02
71 81 0.98
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (71 bp):
TTGCAGATTCTCAACAGCTTGAGTGAGAAGCATCGAATCATTATTTAGCAATGACTAAGATCCAA
CATAAG
Found at i:21083175 original size:15 final size:15
Alignment explanation
Indices: 21083133--21083176 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21083123 ATGATTAAAC
* *
21083133 TTAATCACTTTAATA
1 TTAATCAATATAATA
*
21083148 TTAAATTAATATAATA
1 TT-AATCAATATAATA
21083164 TTAATCAATATAA
1 TTAATCAATATAA
21083177 AAATTAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATCAATATAATA
Found at i:21083216 original size:59 final size:62
Alignment explanation
Indices: 21083146--21083262 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
21083136 ATCACTTTAA
* * *
21083146 TATTAAATTAATATAATA-TTA-AT-CAATATAAAAATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATATACAAGATAAAAATTAAATTAAATTTAATATTAAATCT
* *
21083205 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTATATACAAGATAAAAATTAAATTAAATTTAATATTAA
21083263 GATAATCATT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 17 0.34
60 3 0.06
61 1 0.02
62 29 0.58
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (62 bp):
TATTAAATTAATAGAATATTTATATACAAGATAAAAATTAAATTAAATTTAATATTAAATCT
Found at i:21083288 original size:20 final size:18
Alignment explanation
Indices: 21083238--21083363 Score: 75
Period size: 20 Copynumber: 6.9 Consensus size: 18
21083228 CTACAAGATA
21083238 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
21083255 AATATTAAGA-TAATCATTTT
1 AATATTAA-ATTAAT-A-TTT
**
21083275 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
* *
21083294 ACTATTAAGTTAAGTATTT
1 AATATTAAATTAA-TATTT
*
21083313 AAT-TT-AATTTA-ATTT
1 AATATTAAATTAATATTT
* *
21083328 AAT-TTAATTTAATATTA
1 AATATTAAATTAATATTT
*
21083345 AATCTATTAAAATAATATT
1 AA--TATTAAATTAATATT
21083364 ATTTTTAGAA
Statistics
Matches: 83, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
15 9 0.11
16 4 0.05
17 20 0.24
18 3 0.04
19 19 0.23
20 28 0.34
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:21083317 original size:5 final size:5
Alignment explanation
Indices: 21083309--21083345 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
21083299 TAAGTTAAGT
21083309 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATATTA A
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA AT-TTA A
21083346 ATCTATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTTA
Found at i:21099064 original size:16 final size:16
Alignment explanation
Indices: 21099025--21099066 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
21099015 ATTTTTTAAA
* *
21099025 ATTAAAACTAATTGTT
1 ATTAAAATTAATTATT
21099041 ATTAAAATTAATTATT
1 ATTAAAATTAATTATT
21099057 ATTAAAATTA
1 ATTAAAATTA
21099067 TATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTATT
Found at i:21106041 original size:18 final size:18
Alignment explanation
Indices: 21106007--21106040 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
21105997 GACTGACTTT
21106007 AAATAAAGGTTTATTTTA
1 AAATAAAGGTTTATTTTA
21106025 AAAT-AAGGTTTATTTT
1 AAATAAAGGTTTATTTT
21106041 TTTGAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (18 bp):
AAATAAAGGTTTATTTTA
Found at i:21107277 original size:26 final size:25
Alignment explanation
Indices: 21107248--21107314 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
21107238 AATAAGATTT
21107248 AATATTAAGTTTAATATAATATTATA
1 AATATTAAGTTTAATATAATATTA-A
* *
21107274 AATATT-AGATTAAATTTAATATTAA
1 AATATTAAG-TTTAATATAATATTAA
*
21107299 AGTGATTAAGTTTAAT
1 AAT-ATTAAGTTTAAT
21107315 CATATTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 5 0.15
26 27 0.79
27 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (25 bp):
AATATTAAGTTTAATATAATATTAA
Found at i:21109486 original size:27 final size:28
Alignment explanation
Indices: 21109449--21109518 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
21109439 AAAAATAAAA
**
21109449 ATTTACCAAAATATAAT-CCCTTTTTTT
1 ATTTACCAAAATATAATAAACTTTTTTT
* * *
21109476 ATTTACTAAAATATTATAAATTTTTTTT
1 ATTTACCAAAATATAATAAACTTTTTTT
21109504 ATTTACCAAAATATA
1 ATTTACCAAAATATA
21109519 CCAAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
27 15 0.43
28 20 0.57
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTACCAAAATATAATAAACTTTTTTT
Found at i:21109603 original size:27 final size:26
Alignment explanation
Indices: 21109565--21109622 Score: 98
Period size: 27 Copynumber: 2.2 Consensus size: 26
21109555 GCCTGATCAG
*
21109565 GCCAATGCCATTGGCGGCACTAATGGT
1 GCCAATGCCATTGGCGGCACCAAT-GT
21109592 GCCAATGCCATTGGCGGCACCAATGT
1 GCCAATGCCATTGGCGGCACCAATGT
21109618 GCCAA
1 GCCAA
21109623 AGGACTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.19
Consensus pattern (26 bp):
GCCAATGCCATTGGCGGCACCAATGT
Found at i:21110164 original size:18 final size:19
Alignment explanation
Indices: 21110113--21110173 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
21110103 CTAATATTTC
*
21110113 TATTAATTTAAAATA-TAGT
1 TATTAAATTAAAATAGTA-T
* *
21110132 TATTAAATGAGAATAGT-T
1 TATTAAATTAAAATAGTAT
*
21110150 TATTAAATTAAAATAGAAT
1 TATTAAATTAAAATAGTAT
21110169 TATTA
1 TATTA
21110174 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 15 0.44
19 18 0.53
20 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (19 bp):
TATTAAATTAAAATAGTAT
Found at i:21110413 original size:19 final size:17
Alignment explanation
Indices: 21110353--21110413 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 17
21110343 AGGGTATTTC
*
21110353 TATTAATTTAAAATATAGT
1 TATTAAATT-AAA-ATAGT
* *
21110372 TATTAAATGAGAATAGTT
1 TATTAAATTAAAATAG-T
21110390 TATTAAATTAAAATGGAGT
1 TATTAAATTAAAAT--AGT
21110409 TATTA
1 TATTA
21110414 CTTAATCAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 4 0.12
18 15 0.44
19 13 0.38
20 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TATTAAATTAAAATAGT
Found at i:21110530 original size:240 final size:240
Alignment explanation
Indices: 21110107--21110584 Score: 929
Period size: 240 Copynumber: 2.0 Consensus size: 240
21110097 GCATGTCTAA
21110107 TATTTCTATTAATTTAAAATATAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAATTAT
1 TATTTCTATTAATTTAAAATATAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAATTAT
