Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 30
Found at i:6453948 original size:53 final size:53
Alignment explanation
Indices: 6453826--6453949 Score: 133
Period size: 53 Copynumber: 2.3 Consensus size: 53
6453816 GGGCGGGAAT
* * * * * * **
6453826 GTGTCCACCTTTAAATCTGATTTTTCTTCAATTAGTTACTTATTTTACTAATG
1 GTGTCCACCTTAAAATTTAAGTTTTATTCAACTAACTACTTATTTTACTAATG
* * *
6453879 GTGTCTACCCTGAAATTTAAGTTTTATTCAACTAACTACTTATTTTAC-AGATG
1 GTGTCCACCTTAAAATTTAAGTTTTATTCAACTAACTACTTATTTTACTA-ATG
6453932 GTGTCCACCTTAAAATTT
1 GTGTCCACCTTAAAATTT
6453950 TATTTGTACC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
52 1 0.02
53 56 0.98
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.44
Consensus pattern (53 bp):
GTGTCCACCTTAAAATTTAAGTTTTATTCAACTAACTACTTATTTTACTAATG
Found at i:6455586 original size:4 final size:4
Alignment explanation
Indices: 6455579--6455603 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6455569 ACACATACAC
6455579 ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT A
6455604 CGTACGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:6457063 original size:18 final size:19
Alignment explanation
Indices: 6457028--6457065 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
6457018 CACGGAATGT
6457028 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
6457048 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
6457066 GATTACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:6457078 original size:15 final size:16
Alignment explanation
Indices: 6457027--6457071 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
6457017 TCACGGAATG
6457027 TAAGATTACCAGTGGGAA
1 TAAGATTACCA--GGGAA
6457045 TAAAAGATTACCAGGGAA
1 T--AAGATTACCAGGGAA
6457063 TAAGATTAC
1 TAAGATTAC
6457072 TGGGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 7 0.28
20 10 0.40
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Found at i:6459673 original size:31 final size:31
Alignment explanation
Indices: 6459635--6459719 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
6459625 TATGCTCGTG
* * * *
6459635 AGTTTTCGAGTCGAGTCGAACTCCATTTTAA
1 AGTTTTCGACTCAAATCAAACTCCATTTTAA
6459666 AGTTTTCGACTCAAATCAAACTCCATTTTAA
1 AGTTTTCGACTCAAATCAAACTCCATTTTAA
6459697 AGTTTTCGACTCAAATCAAACTC
1 AGTTTTCGACTCAAATCAAACTC
6459720 ATCAATACTC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (31 bp):
AGTTTTCGACTCAAATCAAACTCCATTTTAA
Found at i:6460632 original size:21 final size:22
Alignment explanation
Indices: 6460593--6460655 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
6460583 TGCACCCCTA
* *
6460593 ACTTAAAGC-TAAATTATAAAT
1 ACTTAAACCTTAAATCATAAAT
*
6460614 -CTTAAACCTTAAATCATAACT
1 ACTTAAACCTTAAATCATAAAT
*
6460635 ACAT-AACCTCTAAATCATAAA
1 ACTTAAACCT-TAAATCATAAA
6460656 CTATAACCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 7 0.21
21 15 0.44
22 12 0.35
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (22 bp):
ACTTAAACCTTAAATCATAAAT
Found at i:6460661 original size:21 final size:21
Alignment explanation
Indices: 6460601--6460668 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
6460591 TAACTTAAAG
*
6460601 CTAAATTATAAATCT-TAAACCT
1 CTAAATCATAAA-CTAT-AACCT
6460623 -TAAATCAT-AACTACATAACCT
1 CTAAATCATAAACT--ATAACCT
6460644 CTAAATCATAAACTATAACC-
1 CTAAATCATAAACTATAACCT
6460664 CTAAA
1 CTAAA
6460669 CCCTAAACCC
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
19 2 0.05
20 7 0.17
21 18 0.45
22 9 0.22
23 4 0.10
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (21 bp):
CTAAATCATAAACTATAACCT
Found at i:6460675 original size:20 final size:21
Alignment explanation
Indices: 6460637--6460676 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6460627 TCATAACTAC
*
6460637 ATAACCTCTAAATCATAAACT
1 ATAACCTCTAAACCATAAACT
*
6460658 ATAACC-CTAAACCCTAAAC
1 ATAACCTCTAAACCATAAAC
6460677 CCTACCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAACCTCTAAACCATAAACT
Found at i:6461299 original size:52 final size:51
Alignment explanation
Indices: 6461200--6461301 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
6461190 AGAGTCCGCT
*
6461200 ATTCGACTTTCTATTCAAATTTAATTATAATTATTTATAAATTTATATTACC
1 ATTCGACTTTCTATTCAAATTTAATTAT-ATTATTTATAAATATATATTACC
*
6461252 ATTCGACTTTCTATTCAAATTT-ATTGAT-TTATGTCTATAGATATATATTA
1 ATTCGACTTTCTATTCAAATTTAATT-ATATTAT-T-TATAAATATATATTA
6461302 TTTATTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
50 4 0.09
51 4 0.09
52 37 0.82
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (51 bp):
ATTCGACTTTCTATTCAAATTTAATTATATTATTTATAAATATATATTACC
Found at i:6464545 original size:17 final size:17
Alignment explanation
Indices: 6464523--6464560 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6464513 CGCAATGAGT
*
6464523 AATT-AATTTTTGAATTA
1 AATTAAATTTATG-ATTA
6464540 AATTAAATTTATGATTA
1 AATTAAATTTATGATTA
6464557 AATT
1 AATT
6464561 GATAGAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
AATTAAATTTATGATTA
Found at i:6465044 original size:3 final size:3
Alignment explanation
Indices: 6465036--6465070 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6465026 ATTATAAACT
6465036 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6465071 TAAAGAGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6466874 original size:214 final size:215
Alignment explanation
Indices: 6466505--6466934 Score: 853
Period size: 214 Copynumber: 2.0 Consensus size: 215
6466495 AAGTTTTTAA
6466505 CGACGAAGTACTAAATTATAACTTAAACTAAACATTATGTATTATTTTGAAAAAATATAGTTTAA
1 CGACGAAGTACTAAATTATAACTTAAACTAAACATTATGTATTATTTTGAAAAAATATAGTTTAA
6466570 GTGTCAAAATGGAATAAAAATAATAGTTTAGATACTGAATATGTAATTTATCCTAAATTTTTTGA
66 GTGTCAAAATGGAATAAAAATAATAGTTTAGATACTGAATATGTAATTTATCCTAAATTTTTTGA
6466635 ATGAGTGAGTACACAAAAAAATTCAGAGTAGACACCATCAAT-AAATAAGCAACTAATAAAAAAA
131 ATGAGTGAGTACACAAAAAAATTCAGAGTAGACACCATCAATAAAATAAGCAACTAATAAAAAAA
6466699 ATTAAATTTCAGTGTCCTCC
196 ATTAAATTTCAGTGTCCTCC
6466719 CGACGAAGTACTAAATTATAACTTAAACTAAACATTATGTATTATTTTGAAAAAATATAGTTTAA
1 CGACGAAGTACTAAATTATAACTTAAACTAAACATTATGTATTATTTTGAAAAAATATAGTTTAA
6466784 GTGTCAAAATGGAATAAAAATAATAGTTTAGATACTGAATATGTAATTTATCCTAAATTTTTTGA
66 GTGTCAAAATGGAATAAAAATAATAGTTTAGATACTGAATATGTAATTTATCCTAAATTTTTTGA
6466849 ATGAGTGAGTACACAAAAAAATTCAGAGTAGACACCATCAATAAAATAAGCAACTAATAAAAAAA
131 ATGAGTGAGTACACAAAAAAATTCAGAGTAGACACCATCAATAAAATAAGCAACTAATAAAAAAA
6466914 ATTAAATTTCAGTGTCCTCC
196 ATTAAATTTCAGTGTCCTCC
6466934 C
1 C
6466935 TCAACAAATT
Statistics
Matches: 215, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
214 172 0.80
215 43 0.20
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (215 bp):
CGACGAAGTACTAAATTATAACTTAAACTAAACATTATGTATTATTTTGAAAAAATATAGTTTAA
GTGTCAAAATGGAATAAAAATAATAGTTTAGATACTGAATATGTAATTTATCCTAAATTTTTTGA
ATGAGTGAGTACACAAAAAAATTCAGAGTAGACACCATCAATAAAATAAGCAACTAATAAAAAAA
ATTAAATTTCAGTGTCCTCC
Found at i:6472383 original size:2 final size:2
Alignment explanation
Indices: 6472371--6472402 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
6472361 CATTCATGTG
6472371 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA T
6472403 TCAGATTGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6475419 original size:16 final size:16
Alignment explanation
Indices: 6475376--6475421 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
6475366 AAAAAAATTT
6475376 CATCCATCACCCGATC
1 CATCCATCACCCGATC
6475392 CGA-CCTATCACCCGATC
1 C-ATCC-ATCACCCGATC
