Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 78 of 163
Found at i:20803037 original size:13 final size:14
Alignment explanation
Indices: 20803009--20803043 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
20802999 TTTATTTTTA
20803009 TTTTATTTCACTTT
1 TTTTATTTCACTTT
20803023 TTTTATTTCACTTT
1 TTTTATTTCACTTT
20803037 TTTTATT
1 TTTTATT
20803044 ACTCCGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATTTCACTTT
Found at i:20804935 original size:26 final size:26
Alignment explanation
Indices: 20804899--20804951 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
20804889 GATCCGTATT
20804899 CAACTCCTACACAATTACACTTCTCG
1 CAACTCCTACACAATTACACTTCTCG
20804925 CAACTCCTACACAATTACACTTCTCG
1 CAACTCCTACACAATTACACTTCTCG
20804951 C
1 C
20804952 TTCTACTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.40, G:0.04, T:0.26
Consensus pattern (26 bp):
CAACTCCTACACAATTACACTTCTCG
Found at i:20810527 original size:18 final size:18
Alignment explanation
Indices: 20810478--20810527 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
20810468 AAATATTTAA
* *
20810478 AAATAC-TAAAATAAATT
1 AAATACTTAAATTATATT
*
20810495 AAATACTTAATTTATATT
1 AAATACTTAAATTATATT
20810513 AAATA-TTATAATTAT
1 AAATACTTA-AATTAT
20810528 TCAAGCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATACTTAAATTATATT
Found at i:20811446 original size:18 final size:18
Alignment explanation
Indices: 20811408--20811447 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
20811398 CAACTAATAT
*
20811408 AATTCAAATTCAAATTTA
1 AATTCAAATTCAAATTGA
20811426 AATTCAAATT-AAACTTGA
1 AATTCAAATTCAAA-TTGA
20811444 AATT
1 AATT
20811448 AAAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTCAAATTCAAATTGA
Found at i:20816822 original size:8 final size:8
Alignment explanation
Indices: 20816809--20816836 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20816799 GTAATCGGAG
20816809 AATGGGAA
1 AATGGGAA
20816817 AATGGGAA
1 AATGGGAA
20816825 AATGGGAA
1 AATGGGAA
20816833 AATG
1 AATG
20816837 AAATCTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (8 bp):
AATGGGAA
Found at i:20821347 original size:23 final size:23
Alignment explanation
Indices: 20821291--20821378 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
20821281 TCATTAACAT
* **
20821291 TGTTCATGAACATGCTCAATTATA
1 TGTTCATGAACATGTTCGTTTA-A
*
20821315 TGTTCATGAACATGTTTGTTTAA
1 TGTTCATGAACATGTTCGTTTAA
**
20821338 TGTTTGTGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCGTTTAA
20821361 TGTTCATGAACATGTTCG
1 TGTTCATGAACATGTTCG
20821379 ATTATTTTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
23 37 0.67
24 18 0.33
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGTTTAA
Found at i:20821392 original size:23 final size:23
Alignment explanation
Indices: 20821291--20821401 Score: 89
Period size: 23 Copynumber: 4.8 Consensus size: 23
20821281 TCATTAACAT
* * *
20821291 TGTTCATGAACATGCTCAATTATA
1 TGTTAATGAACATGTTCGATTA-A
* * *
20821315 TGTTCATGAACATGTTTGTTTAA
1 TGTTAATGAACATGTTCGATTAA
** *
20821338 TGTTTGTGAACATGTTCGTTTAA
1 TGTTAATGAACATGTTCGATTAA
*
20821361 TGTTCATGAACATGTTCGATT-A
1 TGTTAATGAACATGTTCGATTAA
* *
20821383 TTTTAAATGAACATATTCG
1 TGTT-AATGAACATGTTCG
20821402 TGAACATTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
22 4 0.05
23 51 0.70
24 18 0.25
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (23 bp):
TGTTAATGAACATGTTCGATTAA
Found at i:20821402 original size:46 final size:46
Alignment explanation
Indices: 20821314--20821402 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
20821304 GCTCAATTAT
* * * *
20821314 ATGTTCATGAACATGTTTGTTTAATGTTTGTGAACATGTTCGTTTA
1 ATGTTCATGAACATGTTCGATTAATGTTTATGAACATATTCGTTTA
20821360 ATGTTCATGAACATGTTCGATT-AT-TTTAAATGAACATATTCGT
1 ATGTTCATGAACATGTTCGATTAATGTTT--ATGAACATATTCGT
20821403 GAACATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 3 0.08
45 2 0.05
46 32 0.86
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (46 bp):
ATGTTCATGAACATGTTCGATTAATGTTTATGAACATATTCGTTTA
Found at i:20822879 original size:30 final size:30
Alignment explanation
Indices: 20822845--20822909 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
20822835 AAATTTAACA
* * *
20822845 AACAAATGCCTCTAAAATAGTAACATAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
20822875 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
20822905 AACAA
1 AACAA
20822910 TAAAATAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:20824239 original size:30 final size:29
Alignment explanation
Indices: 20824176--20824245 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
20824166 TATAACTTAT
*
20824176 TATTAATATTTTAATATTTTAATAAATGAAA
1 TATTAAT-TTTAAATATTTTAATAAAT-AAA
20824207 TATTAATTTTAAATATTTCTAAGTAAAT-AA
1 TATTAATTTTAAATATTT-TAA-TAAATAAA
*
20824237 TATTTATTT
1 TATTAATTT
20824246 ATGAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 20 0.57
31 10 0.29
32 5 0.14
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TATTAATTTTAAATATTTTAATAAATAAA
Found at i:20826776 original size:223 final size:223
Alignment explanation
Indices: 20826388--20827065 Score: 1284
Period size: 223 Copynumber: 3.0 Consensus size: 223
20826378 TTATTGTAAT
20826388 ATTATTTTAATGTTTACATTAGAGTAGTATTATATATTTAGTGTATGTTTATTTTTTTAATGTGT
1 ATTATTTTAATGTTTACATTAGAGTAGTATTATATATTTAGTGTATGTTTATTTTTTTAATGTGT
20826453 TCTAAATTATATAAATATATAAAAATAACATAATATAAAGTATTATAAACTTAAAACAGGTCGGG
66 TCTAAATTATATAAATATATAAAAATAACATAATATAAAGTATTATAAACTTAAAACAGGTCGGG
20826518 CCAGATCAAGTTCAGGCTTGAACATTCAAGCCCGAGCCCGACCCATATTTTAAACGGGCCTATTT
131 CCAGATCAAGTTCAGGCTTGAACATTCAAGCCCGAGCCCGACCCATATTTTAAACGGGCCTATTT
20826583 TTTTACCCAAGCCCATTTTTGAAGTCTA
196 TTTTACCCAAGCCCATTTTTGAAGTCTA
20826611 ATTATTTTAATGTTTACATTAGAGTAGTATTATATATTTAGTGTATGTTTATTTTTTTAATGTGT
1 ATTATTTTAATGTTTACATTAGAGTAGTATTATATATTTAGTGTATGTTTATTTTTTTAATGTGT
20826676 TCTAAATTATATAAATATATAAAAATAACATAATATAAAGTATTATAAACTTAAAACAGGTCGGG
66 TCTAAATTATATAAATATATAAAAATAACATAATATAAAGTATTATAAACTTAAAACAGGTCGGG
* *
20826741 CCAGATCAAGTTCAGGCTTGAACATTCAAGCCCGAGCCCGACCCGTATTTTAAATGGGCCTATTT
131 CCAGATCAAGTTCAGGCTTGAACATTCAAGCCCGAGCCCGACCCATATTTTAAACGGGCCTATTT
20826806 TTTTACCCAAGCCCATTTTTGAAGTCTA
196 TTTTACCCAAGCCCATTTTTGAAGTCTA
20826834 ATTATTTTAATGTTTACATTAGAGTAGTATTATATATTTAGTGTATGTTTATTTTTTTAATGTGT
1 ATTATTTTAATGTTTACATTAGAGTAGTATTATATATTTAGTGTATGTTTATTTTTTTAATGTGT
*
20826899 TCTAAATTATATAAATATATAAAAATAACATAATATAAAGTATTATAAACTTAAAACAGGTCGGA
66 TCTAAATTATATAAATATATAAAAATAACATAATATAAAGTATTATAAACTTAAAACAGGTCGGG
* * *
20826964 CCGGATCAAGTTCGGGCTTGAACATTCAAGCTCGAGCCCGACCCATATTTTAAACGGGCCTAATT
131 CCAGATCAAGTTCAGGCTTGAACATTCAAGCCCGAGCCCGACCCATATTTTAAACGGGCCT-ATT
*
20827029 TTTTTACCCAAGCCCATTTTTCAAGTCTA
195 TTTTTACCCAAGCCCATTTTTGAAGTCTA
20827058 ATTATTTT
1 ATTATTTT
20827066 TTTCAAACCC
Statistics
Matches: 445, Mismatches: 9, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
223 406 0.91
224 39 0.09
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (223 bp):
ATTATTTTAATGTTTACATTAGAGTAGTATTATATATTTAGTGTATGTTTATTTTTTTAATGTGT
TCTAAATTATATAAATATATAAAAATAACATAATATAAAGTATTATAAACTTAAAACAGGTCGGG
CCAGATCAAGTTCAGGCTTGAACATTCAAGCCCGAGCCCGACCCATATTTTAAACGGGCCTATTT
TTTTACCCAAGCCCATTTTTGAAGTCTA
Found at i:20828647 original size:70 final size:70
Alignment explanation
Indices: 20828548--20828722 Score: 298
Period size: 70 Copynumber: 2.5 Consensus size: 70
20828538 TTCGAATAAG
* *
20828548 AAAAGACAAAACTACGTCGTTTTGATAAATGTTTATATTTTCTAAAGTTAAAAGTCAAAATTATT
1 AAAAGACAAAACTACGTCGTTTTGATAAATGTTTACATTTTCTAAAGTTAAAAGTCAAAATCATT
20828613 AAGTT
66 AAGTT
* *
20828618 AAAAGACAAAGCTACGTTGTTTTGATAAATGTTTACATTTTCTAAAGTTAAAAGTCAAAATCATT
1 AAAAGACAAAACTACGTCGTTTTGATAAATGTTTACATTTTCTAAAGTTAAAAGTCAAAATCATT
20828683 AAGTT
66 AAGTT
*
20828688 AAAAG-CAAAATTACGTCGTTTTGATAAATGTTTAC
1 AAAAGACAAAACTACGTCGTTTTGATAAATGTTTAC
20828723 GCATTAAGTT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 27 0.28
70 71 0.72
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.36
Consensus pattern (70 bp):
AAAAGACAAAACTACGTCGTTTTGATAAATGTTTACATTTTCTAAAGTTAAAAGTCAAAATCATT
AAGTT
Found at i:20837557 original size:20 final size:21
Alignment explanation
Indices: 20837509--20837558 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
20837499 TAGCATTTAA
*
20837509 TTTTTATTTTTACTTATTTTT
1 TTTTTATTTATACTTATTTTT
*
20837530 TATTTATTTAT-C-TATTTGTT
1 TTTTTATTTATACTTATTT-TT
20837550 TTTTTATTT
1 TTTTTATTT
20837559 TCATGTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 9 0.36
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTATTTATACTTATTTTT
Found at i:20837595 original size:42 final size:42
Alignment explanation
Indices: 20837548--20837639 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
20837538 TATCTATTTG
*
20837548 TTTTTTTATTTTCATGT-CATTTTATTGTT-ATATCTTCTATTA
1 TTTTTTTATTTTAATGTACA-TTTATTGTTAATATCTTCT-TTA
* *
20837590 TTTTTTTA-TTTAATTTACATTTATTGTTAATATCTTGTTTA
1 TTTTTTTATTTTAATGTACATTTATTGTTAATATCTTCTTTA
*
20837631 TTTATTTAT
1 TTTTTTTAT
20837640 CATTAAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
41 25 0.58
42 18 0.42
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (42 bp):
TTTTTTTATTTTAATGTACATTTATTGTTAATATCTTCTTTA
Found at i:20841541 original size:15 final size:13
Alignment explanation
Indices: 20841517--20841555 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
20841507 TGCATATGCA
20841517 TACATGCATTCAT
1 TACATGCATTCAT
20841530 TAGCATTGCATTTCAT
1 TA-CA-TGCA-TTCAT
20841546 TACATGCATT
1 TACATGCATT
20841556 AAATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 6 0.26
16 7 0.30
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (13 bp):
TACATGCATTCAT
Found at i:20845479 original size:10 final size:10
Alignment explanation
Indices: 20845464--20845515 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 10
20845454 CAAACTGGTA
20845464 AAAAAAGAAG
1 AAAAAAGAAG
20845474 AAAAAAAGAGTAGAG
1 --AAAAA-AG-A-AG
20845489 AAAAAAGAAG
1 AAAAAAGAAG
20845499 AAAAAAGAA-
1 AAAAAAGAAG
20845508 AAAAAAGA
1 AAAAAAGA
20845516 GGCCGAGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 8 0.22
10 11 0.30
11 1 0.03
12 7 0.19
13 7 0.19
14 1 0.03
15 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:20846627 original size:49 final size:49
Alignment explanation
Indices: 20846573--20847195 Score: 366
Period size: 49 Copynumber: 12.7 Consensus size: 49
20846563 AATGAAGCTG
* * * *
20846573 CAACGACAGATCTTACACCTTAAAAATGTAGAGGGATAGGTTGAAGCCA
1 CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* * * * * *
20846622 TAACGACGGACCTAACACCCTAAAATTGAAGAGGGAAAGATTGAAGCCG
1 CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* * *
20846671 CAACGTCGGATCTTACACCTTAAAATTGAAGAGGGACAGGTTGAAGTCA
1 CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* * ** ** * * *
20846720 CAACGGCGGA-CCTA-ATGTGCTAAAATCAAAGAGGGAAAGATTGAAGTCG
1 CAACGACGGATCTTACACCT--TAAAATTGAAGAGGGAAAGGTTGAAGCCA
* * * * * * * * *
20846769 TAATGGCAGATCTTACACCTTAAAACTGAAGAGAGATAGGTTAAAGCCG
1 CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* ** * * * * * * *
20846818 CAATGACAAACCTAACACCCTAAAATCGAAGCA-GGATAGATTGAAGCCG
1 CAACGACGGATCTTACACCTTAAAATTGAAG-AGGGAAAGGTTGAAGCCA
* * * * *
20846867 CAATGACAGATCTAACATCC-TAAAATTGAAGAGGTAAA-ATTGAAGCCA
1 CAACGACGGATCTTACA-CCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* * * **
20846915 CAACGATGGATCTTACACCTTAAAACTGAAGAGGGATAGGTT-AGAGCTG
1 CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGA-AGCCA
* *** * * * * * * *
20846964 CAATGGTAGACCTAACACCCTAAAATCGACGAGGGAAAGATTGAAGCCG
1 CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* ** * *
20847013 CAATGGTGGATCTTACACCTTAAAACTGAAGAGGGATAGGTTGAAG-CA
1 CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* * * * ***