*
21110172 TACTTAATTAGAATTCTAAGTATCTTAATTATCACTTAACTATAAGTAATAATAAAACTGATCAC
66 TACTTAATCAGAATTCTAAGTATCTTAATTATCACTTAACTATAAGTAATAATAAAACTGATCAC
21110237 CTATAAATGTAACCCAAATAGAAAAAATAAAGTATAATTATAAACTATTCTCATCAAATTACGAA
131 CTATAAATGTAACCCAAATAGAAAAAATAAAGTATAATTATAAACTATTCTCATCAAATTACGAA
21110302 AATAATACATAAAATTGGAATTAGTTTATCCTTTTTAAAATAGGG
196 AATAATACATAAAATTGGAATTAGTTTATCCTTTTTAAAATAGGG
* *
21110347 TATTTCTATTAATTTAAAATATAGTTATTAAATGAGAATAGTTTATTAAATTAAAATGGAGTTAT
1 TATTTCTATTAATTTAAAATATAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAATTAT
21110412 TACTTAATCAGAATTCTAAGTATCTTAATTATCACTTAACTATAAGTAATAATAAAACTGATCAC
66 TACTTAATCAGAATTCTAAGTATCTTAATTATCACTTAACTATAAGTAATAATAAAACTGATCAC
21110477 CTATAAATGTAACCCAAATAGAAAAAATAAAGTATAATTATAAACTATTCTCATCAAATTACGAA
131 CTATAAATGTAACCCAAATAGAAAAAATAAAGTATAATTATAAACTATTCTCATCAAATTACGAA
21110542 AATAATACATAAAATTGGAATTAGTTTATCCTTTTTAAAATAG
196 AATAATACATAAAATTGGAATTAGTTTATCCTTTTTAAAATAG
21110585 CTTTACTTTA
Statistics
Matches: 235, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
240 235 1.00
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (240 bp):
TATTTCTATTAATTTAAAATATAGTTATTAAATGAGAATAGTTTATTAAATTAAAATAGAATTAT
TACTTAATCAGAATTCTAAGTATCTTAATTATCACTTAACTATAAGTAATAATAAAACTGATCAC
CTATAAATGTAACCCAAATAGAAAAAATAAAGTATAATTATAAACTATTCTCATCAAATTACGAA
AATAATACATAAAATTGGAATTAGTTTATCCTTTTTAAAATAGGG
Found at i:21110600 original size:20 final size:20
Alignment explanation
Indices: 21110577--21110614 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21110567 TTATCCTTTT
*
21110577 TAAAATAGCTTTACTTTAGG
1 TAAAATAGATTTACTTTAGG
*
21110597 TAAAATATATTTACTTTA
1 TAAAATAGATTTACTTTA
21110615 ATAATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (20 bp):
TAAAATAGATTTACTTTAGG
Found at i:21110912 original size:27 final size:26
Alignment explanation
Indices: 21110876--21110933 Score: 98
Period size: 27 Copynumber: 2.2 Consensus size: 26
21110866 TTTTAGTCCT
*
21110876 TTGGCACATTGGTGCCGCCAATGGCA
1 TTGGCACATTGGTGCCACCAATGGCA
21110902 TTGGCACCATTGGTGCCACCAATGGCA
1 TTGGCA-CATTGGTGCCACCAATGGCA
21110929 TTGGC
1 TTGGC
21110934 CTGCTCAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (26 bp):
TTGGCACATTGGTGCCACCAATGGCA
Found at i:21111003 original size:26 final size:26
Alignment explanation
Indices: 21110974--21111039 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
21110964 GTTTTTTGGT
**
21110974 ATATTTTGGTAAATAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAGGATA
* *
21111000 ATATTTTAGTAAATAAAAAAAGGATT
1 ATATTTTGGTAAATAAAAAAAGGATA
21111026 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
21111040 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAAGGATA
Found at i:21116644 original size:775 final size:776
Alignment explanation
Indices: 21115154--21116703 Score: 2949
Period size: 775 Copynumber: 2.0 Consensus size: 776
21115144 ATCTTATTGG
21115154 CTTCAAAGATCATGATAGTTACCTGGATATTTAACTTCAATTCTGCCCCGTGACAACATTGTTCT
1 CTTCAAAGATCATGATAGTTACCTGGATATTTAACTTCAATTCTGCCCCGTGACAACATTGTTCT
** *
21115219 TTTGGGTTGTTCAGAATATCCATCTGTATATGTTTTTGCCTTCCAAAAGGCAAGCACAGGTAGTG
66 TTTAAGTTGTTCAGAATATCCATCTGTATATGTTTTTGCCTTCCAAAACGCAAGCACAGGTAGTG
* * *
21115284 AGTTATCTTTGCAAGCAAAATGTTGATGTTGGTGCTGCTGCCATGGATGGCATGGGTGCGATTCA
131 AGTTATCTTTGCAAGCAAAAGGCTGATATTGGTGCTGCTGCCATGGATGGCATGGGTGCGATTCA
21115349 TTTTGCGGCGCAGAAAGGACATCTAGAGGTTGTCTGAACTCTGCTTTCATCAGGAGTTTCAGTGA
196 TTTTGCGGCGCAGAAAGGACATCTAGAGGTTGTCTGAACTCTGCTTTCATCAGGAGTTTCAGTGA
*
21115414 GAGCCACTAATCGCAAGGGATTCACTCCACTTCACTATACTGTTCAAGGGTCCCATCTGGAAGTA
261 GAGCCACTAATCGCAAGGGATTCACTCCACTTCACTATACTGTTCAAGGGTCCCATCTAGAAGTA
21115479 ATCAAAGTCTTATTAAAGAAAGGTGCAAGTGGCTAGCAATTTGATAGCAGATGGTGAATCAGTTA
326 ATCAAAGTCTTATTAAAGAAAGGTGCAAGTGGCTAGCAATTTGATAGCAGATGGTGAATCAGTTA
21115544 ATGCAACGCTAACAGTCGGAGTAGTGTTTTATGATTAGATTATTTAGGCTAAGTTTTGGTTTTTG
391 ATGCAACGCTAACAGTCGGAGTAGTGTTTTATGATTAGATTATTTAGGCTAAGTTTTGGTTTTTG
21115609 TGTGTTTTGATTTGAACCCAGCAAGCTTCCTGGCAGCAGACATTGCCATTTTTTTAGTTGTAAGT
456 TGTGTTTTGATTTGAACCCAGCAAGCTTCCTGGCAGCAGACATTGCCATTTTTTTAGTTGTAAGT
*
21115674 GGCTAGCAATTTGATAGTAGATGCACTTAAGCAGTTACGCCAAACACAGTCTATAACAATTTACT
521 GGCTAGCAATTTGATAGCAGATGCACTTAAGCAGTTACGCCAAACACAGTCTATAACAATTTACT
*
21115739 AAGGATTTGGAATATGTCTTTTCTTTTGTTTAACATTTTGGTCTTGCTGAATCTGTTTAAAAGAT
586 AAGGATTTGGAATATGTCTTGTCTTTTGTTTAACATTTTGGTCTTGCTGAATCTGTTTAAAAGAT
21115804 CCAAAGTTTCATATTGGTAGGTAAATACATCTTATATGTTTTAAATAAATGCATAGATTAGTATT
651 CCAAAGTTTCATATTGGTAGGTAAATACATCTTATATGTTTTAAATAAATGCATAGATTAGTATT
*
21115869 TTTTTAATTGTGGTTTGGAAGCTAAATTTATAATTATTCAACCCTTGTTTTTT-TTTTTTA
716 TTTTTAATTGTGGTTTGGAAGCTAAATTTATAAGTATTCAACCCTTGTTTTTTATTTTTTA
*
21115929 CTTCAAAGATCATGATAGTTACCTGGATATTTAACTTCAATTCTGCCCCGTGACAACTTTGTTCT
1 CTTCAAAGATCATGATAGTTACCTGGATATTTAACTTCAATTCTGCCCCGTGACAACATTGTTCT
*
21115994 TTTAAGTTGTTCAGAATATCCATCTGTATATGTTTTTTCCTTCCAAAACGCAAGCACAGGTAGTG
66 TTTAAGTTGTTCAGAATATCCATCTGTATATGTTTTTGCCTTCCAAAACGCAAGCACAGGTAGTG
*
21116059 AGTTATCTTTGCAAGCAAAAGGCTGATATTGGTGCTGTTGCCATGGATGGCATGGGTGCGATTCA
131 AGTTATCTTTGCAAGCAAAAGGCTGATATTGGTGCTGCTGCCATGGATGGCATGGGTGCGATTCA
*
21116124 TTTTGCGGCGCAGAAAGGACATCTAGAGGTTGTCTGAACTCTGCTTTCATTAGGAGTTTCAGTGA
196 TTTTGCGGCGCAGAAAGGACATCTAGAGGTTGTCTGAACTCTGCTTTCATCAGGAGTTTCAGTGA
*
21116189 GAGCCACTAATCGCAAGGGATTCACTCCACTTCACTATGCTGTTCAAGGGTCCCATCTAGAAGTA
261 GAGCCACTAATCGCAAGGGATTCACTCCACTTCACTATACTGTTCAAGGGTCCCATCTAGAAGTA
21116254 ATCAAAGTCTTATTAAAGAAAGGTGCAAGTGGCTAGCAATTTGATAGCAGATGGTGAATCAGTTA
326 ATCAAAGTCTTATTAAAGAAAGGTGCAAGTGGCTAGCAATTTGATAGCAGATGGTGAATCAGTTA
21116319 ATGCAACGCTAACAGTCGGAGTAGTGTTTTATGATTAGATTATTTAGGCTAAGTTTTGGTTTTTG
391 ATGCAACGCTAACAGTCGGAGTAGTGTTTTATGATTAGATTATTTAGGCTAAGTTTTGGTTTTTG
21116384 TGTGTTTTGATTTGAACCCAGCAAGCTTCCTGGCAGCAGACATTGCCATTTTTTTAGTTGTAAGT
456 TGTGTTTTGATTTGAACCCAGCAAGCTTCCTGGCAGCAGACATTGCCATTTTTTTAGTTGTAAGT
21116449 GGCTAGCAATTTGATAGCAGATGCACTTAAGCAGTTACGCCAAACACAGTCTATAACAATTTACT
521 GGCTAGCAATTTGATAGCAGATGCACTTAAGCAGTTACGCCAAACACAGTCTATAACAATTTACT
*
21116514 AAGGATTTGGTATATGTCTTGTCTTTTGTTTAACATTTTGGTCTTGCTGAATCTGTTTAAAAGAT