6475409 CATCCATCACCCG
1 CATCCATCACCCG
6475422 CCAATCATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.24, C:0.50, G:0.09, T:0.17
Consensus pattern (16 bp):
CATCCATCACCCGATC
Found at i:6482395 original size:29 final size:29
Alignment explanation
Indices: 6482353--6482408 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
6482343 GGTGCTACTG
6482353 ATGATGAAGATTGGAATAAAGTTGCATCT
1 ATGATGAAGATTGGAATAAAGTTGCATCT
6482382 ATGATGAAGATTGGAATAAAGTTGCAT
1 ATGATGAAGATTGGAATAAAGTTGCAT
6482409 TTTTCTTGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.30
Consensus pattern (29 bp):
ATGATGAAGATTGGAATAAAGTTGCATCT
Found at i:6484461 original size:20 final size:20
Alignment explanation
Indices: 6484438--6484501 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
6484428 TAGTATTTAG
6484438 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
6484458 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
6484478 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
6484497 TTAAA
1 ATAAA
6484502 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:6484471 original size:19 final size:20
Alignment explanation
Indices: 6484447--6484496 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6484437 GATAAATTTA
*
6484447 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
6484466 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
6484487 TT-ATAATTTT
1 TTAATAATTTT
6484497 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:6484499 original size:31 final size:30
Alignment explanation
Indices: 6484414--6484500 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
6484404 TTTGATAATA
* *
6484414 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
6484445 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
6484476 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
6484501 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:6486241 original size:31 final size:31
Alignment explanation
Indices: 6486178--6486241 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
6486168 TAGTGAGTAC
*
6486178 ATCTTAATTCAATAAAAACGAAAATGATCAT
1 ATCTTAATTCAATAAAAACGAAAATGACCAT
* * *
6486209 ATCTTAATTGAATATAAA-TAAAATTGACCAT
1 ATCTTAATTCAATAAAAACGAAAA-TGACCAT
6486240 AT
1 AT
6486242 ATTATGATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (31 bp):
ATCTTAATTCAATAAAAACGAAAATGACCAT
Found at i:6487040 original size:45 final size:45
Alignment explanation
Indices: 6486983--6487203 Score: 239
Period size: 45 Copynumber: 4.7 Consensus size: 45
6486973 TAATAAGGTT
*
6486983 ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
6487028 ATTTATTATAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
*
6487073 ATTTATTATAAAATAATTTATTATAAAATATGGATTGATTTATTTTAAAATA
1 ATTTATTATAAAATAATTTATT-TTAAA-AT--A---ATTTATTTTAAAATA
* * * *
6487125 ATTTATT-TTAAATAATTTATTAGTATGAATTGATTTATTTT-AAATA
1 ATTTATTATAAAATAATTTATT--T-TAAAATAATTTATTTTAAAATA
* *
6487171 ATTTATTAGTATGAATTGATTTATTTTAAAATA
1 ATTTATTA-TA--AAATAATTTATTTTAAAATA
6487204 TGGATTGATT
Statistics
Matches: 149, Mismatches: 14, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
45 66 0.44
46 16 0.11
47 15 0.10
48 2 0.01
49 1 0.01
50 10 0.07
51 13 0.09
52 24 0.16
53 2 0.01
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (45 bp):
ATTTATTATAAAATAATTTATTTTAAAATAATTTATTTTAAAATA
Found at i:6487139 original size:14 final size:15
Alignment explanation
Indices: 6486983--6487177 Score: 232
Period size: 15 Copynumber: 12.5 Consensus size: 15
6486973 TAATAAGGTT
6486983 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
6486998 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
6487013 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
6487028 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
6487043 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
6487058 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
6487073 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
6487088 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
6487107 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
6487125 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
* * *
6487139 ATTTATTAGTATGAATTG
1 ATTTATT--T-TAAAATA
6487157 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
6487171 ATTTATT
1 ATTTATT
6487178 AGTATGAATT
Statistics
Matches: 159, Mismatches: 10, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
14 22 0.14
15 104 0.65
16 5 0.03
17 3 0.02
18 11 0.07
19 1 0.01
20 2 0.01
21 4 0.03
22 7 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:6487162 original size:18 final size:18
Alignment explanation
Indices: 6487139--6487195 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
6487129 ATTTTAAATA
6487139 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
6487157 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
6487171 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
6487189 ATTTATT
1 ATTTATT
6487196 TTAAAATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 2 0.06
17 1 0.03
18 17 0.55
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:6487164 original size:32 final size:32
Alignment explanation
Indices: 6487125--6487200 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
6487115 TTTTAAAATA
6487125 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
6487157 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGAATTG
6487189 ATTTATTTTAAA
1 ATTTATTTTAAA
6487201 ATATGGATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTG
Found at i:6487241 original size:112 final size:110
Alignment explanation
Indices: 6487125--6487700 Score: 606
Period size: 112 Copynumber: 5.4 Consensus size: 110
6487115 TTTTAAAATA
6487125 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
* *
6487190 TTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTGTGGATTG
66 TTTATTTTAAAATATGGATTGATTTATTATT-TA-TTATATGGATTG
* *
6487237 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
* **
6487302 TTTATTTTAAAATATGAATTGATTTA-T-TTTAAAATATGGATTG
66 TTTATTTTAAAATATGGATTGATTTATTATTTATTATATGGATTG
* * *
6487345 ATTTATTTT-AA-AA--TA-T-G---G-ATTGATTTATTTT-AA-AA--TATGAAT-TG-ATTTA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
* ***
6487394 -TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAATATGGATTG
66 TTTATTTTA-AAATATGGATTGATTTA---T---T-ATTTATT-ATATGGATTG
*
6487447 ATTTATTTT-AA-AA--TA-T-G---G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
* **
6487502 TTTATTTTAAAATATGAATTGATTTA-T-TTTAAAATATGGATTG
66 TTTATTTTAAAATATGGATTGATTTATTATTTATTATATGGATTG
*
6487545 ATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTTAAATAATTTATTTGTAT-AGATT
1 ATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAATAATTTATTAGTATGA-ATT
*
6487608 GATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
64 GATTTATTTTAAAATATGGATTGATTTATTATT-TA-TTATATGGATTG
6487657 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
6487701 ATATGGATTG
Statistics
Matches: 396, Mismatches: 33, Indels: 70
0.79 0.07 0.14
Matches are distributed among these distances:
91 7 0.02
92 17 0.04
93 2 0.01
94 5 0.01
96 2 0.01
97 2 0.01
98 32 0.08
99 8 0.02
100 2 0.01
101 5 0.01
102 44 0.11
103 4 0.01
104 5 0.01
106 7 0.02
107 4 0.01
108 93 0.23
109 10 0.03
110 4 0.01
111 3 0.01
112 139 0.35
113 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (110 bp):
ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
TTTATTTTAAAATATGGATTGATTTATTATTTATTATATGGATTG