20847061 GCAACGACGGA-CTTCACACCCTAAAATCGAATAGGGAAAGATTGAAGTTG
1 -CAACGACGGATCTT-ACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* * * *
20847111 CAACGACGGATCTTATACCTTAAAATTGAAAAGGGATAGGTTGAAGCCG
1 CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
* * *
20847160 CAACG--GTAAACTTAACACCTTAAAATCGAAGAGGGA
1 CAACGACG-GATCTT-ACACCTTAAAATTGAAGAGGGA
20847196 TAGATTAAAG
Statistics
Matches: 442, Mismatches: 115, Indels: 34
0.75 0.19 0.06
Matches are distributed among these distances:
47 5 0.01
48 50 0.11
49 375 0.85
50 10 0.02
51 2 0.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (49 bp):
CAACGACGGATCTTACACCTTAAAATTGAAGAGGGAAAGGTTGAAGCCA
Found at i:20846730 original size:98 final size:98
Alignment explanation
Indices: 20846551--20847206 Score: 469
Period size: 98 Copynumber: 6.7 Consensus size: 98
20846541 TCCTAGAGTC
* * * * * * * *
20846551 GAAGAGAGAAAGAATGAAGCTGCAACGACAGATCTTACACCTTAAAAATGTAGAGGGATAGGTTG
1 GAAGAGGGATAGATTGAAGCCGCAACGACAGATCTTACACCTTAAAATTGAAGAGGGAAAGATTG
*
20846616 AAGCCATAACGACGGACCTAACACCCTAAAATT
66 AAGCCACAACGACGGACCTAACACCCTAAAATT
* * * * *
20846649 GAAGAGGGAAAGATTGAAGCCGCAACGTCGGATCTTACACCTTAAAATTGAAGAGGGACAGGTTG
1 GAAGAGGGATAGATTGAAGCCGCAACGACAGATCTTACACCTTAAAATTGAAGAGGGAAAGATTG
* * **** *
20846714 AAGTCACAACGGCGGACCTAATGTGCTAAAATC
66 AAGCCACAACGACGGACCTAACACCCTAAAATT
* * * * * * * * * * *
20846747 AAAGAGGGAAAGATTGAAGTCGTAATGGCAGATCTTACACCTTAAAACTGAAGAGAGATAGGTTA
1 GAAGAGGGATAGATTGAAGCCGCAACGACAGATCTTACACCTTAAAATTGAAGAGGGAAAGATTG
* * ** *
20846812 AAGCCGCAATGACAAACCTAACACCCTAAAATC
66 AAGCCACAACGACGGACCTAACACCCTAAAATT
* * *
20846845 GAAGCA-GGATAGATTGAAGCCGCAATGACAGATCTAACATCC-TAAAATTGAAGAGGTAAA-AT
1 GAAG-AGGGATAGATTGAAGCCGCAACGACAGATCTTACA-CCTTAAAATTGAAGAGGGAAAGAT
* * * * *
20846907 TGAAGCCACAACGATGGATCTTACACCTTAAAACT
64 TGAAGCCACAACGACGGACCTAACACCCTAAAATT
* * * ** * * * * *
20846942 GAAGAGGGATAGGTT-AGAGCTGCAATGGTAGACCTAACACCCTAAAATCGACGAGGGAAAGATT
1 GAAGAGGGATAGATTGA-AGCCGCAACGACAGATCTTACACCTTAAAATTGAAGAGGGAAAGATT
* * ** * * * *
20847006 GAAGCCGCAATGGTGGATCTTACACCTTAAAACT
65 GAAGCCACAACGACGGACCTAACACCCTAAAATT
* * * * * *
20847040 GAAGAGGGATAGGTTGAAGCAGCAACGACGGA-CTTCACACCCTAAAATCGAATAGGGAAAGATT
1 GAAGAGGGATAGATTGAAGCCGCAACGACAGATCTT-ACACCTTAAAATTGAAGAGGGAAAGATT
*** * * * *
20847104 GAAGTTGCAACGACGGATCTTATACCTTAAAATT
65 GAAGCCACAACGACGGACCTAACACCCTAAAATT
* * ** * * *
20847138 GAAAAGGGATAGGTTGAAGCCGCAACGGTA-AACTTAACACCTTAAAATCGAAGAGGGATAGATT
1 GAAGAGGGATAGATTGAAGCCGCAACGACAGATCTT-ACACCTTAAAATTGAAGAGGGAAAGATT
*
20847202 AAAGC
65 GAAGC
20847207 TGTAACGGTA
Statistics
Matches: 454, Mismatches: 95, Indels: 18
0.80 0.17 0.03
Matches are distributed among these distances:
96 4 0.01
97 73 0.16
98 373 0.82
99 4 0.01
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (98 bp):
GAAGAGGGATAGATTGAAGCCGCAACGACAGATCTTACACCTTAAAATTGAAGAGGGAAAGATTG
AAGCCACAACGACGGACCTAACACCCTAAAATT
Found at i:20847025 original size:146 final size:146
Alignment explanation
Indices: 20846777--20847046 Score: 391
Period size: 146 Copynumber: 1.8 Consensus size: 146
20846767 CGTAATGGCA
20846777 GATCTTACACCTTAAAACTGAAGAGAGATAGGTTAAAGCCGCAATGACAAACCTAACACCCTAAA
1 GATCTTACACCTTAAAACTGAAGAGAGATAGGTTAAAGCCGCAATGACAAACCTAACACCCTAAA
* *
20846842 ATCGAAGCAGGATAGATTGAAGCCGCAATGACAGATCTAACATCC-TAAAATTGAAGAGGTAAAA
66 ATCGAAGCAGGAAAGATTGAAGCCGCAATGACAGATCTAACA-CCTTAAAACTGAAGAGGTAAAA
20846906 TTGAAGCCACAACGATG
130 TTGAAGCCACAACGATG
* * * ** *
20846923 GATCTTACACCTTAAAACTGAAGAGGGATAGGTTAGAGCTGCAATGGTAGACCTAACACCCTAAA
1 GATCTTACACCTTAAAACTGAAGAGAGATAGGTTAAAGCCGCAATGACAAACCTAACACCCTAAA
* *** *
20846988 ATCGACG-AGGGAAAGATTGAAGCCGCAATGGTGGATCTTACACCTTAAAACTGAAGAGG
66 ATCGAAGCA-GGAAAGATTGAAGCCGCAATGACAGATCTAACACCTTAAAACTGAAGAGG
20847047 GATAGGTTGA
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
145 3 0.03
146 106 0.97
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (146 bp):
GATCTTACACCTTAAAACTGAAGAGAGATAGGTTAAAGCCGCAATGACAAACCTAACACCCTAAA
ATCGAAGCAGGAAAGATTGAAGCCGCAATGACAGATCTAACACCTTAAAACTGAAGAGGTAAAAT
TGAAGCCACAACGATG
Found at i:20847196 original size:49 final size:49
Alignment explanation
Indices: 20846549--20847257 Score: 324
Period size: 49 Copynumber: 14.5 Consensus size: 49
20846539 AATCCTAGAG
* * * * * *
20846549 TCGAAGAGAGAAAGAATGAAGCTGCAACGACAGATCTT-ACACCTTAAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGGC-GAACTTAACACCTT-AAAA
* * ** * * * *
20846599 T-GTAGAGGGATAGGTTGAAGCCATAACGACGGACCTAACACCCTAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGGCGAACTTAACACCTTAAAA
* * * *
20846647 TTGAAGAGGGAAAGATTGAAGCCGCAACGTCGGATCTT-ACACCTTAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGGC-GAACTTAACACCTTAAAA
* * * * * * * ***
20846696 TTGAAGAGGGACAGGTTGAAGTCACAACGGCGGACCTAATGTGC-TAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGGCGAACTTAA-CACCTTAAAA
* * * * * *
20846745 TCAAAGAGGGAAAGATTGAAGTCGTAATGGCAGATCTT-ACACCTTAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGGC-GAACTTAACACCTTAAAA
* * * * * * * *
20846794 -CTGAAGAGAGATAGGTTAAAGCCGCAATGACAAACCTAACACCCTAAAA
1 TC-GAAGAGGGATAGATTGAAGCCGCAACGGCGAACTTAACACCTTAAAA
* * *
20846843 TCGAAGCA-GGATAGATTGAAGCCGCAATGACAGATC-TAACATCC-TAAAA
1 TCGAAG-AGGGATAGATTGAAGCCGCAACGGC-GAACTTAACA-CCTTAAAA
* * * * *
20846892 TTGAAGAGGTA-AAATTGAAGCCACAACGATG-GATCTT-ACACCTTAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACG--GCGAACTTAACACCTTAAAA
* * * * * *
20846940 -CTGAAGAGGGATAGGTT-AGAGCTGCAATGG-TAGACCTAACACCCTAAAA
1 TC-GAAGAGGGATAGATTGA-AGCCGCAACGGCGA-ACTTAACACCTTAAAA
* * * * *
20846989 TCGACGAGGGAAAGATTGAAGCCGCAATGGTGGATCTT-ACACCTTAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGG-CGAACTTAACACCTTAAAA
* * * * * *
20847038 -CTGAAGAGGGATAGGTTGAAGCAGCAACGACGGACTTCACACCCTAAAA
1 TC-GAAGAGGGATAGATTGAAGCCGCAACGGCGAACTTAACACCTTAAAA
* * ** * * *
20847087 TCGAATAGGGAAAGATTGAAGTTGCAACGACGGATCTT-ATACCTTAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGGC-GAACTTAACACCTTAAAA
* * * **
20847136 TTGAAAAGGGATAGGTTGAAGCCGCAACGGTAAACTTAACACCTTAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGGCGAACTTAACACCTTAAAA
* * * * *
20847185 TCGAAGAGGGATAGATTAAAGCTGTAACGGTAGATC-TAACA-CTCTAAAA
1 TCGAAGAGGGATAGATTGAAGCCGCAACGG-CGAACTTAACACCT-TAAAA
* *
20847234 CCGAAGAGGGAATAGATTAAAGCC
1 TCGAAGAGGG-ATAGATTGAAGCC
20847258 ACAAAAACGA
Statistics
Matches: 495, Mismatches: 129, Indels: 70
0.71 0.19 0.10
Matches are distributed among these distances:
47 4 0.01
48 65 0.13
49 388 0.78
50 37 0.07
51 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (49 bp):
TCGAAGAGGGATAGATTGAAGCCGCAACGGCGAACTTAACACCTTAAAA
Found at i:20847221 original size:98 final size:98
Alignment explanation
Indices: 20846879--20847244 Score: 405
Period size: 98 Copynumber: 3.7 Consensus size: 98
20846869 ATGACAGATC
* * * ** *
20846879 TAACATCCTAAAATTGAAGAGGTAAA-ATTGAAGCCACAACGATGGATCTTACACCTTAAAACTG
1 TAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCTGCAACGGTGGATCTTACACCTTAAAACTG
* * *
20846943 AAGAGGGATAGGTT-AGAGCTGCAATGGTAGACC
66 AAGAGGGATAGGTTGA-AGCAGCAACGGTAGACT
* * *
20846976 TAACACCCTAAAATCGACGAGGGAAAGATTGAAGCCGCAATGGTGGATCTTACACCTTAAAACTG
1 TAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCTGCAACGGTGGATCTTACACCTTAAAACTG
***
20847041 AAGAGGGATAGGTTGAAGCAGCAACGACGGACT
66 AAGAGGGATAGGTTGAAGCAGCAACGGTAGACT
* * * ** * *
20847074 TCACACCCTAAAATCGAATAGGGAAAGATTGAAGTTGCAACGACGGATCTTATACCTTAAAATTG
1 TAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCTGCAACGGTGGATCTTACACCTTAAAACTG
* * *
20847139 AAAAGGGATAGGTTGAAGCCGCAACGGTAAACT
66 AAGAGGGATAGGTTGAAGCAGCAACGGTAGACT
* * * * * * *
20847172 TAACACCTTAAAATCGAAGAGGGATAGATTAAAGCTGTAACGGTAGATCTAACA-CTCTAAAACC
1 TAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCTGCAACGGTGGATCTTACACCT-TAAAACT
20847236 GAAGAGGGA
65 GAAGAGGGA
20847245 ATAGATTAAA
Statistics
Matches: 222, Mismatches: 44, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
97 24 0.11
98 197 0.89
99 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.20
Consensus pattern (98 bp):
TAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCTGCAACGGTGGATCTTACACCTTAAAACTG
AAGAGGGATAGGTTGAAGCAGCAACGGTAGACT
Found at i:20847222 original size:342 final size:344
Alignment explanation
Indices: 20846581--20847261 Score: 836
Period size: 342 Copynumber: 2.0 Consensus size: 344
20846571 TGCAACGACA
* * *
20846581 GATCTTACACCTTAAAAATGTAGAGGGATAGGTTGAAGCCATAACGACGGACCTAACACCCTAAA
1 GATCTTACACCTTAAAAATGAAGAGGGATAGGTTGAAGCCACAACGACAGACCTAACACCCTAAA
* *
20846646 ATTGAAGAGGGAAAGATTGAAGCCGCAACGTCGGATCTTACACCTTAAAATTGAAGAGGGACAGG
66 ATCGAAGAGGGAAAGATTGAAGCCGCAACGTCGGATCTTACACCTTAAAACTGAAGAGGGACAGG
* **** * * *
20846711 TTGAAGTCACAACGGCGGACCTAATGTGCTAAAATCAAAGAGGGAAAGATTGAAGTCGTAATGGC
131 TTGAAGTCACAACGACGGACCTAACACCCTAAAATCAAAGAGGGAAAGATTGAAGTCGCAACGAC
* *
20846776 AGATCTTACACCTTAAAACTGAAGAGAGATAGGTTAAAGCCGCAATGACAAACCTAACACCCTAA
196 AGATCTTACACCTTAAAACTGAAAAGAGATAGGTTAAAGCCGCAACGACAAACCTAACACCCTAA
* * ** *
20846841 AATCGAAGCAGGATAGATTGAAGCCGCAATGACAGATCTAACA-TCCTAAAATTGAAGAGGTAA-
261 AATCGAAGCAGGATAGATTAAAGCCGCAACGACAGATCTAACACT-CTAAAACCGAAGAGGGAAT
*
20846904 A-ATTGAAGCCACAACGATG
325 AGATTAAAGCCACAACGATG
* ** * **
20846923 GATCTTACACCTTAAAACTGAAGAGGGATAGGTT-AGAGCTGCAATGGTAGACCTAACACCCTAA
1 GATCTTACACCTTAAAAATGAAGAGGGATAGGTTGA-AGCCACAACGACAGACCTAACACCCTAA
* * *
20846987 AATCGACGAGGGAAAGATTGAAGCCGCAATGGT-GGATCTTACACCTTAAAACTGAAGAGGGATA
65 AATCGAAGAGGGAAAGATTGAAGCCGCAA-CGTCGGATCTTACACCTTAAAACTGAAGAGGGACA
* * * * *
20847051 GGTTGAAG-CAGCAACGACGGACTTCACACCCTAAAATCGAATAGGGAAAGATTGAAGTTGCAAC
129 GGTTGAAGTCA-CAACGACGGACCTAACACCCTAAAATCAAAGAGGGAAAGATTGAAGTCGCAAC
* * * * * ** * *
20847115 GACGGATCTTATACCTTAAAATTGAAAAGGGATAGGTTGAAGCCGCAACGGTAAACTTAACACCT
193 GACAGATCTTACACCTTAAAACTGAAAAGAGATAGGTTAAAGCCGCAACGACAAACCTAACACCC
* * **
20847180 TAAAATCGAAG-AGGGATAGATTAAAGCTGTAACGGTAGATCTAACACTCTAAAACCGAAGAGGG
258 TAAAATCGAAGCA-GGATAGATTAAAGCCGCAACGACAGATCTAACACTCTAAAACCGAAGAGGG
20847244 AATAGATTAAAGCCACAA
322 AATAGATTAAAGCCACAA
20847262 AAACGAATCT
Statistics
Matches: 284, Mismatches: 48, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
341 4 0.01
342 264 0.93
343 4 0.01
344 12 0.04
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.19
Consensus pattern (344 bp):
GATCTTACACCTTAAAAATGAAGAGGGATAGGTTGAAGCCACAACGACAGACCTAACACCCTAAA
ATCGAAGAGGGAAAGATTGAAGCCGCAACGTCGGATCTTACACCTTAAAACTGAAGAGGGACAGG
TTGAAGTCACAACGACGGACCTAACACCCTAAAATCAAAGAGGGAAAGATTGAAGTCGCAACGAC
AGATCTTACACCTTAAAACTGAAAAGAGATAGGTTAAAGCCGCAACGACAAACCTAACACCCTAA
AATCGAAGCAGGATAGATTAAAGCCGCAACGACAGATCTAACACTCTAAAACCGAAGAGGGAATA
GATTAAAGCCACAACGATG
Found at i:20848159 original size:40 final size:42
Alignment explanation
Indices: 20848072--20848159 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 42
20848062 GTTCGACTTC
20848072 TTTTTATTATTATTTATATTTATTAGTTTATTTTGGCATTTA
1 TTTTTATTATTATTTATATTTATTAGTTTATTTTGGCATTTA
* * *
20848114 -ATTTATTGATT-TTT-TGTTTATTTA-TTTA-TTTGTCATTTA
1 TTTTTATT-ATTATTTATATTTA-TTAGTTTATTTTGGCATTTA
20848153 TTTTTAT
1 TTTTTAT
20848160 ACCTAATCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
39 10 0.26
40 14 0.36
41 12 0.31
42 3 0.08
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (42 bp):
TTTTTATTATTATTTATATTTATTAGTTTATTTTGGCATTTA
Found at i:20848241 original size:16 final size:16
Alignment explanation
Indices: 20848208--20848264 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
20848198 TTGTTTTAGC
20848208 ATTTAATTTTTATT-TTT
1 ATTT-ATTTTT-TTGTTT
*
20848225 ACTTATTTTTTTGTTT
1 ATTTATTTTTTTGTTT
* *
20848241 ATTTATCTATTTG-TT
1 ATTTATTTTTTTGTTT
20848256 ATTTATTTT
1 ATTTATTTT
20848265 CATGCCATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 11 0.33