586 AAGGATTTGGAATATGTCTTGTCTTTTGTTTAACATTTTGGTCTTGCTGAATCTGTTTAAAAGAT
21116579 CCAAAGTTTCATATTGGTAGGTAAATACATCTTATATGTTTTAAATAAATGCATAGATTAGTATT
651 CCAAAGTTTCATATTGGTAGGTAAATACATCTTATATGTTTTAAATAAATGCATAGATTAGTATT
21116644 TTTTTAATTGTGGTTTGGAAGCTAAATTTATAAGTATTCAACCCTTGTTTTTTATTTTTT
716 TTTTTAATTGTGGTTTGGAAGCTAAATTTATAAGTATTCAACCCTTGTTTTTTATTTTTT
21116704 TAACACAATT
Statistics
Matches: 758, Mismatches: 16, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
775 752 0.99
776 6 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (776 bp):
CTTCAAAGATCATGATAGTTACCTGGATATTTAACTTCAATTCTGCCCCGTGACAACATTGTTCT
TTTAAGTTGTTCAGAATATCCATCTGTATATGTTTTTGCCTTCCAAAACGCAAGCACAGGTAGTG
AGTTATCTTTGCAAGCAAAAGGCTGATATTGGTGCTGCTGCCATGGATGGCATGGGTGCGATTCA
TTTTGCGGCGCAGAAAGGACATCTAGAGGTTGTCTGAACTCTGCTTTCATCAGGAGTTTCAGTGA
GAGCCACTAATCGCAAGGGATTCACTCCACTTCACTATACTGTTCAAGGGTCCCATCTAGAAGTA
ATCAAAGTCTTATTAAAGAAAGGTGCAAGTGGCTAGCAATTTGATAGCAGATGGTGAATCAGTTA
ATGCAACGCTAACAGTCGGAGTAGTGTTTTATGATTAGATTATTTAGGCTAAGTTTTGGTTTTTG
TGTGTTTTGATTTGAACCCAGCAAGCTTCCTGGCAGCAGACATTGCCATTTTTTTAGTTGTAAGT
GGCTAGCAATTTGATAGCAGATGCACTTAAGCAGTTACGCCAAACACAGTCTATAACAATTTACT
AAGGATTTGGAATATGTCTTGTCTTTTGTTTAACATTTTGGTCTTGCTGAATCTGTTTAAAAGAT
CCAAAGTTTCATATTGGTAGGTAAATACATCTTATATGTTTTAAATAAATGCATAGATTAGTATT
TTTTTAATTGTGGTTTGGAAGCTAAATTTATAAGTATTCAACCCTTGTTTTTTATTTTTTA
Found at i:21117484 original size:31 final size:29
Alignment explanation
Indices: 21117413--21117497 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 29
21117403 ATGCATTTGA
21117413 ACCATAATCAAAGTTACATGTA-TATAATTC
1 ACCA-AATCAAAGTT-CATGTATTATAATTC
*
21117443 ACCAAATCAAAGTTCAAGTATTA-AATTGC
1 ACCAAATCAAAGTTCATGTATTATAATT-C
21117472 ACACTAAATCAAAGTTCATGTATTAT
1 AC-C-AAATCAAAGTTCATGTATTAT
21117498 TTTGAGATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
28 9 0.19
29 15 0.31
30 5 0.10
31 19 0.40
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (29 bp):
ACCAAATCAAAGTTCATGTATTATAATTC
Found at i:21124011 original size:11 final size:11
Alignment explanation
Indices: 21123997--21124023 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21123987 AAAAATAAAT
21123997 ACAAAAGTTTC
1 ACAAAAGTTTC
21124008 ACAAAAGTTTC
1 ACAAAAGTTTC
21124019 ACAAA
1 ACAAA
21124024 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:21133083 original size:61 final size:62
Alignment explanation
Indices: 21132995--21133179 Score: 189
Period size: 61 Copynumber: 2.9 Consensus size: 62
21132985 TAATCTAATA
* * *
21132995 ATTATCAAGATAAATATTAGATTAAATTTAATATTAAATCTATTAAATTAATAA-AATAT-TT
1 ATTA-CAAGATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATAATAAAATCCT
*
21133056 ATCTACAAGATAAATATTAAATTAAATTTAATATTAAGATAATTAGTTTAATATTAAATTAATAA
1 AT-TACAAGATAAATATTAAATTAAATTTAATATTAA-AT--CTA--TTAA-ATT-AA-TAATAA
21133121 AATCCT
57 AATCCT
* * *
21133127 ATTA-AA-ATCAGTATTAAATTAAATTTAATATTAAATCTATTAAAATAATAATA
1 ATTACAAGATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATAATA
21133180 TTTTTAGAAT
Statistics
Matches: 105, Mismatches: 8, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
60 5 0.05
61 35 0.33
62 6 0.06
63 4 0.04
64 2 0.02
65 2 0.02
66 4 0.04
67 5 0.05
68 28 0.27
69 5 0.05
70 6 0.06
71 3 0.03
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (62 bp):
ATTACAAGATAAATATTAAATTAAATTTAATATTAAATCTATTAAATTAATAATAAAATCCT
Found at i:21133118 original size:20 final size:18
Alignment explanation
Indices: 21133068--21133119 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
21133058 CTACAAGATA
21133068 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
21133085 AATATTAAGA-TAATTAGTTT
1 AATATTAA-ATTAA-TA-TTT
21133105 AATATTAAATTAATA
1 AATATTAAATTAATA
21133120 AAATCCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 4 0.13
20 14 0.47
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:21151551 original size:35 final size:35
Alignment explanation
Indices: 21151494--21151569 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
21151484 TTCTTGCAAA
* *
21151494 GCTTTTTGAACTTTTTGTGTGAATATATTTTTGTT
1 GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
*
21151529 GCTTTTTGAGCTATTTGAGTGAATATATTTTTGTT
1 GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
21151564 G-TTTTT
1 GCTTTTT
21151570 ACTAGAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.17, C:0.05, G:0.18, T:0.59
Consensus pattern (35 bp):
GCTTTTTGAACTATTTGAGTGAATATATTTTTGTT
Found at i:21152059 original size:38 final size:38
Alignment explanation
Indices: 21152004--21152083 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
21151994 ATATTCACAG
21152004 AAGT-GGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
1 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
21152041 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
1 AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
21152079 AAGTA
1 AAGTA
21152084 TATATTTTCC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 38 0.90
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (38 bp):
AAGTAGGTTTGAAAAGCTTTGCTAGAATTGCCAATGAA
Found at i:21157142 original size:15 final size:16
Alignment explanation
Indices: 21157116--21157145 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21157106 CGAATCTCAG
21157116 CTCTTGTTTCTCTTCT
1 CTCTTGTTTCTCTTCT
21157132 CTCTT-TTTCTCTTC
1 CTCTTGTTTCTCTTC
21157146 GAACAACGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (16 bp):
CTCTTGTTTCTCTTCT
Found at i:21159299 original size:20 final size:20
Alignment explanation
Indices: 21159244--21159299 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 20
21159234 AACATTATTG
*
21159244 TTTTAGAATTTGTT-TAACTT
1 TTTTAGAATTT-TTACAACTT
*
21159264 TTTTATATATTCTTTACAACTT
1 TTTTAGA-ATT-TTTACAACTT
21159286 TTTTAGAATTTTTA
1 TTTTAGAATTTTTA
21159300 TTTTATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 10 0.33
21 8 0.27
22 12 0.40
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTTAGAATTTTTACAACTT
Found at i:21159329 original size:17 final size:17
Alignment explanation
Indices: 21159307--21159340 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21159297 TTATTTTATA
*
21159307 ATTTTTAATAAATATTT
1 ATTTTTAAAAAATATTT
21159324 ATTTTTAAAAAATATTT
1 ATTTTTAAAAAATATTT