Found at i:6487271 original size:32 final size:32
Alignment explanation
Indices: 6487230--6487620 Score: 197
Period size: 32 Copynumber: 13.6 Consensus size: 32
6487220 TGTAGTTGTG
6487230 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
6487262 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
6487294 TGGATTGATTTATTTT-AA-AA--TA-T-G-A
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
*
6487319 ---ATTGATTTATTTTAAAA----------TA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
* * *
6487338 TGGATTGATTTATTTTAAAATATGGATTGATTTATTT
1 TGGATTGATTTATTTT-AAATA---ATTTA-TTAGTA
** * *
6487375 TAAAATATGAATTGA-TTT--ATTATTGTAGTT-GTA
1 T-GGAT-TG-ATTTATTTTAAATAATT-TA-TTAGTA
*
6487408 TGGATTGATTTATTTTAAATAATTTATTAATA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
6487440 TGGATTGATTTA-TTT---TAA---A--A-TA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
6487462 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
6487494 TGGATTGATTTATTTT-AA-AA--TA-T-G-A
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
*
6487519 ---ATTGATTTATTTTAAAA----------TA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
6487538 TGGATTGATTTATTTTAAATAATTTATTAGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
* *
6487570 TAGATTGATTTATTTTAAATAATTTATTTGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTA
*
6487602 TAGATTGATTTATTTTAAA
1 TGGATTGATTTATTTTAAA
6487621 ATATGGATTG
Statistics
Matches: 286, Mismatches: 18, Indels: 110
0.69 0.04 0.27
Matches are distributed among these distances:
19 2 0.01
22 69 0.24
23 11 0.04
25 3 0.01
26 5 0.02
27 2 0.01
28 7 0.02
29 1 0.00
30 8 0.03
31 15 0.05
32 135 0.47
33 10 0.03
34 3 0.01
36 2 0.01
37 2 0.01
38 2 0.01
39 5 0.02
40 4 0.01
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
TGGATTGATTTATTTTAAATAATTTATTAGTA
Found at i:6487274 original size:18 final size:18
Alignment explanation
Indices: 6487251--6487307 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
6487241 ATTTTAAATA
6487251 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
* * *
6487269 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGGATTG
6487283 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGGATTG
6487301 ATTTATT
1 ATTTATT
6487308 TTAAAATATG
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 9 0.31
15 1 0.03
16 2 0.07
17 1 0.03
18 16 0.55
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGGATTG
Found at i:6487317 original size:22 final size:22
Alignment explanation
Indices: 6487292--6487556 Score: 206
Period size: 22 Copynumber: 11.0 Consensus size: 22
6487282 AATTTATTAG
6487292 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
6487314 TATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
6487336 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
6487358 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
* ***
6487380 TATGAATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTA-T-TT-TA-AAA
6487406 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
** *
6487430 TTTATTAATATGGATTGATTTATTTTAAAA
1 --TATGGAT-T-GATTTA-TT---TTAAAA
6487460 TATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
6487484 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
*
6487514 TATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
6487536 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
6487557 TAATTTATTA
Statistics
Matches: 196, Mismatches: 23, Indels: 48
0.73 0.09 0.18
Matches are distributed among these distances:
22 105 0.54
23 4 0.02
24 7 0.04
25 7 0.04
26 33 0.17
27 4 0.02
28 20 0.10
29 4 0.02
30 4 0.02
31 4 0.02
32 4 0.02
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:6487342 original size:44 final size:44
Alignment explanation
Indices: 6487292--6487556 Score: 260
Period size: 44 Copynumber: 5.5 Consensus size: 44
6487282 AATTTATTAG
*
6487292 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
6487336 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
* ***
6487380 TATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAA
1 TATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTA-TTT---T-A---A--AA
6487438 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT---TAA---A--A
*
6487491 GTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAA
1 -TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
6487536 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
6487557 TAATTTATTA
Statistics
Matches: 193, Mismatches: 10, Indels: 36
0.81 0.04 0.15
Matches are distributed among these distances:
44 77 0.40
45 2 0.01
46 2 0.01
47 3 0.02
48 14 0.07
49 3 0.02
50 4 0.02
51 3 0.02
52 1 0.01
53 6 0.03
54 57 0.30
55 2 0.01
56 3 0.02
57 1 0.01
58 15 0.08
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (44 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
Found at i:6487376 original size:178 final size:178
Alignment explanation
Indices: 6487180--6487632 Score: 575
Period size: 178 Copynumber: 2.6 Consensus size: 178
6487170 AATTTATTAG
* * *
6487180 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTGTGGATTGATTTATTT
1 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
* ** ** *
6487245 TAAATAATTTATTAGTATGGATTGATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATT
66 TAAATAATTTATTAATATGGATTGATTTATTTTAAAAT-ATGGATT-G-ATGGATTTGAAATAAT
*
6487308 TTA-AAATATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
128 TTATAAATATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAA
6487358 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
1 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
** *
6487423 TAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA
66 TAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTA
* * *
6487488 TTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAA
131 TAAATATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAA
6487536 TATGGATTGATTTATTTT--AA-AT--A---ATTTATTA--GTA----TA--GATTGATTTATTT
1 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
** *
6487585 TAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGAT
66 TAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGAT
6487633 TTATTATTGT
Statistics
Matches: 253, Mismatches: 19, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
162 58 0.23
164 2 0.01
168 3 0.01
170 8 0.03
173 1 0.00
175 2 0.01
176 5 0.02
177 10 0.04
178 160 0.63
179 4 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (178 bp):
TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
TAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGATGGATTTGAAATAATTTA
TAAATATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAA
Found at i:6487582 original size:18 final size:17
Alignment explanation
Indices: 6487559--6487615 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
6487549 ATTTTAAATA
6487559 ATTTATTAGTATAGATTG
1 ATTTATT-GTATAGATTG
* *
6487577 ATTTATT-T-TA-AATA
1 ATTTATTGTATAGATTG
6487591 ATTTATTTGTATAGATTG
1 ATTTA-TTGTATAGATTG
6487609 ATTTATT
1 ATTTATT
6487616 TTAAAATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 7 0.23
15 4 0.13
16 2 0.06
17 4 0.13
18 14 0.45
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (17 bp):
ATTTATTGTATAGATTG
Found at i:6487582 original size:108 final size:111
Alignment explanation
Indices: 6487464--6487700 Score: 374
Period size: 108 Copynumber: 2.2 Consensus size: 111
6487454 TTAAAATATG
*
6487464 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTA-