16 19 0.58
17 3 0.09
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (16 bp):
ATTTATTTTTTTGTTT
Found at i:20856941 original size:21 final size:22
Alignment explanation
Indices: 20856917--20856963 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
20856907 TTCCACAGGA
*
20856917 TCTTCCTT-AGGCTCTTCTTCT
1 TCTTCCTTCAGGATCTTCTTCT
*
20856938 TCTT-CTTCAGGATCTTCTTTT
1 TCTTCCTTCAGGATCTTCTTCT
20856959 TCTTC
1 TCTTC
20856964 TTTATCTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.06, C:0.30, G:0.09, T:0.55
Consensus pattern (22 bp):
TCTTCCTTCAGGATCTTCTTCT
Found at i:20859475 original size:32 final size:32
Alignment explanation
Indices: 20859434--20859501 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
20859424 TTCTTGAGTA
*
20859434 TGCCTTTTATTTCTTTATTTGCCAACTTTGCT
1 TGCCTTTTATTTCTTCATTTGCCAACTTTGCT
20859466 TGCCTTTTATTTCTTCATTTGCCAACTTTGCT
1 TGCCTTTTATTTCTTCATTTGCCAACTTTGCT
20859498 TGCC
1 TGCC
20859502 CATTTGTCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.12, C:0.25, G:0.10, T:0.53
Consensus pattern (32 bp):
TGCCTTTTATTTCTTCATTTGCCAACTTTGCT
Found at i:20861504 original size:28 final size:28
Alignment explanation
Indices: 20861464--20861520 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
20861454 CATGAACTGT
20861464 TTGAGATGCGATAAATTATACCCGCATC
1 TTGAGATGCGATAAATTATACCCGCATC
* *
20861492 TTGAGATGGGATAAATTATACCCGTATC
1 TTGAGATGCGATAAATTATACCCGCATC
20861520 T
1 T
20861521 AACCACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (28 bp):
TTGAGATGCGATAAATTATACCCGCATC
Found at i:20866114 original size:15 final size:16
Alignment explanation
Indices: 20866075--20866113 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
20866065 TTTTTTGGTT
20866075 TTCTCTTTTTCTTTGC
1 TTCTCTTTTTCTTTGC
20866091 TT-TCTTTTTC-TT-C
1 TTCTCTTTTTCTTTGC
20866104 TTCTCTTTTT
1 TTCTCTTTTT
20866114 TTTATACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 9 0.41
15 8 0.36
16 2 0.09
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (16 bp):
TTCTCTTTTTCTTTGC
Found at i:20866717 original size:17 final size:16
Alignment explanation
Indices: 20866697--20866740 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
20866687 AAATGAACTA
20866697 ACAAGTAAAATACAACG
1 ACAA-TAAAATACAACG
* *
20866714 ACAACTAAAATGCAATG
1 ACAA-TAAAATACAACG
20866731 ACAATAAAAT
1 ACAATAAAAT
20866741 GAGATGCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.59, C:0.16, G:0.09, T:0.16
Consensus pattern (16 bp):
ACAATAAAATACAACG
Found at i:20886575 original size:20 final size:20
Alignment explanation
Indices: 20886552--20886621 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
20886542 AGTGAGAATG
20886552 AAAAAGAAAAGAAAATTGAA
1 AAAAAGAAAAGAAAATTGAA
*
20886572 AAAAAG-AAAGCAAAAATGAGAGA
1 AAAAAGAAAAG--AAAAT-TGA-A
*
20886595 AAAAAGAAAAG-AAAGTGAA
1 AAAAAGAAAAGAAAATTGAA
20886614 AAGAAAGA
1 AA-AAAGA
20886622 GAGAAAAGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
19 7 0.17
20 13 0.32
21 8 0.20
22 2 0.05
23 7 0.17
24 4 0.10
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (20 bp):
AAAAAGAAAAGAAAATTGAA
Found at i:20886615 original size:28 final size:28
Alignment explanation
Indices: 20886573--20886633 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
20886563 AAAATTGAAA
20886573 AAAAGAAAGCAAAAATG-AGAGAAAAAAG
1 AAAAGAAAGCAAAAA-GAAGAGAAAAAAG
** *
20886601 AAAAGAAAGTGAAAAGAAAGAGAGAAAAG
1 AAAAGAAAGCAAAAAG-AAGAGAAAAAAG
20886630 AAAA
1 AAAA
20886634 AGATGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 13 0.46
29 14 0.50
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.03
Consensus pattern (28 bp):
AAAAGAAAGCAAAAAGAAGAGAAAAAAG
Found at i:20886629 original size:13 final size:13
Alignment explanation
Indices: 20886599--20886648 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
20886589 GAGAGAAAAA
20886599 AGAAAAG-AA-AG
1 AGAAAAGAAAGAG
*
20886610 TGAAAAGAAAGAG
1 AGAAAAGAAAGAG
*
20886623 AGAAAAGAAAAAG
1 AGAAAAGAAAGAG
*
20886636 ATGAAAAGGAAGA
1 A-GAAAAGAAAGA
20886649 AACAGAGATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 6 0.19
12 2 0.06
13 14 0.45
14 9 0.29
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (13 bp):
AGAAAAGAAAGAG
Found at i:20892479 original size:21 final size:21
Alignment explanation
Indices: 20892441--20892485 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20892431 GTTAAAATGA
* *
20892441 TTTTGACTTAGTTCAAATTAT
1 TTTTGACATAGTTCAAATCAT
20892462 TTTTGACAT-GTTCAAAATCAT
1 TTTTGACATAGTTC-AAATCAT
20892483 TTT
1 TTT
20892486 AACTTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTTGACATAGTTCAAATCAT
Found at i:20892485 original size:20 final size:20
Alignment explanation
Indices: 20892415--20892485 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
20892405 CACTTGTTTG
*
20892415 AAAAACATTTTGA-AGTGTT-
1 AAAATCATTTTGACA-TGTTC
* *
20892434 AAAATGATTTTGACTTAGTTC
1 AAAATCATTTTGACAT-GTTC
*
20892455 -AAATTATTTTTGACATGTTC
1 AAAATCA-TTTTGACATGTTC
20892475 AAAATCATTTT
1 AAAATCATTTT
20892486 AACTTGATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 12 0.29
20 16 0.39
21 13 0.32
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (20 bp):
AAAATCATTTTGACATGTTC
Found at i:20893824 original size:19 final size:19
Alignment explanation
Indices: 20893788--20893825 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20893778 TAGGACTAAG
**
20893788 ATGCATGAAAATGTATGAA
1 ATGCATGAAAATAAATGAA
20893807 ATGCATGAAAATAAATGAA
1 ATGCATGAAAATAAATGAA
20893826 TGAATAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.18, T:0.24
Consensus pattern (19 bp):
ATGCATGAAAATAAATGAA
Found at i:20902602 original size:19 final size:19
Alignment explanation
Indices: 20902578--20902614 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
20902568 TTAAGATATT
20902578 ATTTTA-ATAAAATGTTTAA
1 ATTTTATATAAAAT-TTTAA
20902597 ATTTTATATAAAATTTTA
1 ATTTTATATAAAATTTTA
20902615 TTAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTTATATAAAATTTTAA
Found at i:20903515 original size:23 final size:23
Alignment explanation
Indices: 20903470--20903515 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
20903460 TTAGGAAATT
20903470 AAAATATAATAAGTTTAATTTTCA
1 AAAATATAATAAG-TTAATTTTCA
20903494 AAAATATAATAA-TTAATATTTC
1 AAAATATAATAAGTTAAT-TTTC
20903516 TACCTTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 12 0.57
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAATATAATAAGTTAATTTTCA
Found at i:20906303 original size:53 final size:52
Alignment explanation
Indices: 20906141--20906311 Score: 193
Period size: 53 Copynumber: 3.2 Consensus size: 52
20906131 TATCATGGTT
* * ** *
20906141 TGTGTATACTGTTCTGGGGCATACA-AGCTGACACATGGATGTGTGTCAGGGTG
1 TGTGTATACTGTTCTGGAGC--ACATGGCTGACACATGGGCGTGTGTCAAGGTG
**
20906194 TGTGTATACTGTTCTGGAGCACATGGCTGACACATGGGCAAGTGTCAAGGTG
1 TGTGTATACTGTTCTGGAGCACATGGCTGACACATGGGCGTGTGTCAAGGTG
* * * *
20906246 TGTGTATGCTGTTCTAGGA-CACATGGGCTGACACATGGGCGTGTGACAAAGTT
1 TGTGTATACTGTTCT-GGAGCACAT-GGCTGACACATGGGCGTGTGTCAAGGTG
20906299 TGTGTATACTGTT
1 TGTGTATACTGTT
20906312 TTGAGGCAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
51 3 0.03
52 41 0.41
53 57 0.56
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (52 bp):
TGTGTATACTGTTCTGGAGCACATGGCTGACACATGGGCGTGTGTCAAGGTG
Found at i:20920460 original size:24 final size:24
Alignment explanation
Indices: 20920433--20920478 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20920423 TTTCCTACCC
*
20920433 AATATGTCATCATTTT-TAATTATT
1 AATAT-TCATAATTTTGTAATTATT
*
20920457 AATATTCGTAATTTTGTAATTA
1 AATATTCATAATTTTGTAATTA
20920479 GATGTTCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (24 bp):
AATATTCATAATTTTGTAATTATT
Found at i:20922174 original size:18 final size:18
Alignment explanation
Indices: 20922148--20922194 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
20922138 CTCAACACAT
*
20922148 TTCCAATCGCCACCTTAA
1 TTCCCATCGCCACCTTAA
20922166 TTCCCATCGCCACCTTAA
1 TTCCCATCGCCACCTTAA
20922184 TTCCCATCGCC
1 TTCCCATCGCC
20922195 TTATGGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.21, C:0.45, G:0.06, T:0.28
Consensus pattern (18 bp):
TTCCCATCGCCACCTTAA
Found at i:20926006 original size:15 final size:15
Alignment explanation
Indices: 20925986--20926039 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
20925976 ATACTACAAA
20925986 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
20926001 ATATTTATAATTGCAAT
1 ATATTTATTATT--AAT
*
20926018 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
20926035 ATATT
1 ATATT
20926040 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 16 0.50
17 5 0.16
19 11 0.34
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:20926007 original size:31 final size:34
Alignment explanation
Indices: 20925969--20926039 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
20925959 GACATATTTT
20925969 AATATTTAT-ACTAC-A-AAATATTTATTATTAA
1 AATATTTATAACTACAATAAATATTTATTATTAA
* * *
20926000 TATATTTATAATTGCAATAAATATTTATTATTAA
1 AATATTTATAACTACAATAAATATTTATTATTAA
20926034 AATATT
1 AATATT
20926040 AATATTGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 8 0.24
32 3 0.09
33 1 0.03
34 21 0.64
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (34 bp):
AATATTTATAACTACAATAAATATTTATTATTAA
Found at i:20926037 original size:19 final size:17
Alignment explanation
Indices: 20925984--20926033 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 17
20925974 TTATACTACA
20925984 AAATATTTATTATTAAT
1 AAATATTTATTATTAAT
*
20926001 --ATATTTATAATTGCAAT
1 AAATATTTATTATT--AAT
20926018 AAATATTTATTATTAA
1 AAATATTTATTATTAA
20926034 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 11 0.41
17 5 0.19
19 11 0.41
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
AAATATTTATTATTAAT
Found at i:20926109 original size:14 final size:15
Alignment explanation
Indices: 20926071--20926111 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
20926061 TATGTGAAAA
*
20926071 ATATTATTTAAAATT
1 ATATTATTAAAAATT
20926086 ATCATT-TTAAAAATT
1 AT-ATTATTAAAAATT
20926101 -TATTATTAAAA
1 ATATTATTAAAA
20926112 TAAAATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 3 0.13
14 7 0.30
15 10 0.43
16 3 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTATTAAAAATT
Found at i:20926147 original size:16 final size:19
Alignment explanation
Indices: 20926122--20926186 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 19
20926112 TAAAATTGAA
20926122 ATATTAAATAATTTATTAA-
1 ATATT-AATAATTTATTAAT
20926141 A-A-TAATAAATTATATTAATT
1 ATATTAAT-AATT-TATTAA-T
20926161 ATATTAATAATTTATT-AT
1 ATATTAATAATTTATTAAT
20926179 ATGATTAA
1 AT-ATTAA
20926187 ATATAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.08
17 5 0.13
18 10 0.26
19 7 0.18
20 5 0.13
21 5 0.13
22 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATTAATAATTTATTAAT
Found at i:20928293 original size:19 final size:18
Alignment explanation
Indices: 20928269--20928307 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
20928259 ATTTTTACAA
20928269 TTTAATCCT-TTTTAATATT
1 TTTAAT-CTATTTTAA-ATT
20928288 TTTAATCTATTTTAAATT
1 TTTAATCTATTTTAAATT
20928306 TT
1 TT
20928308 CCCATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTAATCTATTTTAAATT
Found at i:20928477 original size:31 final size:31
Alignment explanation
Indices: 20928420--20928647 Score: 197
Period size: 30 Copynumber: 7.6 Consensus size: 31
20928410 GTTTCATTTA
20928420 AAAATTACA-TTTGACCCC-TAAACTTTTCC
1 AAAATTACATTTTGACCCCTTAAACTTTTCC
* * * *
20928449 AAAATTATATTTTAACCCCTCAAACTTTTTC
1 AAAATTACATTTTGACCCCTTAAACTTTTCC
* * *
20928480 AAAATTATATTTTAACCCC-TAAA-TTTTCTT
1 AAAATTACATTTTGACCCCTTAAACTTTTC-C
20928510 AAAATTACA-TTTGA-CCCTTAAAC-TTTCC
1 AAAATTACATTTTGACCCCTTAAACTTTTCC
* * * * * *