21159341 TGACTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTAAAAAATATTT
Found at i:21163654 original size:29 final size:30
Alignment explanation
Indices: 21163607--21163663 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
21163597 AAATTGAATA
21163607 AAATCAAATATTTATGTAT-TCGATTACAGT
1 AAATCAAATATTTATGTATCTC-ATTACAGT
21163637 AAATCAAAT-TTTATGTATCTCATTACA
1 AAATCAAATATTTATGTATCTCATTACA
21163664 CATTTAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (30 bp):
AAATCAAATATTTATGTATCTCATTACAGT
Found at i:21164118 original size:29 final size:29
Alignment explanation
Indices: 21164085--21164143 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
21164075 ATATCTAAAA
21164085 CTATCTATAGCACTTTCCTAACTCCCAAC
1 CTATCTATAGCACTTTCCTAACTCCCAAC
*
21164114 CTATCTATAGTACTTTCCTAACTCCCAAC
1 CTATCTATAGCACTTTCCTAACTCCCAAC
21164143 C
1 C
21164144 CGTAAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.37, G:0.03, T:0.32
Consensus pattern (29 bp):
CTATCTATAGCACTTTCCTAACTCCCAAC
Found at i:21167807 original size:31 final size:31
Alignment explanation
Indices: 21167769--21167830 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
21167759 ATGGTTATTG
* * *
21167769 AACTATTCGAAAGAT-TTTGTTTAAATCACTA
1 AACTATTCAAAAG-TCTTTATTGAAATCACTA
21167800 AACTATTCAAAAGTCTTTATTGAAATCACTA
1 AACTATTCAAAAGTCTTTATTGAAATCACTA
21167831 GATTGTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (31 bp):
AACTATTCAAAAGTCTTTATTGAAATCACTA
Found at i:21171902 original size:14 final size:14
Alignment explanation
Indices: 21171866--21171904 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
21171856 AAAAAATAAT
* *
21171866 ATTTTAATAAATTT
1 ATTTTAATAAAATA
21171880 ATATTTAATAAAATA
1 AT-TTTAATAAAATA
21171895 ATTTTAATAA
1 ATTTTAATAA
21171905 TGCTATCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTAATAAAATA
Found at i:21177731 original size:25 final size:26
Alignment explanation
Indices: 21177687--21177735 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
21177677 CTTTCTTTTT
* *
21177687 TTTTCTTTATTTTCATTCTCTTCTAC
1 TTTTCTCTATTTTCACTCTCTTCTAC
21177713 TTTTCTCTATTTTC-CTCTCTTCT
1 TTTTCTCTATTTTCACTCTCTTCT
21177736 TCATATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTCTCTATTTTCACTCTCTTCTAC
Found at i:21177990 original size:24 final size:24
Alignment explanation
Indices: 21177946--21177996 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
21177936 AAGAGAATGA
*
21177946 AAAATAAATAAATAAATAAAAGTT
1 AAAATAAATAAATAAATAAAAATT
21177970 AAAATAACATAAA-AGAA-AAAAATT
1 AAAATAA-ATAAATA-AATAAAAATT
21177994 AAA
1 AAA
21177997 TTACTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAATAAATAAATAAATAAAAATT
Found at i:21179074 original size:22 final size:22
Alignment explanation
Indices: 21179049--21179092 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
21179039 TAGTCATATA
21179049 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
21179071 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
21179093 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:21179144 original size:15 final size:16
Alignment explanation
Indices: 21179117--21179147 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21179107 ATTTTATTTT
21179117 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
21179133 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
21179148 TAATGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:21179205 original size:15 final size:15
Alignment explanation
Indices: 21179187--21179243 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
21179177 TATCAATATT
21179187 AATATTTTAATAATA
1 AATATTTTAATAATA
*
21179202 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
21179221 AATATATTAATAATA
1 AATATTTTAATAATA
*
21179236 AATGTTTT
1 AATATTTT
21179244 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:21179730 original size:14 final size:14
Alignment explanation
Indices: 21179711--21179738 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21179701 TCCAGAAAAG
21179711 TAAATCATTTTCTA
1 TAAATCATTTTCTA
21179725 TAAATCATTTTCTA
1 TAAATCATTTTCTA
21179739 GAAGTCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATCATTTTCTA
Found at i:21180923 original size:115 final size:115
Alignment explanation
Indices: 21180761--21180977 Score: 434
Period size: 115 Copynumber: 1.9 Consensus size: 115
21180751 CAATTTTCAC
21180761 AATCGCTAATACCATTACCATTTTAGATCAATTTACGTTTACATATTGTATACAGAAATTGTTAT
1 AATCGCTAATACCATTACCATTTTAGATCAATTTACGTTTACATATTGTATACAGAAATTGTTAT
21180826 ATTTCTCTAATATATAAATCAATTTATGTATTTAGTTTATATTTCTCTAA
66 ATTTCTCTAATATATAAATCAATTTATGTATTTAGTTTATATTTCTCTAA
21180876 AATCGCTAATACCATTACCATTTTAGATCAATTTACGTTTACATATTGTATACAGAAATTGTTAT
1 AATCGCTAATACCATTACCATTTTAGATCAATTTACGTTTACATATTGTATACAGAAATTGTTAT
21180941 ATTTCTCTAATATATAAATCAATTTATGTATTTAGTT
66 ATTTCTCTAATATATAAATCAATTTATGTATTTAGTT
21180978 CTTTAAATGC
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 102 1.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (115 bp):
AATCGCTAATACCATTACCATTTTAGATCAATTTACGTTTACATATTGTATACAGAAATTGTTAT
ATTTCTCTAATATATAAATCAATTTATGTATTTAGTTTATATTTCTCTAA
Found at i:21182546 original size:3 final size:3
Alignment explanation
Indices: 21182540--21182570 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21182530 GGAGGAGGAG
21182540 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
21182571 TGGACGAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21185248 original size:28 final size:28
Alignment explanation
Indices: 21185216--21185271 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
21185206 TTGCCTTCGG
21185216 TCTCTGCAGTACTTTGCCCTTTTAGTGT
1 TCTCTGCAGTACTTTGCCCTTTTAGTGT
21185244 TCTCTGCAGTACTTTGCCCTTTTAGTGT
1 TCTCTGCAGTACTTTGCCCTTTTAGTGT
21185272 ACTTTGCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (28 bp):
TCTCTGCAGTACTTTGCCCTTTTAGTGT
Found at i:21185279 original size:28 final size:28
Alignment explanation
Indices: 21185217--21185279 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
21185207 TGCCTTCGGT
*
21185217 CTCTGCAGTACTTTGCCCTTTTAGTGTT
1 CTCTGCAGTACTTTGCCCTTTTAGTGTA
21185245 CTCTGCAGTACTTTGCCCTTTTAGTGTA
1 CTCTGCAGTACTTTGCCCTTTTAGTGTA