1 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTAT
6487528 T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTAT
66 TATTGTAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT
* *
6487571 AGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGATTTA
1 -GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTA
***
6487636 TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
65 TTATTGTAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT
6487683 GAATTGATTTATTTTAAA
1 G-ATTGATTTATTTTAAA
6487701 ATATGGATTG
Statistics
Matches: 118, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
108 61 0.52
109 1 0.01
110 2 0.02
111 3 0.03
112 51 0.43
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (111 bp):
GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTAT
TATTGTAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT
Found at i:6487616 original size:18 final size:16
Alignment explanation
Indices: 6487540--6487619 Score: 69
Period size: 14 Copynumber: 5.0 Consensus size: 16
6487530 TTAAAATATG
6487540 GATTGATTTATTTTAA
1 GATTGATTTATTTTAA
* *
6487556 -A-TAATTTATTAGTATA
1 GATTGATTTATT-TTA-A
6487572 GATTGATTTATTTTAA
1 GATTGATTTATTTTAA
*
6487588 -A-TAATTTATTTGTATA
1 GATTGATTTATTT-TA-A
6487604 GATTGATTTATTTTAA
1 GATTGATTTATTTTAA
6487620 AATATGGATT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
14 17 0.34
15 6 0.12
16 4 0.08
17 6 0.12
18 17 0.34
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
GATTGATTTATTTTAA
Found at i:6487651 original size:26 final size:25
Alignment explanation
Indices: 6487622--6487743 Score: 88
Period size: 26 Copynumber: 4.6 Consensus size: 25
6487612 TATTTTAAAA
6487622 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTATTGTA-TTG
*
6487648 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTA--TT--AT--TGTATT-G
* ***
6487680 TATGAATTGATTTA-T-TT-TAAAA
1 TATGGATTGATTTATTATTGTATTG
6487702 TATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTATTGTA-TTG
*
6487728 TATTGATTGATTTATT
1 TATGGATTGATTTATT
6487744 TTAAATAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
22 13 0.17
23 3 0.04
24 3 0.04
25 2 0.03
26 30 0.40
28 2 0.03
29 1 0.01
30 2 0.03
31 2 0.03
32 17 0.23
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (25 bp):
TATGGATTGATTTATTATTGTATTG
Found at i:6487691 original size:80 final size:80
Alignment explanation
Indices: 6487358--6487797 Score: 555
Period size: 80 Copynumber: 5.5 Consensus size: 80
6487348 TATTTTAAAA
* *
6487358 TATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
1 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
*
6487423 TAAATAATTTATTAA
66 TAAATAATTTATTAG
* *
6487438 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGA
1 TATGAATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGA
6487502 TTTA-TTT---TAA---A--A-
59 TTTATTTTAAATAATTTATTAG
* *
6487514 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATAGATTGA
1 TATGAATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGA
*
6487578 TTTATTTTAAATAATTTATTTG
59 TTTATTTTAAATAATTTATTAG
6487600 TAT-AGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATT
1 TATGA-ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATT
6487664 TTAAATAATTTATTAG
65 TTAAATAATTTATTAG
*
6487680 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATTGATTGATTTATTT
1 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
6487745 TAAATAATTTATTAG
66 TAAATAATTTATTAG
* *
6487760 TATGGATTGATTTATTTTAAAATATCGATTGATTTATT
1 TATGAATTGATTTATTTTAAAATATGGATTGATTTATT
6487798 TTAAATAATT
Statistics
Matches: 329, Mismatches: 11, Indels: 40
0.87 0.03 0.11
Matches are distributed among these distances:
76 66 0.20
77 4 0.01
79 1 0.00
80 185 0.56
81 3 0.01
82 7 0.02
83 1 0.00
84 4 0.01
85 6 0.02
86 52 0.16
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTT
TAAATAATTTATTAG
Found at i:6487862 original size:31 final size:31
Alignment explanation
Indices: 6487827--6487885 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
6487817 AGTTGTATGG
* *
6487827 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
6487858 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
6487886 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:6487924 original size:16 final size:16
Alignment explanation
Indices: 6487903--6487945 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
6487893 GTTTAAAAAA
6487903 TCAGTTTATTTATATT
1 TCAGTTTATTTATATT
6487919 TCAGTTTATTTATATT
1 TCAGTTTATTTATATT
* *
6487935 TTAGTTCATTT
1 TCAGTTTATTT
6487946 TAGCAGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (16 bp):
TCAGTTTATTTATATT
Found at i:6507549 original size:38 final size:36
Alignment explanation
Indices: 6507507--6507590 Score: 114
Period size: 38 Copynumber: 2.3 Consensus size: 36
6507497 AATTATTTAT
6507507 ATATATATATAATATTAATAAATTTAATTTAAATTAAA
1 ATATATATATAATATTAATAAATTTAATTTAAA-T-AA
* * * *
6507545 ATATATATATAATATTTATATATTTAATTTGAATAT
1 ATATATATATAATATTAATAAATTTAATTTAAATAA
6507581 ATATATATAT
1 ATATATATAT
6507591 CCGGCCCGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 11 0.26
37 1 0.02
38 30 0.71
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (36 bp):
ATATATATATAATATTAATAAATTTAATTTAAATAA
Found at i:6507608 original size:12 final size:12
Alignment explanation
Indices: 6507591--6507617 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6507581 ATATATATAT
6507591 CCGGCCCGATAC
1 CCGGCCCGATAC
6507603 CCGGCCCGATAC
1 CCGGCCCGATAC
6507615 CCG
1 CCG
6507618 TTTAAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.52, G:0.26, T:0.07
Consensus pattern (12 bp):
CCGGCCCGATAC
Found at i:6507756 original size:24 final size:25
Alignment explanation
Indices: 6507708--6507757 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6507698 AATCCCCGCA
* *
6507708 GTTTTTTAAGCGGGGACGAGTACGG
1 GTTTTTTAAACGGGGACGAGAACGG
6507733 GTTTTTTAAACGGGGACG-GAACGG
1 GTTTTTTAAACGGGGACGAGAACGG
6507757 G
1 G
6507758 GGACCAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.22, C:0.12, G:0.40, T:0.26
Consensus pattern (25 bp):
GTTTTTTAAACGGGGACGAGAACGG
Found at i:6510656 original size:22 final size:22
Alignment explanation
Indices: 6510631--6510678 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
6510621 AGGGAAGAGA
6510631 GAACGAGAGCGAGTTTAATAGG
1 GAACGAGAGCGAGTTTAATAGG
** *
6510653 GAACTCGAGTGAGTTTAATAGG
1 GAACGAGAGCGAGTTTAATAGG
6510675 GAAC
1 GAAC
6510679 TCGAGTGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.21
Consensus pattern (22 bp):
GAACGAGAGCGAGTTTAATAGG
Found at i:6510679 original size:22 final size:22
Alignment explanation
Indices: 6510641--6510685 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6510631 GAACGAGAGC
6510641 GAGTTTAATAGGGAACTCGAGT
1 GAGTTTAATAGGGAACTCGAGT
6510663 GAGTTTAATAGGGAACTCGAGT
1 GAGTTTAATAGGGAACTCGAGT
6510685 G
1 G
6510686 TGCCTCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.33, T:0.27
Consensus pattern (22 bp):
GAGTTTAATAGGGAACTCGAGT
Found at i:6511365 original size:21 final size:21
Alignment explanation
Indices: 6511331--6511370 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6511321 TACTTTGTTT
*
6511331 AAATAATCTAAAATTATTTAA
1 AAATAATCTAAAATAATTTAA
6511352 AAATAAATCT-AAATAATTT
1 AAAT-AATCTAAAATAATTT
6511371 TGATTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAATCTAAAATAATTTAA
Found at i:6518111 original size:14 final size:14
Alignment explanation