20928538 AAAATCATATTTTCACCCCCTAAA-ATTTCTT
1 AAAATTACATTTTGACCCCTTAAACTTTTC-C
* *
20928569 AAAATCATATTTTTGA-CCCTTAAACTTTTCC
1 AAAATTACA-TTTTGACCCCTTAAACTTTTCC
*
20928600 AAAATTACATTTTGA-CCCTTAAACTTTCCC
1 AAAATTACATTTTGACCCCTTAAACTTTTCC
* *
20928630 AAAATCACATTTTAACCC
1 AAAATTACATTTTGACCC
20928648 AAAATTCTCA
Statistics
Matches: 163, Mismatches: 24, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
28 10 0.06
29 28 0.17
30 63 0.39
31 53 0.33
32 9 0.06
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.39
Consensus pattern (31 bp):
AAAATTACATTTTGACCCCTTAAACTTTTCC
Found at i:20928526 original size:90 final size:91
Alignment explanation
Indices: 20928420--20928647 Score: 295
Period size: 90 Copynumber: 2.5 Consensus size: 91
20928410 GTTTCATTTA
* * *
20928420 AAAATTACATTTGACCCCTAAACTTTTCCAAAATTATATTTTAA-CCCCTCAAACTTT-TTCAAA
1 AAAATTACATTTGACCCTTAAACTTTTCCAAAATCATATTTTAACCCCCT-AAAATTTCTT-AAA
* *
20928483 ATTATA-TTTTAACCCCTAAA-TTTTCTT
64 ATCATATTTTTAACCCCTAAACTTTTC-C
*
20928510 AAAATTACATTTGACCCTTAAAC-TTTCCAAAATCATATTTTCACCCCCTAAAATTTCTTAAAAT
1 AAAATTACATTTGACCCTTAAACTTTTCCAAAATCATATTTTAACCCCCTAAAATTTCTTAAAAT
* *
20928574 CATATTTTTGACCCTTAAACTTTTCC
66 CATATTTTTAACCCCTAAACTTTTCC
* *
20928600 AAAATTACATTTTGACCCTTAAACTTTCCCAAAATCACATTTTAACCC
1 AAAATTACA-TTTGACCCTTAAACTTTTCCAAAATCATATTTTAACCC
20928648 AAAATTCTCA
Statistics
Matches: 121, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
89 32 0.26
90 50 0.41
91 19 0.16
92 20 0.17
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.39
Consensus pattern (91 bp):
AAAATTACATTTGACCCTTAAACTTTTCCAAAATCATATTTTAACCCCCTAAAATTTCTTAAAAT
CATATTTTTAACCCCTAAACTTTTCC
Found at i:20932061 original size:17 final size:17
Alignment explanation
Indices: 20932025--20932067 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
20932015 AAGAAAAAAT
*
20932025 GGTTACAAGAATATGAAA
1 GGTTA-AAGAAGATGAAA
*
20932043 GGTTAAAGAAGATGGAA
1 GGTTAAAGAAGATGAAA
20932060 GGTTAAAG
1 GGTTAAAG
20932068 GTCAAGGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (17 bp):
GGTTAAAGAAGATGAAA
Found at i:20935194 original size:11 final size:11
Alignment explanation
Indices: 20935178--20935276 Score: 91
Period size: 11 Copynumber: 8.9 Consensus size: 11
20935168 TACTTTGAAA
*
20935178 TTAAATTTATT
1 TTAAATTTAAT
20935189 TTAAATTTTAAT
1 TTAAA-TTTAAT
20935201 TT-AATTTAAAT
1 TTAAATTT-AAT
*
20935212 TT-AATTTTAT
1 TTAAATTTAAT
20935222 TTAAATTTAAT
1 TTAAATTTAAT
20935233 TTAAATTTGAAT
1 TTAAATTT-AAT
20935245 TT-AATTTAAAT
1 TTAAATTT-AAT
20935256 TT-AATATT-AT
1 TTAAAT-TTAAT
20935266 TGTAAATTTAA
1 T-TAAATTTAA
20935277 ATGTCCATTA
Statistics
Matches: 76, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
10 10 0.13
11 48 0.63
12 18 0.24
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:20935227 original size:44 final size:44
Alignment explanation
Indices: 20935178--20935276 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
20935168 TACTTTGAAA
* * *
20935178 TTAAATTTATTTTAAATTTTAATTTAATTTAAATTTAATTTTAT
1 TTAAATTTAATTTAAATTTGAATTTAATTTAAATTTAATATTAT
20935222 TTAAATTTAATTTAAATTTGAATTTAATTTAAATTTAATATTAT
1 TTAAATTTAATTTAAATTTGAATTTAATTTAAATTTAATATTAT
20935266 TGTAAATTTAA
1 T-TAAATTTAA
20935277 ATGTCCATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 42 0.82
45 9 0.18
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (44 bp):
TTAAATTTAATTTAAATTTGAATTTAATTTAAATTTAATATTAT
Found at i:20935233 original size:5 final size:5
Alignment explanation
Indices: 20935176--20935260 Score: 80
Period size: 5 Copynumber: 15.6 Consensus size: 5
20935166 TATACTTTGA
* * *
20935176 AATTA AATTT ATTTT AAATTTT AATTT AATTT AAATTT AATTT TATTT
1 AATTT AATTT AATTT -AA-TTT AATTT AATTT -AATTT AATTT AATTT
20935224 AAATTT AATTT AAATTT GAATTT AATTT AAATTT AAT
1 -AATTT AATTT -AATTT -AATTT AATTT -AATTT AAT
20935261 ATTATTGTAA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
5 38 0.56
6 27 0.40
7 3 0.04
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:20935245 original size:17 final size:17
Alignment explanation
Indices: 20935175--20935278 Score: 110
Period size: 17 Copynumber: 6.2 Consensus size: 17
20935165 ATATACTTTG
* *
20935175 AAATTAAATTT-ATTTT
1 AAATTTAATTTAAATTT
20935191 AAATTTTAATTT-AATTT
1 AAA-TTTAATTTAAATTT
*
20935208 AAATTTAATTT-TATTT
1 AAATTTAATTTAAATTT
20935224 AAATTTAATTTAAATTT
1 AAATTTAATTTAAATTT
*
20935241 GAATTTAATTTAAATTT
1 AAATTTAATTTAAATTT
20935258 -AATATT-ATTGTAAATTT
1 AAAT-TTAATT-TAAATTT
20935275 AAAT
1 AAAT
20935279 GTCCATTAAC
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
16 32 0.41
17 43 0.55
18 3 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AAATTTAATTTAAATTT
Found at i:20935276 original size:28 final size:27
Alignment explanation
Indices: 20935178--20935260 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 27
20935168 TACTTTGAAA
*
20935178 TTAAATTTATTTTAAATTTTAATTTAAT
1 TTAAATTTAATTTAAA-TTTAATTTAAT
*
20935206 TTAAATTTAATTT-TATTTAAATTTAAT
1 TTAAATTTAATTTAAATTT-AATTTAAT
20935233 TTAAATTTGAATTT-AATTTAAATTTAAT
1 TTAAATTT-AATTTAAATTT-AATTTAAT
20935261 ATTATTGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 3 0.06
27 17 0.34
28 30 0.60
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (27 bp):
TTAAATTTAATTTAAATTTAATTTAAT
Found at i:20937174 original size:58 final size:59
Alignment explanation
Indices: 20937103--20937329 Score: 323
Period size: 58 Copynumber: 3.9 Consensus size: 59
20937093 TTTGACCTCG
20937103 AAACTTCCAAAAATTACATTTTT-CCCCCAAACTTCCAAAAATTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTAACCCCA
* * * * ** ***
20937161 AAACTTCCCAAAATTACATTTTTACTCCCGAACTTCTAAAAATTCCATTTTCGACCTTG
1 AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTAACCCCA
*
20937220 AAACTTCCAAAAATTACA-TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTAACCCCA
* *
20937278 AAACTTCCAAAAATTACATTTTTACCCTCAAAATTCCAAAAATTACCATTTT
1 AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATT-CCATTTT
20937330 ACCCCCGGAT
Statistics
Matches: 144, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
58 71 0.49
59 66 0.46
60 7 0.05
ACGTcount: A:0.38, C:0.28, G:0.01, T:0.33
Consensus pattern (59 bp):
AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTAACCCCA
Found at i:20937291 original size:117 final size:117
Alignment explanation
Indices: 20937091--20937467 Score: 386
Period size: 117 Copynumber: 3.2 Consensus size: 117
20937081 CAGAAATTAT
*
20937091 ATTTTGACCTCGAAACTTCCAAAAATTACATTTTTCCCCCAAACTTCCAAAAATTCCATTTTTAA
1 ATTTTGACCTCGAAACTTCCAAAAATTACATTTTACCCCCAAACTTCCAAAAATTCCATTTTTAA
* * * *
20937156 CCCCAAAACTTCCCAAAATTACATTTTTACTCC-CGAACTTCTAAAAATT-CC
66 CCCCAAAACTTCCAAAAATTACATTTTTAC-CCTCAAAATTCCAAAAATTACC
* *
20937207 ATTTTCGACCTTGAAACTTCCAAAAATTACATTTTACCCCTAAACTTCCAAAAATTCCATTTTTA
1 ATTTT-GACCTCGAAACTTCCAAAAATTACATTTTACCCCCAAACTTCCAAAAATTCCATTTTTA
20937272 ACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAATTCCAAAAATTACC
65 ACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAATTCCAAAAATTACC
* * * * * ** *
20937325 ATTTT-ACCCCCG-GA-TATCCAAAAATTCCGTTTTTGA-TCCCAATTTTTCTAAAAATTACCA-
1 ATTTTGA-CCTCGAAACT-TCCAAAAATTAC-ATTTT-ACCCCCAA-ACTTCCAAAAATT-CCAT
* *
20937385 TTTT-ACCCCCAAA-TGTCCAAAAATT-CTATTTTTGA-CCTTAAAATTCCAAAAATTACC
60 TTTTAACCCCAAAACT-TCCAAAAATTAC-ATTTTT-ACCCTCAAAATTCCAAAAATTACC
20937442 ATTTT-ACCCTCG-AA-TATCCAAAAATT
1 ATTTTGA-CCTCGAAACT-TCCAAAAATT
20937468 CTATTTTTGA
Statistics
Matches: 228, Mismatches: 21, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
115 1 0.00
116 22 0.10
117 179 0.79
118 23 0.10
119 3 0.01
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (117 bp):
ATTTTGACCTCGAAACTTCCAAAAATTACATTTTACCCCCAAACTTCCAAAAATTCCATTTTTAA
CCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAATTCCAAAAATTACC
Found at i:20937323 original size:29 final size:28
Alignment explanation
Indices: 20937079--20937475 Score: 259
Period size: 29 Copynumber: 13.6 Consensus size: 28
20937069 TTCCTAAACG
* * * * *
20937079 TCCAGAAATTATATTTTGACCTCGAAACT
1 TCCAAAAATTACATTTTTACC-CCAAAAT
* *
20937108 TCCAAAAATTACATTTTTCCCCCAAACT
1 TCCAAAAATTACATTTTTACCCCAAAAT
*
20937136 TCCAAAAATTCCATTTTTAACCCCAAAACT
1 TCCAAAAATTACATTTTT-ACCCCAAAA-T
* * *
20937166 TCCCAAAATTACATTTTTACTCCCGAACT
1 TCCAAAAATTACATTTTTAC-CCCAAAAT
* * * ** *
20937195 TCTAAAAATTCCATTTTCGACCTTGAAACT
1 TCCAAAAATTACATTTT-TACC-CCAAAAT
*
20937225 TCCAAAAATTACA-TTTTACCCCTAAACT
1 TCCAAAAATTACATTTTTACCCC-AAAAT
*
20937253 TCCAAAAATTCCATTTTTAACCCCAAAACT
1 TCCAAAAATTACATTTTT-ACCCCAAAA-T
20937283 TCCAAAAATTACATTTTTACCCTCAAAAT
1 TCCAAAAATTACATTTTTACCC-CAAAAT
***
20937312 TCCAAAAATTACCA-TTTTACCCCCGGAT
1 TCCAAAAATTA-CATTTTTACCCCAAAAT
* * * **
20937340 ATCCAAAAATTCCGTTTTTGATCCCAATTTT
1 -TCCAAAAATTACATTTTT-ACCCCAA-AAT
* *
20937371 TCTAAAAATTACCA-TTTTACCCCCAAAT
1 TCCAAAAATTA-CATTTTTACCCCAAAAT
**
20937399 GTCCAAAAATT-CTATTTTTGACCTTAAAAT
1 -TCCAAAAATTAC-ATTTTT-ACCCCAAAAT
*
20937429 TCCAAAAATTACCA-TTTTACCCTC-GAAT
1 TCCAAAAATTA-CATTTTTACCC-CAAAAT
20937457 ATCCAAAAATT-CTATTTTT
1 -TCCAAAAATTAC-ATTTTT
20937476 GATCCCGATT
Statistics
Matches: 291, Mismatches: 51, Indels: 52
0.74 0.13 0.13
Matches are distributed among these distances:
27 2 0.01
28 56 0.19
29 136 0.47
30 94 0.32
31 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (28 bp):
TCCAAAAATTACATTTTTACCCCAAAAT
Found at i:20937334 original size:58 final size:57
Alignment explanation
Indices: 20937103--20937447 Score: 315
Period size: 59 Copynumber: 5.9 Consensus size: 57
20937093 TTTGACCTCG
*
20937103 AAACTTCCAAAAATTACATTTTTCCCCCAAACTTCCAAAAATTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTACATTTTTACCCCAAACTTCCAAAAATTCCA-TTTTAACCCCA
* * * * ***
20937161 AAACTTCCCAAAATTACATTTTTACTCCCGAACTTCTAAAAATTCCATTTTCGACCTTG
1 AAACTTCCAAAAATTACATTTTTAC-CCCAAACTTCCAAAAATTCCATTTT-AACCCCA
20937220 AAACTTCCAAAAATTACA-TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTACATTTTTACCCC-AAACTTCCAAAAATTCCA-TTTTAACCCCA
* *
20937278 AAACTTCCAAAAATTACATTTTTACCCTCAAAATTCCAAAAATTACCATTTT-ACCCCC
1 AAACTTCCAAAAATTACATTTTTACCC-CAAACTTCCAAAAATT-CCATTTTAACCCCA
** * * * ** * *
20937336 GGA-TATCCAAAAATTCCGTTTTTGATCCCAATTTTTCTAAAAATTACCATTTT-ACCCCC
1 AAACT-TCCAAAAATTACATTTTT-ACCCCAA-ACTTCCAAAAATT-CCATTTTAACCCCA
** *
20937395 AAA-TGTCCAAAAATT-CTATTTTTGACCTTAAAATTCCAAAAATTACCATTTTA
1 AAACT-TCCAAAAATTAC-ATTTTT-ACCCCAAACTTCCAAAAATT-CCATTTTA
20937448 CCCTCGAATA
Statistics
Matches: 240, Mismatches: 35, Indels: 23
0.81 0.12 0.08
Matches are distributed among these distances:
57 4 0.02
58 114 0.47
59 118 0.49
60 4 0.02
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.34
Consensus pattern (57 bp):
AAACTTCCAAAAATTACATTTTTACCCCAAACTTCCAAAAATTCCATTTTAACCCCA
Found at i:20937468 original size:117 final size:114
Alignment explanation
Indices: 20937256--20937570 Score: 375
Period size: 117 Copynumber: 2.7 Consensus size: 114
20937246 CTAAACTTCC
* *
20937256 AAAAATT-CCATTTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCAAAATTCCAAAAA
1 AAAAATTACCA-TTTT-ACCCCCAAA-TTCCAAAAATT-CATTTTTA-CCTTAAAATTCCAAAAA
* *
20937320 TTACCATTTTACCCCCGGATATCCAAAAATTCCGTTTTTGATCCCAATTTTTCT
61 TTACCATTTTACCCCCGAATATCCAAAAATTCCATTTTTGATCCCAATTTTTCT
20937374 AAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCTATTTTTGACCTTAAAATTCCAAAAATT
1 AAAAATTACCATTTTACCCCCAAAT-TCCAAAAATTC-ATTTTT-ACCTTAAAATTCCAAAAATT
* * *
20937439 ACCATTTTACCCTCGAATATCCAAAAATTCTATTTTTGATCCCGATTTTTCT
63 ACCATTTTACCCCCGAATATCCAAAAATTCCATTTTTGATCCCAATTTTTCT
* * * * * * *
20937491 AAAAATTACCGTTTTACCCTCGAATTTCTAAAATTTCATTTTTAACCCTAAATTTTTCC-AAAAT
1 AAAAATTACCATTTTACCC-CCAAATTCCAAAAATTCATTTTT-ACCTTAAA--ATTCCAAAAAT
20937555 TACCATTTT-CCCCCGA
62 TACCATTTTACCCCCGA
20937571 GAGTCTAAAA
Statistics
Matches: 174, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