*
21185273 CTTTGCA
1 CTCTGCA
21185280 CAGTCATGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.44
Consensus pattern (28 bp):
CTCTGCAGTACTTTGCCCTTTTAGTGTA
Found at i:21187821 original size:20 final size:19
Alignment explanation
Indices: 21187793--21187832 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
21187783 CATTAGGAAC
* *
21187793 ATCATATTATTATTCTAAAT
1 ATCACATTATCATT-TAAAT
21187813 ATCACATTATCATTTAAAT
1 ATCACATTATCATTTAAAT
21187832 A
1 A
21187833 CACTTGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (19 bp):
ATCACATTATCATTTAAAT
Found at i:21188669 original size:12 final size:12
Alignment explanation
Indices: 21188652--21188676 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21188642 AAATGCTATG
21188652 TCATAAGGCATA
1 TCATAAGGCATA
21188664 TCATAAGGCATA
1 TCATAAGGCATA
21188676 T
1 T
21188677 ATCTCCATTA
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TCATAAGGCATA
Found at i:21191222 original size:2 final size:2
Alignment explanation
Indices: 21191215--21191245 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21191205 CTGACTCCCT
21191215 TC TC 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 TC TC T
21191246 GTGTTGGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21208537 original size:13 final size:13
Alignment explanation
Indices: 21208519--21208552 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
21208509 TTCCCTGTAA
21208519 AATAGTAAAAAAT
1 AATAGTAAAAAAT
21208532 AATAGT-AAAAAT
1 AATAGTAAAAAAT
21208544 AATAG-AAAA
1 AATAGTAAAA
21208553 GGGGAAGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (13 bp):
AATAGTAAAAAAT
Found at i:21208729 original size:17 final size:18
Alignment explanation
Indices: 21208709--21208742 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
21208699 AAGTGAATTG
21208709 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
21208726 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
21208743 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:21209405 original size:14 final size:17
Alignment explanation
Indices: 21209374--21209410 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
21209364 ATTATAAAGG
21209374 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
21209391 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
21209405 ATATTA
1 ATATTA
21209411 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:21209586 original size:14 final size:14
Alignment explanation
Indices: 21209560--21209610 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
21209550 GAAAACAAAA
21209560 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
21209574 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
21209588 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
21209603 G-AATAAAA
1 GAAATAAAA
21209611 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:21209621 original size:17 final size:16
Alignment explanation
Indices: 21209599--21209632 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21209589 AAGTTAAAAT
21209599 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
21209616 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
21209632 A
1 A
21209633 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:21210360 original size:9 final size:9
Alignment explanation
Indices: 21210332--21210373 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
21210322 GTAAGTATAA
21210332 TATTAGTAT
1 TATTAGTAT
21210341 TAATT--TAT
1 T-ATTAGTAT
21210349 TATTAGTAT
1 TATTAGTAT
*
21210358 TATTATTAT
1 TATTAGTAT
21210367 TATTAGT
1 TATTAGT
21210374 GGGAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
7 3 0.11
8 4 0.14
9 18 0.64
10 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (9 bp):
TATTAGTAT
Found at i:21210547 original size:22 final size:25
Alignment explanation
Indices: 21210504--21210580 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 25
21210494 TGAAAATGTG
* *
21210504 TGAATTTGTGAAATAATTATTG-AT
1 TGAATGTGTGAAATAATGATTGAAT
21210528 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTGAAT
* **
21210551 TGAAAGTGTGAGAAATTGTGATTGAAT
1 TG-AA-TGTGTGAAATAATGATTGAAT
21210578 TGA
1 TGA
21210581 GAATATATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.16
23 8 0.18
24 9 0.20
25 4 0.09
26 5 0.11
27 11 0.25
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (25 bp):
TGAATGTGTGAAATAATGATTGAAT
Found at i:21210552 original size:23 final size:24
Alignment explanation
Indices: 21210504--21210561 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
21210494 TGAAAATGTG
* *
21210504 TGAATTTGTGAAATAATTATTGAT
1 TGAATGTGTGAAATAATGATTGAT
21210528 TGAATGTG-GAAA-AATGATTGAAT
1 TGAATGTGTGAAATAATGATTG-AT
*
21210551 TGAAAGTGTGA
1 TGAATGTGTGA
21210562 GAAATTGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 7 0.24
23 13 0.45
24 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (24 bp):
TGAATGTGTGAAATAATGATTGAT
Found at i:21210783 original size:37 final size:39
Alignment explanation
Indices: 21210724--21210819 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
21210714 CGGATAGATT
* * * *
21210724 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
21210761 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
21210800 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
21210820 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:21215256 original size:14 final size:17
Alignment explanation
Indices: 21215225--21215261 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
21215215 ATTATAAAGG
21215225 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
21215242 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
21215256 ATATTA
1 ATATTA
21215262 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:21215437 original size:14 final size:14
Alignment explanation
Indices: 21215411--21215461 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
21215401 GAAAACAAAA
21215411 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
21215425 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
21215439 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
21215454 G-AATAAAA
1 GAAATAAAA
21215462 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:21215472 original size:17 final size:16