Indices: 6518103--6518129 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6518093 TATAATTTTT
6518103 TTATAATAATATAG
1 TTATAATAATATAG
6518117 TTATAATAATATA
1 TTATAATAATATA
6518130 CTTTTACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (14 bp):
TTATAATAATATAG
Found at i:6520311 original size:2 final size:2
Alignment explanation
Indices: 6520293--6520331 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
6520283 TGAATTTATC
* *
6520293 TA TA TT TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6520332 TAAAATTGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6527568 original size:21 final size:21
Alignment explanation
Indices: 6527541--6527604 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
6527531 TGTGATGTGT
6527541 TTATAAATTTTTTATTTAAAAA
1 TTATAAATTTTTT-TTTAAAAA
** *
6527563 TT-TAAATGAATTTTTTAAATA
1 TTATAAAT-TTTTTTTTAAAAA
*
6527584 TTATAAATTTTATTTTAAAAA
1 TTATAAATTTTTTTTTAAAAA
6527605 GTTACAGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTATAAATTTTTTTTTAAAAA
Found at i:6527985 original size:18 final size:18
Alignment explanation
Indices: 6527962--6527996 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6527952 TTTTTTATTG
6527962 AATAAAAATAATATTTTT
1 AATAAAAATAATATTTTT
* *
6527980 AATAAATATATTATTTT
1 AATAAAAATAATATTTT
6527997 GGGTTGAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAAAAATAATATTTTT
Found at i:6532786 original size:21 final size:23
Alignment explanation
Indices: 6532745--6532801 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
6532735 CAACTCGAAA
*
6532745 TAATAAAAA-ATATTATTTTTATT
1 TAATAAAAATA-ATTATTTTAATT
6532768 TAATAAAAATAATTA-TTTAATT
1 TAATAAAAATAATTATTTTAATT
*
6532790 GAA-AAAAATAAT
1 TAATAAAAATAAT
6532802 ATATAGAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 9 0.29
22 8 0.26
23 13 0.42
24 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAAATAATTATTTTAATT
Found at i:6532797 original size:22 final size:22
Alignment explanation
Indices: 6532749--6532801 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
6532739 TCGAAATAAT
* *
6532749 AAAAAAT-ATTATTTTTATTTA
1 AAAAAATAATTATTTTAATTGA
6532770 ATAAAAATAATTA-TTTAATTGA
1 A-AAAAATAATTATTTTAATTGA
6532792 AAAAAATAAT
1 AAAAAATAAT
6532802 ATATAGAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.36
22 14 0.50
23 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAAAATAATTATTTTAATTGA
Found at i:6539650 original size:29 final size:29
Alignment explanation
Indices: 6539608--6539665 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
6539598 TCCTTGGGGG
6539608 ACCTTTCCTTAAATTCGTGATTAATCCTT
1 ACCTTTCCTTAAATTCGTGATTAATCCTT
6539637 ACCTTTCCTTAAATTCGTGATTAATCCTT
1 ACCTTTCCTTAAATTCGTGATTAATCCTT
6539666 GCCGGTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (29 bp):
ACCTTTCCTTAAATTCGTGATTAATCCTT
Found at i:6539678 original size:29 final size:29
Alignment explanation
Indices: 6539612--6539678 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
6539602 TGGGGGACCT
* *
6539612 TTCCTTAAATTCGTGATTAATCCTTACCT
1 TTCCATAAATTCGTGATTAATCCTTACCG
* *
6539641 TTCCTTAAATTCGTGATTAATCCTTGCCGG
1 TTCCATAAATTCGTGATTAATCCTTACC-G
6539671 TT-CATAAA
1 TTCCATAAA
6539679 AGGAAACTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 32 0.94
30 2 0.06
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.42
Consensus pattern (29 bp):
TTCCATAAATTCGTGATTAATCCTTACCG
Found at i:6539800 original size:2 final size:2
Alignment explanation
Indices: 6539795--6539834 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6539785 TGACACTTAA
6539795 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
6539835 GGCAGAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6542019 original size:31 final size:31
Alignment explanation
Indices: 6541966--6542033 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
6541956 TCAAAAAACA
* * * *
6541966 TAAGTTTTGGTCACTTATGTTATTACTTTAT
1 TAAGTTATAGTCACTTACGTTATCACTTTAT
* **
6541997 TAAGTTATAGTCACTTGCGTTATCGTTTTAT
1 TAAGTTATAGTCACTTACGTTATCACTTTAT
6542028 TAAGTT
1 TAAGTT
6542034 TTGATCACTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (31 bp):
TAAGTTATAGTCACTTACGTTATCACTTTAT
Found at i:6546074 original size:35 final size:35
Alignment explanation
Indices: 6546035--6546146 Score: 113
Period size: 35 Copynumber: 3.2 Consensus size: 35
6546025 CTTAATTTGA
6546035 ATTAAATATTTAATGTATTGAATATCGATAATTGT
1 ATTAAATATTTAATGTATTGAATATCGATAATTGT
* * * * *
6546070 ATTAAAAATTATATTTTTATTGAGCTAT---TAATTTGA
1 ATTAAATATT-TA-ATGTATTGA-ATATCGATAA-TTGT
*
6546106 ATTAAATATTTAATGTATTGAAAATCGATAATTGT
1 ATTAAATATTTAATGTATTGAATATCGATAATTGT
6546141 ATTAAA
1 ATTAAA
6546147 ATAATTTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
33 2 0.03
34 7 0.12
35 23 0.39
36 17 0.29
37 7 0.12
38 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.46
Consensus pattern (35 bp):
ATTAAATATTTAATGTATTGAATATCGATAATTGT
Found at i:6546149 original size:36 final size:35
Alignment explanation
Indices: 6546038--6546149 Score: 97
Period size: 36 Copynumber: 3.1 Consensus size: 35
6546028 AATTTGAATT
6546038 AAATATTTAATGTATTGAATATCGATAATTGTATTA
1 AAATATTTAATGTATTGAA-ATCGATAATTGTATTA
* * * * *
6546074 AAA-ATTATATTTTTATTG--AGCTATTAATTTGAATT-
1 AAATATT-TA-ATGTATTGAAATCGA-TAA-TTGTATTA
6546109 AAATATTTAATGTATTGAAAATCGATAATTGTATTA
1 AAATATTTAATGTATTG-AAATCGATAATTGTATTA
6546145 AAATA
1 AAATA
6546150 ATTTTTAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
34 9 0.16
35 17 0.30
36 22 0.39
37 9 0.16
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.45
Consensus pattern (35 bp):
AAATATTTAATGTATTGAAATCGATAATTGTATTA
Found at i:6547919 original size:15 final size:17
Alignment explanation
Indices: 6547899--6547939 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
6547889 AATAAAATAT
*
6547899 ATAAATATTAT-TTTA-
1 ATAAATATAATATTTAC
6547914 ATAAATATAATATTTAC
1 ATAAATATAATATTTAC
6547931 ATAAATATA
1 ATAAATATA
6547940 TTAATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 4 0.17
17 9 0.39
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAATATAATATTTAC
Found at i:6549459 original size:54 final size:54
Alignment explanation
Indices: 6549310--6549806 Score: 779
Period size: 54 Copynumber: 9.3 Consensus size: 54
6549300 TTCTATGGTT
* * * ** * * * **
6549310 TTGCACACGTAGTGTCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTC-TTAGG
*
6549365 TTGCACACATAGTGCCAAT--GGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
*
6549417 TTGCACACATAATGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
* *
6549471 CTGCACACATAGTGCCAATACGAAAATTCATAAACCTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
*
6549525 CTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
6549579 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
*
6549633 CTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATG-ATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
*
6549686 CTG--CACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
*
6549738 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTATTAGG
1 TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
*
6549792 TTGTACACATAGTGC
1 TTGCACACATAGTGC
6549807 TCATTCGGTA
Statistics
Matches: 417, Mismatches: 20, Indels: 11
0.93 0.04 0.02
Matches are distributed among these distances:
51 38 0.09
52 33 0.08
53 37 0.09
54 293 0.70
55 16 0.04
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
Found at i:6551330 original size:2 final size:2