116 21 0.12
117 130 0.75
118 20 0.11
119 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.37
Consensus pattern (114 bp):
AAAAATTACCATTTTACCCCCAAATTCCAAAAATTCATTTTTACCTTAAAATTCCAAAAATTACC
ATTTTACCCCCGAATATCCAAAAATTCCATTTTTGATCCCAATTTTTCT
Found at i:20937511 original size:59 final size:59
Alignment explanation
Indices: 20937315--20937570 Score: 281
Period size: 59 Copynumber: 4.4 Consensus size: 59
20937305 TCAAAATTCC
* **
20937315 AAAAATTACCATTTTACCCCCGGATATCCAAAAATTCCGTTTTTGATCCCAATTTTTCT
1 AAAAATTACCATTTTACCCCCGAATATCCAAAAATTCTATTTTTGATCCCAATTTTTCT
* * * ** *
20937374 AAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCTATTTTTGA-CCTTAA-AATTCC
1 AAAAATTACCATTTTACCCCCGAATATCCAAAAATTCTATTTTTGATCC-CAATTTTTCT
* *
20937432 AAAAATTACCATTTTACCCTCGAATATCCAAAAATTCTATTTTTGATCCCGATTTTTCT
1 AAAAATTACCATTTTACCCCCGAATATCCAAAAATTCTATTTTTGATCCCAATTTTTCT
* * * * * *
20937491 AAAAATTACCGTTTTACCCTCGAATTTCTAAAATTTC-ATTTTT-AACCCTAAATTTTTC-
1 AAAAATTACCATTTTACCCCCGAATATCCAAAAATTCTATTTTTGATCCC--AATTTTTCT
*
20937549 CAAAATTACCATTTT-CCCCCGA
1 AAAAATTACCATTTTACCCCCGA
20937571 GAGTCTAAAA
Statistics
Matches: 166, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
57 10 0.06
58 68 0.41
59 88 0.53
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAATATCCAAAAATTCTATTTTTGATCCCAATTTTTCT
Found at i:20937518 original size:29 final size:29
Alignment explanation
Indices: 20937098--20937625 Score: 176
Period size: 29 Copynumber: 18.2 Consensus size: 29
20937088 TATATTTTGA
* *
20937098 CCTCGAAACTTCCAAAAATTA-CATTTTTC
1 CCTCG-AATTTCCAAAAATTACCATTTTAC
* * *
20937127 CCCCAAACTTCCAAAAATT-CCATTTTTAAC
1 CCTCGAATTTCCAAAAATTACCA-TTTT-AC
* * *
20937157 CC-CAAAACTTCCCAAAATTA-CATTTTTAC
1 CCTC-GAATTTCCAAAAATTACCA-TTTTAC
* *
20937186 TCC-CGAACTTCTAAAAATT-CCATTTT-C
1 -CCTCGAATTTCCAAAAATTACCATTTTAC
* *
20937213 GACCTTGAAACTTCCAAAAATTA-CATTTTAC
1 --CCTCG-AATTTCCAAAAATTACCATTTTAC
* *
20937244 CC-CTAAACTTCCAAAAATT-CCATTTTTAAC
1 CCTC-GAATTTCCAAAAATTACCA-TTTT-AC
* *
20937274 CC-CAAAACTTCCAAAAATTA-CATTTTTAC
1 CCTC-GAATTTCCAAAAATTACCA-TTTTAC
* *
20937303 CCTCAAAATTCCAAAAATTACCATTTTAC
1 CCTCGAATTTCCAAAAATTACCATTTTAC
* * * * *
20937332 CCCCGGATATCCAAAAATT-CCGTTTTTGAT
1 CCTCGAATTTCCAAAAATTACC-ATTTT-AC
*
20937362 CC-C-AATTTTTCTAAAAATTACCATTTTAC
1 CCTCGAA--TTTCCAAAAATTACCATTTTAC
* * * *
20937391 CCCCAAATGTCCAAAAATT-CTATTTTTGA-
1 CCTCGAATTTCCAAAAATTACCA-TTTT-AC
** *
20937420 CCTTAAAATTCCAAAAATTACCATTTTAC
1 CCTCGAATTTCCAAAAATTACCATTTTAC
* * *
20937449 CCTCGAATATCCAAAAATT-CTATTTTTGAT
1 CCTCGAATTTCCAAAAATTACCA-TTTT-AC
* * *
20937479 CC-CGATTTTTCTAAAAATTACCGTTTTAC
1 CCTCGA-ATTTCCAAAAATTACCATTTTAC
* *
20937508 CCTCGAATTT-CTAAAATT-TCATTTTTAAC
1 CCTCGAATTTCCAAAAATTACCA-TTTT-AC
*
20937537 CCT-AAATTTTTCC-AAAATTACCATTTT-C
1 CCTCGAA--TTTCCAAAAATTACCATTTTAC
* * * * *
20937565 CCCCGAGA-GT-CTAAAATTACAATTTTGC
1 CCTCGA-ATTTCCAAAAATTACCATTTTAC
* *
20937593 CCTCGAGA-GTCC-AAAATTACCATTTTGC
1 CCTCGA-ATTTCCAAAAATTACCATTTTAC
20937621 CCTCG
1 CCTCG
20937626 GGCATCCAAA
Statistics
Matches: 394, Mismatches: 59, Indels: 93
0.72 0.11 0.17
Matches are distributed among these distances:
26 1 0.00
27 16 0.04
28 91 0.23
29 146 0.37
30 131 0.33
31 9 0.02
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.35
Consensus pattern (29 bp):
CCTCGAATTTCCAAAAATTACCATTTTAC
Found at i:20937635 original size:28 final size:28
Alignment explanation
Indices: 20937547--20937625 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
20937537 CCTAAATTTT
*
20937547 TCCAAAATTACCATTTT-CCCCCGAGAG
1 TCCAAAATTACCATTTTGCCCTCGAGAG
* *
20937574 TCTAAAATTACAATTTTGCCCTCGAGAG
1 TCCAAAATTACCATTTTGCCCTCGAGAG
20937602 TCCAAAATTACCATTTTGCCCTCG
1 TCCAAAATTACCATTTTGCCCTCG
20937626 GGCATCCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 15 0.33
28 31 0.67
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.30
Consensus pattern (28 bp):
TCCAAAATTACCATTTTGCCCTCGAGAG
Found at i:20958427 original size:21 final size:21
Alignment explanation
Indices: 20958389--20958437 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
20958379 TTTTAGTACC
* *
20958389 GGTAGAAGCATGATTTGTTTA
1 GGTAGAAGCATGACTTGTATA
* * *
20958410 GGTAGAAGCTTTACTTGTATC
1 GGTAGAAGCATGACTTGTATA
20958431 GGTAGAA
1 GGTAGAA
20958438 CTGTCATAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.35
Consensus pattern (21 bp):
GGTAGAAGCATGACTTGTATA
Found at i:20960029 original size:2 final size:2
Alignment explanation
Indices: 20960022--20960066 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
20960012 AAATGATTGA
20960022 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
20960064 AT A
1 AT A
20960067 ATTGACCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20963116 original size:896 final size:895
Alignment explanation
Indices: 20961369--20963140 Score: 3021
Period size: 896 Copynumber: 2.0 Consensus size: 895
20961359 TTTTGGGTTA
* * *
20961369 TTTATTCATTTAGTCCTTTTAGTTTAAGGCTAAATTGTAAATAAGTTTGTTTAATTGGAATTTAA
1 TTTATACATTTAGTCCTTTTAGTTTAAAGCTAAATTGTAAACAAGTTTGTTTAATTGGAATTTAA
*
20961434 TATAATTGAGGGACCAATTATGAAATTAGATCTTTTTTAAATATCCTAAAAATAAAAATGATGTG
66 TATAATTGAAGGACCAATTATGAAATTAGATCTTTTTTAAATATCCTAAAAATAAAAATGATGTG
20961499 AAACTCTTTAGATTTTTATAAATTGCAATTAAATCCTAATAAAATGAGGATTTACTAATTAGTCT
131 AAACTCTTTAGATTTTTATAAATTGCAATTAAATCCTAATAAAATGAGGATTTACTAATTAGTCT
*
20961564 ATTTTTAGTGTGATAGGAAATTATGGTTTCGAGGTAGCAACTTCAATGTGTCAGACCGTAAATAT
196 ATTTTTAGTGTGATAGGAAATTATGGTTTCGAGGCAGCAACTTCAATGTGTCAGACCGTAAATAT
*
20961629 TATTTATTTAATATTTATGAGGTTATTAGTATCGTATTAAAATTTGGTTAGAAAATTTTATCGTA
261 TATTTATTTAATATTTATGAGGTTATTAGTATCGTATTAAAATTTGGTTAGAAAAGTTTATCGTA
*
20961694 TAGATAATTAATTAAGTAAAAAGGACTAGATTATAAAGGCTATAAAATATAGAAATAATTGATTA
326 TAGACAATTAATTAAGTAAAAAGGACTAGATTATAAAGGCTATAAAATATAGAAATAATTGATTA
20961759 AACATGTTAATTTGTAAAGGAATGACCTAGAGAGATCCTTAAAGGGTAATTATACCTTTAGGGAG
391 AACATGTTAATTTGTAAAGGAATGACCTAGAGAGATCCTTAAAGGGTAATTATACCTTTAGGGAG
* * *
20961824 TTTAGTAGACGGTCTTAGCCTTTAAATTGGTTGAAATTGAATCAATTAAATAAGGGTGAAAATGT
456 TTTAGTAGACGGTCTTAGACTTGAAATTAGTTGAAATTGAATCAATTAAATAAGGGTGAAAATGT
20961889 AATTATGTTAAAAGGGCAATTATAAACATAAAAACATAATAAAAATTGGAAGAAATCATCTTCTT
521 AATTATGTTAAAAGGGCAATTATAAACATAAAAACATAATAAAAATTGGAAGAAATCATCTTCTT
20961954 CCACCTATTTAAGAACAAAAAAACCCTAAACACCATGGGAGAGAGCTTCGACCAACTTTAATTCA
586 CCACCTATTTAAGAACAAAAAAACCCTAAACACCATGGGAGAGAGCTTCGACCAACTTTAATTCA
* * * *
20962019 TGGGTTTTGTATGTAAATCTTGCCCCTTTTTAGTATTTTTTAAGTTTTTGAGTTCGTATTAGCTT
651 TGGGTTTTGTATGTAAATCTTGCCACTTTTTAATAATTTTTAAGTTTTTAAGTTCGTATTAGCTT
* *
20962084 AATCTAGCTAACCCGAGGACTAATTTGTGAATCTGTTAAATGTTATAAATTTTTCCATTGATGAA
716 AATCTAGCTAACCCGAGGACTAATTTGTGAATCTGTTAAATATTATAAATCTTTCCATTGATGAA
* * * *
20962149 TGTGTTGTTTCTTGAAAATTTACTAAAGTTTATTAAGTTTGGTTGTTGGATTTGATTATTTTGTA
781 TGTGTTGATTCTTGAAAAATTACTAAAGTTTATTAAGCTTGGTTGTTGGATTTAATTATTTTGTA
*
20962214 AAGTGATTTTTAATT-ATTTTAATGTTTAAGGGTTTAGGGTTTAGGGTTTT
846 AAGTGATTTTT-ATTGATTTTAATGCTTAAGGGTTTAGGGTTTAGGGTTTT
*
20962264 TTTATACATTTAGTCATTTTTAGTTTAAAGCTAAATTGTAAACAAGTTTGTTTAATTGGAATTTA
1 TTTATACATTTAGTC-CTTTTAGTTTAAAGCTAAATTGTAAACAAGTTTGTTTAATTGGAATTTA
*
20962329 ATATAATTGAAGGACCAATTATGAAATTAGATCTTTTTTAAATATCCTAAAAATAGAAATGATGT
65 ATATAATTGAAGGACCAATTATGAAATTAGATCTTTTTTAAATATCCTAAAAATAAAAATGATGT
* *
20962394 GAAATTCTTTATATTTTTATAAATTGCAATTAAATCCTAATAAAATGAGGATTTACTAATTAGTC
130 GAAACTCTTTAGATTTTTATAAATTGCAATTAAATCCTAATAAAATGAGGATTTACTAATTAGTC
* ** * *
20962459 TATTTTTAGTGTGATAGGAAATTATGGTTTCGAGGCCA-CAATTTTGATGTGTTAGATCGTAAAT
195 TATTTTTAGTGTGATAGGAAATTATGGTTTCGAGG-CAGCAACTTCAATGTGTCAGACCGTAAAT
20962523 ATTATTTATTTAATATTTATGAGGTTATTAGTATCGTATTAAAATTTGGTTACG-AAAGTTTATC
259 ATTATTTATTTAATATTTATGAGGTTATTAGTATCGTATTAAAATTTGGTTA-GAAAAGTTTATC
* * * * *
20962587 GTATAGACAATTAATTAAGTAATAAGGACTAGATTGTAAAGGTTGTAAAATATAGAAATCATTGA
323 GTATAGACAATTAATTAAGTAAAAAGGACTAGATTATAAAGGCTATAAAATATAGAAATAATTGA
20962652 TTAAACATGTTAATTTGTAAAGGAATGACCTAGAGAGATCCTTAAAGGGTAATTATACCTTTAGG
388 TTAAACATGTTAATTTGTAAAGGAATGACCTAGAGAGATCCTTAAAGGGTAATTATACCTTTAGG
* * *
20962717 GAGTTTAGTAGACTGTCTTAGACTTGAAATTAGTTGGAATTGAATGAATTAAATAAGGGTGAAAA
453 GAGTTTAGTAGACGGTCTTAGACTTGAAATTAGTTGAAATTGAATCAATTAAATAAGGGTGAAAA
20962782 TGTAATTATGTTAAAAGGGCAATTATAAACATAAAAACATAATAAAAATTGGAAGAAATCATCTT
518 TGTAATTATGTTAAAAGGGCAATTATAAACATAAAAACATAATAAAAATTGGAAGAAATCATCTT
* ** * *
20962847 CTTCCACCTATTTTAGAACCCAAAAACCCTAAACACCATGGGAGAGAGCTTCGGCCAACTTTAGT
583 CTTCCACCTATTTAAGAACAAAAAAACCCTAAACACCATGGGAGAGAGCTTCGACCAACTTTAAT
* * *
20962912 TCATGGG-TTTGATATGTAAATCTTGTCAGTTTTTAATAATTTTTATGTTTTTAAGTTCGTATTA
648 TCATGGGTTTTG-TATGTAAATCTTGCCACTTTTTAATAATTTTTAAGTTTTTAAGTTCGTATTA
*
20962976 GCTTAATCTAGCTAACCCGGGGACTAATTTGTGAATCTGTTAAATATTATAAATCTTTCCATTGA
712 GCTTAATCTAGCTAACCCGAGGACTAATTTGTGAATCTGTTAAATATTATAAATCTTTCCATTGA
* *
20963041 TGAATGTGTTGATTCTTGAAAAATTATTGAAGTTTATTAAGCTTGGTTGTTGGATTTAATTATTT
777 TGAATGTGTTGATTCTTGAAAAATTACTAAAGTTTATTAAGCTTGGTTGTTGGATTTAATTATTT
*
20963106 TGTAAAGTGATTTTTGTTGATTTTAATGCTTAAGG
842 TGTAAAGTGATTTTTATTGATTTTAATGCTTAAGG
20963141 ACTAAATTGT
Statistics
Matches: 822, Mismatches: 50, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
895 20 0.02
896 800 0.97
897 2 0.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (895 bp):
TTTATACATTTAGTCCTTTTAGTTTAAAGCTAAATTGTAAACAAGTTTGTTTAATTGGAATTTAA
TATAATTGAAGGACCAATTATGAAATTAGATCTTTTTTAAATATCCTAAAAATAAAAATGATGTG
AAACTCTTTAGATTTTTATAAATTGCAATTAAATCCTAATAAAATGAGGATTTACTAATTAGTCT
ATTTTTAGTGTGATAGGAAATTATGGTTTCGAGGCAGCAACTTCAATGTGTCAGACCGTAAATAT
TATTTATTTAATATTTATGAGGTTATTAGTATCGTATTAAAATTTGGTTAGAAAAGTTTATCGTA
TAGACAATTAATTAAGTAAAAAGGACTAGATTATAAAGGCTATAAAATATAGAAATAATTGATTA
AACATGTTAATTTGTAAAGGAATGACCTAGAGAGATCCTTAAAGGGTAATTATACCTTTAGGGAG
TTTAGTAGACGGTCTTAGACTTGAAATTAGTTGAAATTGAATCAATTAAATAAGGGTGAAAATGT
AATTATGTTAAAAGGGCAATTATAAACATAAAAACATAATAAAAATTGGAAGAAATCATCTTCTT
CCACCTATTTAAGAACAAAAAAACCCTAAACACCATGGGAGAGAGCTTCGACCAACTTTAATTCA
TGGGTTTTGTATGTAAATCTTGCCACTTTTTAATAATTTTTAAGTTTTTAAGTTCGTATTAGCTT
AATCTAGCTAACCCGAGGACTAATTTGTGAATCTGTTAAATATTATAAATCTTTCCATTGATGAA
TGTGTTGATTCTTGAAAAATTACTAAAGTTTATTAAGCTTGGTTGTTGGATTTAATTATTTTGTA
AAGTGATTTTTATTGATTTTAATGCTTAAGGGTTTAGGGTTTAGGGTTTT
Found at i:20964027 original size:195 final size:195
Alignment explanation
Indices: 20963634--20964080 Score: 569
Period size: 195 Copynumber: 2.3 Consensus size: 195
20963624 GAAACCGACA
* *
20963634 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAACTCGTGTGAGCAGCATCGTGAGTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAACTCATGTGAGCAGCATCGTGACTCG
* *
20963699 AGAAATGAGAAAAGAATCCAAGAATAGATTACAGACCCTACGATGGCTGAGATTTATGCATAAGT
66 AGAAATGAGAAAAGAATCCAAGAATAGATTACAGACCCTACGATGGCTGAGATCTATGCATAAGC
* * * * * *
20963764 GCATATTCTCAACAGCTCGTGTGAGCAGCATCGTTAGGGAACAATTATATGCACAGATATCGTAT
131 GCATACTCTCAACAGCTCGTGTGAGCAACATCGTTAGGGAACAATTATATACACAGACACCATAT
20963829 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAACTCATGTGAGCAGCATCGTGACTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAACTCATGTGAGCAGCATCGTGACTCG
* * * * * * ** * * *
20963894 AGAAA-GAGATATGGATCCTA-AATGGATTATAGGTCCTACGATGGCTGGGA-CTATGCTTTA-C
66 AGAAATGAGAAAAGAATCCAAGAATAGATTACAGACCCTACGATGGCTGAGATCTATGCATAAGC
* * ** *
20963955 GCATACTCTCGATAGCTCGTGTGAGCAACATCGTTAGGGAACTGTTTATAGTACAGACAGGCACC
131 GCATACTCTCAACAGCTCGTGTGAGCAACATCGTTAGGGAAC-AATTATA-TAC--ACAGACACC
20964020 ATAT
192 ATAT
* * *
20964024 CGATGGCTGGGGTACCGCATACGTTACGAGTCCTCGACAACTCATGTGAGCAGCATC
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAACTCATGTGAGCAGCATC
20964081 AAGTACCGGT
Statistics
Matches: 219, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
191 38 0.17
192 12 0.05
193 27 0.12
194 11 0.05