Alignment explanation
Indices: 21215450--21215483 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21215440 AAGTTAAAAT
21215450 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
21215467 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
21215483 A
1 A
21215484 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:21216942 original size:10 final size:10
Alignment explanation
Indices: 21216923--21216972 Score: 75
Period size: 10 Copynumber: 5.0 Consensus size: 10
21216913 TGAAATTCTA
21216923 AAAGATAAAT
1 AAAGATAAAT
21216933 ACAA-ATAAAT
1 A-AAGATAAAT
*
21216943 AAAGATAATT
1 AAAGATAAAT
21216953 AAAGATAAAT
1 AAAGATAAAT
21216963 AAAGATAAAT
1 AAAGATAAAT
21216973 GAAAATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:21217520 original size:59 final size:59
Alignment explanation
Indices: 21217449--21218275 Score: 1654
Period size: 59 Copynumber: 14.0 Consensus size: 59
21217439 ATTGACAATG
21217449 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217508 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217567 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217626 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217685 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217744 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217803 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217862 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217921 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21217980 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21218039 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21218098 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21218157 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21218216 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
1 TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
21218275 T
1 T
21218276 TTTATCTTTG
Statistics
Matches: 768, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 768 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (59 bp):
TAATGGGGTGATGGTACAAATAATTGGAAGGTTGACCAACCCAATAATTTTATATTTCT
Found at i:21229873 original size:58 final size:56
Alignment explanation
Indices: 21229809--21229922 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 56
21229799 AATCAGCTCC
21229809 AAATCTTCAAGCACAGCCAGCTTTTTAGCTTTCTTTTTAAGCTATTCAAAGAGCGGT
1 AAATCTTCAAGCACAGCCAGCTTTTTAGC-TTCTTTTTAAGCTATTCAAAGAGCGGT
21229866 NAAATCTTCAAGCACAGCCAGCTTTTTAGCTTCTTTTTAAGCTATTCAAAGAGCGGT
1 -AAATCTTCAAGCACAGCCAGCTTTTTAGCTTCTTTTTAAGCTATTCAAAGAGCGGT
21229923 TTTCTAATAG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 27 0.48
58 29 0.52
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (56 bp):
AAATCTTCAAGCACAGCCAGCTTTTTAGCTTCTTTTTAAGCTATTCAAAGAGCGGT
Found at i:21235535 original size:39 final size:39
Alignment explanation
Indices: 21235490--21235566 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
21235480 TGAGGTGATA
* *
21235490 TAAAAATGGAGGACTAAATAATTTATTCTACTTAAAATG
1 TAAAAATGGAGGACTAAATAAGTTATTCTACCTAAAATG
21235529 TAAAAATGGAGGACTAAATAAGTTATTCTACCTAAAAT
1 TAAAAATGGAGGACTAAATAAGTTATTCTACCTAAAAT
21235567 TTTAAAAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (39 bp):
TAAAAATGGAGGACTAAATAAGTTATTCTACCTAAAATG
Found at i:21235990 original size:9 final size:9
Alignment explanation
Indices: 21235976--21236023 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
21235966 ATTTGATCTT
21235976 AATTTTAAA
1 AATTTTAAA
21235985 AATTTTAAA
1 AATTTTAAA
21235994 AA-TTTAAA
1 AATTTTAAA
*
21236002 AATATATAAA
1 AAT-TTTAAA
*
21236012 TATTTTCAAA
1 AATTTT-AAA
21236022 AA
1 AA
21236024 ATATAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 8 0.25
9 13 0.41
10 11 0.34
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTTTAAA
Found at i:21236070 original size:25 final size:24
Alignment explanation
Indices: 21236028--21236078 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
21236018 CAAAAAATAT
21236028 AATAATAAATTAAGATTAAATAAA
1 AATAATAAATTAAGATTAAATAAA
* *
21236052 AATAATTATATTAATATTAAATAAA
1 AATAA-TAAATTAAGATTAAATAAA
21236077 AA
1 AA
21236079 AAACCCTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATAATAAATTAAGATTAAATAAA
Found at i:21236081 original size:29 final size:29
Alignment explanation
Indices: 21236019--21236081 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
21236009 AAATATTTTC
21236019 AAAAAATATAATAATAAATTAAGATTAAA
1 AAAAAATATAATAATAAATTAAGATTAAA
* * *
21236048 TAAAAATAATTATATTAATATTAA-A-TAAA
1 AAAAAAT-ATAATAATAA-ATTAAGATTAAA
21236077 AAAAA
1 AAAAA
21236082 CCCTCTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 14 0.50
30 9 0.32
31 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AAAAAATATAATAATAAATTAAGATTAAA
Found at i:21244150 original size:15 final size:17
Alignment explanation
Indices: 21244130--21244162 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
21244120 TCGAAAACCC
21244130 TTTTAA-AAATAA-TTA
1 TTTTAAGAAATAACTTA
21244145 TTTTAAGAAATAACTTA
1 TTTTAAGAAATAACTTA
21244162 T
1 T
21244163 CTACATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTAAGAAATAACTTA
Found at i:21248006 original size:60 final size:61
Alignment explanation
Indices: 21247933--21248050 Score: 175
Period size: 60 Copynumber: 1.9 Consensus size: 61
21247923 GTTACACTTA
* * * *
21247933 TTCTGACAACATCATTAATATTGTTATGGCTGATGTTGAAA-ACAAAATCGTTACGATTTT
1 TTCTAACAACATCATTAATATTGTTATGACTGATATTGAAAGAAAAAATCGTTACGATTTT
*
21247993 TTCTAACAACATCATTAATATTGTTATGACTGGTATTGAAAGTAAAAAATCGTTACGA
1 TTCTAACAACATCATTAATATTGTTATGACTGATATTGAAAG-AAAAAATCGTTACGA
21248051 ATTTCAATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 37 0.73
62 14 0.27
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (61 bp):
TTCTAACAACATCATTAATATTGTTATGACTGATATTGAAAGAAAAAATCGTTACGATTTT
Found at i:21248509 original size:16 final size:16
Alignment explanation
Indices: 21248483--21248523 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
21248473 TTTGAATATT
*
21248483 TTTTAAG-TTTGGATTG
1 TTTTAAGTTTTGG-TTA
21248499 TTTT-AGTTTTGGTTA
1 TTTTAAGTTTTGGTTA
21248514 TTTTAAGTTT
1 TTTTAAGTTT
21248524 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.63