Alignment explanation
Indices: 6551323--6551348 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6551313 AGAAAAATTA
6551323 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
6551349 CAAATTAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6558018 original size:15 final size:15
Alignment explanation
Indices: 6557998--6558027 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6557988 GACCGCGCAG
*
6557998 GGCCCCCAAAAAATA
1 GGCCCCAAAAAAATA
6558013 GGCCCCAAAAAAATA
1 GGCCCCAAAAAAATA
6558028 TATATATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.30, G:0.13, T:0.07
Consensus pattern (15 bp):
GGCCCCAAAAAAATA
Found at i:6559327 original size:32 final size:32
Alignment explanation
Indices: 6559291--6559359 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
6559281 CAATTGGGGA
* * *
6559291 GGATTTTTTAAAGGTGATGTTCGGATTGGATC
1 GGATTTTTTAAAGATGATATTCGGATCGGATC
* *
6559323 GGATTTTTTTAAGATGATATTCGGATCGGGTC
1 GGATTTTTTAAAGATGATATTCGGATCGGATC
6559355 GGATT
1 GGATT
6559360 CGGGTTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (32 bp):
GGATTTTTTAAAGATGATATTCGGATCGGATC
Found at i:6564390 original size:18 final size:18
Alignment explanation
Indices: 6564367--6564415 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
6564357 AAATTTTAAA
**
6564367 ATTAATTTAATTTATTCG
1 ATTAATTTAATTTAACCG
* *
6564385 ATTAATATGATTTAACCG
1 ATTAATTTAATTTAACCG
6564403 ATT-ATTTAATTTA
1 ATTAATTTAATTTA
6564416 GACTTAATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
ATTAATTTAATTTAACCG
Found at i:6565399 original size:21 final size:21
Alignment explanation
Indices: 6565356--6565448 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
6565346 TTTTCCCAAT
** *
6565356 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
*
6565376 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
** *
6565397 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTGGGAAAA
*
6565417 TCGCAATGTGAATTGGGAAAA
1 TCGCAATGCGAATTGGGAAAA
6565438 TCGCAATGCGA
1 TCGCAATGCGA
6565449 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTGGGAAAA
Found at i:6565462 original size:20 final size:20
Alignment explanation
Indices: 6565437--6565551 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
6565427 AATTGGGAAA
*
6565437 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
6565457 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
6565478 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
6565498 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
6565518 TTCGCAACGCTATTCTGACT
1 ATCGCAACGCGATACTGACT
*
6565538 TTCGCAACGCGATA
1 ATCGCAACGCGATA
6565552 ATACATAATC
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 63 0.82
21 14 0.18
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:6565465 original size:41 final size:41
Alignment explanation
Indices: 6565356--6565448 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
6565346 TTTTCCCAAT
*
6565356 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
*
6565397 TCGCAATGCGAATAAGTAAATCGCAATGTGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
6565438 TCGCAATGCGA
1 TCGCAATGCGA
6565449 TACTGACTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAATGCGAATTGGGAAAA
Found at i:6565479 original size:41 final size:41
Alignment explanation
Indices: 6565434--6565571 Score: 134
Period size: 41 Copynumber: 3.4 Consensus size: 41
6565424 GTGAATTGGG
* * *
6565434 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* * * *
6565475 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACT-G
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
*** * * *
6565515 ACTTTCGCAACGCTATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* *
6565556 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
6565572 TTTCAAAGCG
Statistics
Matches: 75, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
40 31 0.41
41 44 0.59
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
Found at i:6566081 original size:20 final size:20
Alignment explanation
Indices: 6566058--6566100 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
6566048 GATAGTCGAA
6566058 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
6566078 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
6566098 TTC
1 TTC
6566101 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:6567426 original size:17 final size:18
Alignment explanation
Indices: 6567401--6567444 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6567391 TCCACTTCGG
*
6567401 GAGCCATCA-CTCGCCCA
1 GAGCCATCACCTCACCCA
*
6567418 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
6567436 GAGCCATCA
1 GAGCCATCA
6567445 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.27, C:0.43, G:0.16, T:0.14
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:6567952 original size:20 final size:19
Alignment explanation
Indices: 6567918--6567983 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
6567908 TAGTTTACTT
*
6567918 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGACTA
*
6567937 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
6567957 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
6567976 TCGCAACG
1 TCGCAACG
6567984 ACAAAATTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:6568001 original size:33 final size:33
Alignment explanation
Indices: 6567956--6568043 Score: 142
Period size: 32 Copynumber: 2.7 Consensus size: 33
6567946 GGAAATGGCT
6567956 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
6567989 ATTGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
6568021 ATCGCAACGCAAAATGAAAATCG
1 ATCGCAATGCGAAATGAAAATCG
6568044 TAATGCGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 29 0.58
33 21 0.42
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:6568035 original size:13 final size:14
Alignment explanation
Indices: 6567972--6568035 Score: 67
Period size: 14 Copynumber: 4.4 Consensus size: 14
6567962 ATGCGAAATG
6567972 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
6567986 AAAATTGCAATGCGAA
1 AAAATCGCAA--CGAC
6568002 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
6568018 AAAATCGCAACG-C
1 AAAATCGCAACGAC
6568031 AAAAT
1 AAAAT
6568036 GAAAATCGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
13 6 0.14
14 20 0.48
16 8 0.19
18 8 0.19
ACGTcount: A:0.50, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:6568070 original size:18 final size:17
Alignment explanation
Indices: 6568047--6568105 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
6568037 AAAATCGTAA
6568047 TGCGATTTGTGTTCGCGT
1 TGCGATTT-TGTTCGCGT
6568065 TGCGATTTTG-T--CGT
1 TGCGATTTTGTTCGCGT
6568079 TGCGATTTCAT-TTCGCGT
1 TGCGATTT--TGTTCGCGT
6568097 TGCGATTTT
1 TGCGATTTT
6568106 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.31
16 4 0.11
17 2 0.06
18 19 0.53
ACGTcount: A:0.08, C:0.17, G:0.27, T:0.47
Consensus pattern (17 bp):
TGCGATTTTGTTCGCGT
Found at i:6568091 original size:19 final size:19
Alignment explanation
Indices: 6568076--6568179 Score: 111
Period size: 19 Copynumber: 5.4 Consensus size: 19
6568066 GCGATTTTGT
6568076 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
6568094 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
6568113 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
6568133 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
6568152 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
6568172 TGTTGCGA