195 131 0.60
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (195 bp):
CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAACTCATGTGAGCAGCATCGTGACTCG
AGAAATGAGAAAAGAATCCAAGAATAGATTACAGACCCTACGATGGCTGAGATCTATGCATAAGC
GCATACTCTCAACAGCTCGTGTGAGCAACATCGTTAGGGAACAATTATATACACAGACACCATAT
Found at i:20964528 original size:19 final size:19
Alignment explanation
Indices: 20964498--20964542 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
20964488 TTAAGAACCC
20964498 TTGTGTTGATTGATTGTATT
1 TTGTG-TGATTGATTGTATT
20964518 TTGTGTGATTGATTGTATT
1 TTGTGTGATTGATTGTATT
20964537 TTGTGT
1 TTGTGT
20964543 CTTATGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (19 bp):
TTGTGTGATTGATTGTATT
Found at i:20966744 original size:22 final size:22
Alignment explanation
Indices: 20966687--20966751 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
20966677 GAATTTTTTA
*
20966687 ATTTTAAGTAAT--ATTCTTAAT
1 ATTTTAA-TAATAAATTATTAAT
*
20966708 ATTTTATTTAA-AAATTATTAAT
1 ATTTTA-ATAATAAATTATTAAT
20966730 ATTTTAATAATAAATATATTAA
1 ATTTTAATAATAAAT-TATTAA
20966752 ACATCATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 12 0.33
22 18 0.50
23 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTAATAATAAATTATTAAT
Found at i:20966802 original size:23 final size:23
Alignment explanation
Indices: 20966760--20966803 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
20966750 AAACATCATA
*
20966760 AATATTTTATAGTATAAAATATG
1 AATATTTTATAATATAAAATATG
20966783 AATATTTTA-AATATATAAATA
1 AATATTTTATAATATA-AAATA
20966804 CGTGTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
AATATTTTATAATATAAAATATG
Found at i:20967767 original size:14 final size:14
Alignment explanation
Indices: 20967743--20967783 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
20967733 TTTTTAAGAA
20967743 AAAAATCTATTTTTT
1 AAAAAT-TATTTTTT
20967758 AAAAATTATTTTTT
1 AAAAATTATTTTTT
*
20967772 AAAAATTGTTTT
1 AAAAATTATTTT
20967784 CAATCAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
AAAAATTATTTTTT
Found at i:20971659 original size:19 final size:19
Alignment explanation
Indices: 20971635--20971677 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20971625 AAACATAAAT
20971635 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
20971654 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
20971673 TAAAT
1 TAAAT
20971678 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:20974140 original size:7 final size:7
Alignment explanation
Indices: 20974128--20974166 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
20974118 ATAATTATAA
20974128 AAAAAAT
1 AAAAAAT
20974135 AAAAAAT
1 AAAAAAT
*
20974142 AAAGAAT
1 AAAAAAT
20974149 AAAAAA-
1 AAAAAAT
20974155 ATAAAAAT
1 A-AAAAAT
20974163 AAAA
1 AAAA
20974167 TTAATTGAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 1 0.04
7 26 0.93
8 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:20974151 original size:14 final size:13
Alignment explanation
Indices: 20974129--20974166 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 13
20974119 TAATTATAAA
20974129 AAAAATAAAAAAT
1 AAAAATAAAAAAT
20974142 AAAGAATAAAAAAAT
1 AAA-AAT-AAAAAAT
20974157 AAAAATAAAA
1 AAAAATAAAA
20974167 TTAATTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 6 0.26
15 10 0.43
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:20974153 original size:15 final size:14
Alignment explanation
Indices: 20974129--20974166 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
20974119 TAATTATAAA
20974129 AAAAAT-AAAAAAT
1 AAAAATAAAAAAAT
20974142 AAAGAATAAAAAAAT
1 AAA-AATAAAAAAAT
20974157 AAAAATAAAA
1 AAAAATAAAA
20974167 TTAATTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.13
14 10 0.43
15 10 0.43
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:20976942 original size:15 final size:15
Alignment explanation
Indices: 20976924--20976965 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
20976914 ACCCGAAATG
20976924 ATATGATATGATTCA
1 ATATGATATGATTCA
20976939 ATATGATATGATTCA
1 ATATGATATGATTCA
*
20976954 ATATGGTATGAT
1 ATATGATATGAT
20976966 GTGATATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (15 bp):
ATATGATATGATTCA
Found at i:20976944 original size:20 final size:21
Alignment explanation
Indices: 20976899--20976950 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
20976889 GTAGGATATT
*
20976899 ATATGATATGATTTGACCCGA
1 ATATGATATGATATGACCCGA
**
20976920 A-ATGATATGATATGATTC-A
1 ATATGATATGATATGACCCGA
20976939 ATATGATATGAT
1 ATATGATATGAT
20976951 TCAATATGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (21 bp):
ATATGATATGATATGACCCGA
Found at i:20977850 original size:18 final size:20
Alignment explanation
Indices: 20977803--20977850 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
20977793 TTATTGGTTA
*
20977803 AATTTTAATATTTAAAATAT
1 AATTTTTATATTTAAAATAT
* *
20977823 AGTTTATATATTT-AAAT-T
1 AATTTTTATATTTAAAATAT
20977841 AATTTTTATA
1 AATTTTTATA
20977851 AATGATTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTTTATATTTAAAATAT
Found at i:20985485 original size:25 final size:25
Alignment explanation
Indices: 20985454--20985504 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
20985444 AAAGATGAAA
20985454 AGGAGATAAAAAGGTGAAAACTAGG
1 AGGAGATAAAAAGGTGAAAACTAGG
20985479 AGGAGATAAAAAGGTGAAAACTAGG
1 AGGAGATAAAAAGGTGAAAACTAGG
20985504 A
1 A
20985505 CATGTATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.31, T:0.12
Consensus pattern (25 bp):
AGGAGATAAAAAGGTGAAAACTAGG
Found at i:20988064 original size:100 final size:100
Alignment explanation
Indices: 20987890--20988663 Score: 490
Period size: 100 Copynumber: 7.8 Consensus size: 100
20987880 AAAGATACAG
** * *
20987890 AAGGGAAAGATCTAAGACCGCAATGGTAGATCCAGTACCACAAAGATACTAAAGGGAAAGGTTTA
1 AAGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTA
* * * * *
20987955 AGTCACAACGACGAACCTTGTACCTTAGAAGCATA
66 AGTCGCAACGGCGGACCATGTACCTCAGAAGCATA
* * * **
20987990 AAGGGAAAGATCTAAAACCGCAATGGCGGATCCAGCACCGCAAAGATACAAAAGGGAAAACTCTA
1 AAGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTA
* *
20988055 AGTCGCAACGGCGGACCATGTACCTCAGAAACGTA
66 AGTCGCAACGGCGGACCATGTACCTCAGAAGCATA
* * *
20988090 AAGGGAAAGATCTAAGACTGCGATAGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTA
* *
20988155 AGTTGCAACGGCGGACCGTGTACCTCAGAAGACA-A
66 AGTCGCAACGGCGGACCATGTACCTCAGAAG-CATA
* * * * ** * *
20988190 GAAGGGAAAGATTTAAG-CCGTAACGGCGAATCCAGTACCATGAAG--ACATGAAGGGAAAGATC
1 -AAGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACA-AAAGGGAAAGGTC
* * *
20988252 TAAGACTGCAACGGCGGATCCA-GTACCACA-AAGATACTA
64 TAAGTC-GCAACGGCGGA-CCATGTACCTCAGAAG-CA-TA
* * * * * * * * * *
20988291 AAGGGAAAGGTCTAAG-TCGCAACGGCAGA-CCGTGTACCTC--AGAAACATGAAGGGAAAGATT
1 AAGGGAAAGATCTAAGACCGCAATGGCGGATCC-AGTACCACAAAGATACA-AAAGGGAAAGGTC
* * * * * *
20988352 TAAGCCGTAACAGCGAATCCA-GTA-C-CATGAAGTTATG
64 TAAGTCGCAACGGCGGA-CCATGTACCTCA-GAAG-CATA
* * *
20988389 AAGGGAAAGATCTAAGACCGTAACGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTA
* * * * * * *
20988454 AGTCAG-AACGACGGATCGTATACCTCAAAAACATG
66 AGTC-GCAACGGCGGACCATGTACCTCAGAAGCATA
* * * * * * * **** * *
20988489 AAGGGAAAGATTTAAG-CCGTAACGACGAATCTAGTACCACGAAGATA-TGGTGGGAAAAGATTT
1 AAGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACAAAAGGG-AAAGGTCT
* * * * * *
20988552 AAGTTGTAACGACGAATCCA-GTACCAC-GAAGACATG
65 AAGTCGCAACGGCGGA-CCATGTACCTCAGAAG-CATA
* * * * *** *
20988588 AGGGGAAAGATCTAAG-CCGCGACGGCGGATCCAGTACCACGAAGAT-TTGAAGGGAAAGGTTTA
1 AAGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTA
*
20988651 AGTAGCAACGGCG
66 AGTCGCAACGGCG
20988664 AACTCGATAC
Statistics
Matches: 537, Mismatches: 112, Indels: 52
0.77 0.16 0.07
Matches are distributed among these distances:
97 2 0.00
98 47 0.09
99 157 0.29
100 301 0.56
101 28 0.05
102 2 0.00
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.16
Consensus pattern (100 bp):
AAGGGAAAGATCTAAGACCGCAATGGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTA
AGTCGCAACGGCGGACCATGTACCTCAGAAGCATA
Found at i:20988195 original size:50 final size:49
Alignment explanation
Indices: 20987840--20988625 Score: 331
Period size: 50 Copynumber: 15.8 Consensus size: 49
20987830 TTTGTTTGAC
* ** * * * *
20987840 AGGGAAAGATCTAAAGCTGGGACGGTGGATCCAATACCACA-AAGATACAGA
1 AGGGAAAGATCT-AAGCCGCAACGGCGGATCCAGTACCTCAGAAG--ACAAA
* ** * *
20987891 AGGGAAAGATCTAAGACCGCAATGGTAGATCCAGTACCACA-AAGATACTAA
1 AGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCTCAGAAG--ACAAA
* * * * * * * *
20987942 AGGGAAAGGTTTAAGTCACAACGAC-GAACCTTGTACCTTAGAAG-CATAA
1 AGGGAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCTCAGAAGACA-AA
* * * *
20987991 AGGGAAAGATCTAAAACCGCAATGGCGGATCCAGCACCGCA-AAGATACAAA
1 AGGGAAAGATCT-AAGCCGCAACGGCGGATCCAGTACCTCAGAAG--ACAAA
* *
20988042 AGGGAAA-ACTCTAAGTCGCAACGGCGGA-CCATGTACCTCAGAA-ACGTAA
1 AGGGAAAGA-TCTAAGCCGCAACGGCGGATCCA-GTACCTCAGAAGAC-AAA
* * ** *
20988091 AGGGAAAGATCTAAGACTGCGATAGCGGATCCAGTACCACA-AAGATACAAA
1 AGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCTCAGAAG--ACAAA
* ** *
20988142 AGGGAAAGGTCTAAGTTGCAACGGCGGA-CCGTGTACCTCAGAAGACAAGA
1 AGGGAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCTCAGAAGACAA-A
* * * *
20988192 AGGGAAAGATTTAAGCCGTAACGGCGAATCCAGTA-C-CATGAAGACATGA
1 AGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCTCA-GAAGACA-AA
* * *
20988241 AGGGAAAGATCTAAGACTGCAACGGCGGATCCAGTACCACA-AAGATACTAA
1 AGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCTCAGAAG--ACAAA
* * * * *
20988292 AGGGAAAGGTCTAAGTCGCAACGGCAGA-CCGTGTACCTCAGAA-ACATGA
1 AGGGAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCTCAGAAGACA-AA
* * * * ** *
20988341 AGGGAAAGATTTAAGCCGTAACAGCGAATCCAGTA-C-CATGAAGTTATGA
1 AGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCTCA-GAAGACA-AA
* * *
20988390 AGGGAAAGATCTAAGACCGTAACGGCGGATCCAGTACCACA-AAGATACTAA
1 AGGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCTCAGAAG--ACAAA
* * * * * *
20988441 AGGGAAAGGTCTAAGTCAG-AACGACGGATCGTA-TACCTCA-AAAACATGA
1 AGGGAAAGATCTAAG-CCGCAACGGCGGATC-CAGTACCTCAGAAGACA-AA
* * * * * * * **
20988490 AGGGAAAGATTTAAGCCGTAACGACGAATCTAGTACCAC-GAAGATATGG
1 AGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCTCAGAAGACA-AA
* * ** * * * * *
20988539 TGGGAAAAGATTTAAGTTGTAACGACGAATCCAGTACCAC-GAAGACATGA
1 AGGG-AAAGATCTAAGCCGCAACGGCGGATCCAGTACCTCAGAAGACA-AA
* *
20988589 GGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACC
1 AGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACC
20988626 ACGAAGATTT
Statistics
Matches: 566, Mismatches: 122, Indels: 96
0.72 0.16 0.12
Matches are distributed among these distances:
47 2 0.00
48 17 0.03
49 177 0.31
50 226 0.40
51 134 0.24
52 10 0.02
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (49 bp):
AGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCTCAGAAGACAAA
Found at i:20988414 original size:149 final size:148
Alignment explanation
Indices: 20988090--20988616 Score: 700
Period size: 149 Copynumber: 3.5 Consensus size: 148
20988080 CAGAAACGTA
* ** *
20988090 AAGGGAAAGATCTAAGACTGCGATAGCGGATCCAGTACCACAAAGATACAAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
* *
20988155 AGTTGCAACGGCGGACCGTGTACCTCAGAAGACAAGAAGGGAAAGATTTAAGCCGTAACGGCGAA
66 AGTCGCAACGGCGGACCGTGTACCTCAGAA-ACATGAAGGGAAAGATTTAAGCCGTAAC-GCGAA
*
20988220 TCCAGTACCATGAAGACATG
129 TCCAGTACCATGAAGATATG
20988240 AAGGGAAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
*
20988305 AGTCGCAACGGCAGACCGTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGTAACAGCGAAT
66 AGTCGCAACGGCGGACCGTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGTAAC-GCGAAT
*
20988370 CCAGTACCATGAAGTTATG
130 CCAGTACCATGAAGATATG
* *
20988389 AAGGGAAAGATCTAAGACCGTAACGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