Consensus pattern (16 bp):
TTTTAAGTTTTGGTTA
Found at i:21251171 original size:11 final size:10
Alignment explanation
Indices: 21251155--21251212 Score: 73
Period size: 11 Copynumber: 5.5 Consensus size: 10
21251145 TTTCATTACT
21251155 TTATGTTATTA
1 TTAT-TTATTA
21251166 TTATGTTATTA
1 TTAT-TTATTA
21251177 TTATTATATTA
1 TTATT-TATTA
21251188 TTATATTATTA
1 TTAT-TTATTA
21251199 TTA-TTATTA
1 TTATTTATTA
21251208 TTATT
1 TTATT
21251213 ACTAGCATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.20
10 2 0.05
11 32 0.73
12 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (10 bp):
TTATTTATTA
Found at i:21251174 original size:8 final size:8
Alignment explanation
Indices: 21251161--21251213 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
21251151 TACTTTATGT
21251161 TATTATTA
1 TATTATTA
*
21251169 TGTTA-T-
1 TATTATTA
21251175 TATTATTA
1 TATTATTA
21251183 TATTATTA
1 TATTATTA
21251191 TATTATTA
1 TATTATTA
21251199 TTATTATTA
1 -TATTATTA
21251208 TTATTA
1 -TATTA
21251214 CTAGCATATG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 20 0.50
9 14 0.35
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TATTATTA
Found at i:21251177 original size:14 final size:14
Alignment explanation
Indices: 21251160--21251211 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
21251150 TTACTTTATG
*
21251160 TTATTATTATGTTA
1 TTATTATTATATTA
21251174 TTATTATTATATTA
1 TTATTATTATATTA
21251188 TTA-TATTATTATTA
1 TTATTATTA-TATTA
21251202 TTATTATTAT
1 TTATTATTAT
21251212 TACTAGCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
13 5 0.14
14 25 0.71
15 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTATTATTATATTA
Found at i:21251232 original size:3 final size:3
Alignment explanation
Indices: 21251160--21251213 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
21251150 TTACTTTATG
*
21251160 TTA TTA TTA -TG TTA TTA TTA TTA -TA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21251205 TTA TTA TTA
1 TTA TTA TTA
21251214 CTAGCATATG
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 5 0.11
3 41 0.89
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:21251891 original size:25 final size:25
Alignment explanation
Indices: 21251843--21251892 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21251833 ATGTTTTTTG
* *
21251843 TACTATCTTATGTGTGCATCTTAAA
1 TACTATATTATGTATGCATCTTAAA
* *
21251868 TACTATATTATGTATGTATTTTAAA
1 TACTATATTATGTATGCATCTTAAA
21251893 CATCTTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (25 bp):
TACTATATTATGTATGCATCTTAAA
Found at i:21252095 original size:17 final size:17
Alignment explanation
Indices: 21252064--21252109 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
21252054 TATGTATGCC
*
21252064 ATGTATATATATATGTAT
1 ATGTATAT-TTTATGTAT
21252082 ATGTATATTTTATGTAT
1 ATGTATATTTTATGTAT
21252099 ATTGT-TATTTT
1 A-TGTATATTTT
21252110 CTATCGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
ATGTATATTTTATGTAT
Found at i:21253370 original size:11 final size:10
Alignment explanation
Indices: 21253347--21253377 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
21253337 CAACTTAGTA
21253347 CATATGTCAC
1 CATATGTCAC
21253357 CATATGTACAC
1 CATATGT-CAC
21253368 CATATGTCAC
1 CATATGTCAC
21253378 AAGGGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (10 bp):
CATATGTCAC
Found at i:21257918 original size:36 final size:35
Alignment explanation
Indices: 21257875--21257977 Score: 98
Period size: 36 Copynumber: 2.9 Consensus size: 35
21257865 GGCTTGTGAA
**
21257875 AGAGAAAGGAAAAGAGAGGGGAGAAGAGAAGAAAAG
1 AGAGAAAGGAAAAGAGAGAAGAGAAGAGAAG-AAAG
** * *
21257911 AGAGAAAGTCAAAGGGAGAAGAGAAGAGAAGGAAG
1 AGAGAAAGGAAAAGAGAGAAGAGAAGAGAAGAAAG
* * *
21257946 AGAAAAAGGGAAGAGAAAAGAAGAGAAGAGAA
1 AGAGAAA-GGAAAAG-AGAGAAGAGAAGAGAA
21257978 CGCCGAGACT
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
35 9 0.17
36 30 0.57
37 14 0.26
ACGTcount: A:0.59, C:0.01, G:0.39, T:0.01
Consensus pattern (35 bp):
AGAGAAAGGAAAAGAGAGAAGAGAAGAGAAGAAAG
Found at i:21257936 original size:5 final size:5
Alignment explanation
Indices: 21257926--21257977 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
21257916 AAGTCAAAGG
* *
21257926 GAGAA GAGAA GAGAA G-GAA GAGAA -A-AA GGGAA GAGAA AAGAA GAGAA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA
21257973 GAGAA
1 GAGAA
21257978 CGCCGAGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 5 0.12
5 33 0.82
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:21258836 original size:17 final size:17
Alignment explanation
Indices: 21258816--21259058 Score: 93
Period size: 18 Copynumber: 13.6 Consensus size: 17
21258806 TTAAAAAAAA
21258816 TTCGTGTTTCAAAAATC
1 TTCGTGTTTCAAAAATC
*
21258833 TTCGTGTTTTCAAAATTC
1 TTCGTG-TTTCAAAAATC
*
21258851 -TAGTGTTTCAAAAAT-
1 TTCGTGTTTCAAAAATC
21258866 TGTCGTGTTTTCAAAAAAAT-
1 T-TCGTG-TTTC--AAAAATC
* *
21258886 TTCCTTGTTTTCAAAAGTC
1 TT-CGTG-TTTCAAAAATC
* * * * *
21258905 -CCGTATTCCGAAAATT
1 TTCGTGTTTCAAAAATC
* **
21258921 TTCTTGTTTTCAAAAAAA
1 TTCGTG-TTTCAAAAATC
*
21258939 TTCTGTGTTTCATAAAT-
1 TTC-GTGTTTCAAAAATC
*
21258956 TTCCATGTTTTCAAAAAATC
1 TT-CGTG-TTTC-AAAAATC
* *
21258976 -TCGTCTTTCAAAAATT
1 TTCGTGTTTCAAAAATC
**
21258992 TTCGTGTTTTCAAAAAAAA
1 TTCGTG-TTTC-AAAAATC
* *
21259011 TTGACCGTGTTTCATAAATT
1 TT---CGTGTTTCAAAAATC
21259031 TTCGTGTTTCAAAAAATC
1 TTCGTGTTTC-AAAAATC
*
21259049 CTCGTGTTTC
1 TTCGTGTTTC
21259059 GTATTTTATC
Statistics
Matches: 167, Mismatches: 37, Indels: 43
0.68 0.15 0.17
Matches are distributed among these distances:
16 22 0.13
17 38 0.23
18 62 0.37
19 16 0.10
20 21 0.13
21 4 0.02
22 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (17 bp):
TTCGTGTTTCAAAAATC
Found at i:21258885 original size:20 final size:20
Alignment explanation
Indices: 21258860--21258901 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21258850 CTAGTGTTTC
21258860 AAAAATTGT-CGTGTTTTCAA
1 AAAAATT-TCCGTGTTTTCAA
*
21258880 AAAAATTTCCTTGTTTTCAA
1 AAAAATTTCCGTGTTTTCAA
21258900 AA
1 AA
21258902 GTCCCGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAAATTTCCGTGTTTTCAA
Found at i:21258898 original size:54 final size:54
Alignment explanation