1 CGTTGCGA
6568180 AAGTAAACTA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 8 0.11
19 36 0.49
20 29 0.40
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:6568137 original size:39 final size:38
Alignment explanation
Indices: 6568087--6568160 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
6568077 GTTGCGATTT
**
6568087 CATTTCGCGTTGCGATTTTCATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
*
6568125 CATTTCCGCGTTGCGATAGTCATTTCGCGTTGCGAT
1 CATTT-CGCGTTGCGATAGTCATTTCGCATTGCGAT
6568161 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (38 bp):
CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
Found at i:6569325 original size:20 final size:20
Alignment explanation
Indices: 6569300--6569337 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6569290 TCTTTTGGTT
6569300 GAAATGAAAATCGCAACGCG
1 GAAATGAAAATCGCAACGCG
**
6569320 GAAATGACTATCGCAACG
1 GAAATGAAAATCGCAACG
6569338 AGAGAATCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
GAAATGAAAATCGCAACGCG
Found at i:6569360 original size:33 final size:33
Alignment explanation
Indices: 6569308--6569403 Score: 129
Period size: 33 Copynumber: 2.9 Consensus size: 33
6569298 TTGAAATGAA
* *
6569308 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGACTATCGCAACCAGAC
* *
6569342 AATCGCAATGCGAAATGACTATCGCGACCAGAC
1 AATCGCAACGCGAAATGACTATCGCAACCAGAC
**
6569375 AATCGCAACGCGAAATGAAAATCGCAACC
1 AATCGCAACGCGAAATGACTATCGCAACC
6569404 GCGAAATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
33 44 0.81
34 10 0.19
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACCAGAC
Found at i:6569408 original size:20 final size:19
Alignment explanation
Indices: 6569375--6569445 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
6569365 GCGACCAGAC
*
6569375 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATAAA
6569394 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATAAA
6569414 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
*
6569433 AATCGCAATGCGA
1 AATCGCAACGCGA
6569446 TTTTTGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 31 0.63
20 18 0.37
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:6569524 original size:20 final size:19
Alignment explanation
Indices: 6569441--6569525 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 19
6569431 AAAATCGCAA
*
6569441 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
6569460 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
6569479 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
6569493 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
6569513 TGCGATTTTTATT
1 TGCGATTTTTATT
6569526 CTCAAAACTA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
14 10 0.19
16 3 0.06
17 3 0.06
19 22 0.42
20 15 0.28
ACGTcount: A:0.11, C:0.16, G:0.22, T:0.51
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:6570058 original size:20 final size:20
Alignment explanation
Indices: 6570033--6570085 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6570023 GCGCTATGTA
*
6570033 AATCGCGTTGCGAAAGTTAG
1 AATCGCGTTGCGAAAGTCAG
*
6570053 AATCGCGTTACGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
6570073 TATCTCGTTGCGA
1 AATCGCGTTGCGA
6570086 TTTTGTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:6570238 original size:21 final size:21
Alignment explanation
Indices: 6570199--6570238 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6570189 TTGTATACCT
**
6570199 TCGCAACGCGATTTCCAACTA
1 TCGCAACGCGAAATCCAACTA
*
6570220 TCGCAACGCGAAATGCAAC
1 TCGCAACGCGAAATCCAAC
6570239 ACGAATTTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAAATCCAACTA
Found at i:6576137 original size:2 final size:2
Alignment explanation
Indices: 6576130--6576158 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6576120 CATGTAAGTT
6576130 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6576159 GTTTGTGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6576832 original size:2 final size:2
Alignment explanation
Indices: 6576825--6576854 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6576815 AAAATATTTA
6576825 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
6576855 TCTCAAGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6581182 original size:27 final size:27
Alignment explanation
Indices: 6581117--6581182 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
6581107 AAAATAGTGA
*
6581117 TGAATGATTCAACACAGAAGTACATTC
1 TGAATGATTCAGCACAGAAGTACATTC
6581144 TGAATGATTCAGCACAGAAGTACATTC
1 TGAATGATTCAGCACAGAAGTACATTC
6581171 TGAATGATTCAG
1 TGAATGATTCAG
6581183 AGCCATTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (27 bp):
TGAATGATTCAGCACAGAAGTACATTC
Found at i:6581256 original size:15 final size:15
Alignment explanation
Indices: 6581236--6581268 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6581226 AGGGTATTTA
6581236 AATCATTCAGCGTTT
1 AATCATTCAGCGTTT
*
6581251 AATCATTCAGTGTTT
1 AATCATTCAGCGTTT
6581266 AAT
1 AAT
6581269 TATTATGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (15 bp):
AATCATTCAGCGTTT
Found at i:6582596 original size:17 final size:17
Alignment explanation
Indices: 6582550--6582596 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
6582540 TATTCTTTAT
*
6582550 TTTTTAAAACA-AAATA
1 TTTTTAAAATATAAATA
*
6582566 TTATTTAAATATATATATA
1 TT-TTTAAA-ATATAAATA
6582585 TTTTTAAAATAT
1 TTTTTAAAATAT
6582597 GAACGTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.08
17 10 0.38
18 8 0.31
19 6 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTTAAAATATAAATA
Found at i:6583056 original size:19 final size:20
Alignment explanation
Indices: 6583007--6583056 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
6582997 TATCGTAACA
*
6583007 ATACATTTTTCAAACTCTCGC
1 ATACATTTTT-AAACTATCGC
*
6583028 A-ACACATTTT-AACTATCGC
1 ATACA-TTTTTAAACTATCGC
6583047 ATACATTTTT
1 ATACATTTTT
6583057 TAAAATCGCG
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
19 13 0.54
20 6 0.25
21 5 0.21
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (20 bp):
ATACATTTTTAAACTATCGC
Found at i:6583059 original size:20 final size:20
Alignment explanation
Indices: 6583007--6583059 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
6582997 TATCGTAACA
* *
6583007 ATACATTTTTCAAACTCTCGC
1 ATACATTTTT-TAACTATCGC
**
6583028 A-ACACATTTTAACTATCGC
1 ATACATTTTTTAACTATCGC
6583047 ATACATTTTTTAA
1 ATACATTTTTTAA
6583060 AATCGCGTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (20 bp):
ATACATTTTTTAACTATCGC
Found at i:6584117 original size:14 final size:13
Alignment explanation
Indices: 6584093--6584145 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
6584083 TGATTTTTCG
*
6584093 GAAATTGAATTCT
1 GAAAATGAATTCT
*
6584106 AAAAAATGAATTACT
1 -GAAAATGAATT-CT
*
6584121 GAAAATGAATTAT
1 GAAAATGAATTCT
6584134 GGAAAATGAATT
1 -GAAAATGAATT
6584146 ACATTTCTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.91
15 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (13 bp):
GAAAATGAATTCT
Found at i:6584146 original size:14 final size:14
Alignment explanation
Indices: 6584108--6584147 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
6584098 TGAATTCTAA
6584108 AAAATGAATTACTG
1 AAAATGAATTACTG
6584122 AAAATGAATTA-TGG
1 AAAATGAATTACT-G
6584136 AAAATGAATTAC
1 AAAATGAATTAC
6584148 ATTTCTGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 1 0.04
14 23 0.96
ACGTcount: A:0.53, C:0.05, G:0.15, T:0.28
Consensus pattern (14 bp):