* * * *
20988454 AGTCAG-AACGACGGATCGTATACCTCAAAAACATGAAGGGAAAGATTTAAGCCGTAACGACGAA
66 AGTC-GCAACGGCGGACCGTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGTAACG-CGAA
* *
20988518 TCTAGTACCACGAAGATATG
129 TCCAGTACCATGAAGATATG
** * * * * * * * * * *
20988538 GTGGGAAAAGATTTAAG-TTGTAACGACGAATCCAGTACCACGAAGACA-TGAGGGGAAAGATCT
1 AAGGG-AAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCT
* *
20988601 AAGCCGCGACGGCGGA
65 AAGTCGCAACGGCGGA
20988617 TCCAGTACCA
Statistics
Matches: 338, Mismatches: 35, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
147 1 0.00
148 24 0.07
149 213 0.63
150 100 0.30
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.16
Consensus pattern (148 bp):
AAGGGAAAGATCTAAGACTGCAACGGCGGATCCAGTACCACAAAGATACTAAAGGGAAAGGTCTA
AGTCGCAACGGCGGACCGTGTACCTCAGAAACATGAAGGGAAAGATTTAAGCCGTAACGCGAATC
CAGTACCATGAAGATATG
Found at i:20988916 original size:92 final size:92
Alignment explanation
Indices: 20988759--20988976 Score: 355
Period size: 92 Copynumber: 2.4 Consensus size: 92
20988749 AATAGCAAGT
*
20988759 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAATGTCAATTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
*
20988824 AAGTTATAGTAAAGCTGGATAACGAAC
66 AAGTTATAGTAAAGCTGGATAACAAAC
* *
20988851 CTTTATCTCTCTAAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTTAATTCTTATCCTCTTG
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
* *
20988916 AAGTTATAGTAAAGTTGGATAATAAAC
66 AAGTTATAGTAAAGCTGGATAACAAAC
* * *
20988943 CTTTATCTCTCCGAAGTTGTAGTAAGAGCGAGAT
1 CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGAT
20988977 CAAACCTCGA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 116 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (92 bp):
CTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTCAAACGTCAATTCTTATCCTCTTG
AAGTTATAGTAAAGCTGGATAACAAAC
Found at i:20989312 original size:19 final size:18
Alignment explanation
Indices: 20989268--20989314 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
20989258 GTTTAAATTG
*
20989268 ATTTAAA-TTTATTTTGA
1 ATTTAAATTTTATTTTAA
20989285 ATTTAAAATTTTATTTTTAA
1 ATTT-AAATTTTA-TTTTAA
20989305 ATTTAAATTT
1 ATTTAAATTT
20989315 AGTTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.15
18 3 0.12
19 10 0.38
20 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTAAATTTTATTTTAA
Found at i:20989511 original size:15 final size:15
Alignment explanation
Indices: 20989491--20989543 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
20989481 ACATAAGCTA
20989491 CCACATCATCACGTG
1 CCACATCATCACGTG
*
20989506 CCACATCATCACATG
1 CCACATCATCACGTG
20989521 CCACATCATCACGT-
1 CCACATCATCACGTG
20989535 CCACATCAT
1 CCACATCAT
20989544 GGCACACAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
14 9 0.25
15 27 0.75
ACGTcount: A:0.30, C:0.42, G:0.08, T:0.21
Consensus pattern (15 bp):
CCACATCATCACGTG
Found at i:20994927 original size:23 final size:23
Alignment explanation
Indices: 20994892--20994991 Score: 112
Period size: 23 Copynumber: 4.3 Consensus size: 23
20994882 ATATTAATTC
20994892 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
20994915 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
20994938 TTT-AGGAAAACATCACATTAATA
1 TTTAAGCACAA-ATCACATTAATA
* * *
20994961 TTTGAGCACAAATCATATCAATA
1 TTTAAGCACAAATCACATTAATA
20994984 TTTAAGCA
1 TTTAAGCA
20994992 TAGATATAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
22 4 0.06
23 54 0.86
24 5 0.08
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:21010226 original size:20 final size:21
Alignment explanation
Indices: 21010193--21010231 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
21010183 CATTTTTCTA
21010193 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTATTTGTTTCACT
21010214 TTTACTTTT-TTTGTTTCA
1 TTTACTTTTATTTGTTTCA
21010232 AACTCCTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.13, C:0.13, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTACTTTTATTTGTTTCACT
Found at i:21014736 original size:13 final size:14
Alignment explanation
Indices: 21014706--21014736 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
21014696 TTTCAGTACA
21014706 TTGACATTTAACCT
1 TTGACATTTAACCT
21014720 TTGACATTTAA-CT
1 TTGACATTTAACCT
21014733 TTGA
1 TTGA
21014737 TTGCGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (14 bp):
TTGACATTTAACCT
Found at i:21015860 original size:12 final size:13
Alignment explanation
Indices: 21015839--21015876 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
21015829 ACATGTGGAG
21015839 ACAAAGGAAGGAA
1 ACAAAGGAAGGAA
*
21015852 A-AGAGGAA-GAA
1 ACAAAGGAAGGAA
21015863 ACAAAGGAAGGAA
1 ACAAAGGAAGGAA
21015876 A
1 A
21015877 TGATGTCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
11 4 0.19
12 12 0.57
13 5 0.24
ACGTcount: A:0.63, C:0.05, G:0.32, T:0.00
Consensus pattern (13 bp):
ACAAAGGAAGGAA
Found at i:21033811 original size:27 final size:27
Alignment explanation
Indices: 21033759--21033818 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
21033749 TCATTAACAA
*
21033759 TTTGTGGCAGCACTGGAGGAATATTAT
1 TTTGTGGCAGCAATGGAGGAATATTAT
* *
21033786 TTTGTGGTAGCAATGGTGGTAA-ATTAT
1 TTTGTGGCAGCAATGGAGG-AATATTAT
21033813 TGTTGT
1 T-TTGT
21033819 TTCCAGCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (27 bp):
TTTGTGGCAGCAATGGAGGAATATTAT
Found at i:21034344 original size:7 final size:7
Alignment explanation
Indices: 21034332--21034362 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
21034322 AAATCAAAAT
21034332 GTGTTGA
1 GTGTTGA
21034339 GTGTTGA
1 GTGTTGA
21034346 GTGTTGA
1 GTGTTGA
21034353 GTGTTGA
1 GTGTTGA
21034360 GTG
1 GTG
21034363 CTAAGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (7 bp):
GTGTTGA
Found at i:21047061 original size:24 final size:26
Alignment explanation
Indices: 21047025--21047072 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
21047015 AGAGAAATGT
21047025 AAATGAGATATATGA-A-ATTATGAG
1 AAATGAGATATATGAGAGATTATGAG
21047049 AAATGATGA-ATATGAGAGATTATG
1 AAATGA-GATATATGAGAGATTATG
21047073 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 12 0.57
25 3 0.14
26 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (26 bp):
AAATGAGATATATGAGAGATTATGAG
Found at i:21047172 original size:23 final size:22
Alignment explanation
Indices: 21047146--21047228 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 22
21047136 CCTACTATTT
21047146 AGCACGTTTTGTGCCCTCTGTTC
1 AGCAC-TTTTGTGCCCTCTGTTC
* *
21047169 AGCACTGTGTGTGCCCTTTGTTC
1 AGCACT-TTTGTGCCCTCTGTTC
* * * *
21047192 AACACGGTTTGTG-CTTCTGTTT
1 AGCAC-TTTTGTGCCCTCTGTTC
21047214 AGCACTTTGTGTGCC
1 AGCACTTT-TGTGCC
21047229 TACTGTTGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
21 2 0.04
22 15 0.33
23 29 0.63
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (22 bp):
AGCACTTTTGTGCCCTCTGTTC
Found at i:21054348 original size:3 final size:3
Alignment explanation
Indices: 21054340--21054387 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
21054330 GGAATTAAAT
21054340 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21054388 ACTTAGATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21056034 original size:18 final size:20
Alignment explanation
Indices: 21056011--21056053 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
21056001 TCTCTCTCAA
21056011 TTCTCTC-TATTTTT-TCTC
1 TTCTCTCATATTTTTCTCTC
21056029 TTCTCTCATATTTTTCCTCTC
1 TTCTCTCATATTTTT-CTCTC
21056050 TTCT
1 TTCT
21056054 GTTAACAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
21 8 0.36
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCTCTCATATTTTTCTCTC
Found at i:21063513 original size:21 final size:20
Alignment explanation
Indices: 21063483--21063534 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
21063473 AAATAGCAGT
*
21063483 AAAACA-CAAAGCAGTAAAA
1 AAAACACCAAAACAGTAAAA
21063502 AAAAGCACCAAAACAGTAAAA
1 AAAA-CACCAAAACAGTAAAA
21063523 AAAACACCAAAA
1 AAAACACCAAAA
21063535 ATAAAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.13
20 10 0.33
21 16 0.53
ACGTcount: A:0.69, C:0.19, G:0.08, T:0.04
Consensus pattern (20 bp):
AAAACACCAAAACAGTAAAA
Found at i:21063524 original size:20 final size:21
Alignment explanation
Indices: 21063483--21063541 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
21063473 AAATAGCAGT
*
21063483 AAAACA-CAAAGCAGTAAAAA
1 AAAACACCAAAACAGTAAAAA
*
21063503 AAAGCACCAAAACAGT-AAAA
1 AAAACACCAAAACAGTAAAAA
21063523 AAAACACCAAAA-A-TAAAAA
1 AAAACACCAAAACAGTAAAAA
21063542 TATAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 5 0.15
20 20 0.59
21 8 0.24
ACGTcount: A:0.71, C:0.17, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAACACCAAAACAGTAAAAA
Found at i:21063535 original size:21 final size:21
Alignment explanation
Indices: 21063489--21063541 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
21063479 CAGTAAAACA
*
21063489 CAAAGCAGTAAAAAAAAGCAC
1 CAAAACAGTAAAAAAAAGCAC
21063510 CAAAACAGTAAAAAAAA-CAC
1 CAAAACAGTAAAAAAAAGCAC
21063530 CAAAA-A-TAAAAA
1 CAAAACAGTAAAAA
21063542 TATAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 6 0.19
19 1 0.03
20 8 0.26
21 16 0.52
ACGTcount: A:0.70, C:0.17, G:0.08, T:0.06
Consensus pattern (21 bp):
CAAAACAGTAAAAAAAAGCAC
Found at i:21065722 original size:20 final size:20
Alignment explanation
Indices: 21065697--21065740 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
21065687 GTTCAAACGG
* *
21065697 TTAACCGATTCGAACTATCC
1 TTAACCAATTCGAACTATCA
21065717 TTAACCAATTCGAACTATCA
1 TTAACCAATTCGAACTATCA
21065737 TTAA
1 TTAA
21065741 TCGAATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (20 bp):
TTAACCAATTCGAACTATCA
Found at i:21067365 original size:30 final size:31
Alignment explanation
Indices: 21067325--21067403 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
21067315 AATTTATATA
* * *
21067325 TTTATAATTTTTAAAAA-GTTAAATTA-AATT
1 TTTATTATTTTTAAAAATATTAAAATATAA-T
21067355 TTTATTATTTTTAAAAATATTAAAATATAAT
1 TTTATTATTTTTAAAAATATTAAAATATAAT
21067386 TTTATTATTAATTTAAAA
1 TTTATTATT--TTTAAAA
21067404 TTTTATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 16 0.38
31 17 0.40
32 2 0.05
33 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
TTTATTATTTTTAAAAATATTAAAATATAAT
Found at i:21067409 original size:80 final size:79
Alignment explanation
Indices: 21067253--21067411 Score: 173
Period size: 80 Copynumber: 2.0 Consensus size: 79
21067243 GTCAGAATTT
* * * * *
21067253 TTTTTAGAAAGTTGAAATTAAATTTTATATTTTTAAGATTTTAATAATTTCATCATTTTAATAAT
1 TTTTTAAAAAGTTGAAATTAAATTTTATATTTTTAAAATATTAATAATATAATCATTTTAATAAT
*
21067318 TTATATATTTATAA
66 TTAAATATTTATAA
* *
21067332 TTTTTAAAAAGTT-AAATTAAATTTTTATTATTTTTAAAAATATTAA-AATATAAT-TTTATTAT
1 TTTTTAAAAAGTTGAAATTAAA-TTTTA-TATTTTT-AAAATATTAATAATATAATCATT-TTAA
21067394 TAATTTAAA-ATTTTATAA
62 TAATTTAAATA-TTTATAA
21067412 ATTATAACAC
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
78 8 0.12
79 20 0.30
80 31 0.46
81 8 0.12
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (79 bp):
TTTTTAAAAAGTTGAAATTAAATTTTATATTTTTAAAATATTAATAATATAATCATTTTAATAAT
TTAAATATTTATAA
Found at i:21067418 original size:34 final size:34
Alignment explanation
Indices: 21067344--21067418 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 34
21067334 TTTAAAAAGT
21067344 TAAATTA-AATTTTTATTATTTTTAAAAATATTA
1 TAAATTATAATTTTTATTATTTTTAAAAATATTA
*
21067377 -AAA-TATAA-TTTTATTATTAATTT-AAAATTTTA
1 TAAATTATAATTTTTATTATT--TTTAAAAATATTA
21067409 TAAATTATAA
1 TAAATTATAA
21067419 CACTTTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
31 12 0.33
32 13 0.36
33 6 0.17
34 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
TAAATTATAATTTTTATTATTTTTAAAAATATTA
Found at i:21067476 original size:12 final size:12
Alignment explanation