Indices: 21258837--21258940 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
21258827 AAAATCTTCG
* * * *
21258837 TGTTTTCAAAATTCTAGTGTTTCAAAAATTGTCGTGTTTTCAAAAAAATTTCCT
1 TGTTTTCAAAAGTCCAGTATTCCAAAAATTGTCGTGTTTTCAAAAAAATTTCCT
* * * *
21258891 TGTTTTCAAAAGTCCCGTATTCCGAAAATTTTCTTGTTTTCAAAAAAATT
1 TGTTTTCAAAAGTCCAGTATTCCAAAAATTGTCGTGTTTTCAAAAAAATT
21258941 CTGTGTTTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (54 bp):
TGTTTTCAAAAGTCCAGTATTCCAAAAATTGTCGTGTTTTCAAAAAAATTTCCT
Found at i:21258985 original size:35 final size:34
Alignment explanation
Indices: 21258881--21259008 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
21258871 TGTTTTCAAA
* * *
21258881 AAAATTTCCTTGTTTTC-AAAAGTCCCGTATTCC
1 AAAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
* *
21258914 GAAAATTTTCTTGTTTTCAAAAAAAT-TCTGTGTTTC
1 -AAAATTTCCTTGTTTTC-AAAAAATCTC-GTATTTC
* *
21258950 ATAAATTTCCATGTTTTCAAAAAATCTCGTCTTTC
1 A-AAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
* *
21258985 AAAAATTTTCGTGTTTTCAAAAAA
1 -AAAATTTCCTTGTTTTCAAAAAA
21259009 AATTGACCGT
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
34 16 0.21
35 35 0.45
36 27 0.35
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (34 bp):
AAAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
Found at i:21259047 original size:18 final size:18
Alignment explanation
Indices: 21258816--21259181 Score: 93
Period size: 17 Copynumber: 19.9 Consensus size: 18
21258806 TTAAAAAAAA
*
21258816 TTCGTGTTTC-AAAAATC
1 TTCGTGTTTCAAAAAATT
21258833 TTCGTGTTTTC--AAAATT
1 TTCGTG-TTTCAAAAAATT
* *
21258850 CTAGTGTTTC-AAAAATT
1 TTCGTGTTTCAAAAAATT
*
21258867 GTCGTGTTTTCAAAAAAATT
1 TTCGTG-TTTC-AAAAAATT
* * *
21258887 TCCTTGTTTTC--AAAAGT
1 TTCGTG-TTTCAAAAAATT
** * **
21258904 CCCGT-ATTCCGAAAATT
1 TTCGTGTTTCAAAAAATT
* *
21258921 TTCTTGTTTTCAAAAAA-A
1 TTCGTG-TTTCAAAAAATT
*
21258939 TTCTGTGTTTC-ATAAATT
1 TTC-GTGTTTCAAAAAATT
* *
21258957 TCCATGTTTTCAAAAAA-T
1 TTCGTG-TTTCAAAAAATT
* *
21258975 CTCGTCTTTC-AAAAATT
1 TTCGTGTTTCAAAAAATT
21258992 TTCGTGTTTTCAAAAAAAATT
1 TTCGTG-TTTC--AAAAAATT
** *
21259013 GACCGTGTTTC-ATAAATT
1 -TTCGTGTTTCAAAAAATT
21259031 TTCGTGTTTCAAAAAATCCTCGTGT
1 TTCGTGTTTCAAAAAA------T-T
* *
21259056 TTCGTATTTTATCAAAAATT
1 TTCGTGTTTCA--AAAAATT
*
21259076 TT-ATGTTTTCAAAAAAATT
1 TTCGTG-TTTC-AAAAAATT
*
21259095 TT-GTGTTT-TAAAAATT
1 TTCGTGTTTCAAAAAATT
**
21259111 TTCGTGTTTCAAAAAGAAAA
1 TTCGTGTTTC-AAAA-AATT
21259131 TTCGTGTTTCCTAAAAAA-T
1 TTCGTGTTT-C-AAAAAATT
*
21259150 CTCGTGTTTC--AAAATT
1 TTCGTGTTTCAAAAAATT
* *
21259166 TTCGTTTTTTAAAAAA
1 TTCGTGTTTCAAAAAA
21259182 AAGAGTTTCG
Statistics
Matches: 256, Mismatches: 54, Indels: 77
0.66 0.14 0.20
Matches are distributed among these distances:
15 7 0.03
16 26 0.10
17 69 0.27
18 46 0.18
19 36 0.14
20 34 0.13
21 18 0.07
22 4 0.02
24 1 0.00
25 10 0.04
27 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
TTCGTGTTTCAAAAAATT
Found at i:21259055 original size:35 final size:35
Alignment explanation
Indices: 21258816--21259058 Score: 146
Period size: 34 Copynumber: 6.8 Consensus size: 35
21258806 TTAAAAAAAA
*
21258816 TTCGTG-TTTC-AAAAATCTTCGTGTTTTCAAAATT
1 TTCGTGTTTTCAAAAAATCCTCGTG-TTTCAAAATT
* * **
21258850 CTAGTG-TTTC-AAAAATTGTCGTGTTTTCAAAAAAATT
1 TTCGTGTTTTCAAAAAATCCTCGTG-TTTC---AAAATT
* * * * *
21258887 TCCTTGTTTTC-AAAAGTCC-CGTATTCCGAAAATT
1 TTCGTGTTTTCAAAAAATCCTCGTGTTTC-AAAATT
* *
21258921 TTCTTGTTTTCAAAAAAATTCT-GTGTTTCATAAATT
1 TTCGTGTTTTC-AAAAAATCCTCGTGTTTCA-AAATT
* * *
21258957 TCCATGTTTTCAAAAAAT-CTCGTCTTTCAAAAATT
1 TTCGTGTTTTCAAAAAATCCTCGTGTTTC-AAAATT
*
21258992 TTCGTGTTTTCAAAAAAAATTGAC-CGTGTTTCATAAATT
1 TTCGTGTTTTC--AAAAAA-T-CCTCGTGTTTCA-AAATT
21259031 TTCGTG-TTTCAAAAAATCCTCGTGTTTC
1 TTCGTGTTTTCAAAAAATCCTCGTGTTTC
21259059 GTATTTTATC
Statistics
Matches: 166, Mismatches: 26, Indels: 33
0.74 0.12 0.15
Matches are distributed among these distances:
34 43 0.26
35 37 0.22
36 35 0.21
37 17 0.10
38 15 0.09
39 18 0.11
40 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (35 bp):
TTCGTGTTTTCAAAAAATCCTCGTGTTTCAAAATT
Found at i:21259089 original size:17 final size:16
Alignment explanation
Indices: 21259067--21259125 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 16
21259057 TCGTATTTTA
21259067 TCAAAAATTTTATGTTT
1 TCAAAAATTTT-TGTTT
21259084 TCAAAAAAATTTTGTGTTT
1 TC--AAAAATTTT-TGTTT
*
21259103 T-AAAAATTTTCGTGTT
1 TCAAAAATTTTTGT-TT
21259119 TCAAAAA
1 TCAAAAA
21259126 GAAAATTCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 2 0.06
16 12 0.33
17 7 0.19
19 15 0.42
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (16 bp):
TCAAAAATTTTTGTTT
Found at i:21259091 original size:19 final size:18
Alignment explanation
Indices: 21259069--21259108 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
21259059 GTATTTTATC
21259069 AAAAATTTTATGTTTTCAA
1 AAAAATTTTATGTTTT-AA
*
21259088 AAAAATTTTGTGTTTTAA
1 AAAAATTTTATGTTTTAA
21259106 AAA
1 AAA
21259109 TTTTCGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (18 bp):
AAAAATTTTATGTTTTAA
Found at i:21259136 original size:20 final size:19
Alignment explanation
Indices: 21259111--21259163 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
21259101 TTTAAAAATT
21259111 TTCGTGTTTCAAAAAGAAAA
1 TTCGTGTTTCAAAAA-AAAA
**
21259131 TTCGTGTTTC-CTAAAAAA
1 TTCGTGTTTCAAAAAAAAA
21259149 TCTCGTGTTTCAAAA
1 T-TCGTGTTTCAAAA
21259164 TTTTCGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (19 bp):
TTCGTGTTTCAAAAAAAAA
Found at i:21259148 original size:56 final size:55
Alignment explanation
Indices: 21259082--21259202 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 55
21259072 AATTTTATGT
* * *
21259082 TTTCAAAAAAATTTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAGAAA-A-TTCGTG
1 TTTCTAAAAAATCTCGTG-TTTAAAAATTTTCGTGTTTCAAAAA-AAAGAGTTCGTG
* * *
21259137 TTTCCTAAAAAATCTCGTGTTTCAAAATTTTCGTTTTTTAAAAAAAAGAGTTTCGTG
1 TTT-CTAAAAAATCTCGTGTTTAAAAATTTTCGTGTTTCAAAAAAAAGAG-TTCGTG
21259194 TTTCTAAAA
1 TTTCTAAAA
21259203 TGCTTGTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
54 3 0.05
55 26 0.46
56 18 0.32
57 9 0.16
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (55 bp):
TTTCTAAAAAATCTCGTGTTTAAAAATTTTCGTGTTTCAAAAAAAAGAGTTCGTG
Done.