Indices: 21067459--21067489 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
21067449 GTTACGTGGA
21067459 TGGCTGCGTCAC
1 TGGCTGCGTCAC
21067471 TGGCTGCGTCAC
1 TGGCTGCGTCAC
21067483 TGGCTGC
1 TGGCTGC
21067490 AATCAGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.32, G:0.35, T:0.26
Consensus pattern (12 bp):
TGGCTGCGTCAC
Found at i:21074943 original size:206 final size:205
Alignment explanation
Indices: 21074589--21074994 Score: 740
Period size: 206 Copynumber: 2.0 Consensus size: 205
21074579 TGATGAAGTT
*
21074589 GCTAGAAAAGAATAACCAGTTTGTATGGTCAGAAAAGTGTCAGCAAAGTTTTAATCAGTTAAAGA
1 GCTAGAAAAGAATAACCAGATTGTATGGTCAGAAAAGTGTCAGCAAAGTTTTAATCAGTTAAAGA
* *
21074654 AATTGTTAACAGAAGCTCTAGTATTGACACGGCCTGAATCGGGTAAAGAGTTTGTTGTATATAGT
66 AATTGTTAACAGAAGCTCCAATATTGACACGGCCTGAATCGGGTAAAGAGTTTGTTGTATATAGT
* *
21074719 GATACATCTCTGAATGGCTTGGGTTGTGTTTTGATACAGGCTGGAAAGGTAATAGCTTATGAGCC
131 GATACATCTCTAAATGGCTTGAGTTGTGTTTTGATACAGGCTGGAAAGGT-ATAGCTTATGAGCC
21074784 GCATGATACAG
195 GCATGATACAG
*
21074795 GCTAGAAAAGAATAACCAGATTGTATGGTCAGAAAAGTGTCAGCAAAGTTTTGATCAGTTAAAGA
1 GCTAGAAAAGAATAACCAGATTGTATGGTCAGAAAAGTGTCAGCAAAGTTTTAATCAGTTAAAGA
*
21074860 AATTGTTAACAGAAGCTCCAATATTGACACGGCCTGAATCGGGTAAAGATTTTGTTGTATATAGT
66 AATTGTTAACAGAAGCTCCAATATTGACACGGCCTGAATCGGGTAAAGAGTTTGTTGTATATAGT
21074925 GATACATCTCTAAATGGCTTGAGTTGTGTTTTGATACAGGCTGGAAAGGTATAGCTTATGAGCCG
131 GATACATCTCTAAATGGCTTGAGTTGTGTTTTGATACAGGCTGGAAAGGTATAGCTTATGAGCCG
21074990 CATGA
196 CATGA
21074995 ACGGAGCTAT
Statistics
Matches: 193, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
205 20 0.10
206 173 0.90
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (205 bp):
GCTAGAAAAGAATAACCAGATTGTATGGTCAGAAAAGTGTCAGCAAAGTTTTAATCAGTTAAAGA
AATTGTTAACAGAAGCTCCAATATTGACACGGCCTGAATCGGGTAAAGAGTTTGTTGTATATAGT
GATACATCTCTAAATGGCTTGAGTTGTGTTTTGATACAGGCTGGAAAGGTATAGCTTATGAGCCG
CATGATACAG
Found at i:21077170 original size:3 final size:3
Alignment explanation
Indices: 21077162--21077195 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
21077152 GATAATTTCA
21077162 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
21077196 CTCACAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:21078466 original size:21 final size:21
Alignment explanation
Indices: 21078442--21078496 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
21078432 TAGAAGTAAG
*
21078442 ACTTGTGTCGGTAGAA-GAGTC
1 ACTTGTATCGGTAGAACGA-TC
* *
21078463 ACTTGTATCGATAGAACTATC
1 ACTTGTATCGGTAGAACGATC
21078484 ACTTGTATCGGTA
1 ACTTGTATCGGTA
21078497 AAAGTCTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACGATC
Found at i:21082207 original size:22 final size:23
Alignment explanation
Indices: 21082177--21082219 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21082167 TACATGTCCA
21082177 TTAAATAATATAATTT-CATGCT
1 TTAAATAATATAATTTGCATGCT
* *
21082199 TTAATTAATTTAATTTGCATG
1 TTAAATAATATAATTTGCATG
21082220 ACCCACTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (23 bp):
TTAAATAATATAATTTGCATGCT
Found at i:21085345 original size:100 final size:99
Alignment explanation
Indices: 21085223--21085417 Score: 327
Period size: 100 Copynumber: 2.0 Consensus size: 99
21085213 ACTAAACCAA
* *
21085223 GGAAATATATAAGAAAGCTTCAATGGGAGAAGAAGCATTAATAGGGACAGAAGACTTTGACTATT
1 GGAAATATATAAGAAAGCTTCAACGGGAGAAGAAGCATTAATAGGGACAGAAGACTTTGACTAGT
21085288 CTTGATTTGTTTATTTATTTTGAACTTAGACCCAG
66 CTTGATTTGTTTATTTA-TTTGAACTTAGACCCAG
* * * *
21085323 GGAAATATATAAGAAATCTTCAACGGGAGAATAAGCATTAATGGGGACAGAAGTCTTTGACTAGT
1 GGAAATATATAAGAAAGCTTCAACGGGAGAAGAAGCATTAATAGGGACAGAAGACTTTGACTAGT
21085388 CTTGATTTGTTTATTTATTTGAACTTAGAC
66 CTTGATTTGTTTATTTATTTGAACTTAGAC
21085418 AAGAAGGTTC
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 13 0.15
100 76 0.85
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (99 bp):
GGAAATATATAAGAAAGCTTCAACGGGAGAAGAAGCATTAATAGGGACAGAAGACTTTGACTAGT
CTTGATTTGTTTATTTATTTGAACTTAGACCCAG
Found at i:21087476 original size:60 final size:60
Alignment explanation
Indices: 21087397--21087524 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
21087387 GGCAAAATTG
* * * * * * *
21087397 AATAGTTGGGTGGCTATTTTGTAACTTTTTATAATTGATTGATCAAAAGAGAAATTTACT
1 AATAGTTGGATGACCATTTTGTAACTTTTCATAATTGAGTGAACAAAAAAGAAATTTACT
* *
21087457 AATAGTTGGATGACCATTTTGTAACTTTTCATAGTTGAGTGAACAAAAAATAAATTTACT
1 AATAGTTGGATGACCATTTTGTAACTTTTCATAATTGAGTGAACAAAAAAGAAATTTACT
21087517 AATAGTTG
1 AATAGTTG
21087525 AGCGACTACT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (60 bp):
AATAGTTGGATGACCATTTTGTAACTTTTCATAATTGAGTGAACAAAAAAGAAATTTACT
Found at i:21095143 original size:242 final size:242
Alignment explanation
Indices: 21094718--21095377 Score: 1153
Period size: 242 Copynumber: 2.7 Consensus size: 242
21094708 TGTCACTTGC
* * *
21094718 CTATGATATTGCTGGAAAGAAACGACTGTTGGATATCACGAAATTAGAAGAAATCCGATGTCATG
1 CTATGATGTTGCTGGAAAGAAAAGACTGTTGGATATCACGAAATTAGAAGAAATTCGATGTCATG
*
21094783 CTTATGAGAATGCGGCGATATACAAGGAAAAGACGAAAAGATGGCATGACAACATTGTCTTGCGT
66 CTTATGAGAATGCGGCGATATACAAGGAAAAGACGAAAAGATGGCATGACAACATTATCTTGCGT
*
21094848 CGAAAATTTCATCCTGGTCAGTTGGTACTTTTATTTAACCCACGTTGGGAATGTCGCCATATCAA
131 CGAAAATTTCATCCTGGTCAGTTGGTACTTTTATTTAACTCACGTTGGGAATGTCGCCATATCAA
*
21094913 CTAGTGTTTGGAAAGTCTTGTCACCTGCCTGGTCAAGTGAATTTAGA
196 CTAGTGTTTGGAAAGTCTTGTCACCTGCCTAGTCAAGTGAATTTAGA
*
21094960 CTATGATGTTGCTGGAAAGAAAAGACTGTTGGATATCACGAAATTAGAAGAAATTCGACGTCATG
1 CTATGATGTTGCTGGAAAGAAAAGACTGTTGGATATCACGAAATTAGAAGAAATTCGATGTCATG
*
21095025 CTTATGAGAATGCGGCGATATACAAGGAAAAGATGAAAAGATGGCATGACAACATTATCTTGCGT
66 CTTATGAGAATGCGGCGATATACAAGGAAAAGACGAAAAGATGGCATGACAACATTATCTTGCGT
*
21095090 CGAAAATTTCATCCTGGTCAGTTAGTACTTTTATTTAACTCACGTTGGGAATGTCGCCATATCAA
131 CGAAAATTTCATCCTGGTCAGTTGGTACTTTTATTTAACTCACGTTGGGAATGTCGCCATATCAA
*
21095155 CTAGTGTTTGGAAAGTCTTGTCACCTGCCTAGTCAGGTGAATTTAGA
196 CTAGTGTTTGGAAAGTCTTGTCACCTGCCTAGTCAAGTGAATTTAGA
21095202 CTATGATGTTGCTGGAAAGAAAAGACTGTTGGATATCA-GAAAATTAGAAGAAATTC-AGTGTCA
1 CTATGATGTTGCTGGAAAGAAAAGACTGTTGGATATCACG-AAATTAGAAGAAATTCGA-TGTCA
* * *
21095265 TGCTTATGAGAATACGGTGATATACAAGGAAAAGACGAAAAGATGGCATGACAACATTATCTTGT
64 TGCTTATGAGAATGCGGCGATATACAAGGAAAAGACGAAAAGATGGCATGACAACATTATCTTGC
* *
21095330 GTCAAAAATTTCATCTTGGTCAGTTGGTACTTTTATTTAACTCACGTT
129 GTCGAAAATTTCATCCTGGTCAGTTGGTACTTTTATTTAACTCACGTT
21095378 TAAAATTGCA
Statistics
Matches: 398, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
241 2 0.01
242 396 0.99
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (242 bp):
CTATGATGTTGCTGGAAAGAAAAGACTGTTGGATATCACGAAATTAGAAGAAATTCGATGTCATG
CTTATGAGAATGCGGCGATATACAAGGAAAAGACGAAAAGATGGCATGACAACATTATCTTGCGT
CGAAAATTTCATCCTGGTCAGTTGGTACTTTTATTTAACTCACGTTGGGAATGTCGCCATATCAA
CTAGTGTTTGGAAAGTCTTGTCACCTGCCTAGTCAAGTGAATTTAGA
Found at i:21097499 original size:12 final size:12
Alignment explanation
Indices: 21097461--21097492 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21097451 GGATAAAGAC
21097461 GAAGAAGAGAAA
1 GAAGAAGAGAAA
*
21097473 GGAGAAGAGAAA
1 GAAGAAGAGAAA
21097485 GAAGAAGA
1 GAAGAAGA
21097493 AGAAGAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (12 bp):
GAAGAAGAGAAA
Found at i:21105900 original size:14 final size:14
Alignment explanation
Indices: 21105855--21105907 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
21105845 ACCCGACCCA
21105855 TTGACCCGTTGACT
1 TTGACCCGTTGACT
**
21105869 TTGACTTGTTGAC-
1 TTGACCCGTTGACT
* *
21105882 CTGACCCGTTAACT
1 TTGACCCGTTGACT
*
21105896 TTGACCCATTGA
1 TTGACCCGTTGA
21105908 TTTTATCGTT
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (14 bp):
TTGACCCGTTGACT
Found at i:21105907 original size:27 final size:27
Alignment explanation
Indices: 21105856--21105907 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
21105846 CCCGACCCAT
* ***
21105856 TGACCCGTTGACTTTGACTTGTTGACC
1 TGACCCGTTAACTTTGACCCATTGACC
21105883 TGACCCGTTAACTTTGACCCATTGA
1 TGACCCGTTAACTTTGACCCATTGA
21105908 TTTTATCGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (27 bp):
TGACCCGTTAACTTTGACCCATTGACC
Found at i:21112047 original size:23 final size:23
Alignment explanation
Indices: 21112021--21112064 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
21112011 TTTCTTGTTG
21112021 TTTCTTAAGCC-CTTCTAACTTAT
1 TTTCTTAAGCCTC-TCTAACTTAT
*
21112044 TTTCTTGAGCCTCTCTAACTT
1 TTTCTTAAGCCTCTCTAACTT
21112065 CAGGTGGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (23 bp):
TTTCTTAAGCCTCTCTAACTTAT
Found at i:21112978 original size:27 final size:27
Alignment explanation
Indices: 21112940--21112994 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
21112930 TACAATGAGT
*
21112940 TTGAGAAAATTAGGAAGAACTTGTCTC
1 TTGAGAAAATTAGCAAGAACTTGTCTC
21112967 TTGAGAAAATTAGCAAGAACTTGTCTC
1 TTGAGAAAATTAGCAAGAACTTGTCTC
21112994 T
1 T
21112995 ATTTATAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (27 bp):
TTGAGAAAATTAGCAAGAACTTGTCTC
Found at i:21114153 original size:21 final size:20
Alignment explanation
Indices: 21114107--21114183 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 20
21114097 AATATTTTTT
* *
21114107 TATAAAATTATAAAATATGTA
1 TATAAAATTAAAAAATA-ATA
*
21114128 AATATAAATTAAAAAATAATA
1 TATA-AAATTAAAAAATAATA
* *
21114149 TATATAATTTGAAAAA-AATA
1 TATA-AAATTAAAAAATAATA
21114169 TATAATAATTAAAAA
1 TATAA-AATTAAAAA
21114184 GTATTTAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.02
20 15 0.33
21 18 0.39
22 12 0.26
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
TATAAAATTAAAAAATAATA
Found at i:21114182 original size:18 final size:20
Alignment explanation
Indices: 21114129--21114183 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
21114119 AAATATGTAA
21114129 ATATA-AATTAAAAAATAAT
1 ATATATAATTAAAAAATAAT
*
21114148 ATATATAATTTGAAAAA-AAT
1 ATATATAA-TTAAAAAATAAT
21114168 ATATAATAATTAAAAA
1 ATAT-ATAATTAAAAA
21114184 GTATTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 5 0.16
20 15 0.48
21 11 0.35
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATATAATTAAAAAATAAT
Found at i:21114302 original size:21 final size:19
Alignment explanation
Indices: 21114260--21114316 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
21114250 TAGATACCTA
*
21114260 TTTTAATTTTTATAATTGT
1 TTTTAATTTTTATAATTAT
21114279 TTTTCAATTTTTATATATTAT
1 TTTT-AATTTTTATA-ATTAT
* * *
21114300 TTTGAATATTTAAAATT
1 TTTTAATTTTTATAATT
21114317 TATGTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTAATTTTTATAATTAT
Found at i:21121669 original size:10 final size:11
Alignment explanation
Indices: 21121642--21121682 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 11
21121632 TAGGAAAAGG
21121642 AAGGATTTTT-
1 AAGGATTTTTA
21121652 AA-G-TTTTTA
1 AAGGATTTTTA
21121661 AAGG-TTTTTA
1 AAGGATTTTTA
21121671 AAGGATTTTTA
1 AAGGATTTTTA
21121682 A
1 A
21121683 GATTGAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.18
9 3 0.11
10 13 0.46
11 7 0.25
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (11 bp):
AAGGATTTTTA
Found at i:21141441 original size:16 final size:16
Alignment explanation
Indices: 21141417--21141449 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21141407 TAATCCCAAC
*
21141417 ATTACAAGTCTCAAAA
1 ATTAAAAGTCTCAAAA
21141433 ATTAAAAGTCTCAAAA
1 ATTAAAAGTCTCAAAA
21141449 A
1 A
21141450 CACTTTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (16 bp):
ATTAAAAGTCTCAAAA
Found at i:21166551 original size:21 final size:21
Alignment explanation
Indices: 21166527--21166569 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21166517 TCCTAGCCAC
21166527 GGGAAGAACGTTAATTGATGT
1 GGGAAGAACGTTAATTGATGT
21166548 GGGAAGAACGTTAATTGATGT
1 GGGAAGAACGTTAATTGATGT
21166569 G
1 G
21166570 CAGAAAGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.35, T:0.28
Consensus pattern (21 bp):
GGGAAGAACGTTAATTGATGT
Done.