AAAATGAATTACTG
Found at i:6584333 original size:19 final size:20
Alignment explanation
Indices: 6584311--6584356 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
6584301 ATTAAATACA
6584311 ATAAA-TAATATTATTTATC
1 ATAAACTAATATTATTTATC
6584330 ATAAAACTTAATATTATTTATC
1 AT-AAAC-TAATATTATTTATC
6584352 ATAAA
1 ATAAA
6584357 ACTTAGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
20 3 0.12
21 3 0.12
22 16 0.67
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
ATAAACTAATATTATTTATC
Found at i:6584369 original size:22 final size:22
Alignment explanation
Indices: 6584316--6584369 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
6584306 ATACAATAAA
*
6584316 TAATATTATTTATCATAAAACT
1 TAATAGTATTTATCATAAAACT
*
6584338 TAATATTATTTATCATAAAACT
1 TAATAGTATTTATCATAAAACT
*
6584360 TAGTAGTATT
1 TAATAGTATT
6584370 AAATATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (22 bp):
TAATAGTATTTATCATAAAACT
Found at i:6584370 original size:25 final size:22
Alignment explanation
Indices: 6584316--6584361 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6584306 ATACAATAAA
6584316 TAATATTATTTATCATAAAACT
1 TAATATTATTTATCATAAAACT
6584338 TAATATTATTTATCATAAAACT
1 TAATATTATTTATCATAAAACT
6584360 TA
1 TA
6584362 GTAGTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATATTATTTATCATAAAACT
Found at i:6584434 original size:33 final size:30
Alignment explanation
Indices: 6584370--6584439 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 30
6584360 TAGTAGTATT
* *
6584370 AAATATT-ATTTTTATAATTTTATTAATAA
1 AAATATTAATATTGATAATTTTATTAATAA
6584399 AAATATTAATATTGATATATTTTATTGAAATAA
1 AAATATTAATATTGATA-ATTTTATT--AATAA
6584432 AAATATTA
1 AAATATTA
6584440 TAAATTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.20
30 7 0.20
31 8 0.23
33 13 0.37
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
AAATATTAATATTGATAATTTTATTAATAA
Found at i:6584530 original size:23 final size:23
Alignment explanation
Indices: 6584481--6584531 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
6584471 GTGTTATATT
**
6584481 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
6584504 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
6584527 ATATT
1 ATATT
6584532 ATTATATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:6586581 original size:37 final size:37
Alignment explanation
Indices: 6586540--6586623 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 37
6586530 TACATACATT
** *
6586540 CATACATCTAGGCTTCTACATCTTCACCTAAATATTG
1 CATACATCTAGGCTTCTACATCCCCACCTAAATATCG
* *
6586577 CATACATCTAGGCTTCTCCATCCCCACCTATATATCG
1 CATACATCTAGGCTTCTACATCCCCACCTAAATATCG
*
6586614 CAAACATCTA
1 CATACATCTA
6586624 CATACATACA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.30, C:0.32, G:0.07, T:0.31
Consensus pattern (37 bp):
CATACATCTAGGCTTCTACATCCCCACCTAAATATCG
Found at i:6587456 original size:28 final size:31
Alignment explanation
Indices: 6587400--6587457 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 31
6587390 TTAAATTTTA
*
6587400 AATTTAAATTCATAAAAGATGGATACAATTT
1 AATTTAAATTCATAAAAGATCGATACAATTT
*
6587431 AATTT-AATTCA-AAAA-ATCGATTCAATT
1 AATTTAAATTCATAAAAGATCGATACAATT
6587458 CGACTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 4 0.16
30 6 0.24
31 5 0.20
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (31 bp):
AATTTAAATTCATAAAAGATCGATACAATTT
Found at i:6587884 original size:2 final size:2
Alignment explanation
Indices: 6587879--6587915 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6587869 AAAAATATGA
6587879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6587916 CATGATTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6588544 original size:14 final size:14
Alignment explanation
Indices: 6588525--6588554 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6588515 TACTTTCATC
6588525 AATATTTTCCTTTA
1 AATATTTTCCTTTA
*
6588539 AATATTTTCTTTTA
1 AATATTTTCCTTTA
6588553 AA
1 AA
6588555 AATTAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (14 bp):
AATATTTTCCTTTA
Found at i:6588774 original size:744 final size:713
Alignment explanation
Indices: 6587441--6588912 Score: 2407
Period size: 744 Copynumber: 2.0 Consensus size: 713
6587431 AATTTAATTC
6587441 AAAAAATCGATTCAATTCGACTTTAAAAAATTCGAATAAAATTTGAATGATATAATATGACTCAA
1 AAAAAATCGATTCAATTCGACTTTAAAAAATTCGAATAAAATTTGAATGATATAATATGACTCAA
*
6587506 TTAAACTATCTCTGATTTTTTTAACTCAAATCAACTCAACTGGCCCGAATATTCTTCTATAATTC
66 TTAAACTATCTCTGATTTTTTTAACTCAAATCAACTCAACTGACCCGAATATTCTTCTATAATTC
6587571 TCATATCCCTAATTCCTCTGACATTTTAATTTAAATCTATTTGATCAAATTCAAATCATAAAACC
131 TCATATCCCTAATTCCTCTGACATTTTAATTTAAATCTATTTGATCAAATTCAAATCATAAAACC
6587636 GCTAACACTATCAAATATTATGCATTGAGTTCTCATTCCAACAACAAATTTACTCTTACAATTAA
196 GCTAACACTATCAAATATTATGCATTGAGTTCTCATTCCAACAACAAATTTACTCTTACAATTAA
*
6587701 TCTCTCACTTGTATTCTTATGATTCAAATTTAATCTTTTATAATTCCACCTTTTCATCTATCATT
261 TCTCTCACTTGTATTCTTATGATACAAATTTAATCTTTTATAATTCCACCTTTTCATCTATCATT
6587766 TAACTCATTATACTTTCATCAATATTTTTCTTTTAAAAATTAAAGTTTAAATAAATTTATAATTT
326 TAACTCATTATACTTTCATCAATATTTTTCTTTTAAAAATTAAAGTTTAAATAAATTTATAATTT
6587831 TAAATGATAATTAATTTATTAAATAATATTGTAACATAAAAAATATGAATATATATATATATATA
391 TAAATGATAATTAATTTATTAAATAATATTGTAACATAAAAAATATG-------A-ATATATATA
6587896 TATATATATATATATATATACATGATTACAAAATTTATTAAATTAAATCAATCAATAGTATAAAT
448 TATATATATATATATATATACATGATTACAAAATTTATTAAATTAAATCAATCAATAGTATAAAT
6587961 ATTTACAATAAAAACACAACTTAAGAAAAATCTTAATAAGACATTTTACTCAATTAATTCAAAAA
513 ATTTACAATAAAAACACAACTTAAGAAAAATCTTAATAAGACATTTTACTCAATTAATTC--AAA
6588026 AAAAAACTTTAACTCGAGTCGATCGAATC-TGAAACCTATAATTCAGTCCATAGAAATACGATGC
576 AAAAAACTTTAACTCGAGTCGATCGAATCTTGAAACCTATAATTCAGTCCATAGAAATACGATGC
*
6588090 ATATACAAATGATAACTTAAA-CCATATT-AAAATGTACCAACAGTCTAGTGAGATGAAGCATTA
641 ATATACAAATGATAACTTAAACCCATATTAAAAATGTACCAACAATCTAGTGAGATGAAGCATTA
6588153 AGTTCCTT
706 AGTTCCTT
6588161 AAAAAATCGATTCAATTCGACTTTAAAAAATTCGAATAAAATTTGAATGATATAATATGACTTGT
1 AAAAAATCGATTCAATTCGACTTTAAAAAATTCGAATAAAATTTGAATGATATAATATGAC---T
*
6588226 CAATTAAACTATCTCTGAATTTTTTTAACTCGAATCAACTCAACTGACCCGAATATTCTTCTATA
63 CAATTAAACTATCTCTG-ATTTTTTTAACTCAAATCAACTCAACTGACCCGAATATTCTTCTATA
6588291 ATTTCTCATATCCCTAATTCCTCTGACATTTTAAATTTAAATCTATTTTGATCAAATTCAAATCA
127 A-TTCTCATATCCCTAATTCCTCTGACATTTT-AATTTAAATCTA-TTTGATCAAATTCAAATCA
*
6588356 TATAAACCGCTAACACTATCAAATATTTATGTCATTTTAGTTCTCATTCCAACAACAAATTTACT
189 TA-AAACCGCTAACACTATCAAATA-TTATG-CA-TTGAGTTCTCATTCCAACAACAAATTTACT
6588421 CTTTACAATTTAATCTCTCAACTTTGTATTCATTATGATACAAATATTAATCTTTTATAAATTCC
250 C-TTACAA-TTAATCTCTC-AC-TTGTATTC-TTATGATACAAAT-TTAATCTTTTAT-AATTCC
6588486 ACCTTTTCATCTATCATTTAACTCATTTATACTTTCATCAATATTTTCCTTTAAATATTTTCTTT
308 ACCTTTTCATCTATCATTTAACTCA-TTATACTTTCATC-A-A--------T--AT-TTTTCTTT
6588551 TAAAAATTAAAGTTTTAAATAAATTTTATAATTTTAAATGATAATTAATTTATTAAATAATATTG
359 TAAAAATTAAAG-TTTAAATAAA-TTTATAATTTTAAATGATAATTAATTTATTAAATAATATTG
6588616 TAACATAAAAAATATG-A-ATATATATATATATATATATATA-ATACATGATTACAAAATATTAT
422 TAACATAAAAAATATGAATATATATATATATATATATATATATATACATGATTACAAAAT-TTAT
6588678 TAAATTAAATCAATCAATAGTATAAATATTTACAATAAAAACACAACTTAAGAAAAATCTTAAAA
486 TAAATTAAATCAATCAATAGTATAAATATTTACAATAAAAACACAACTTAAGAAAAATCTT--AA
6588743 TAAGACATTTTAACTCAATTAATTCAAAAAAAAACTTTAACTCGAGTCGATCGAATCTTGAAACC
549 TAAGACATTTT-ACTCAATTAATTCAAAAAAAAACTTTAACTCGAGTCGATCGAATCTTGAAACC
6588808 TATAATTCAGTCCATAGAAATACGATGCATATACAAATGATAACTTAAACCCATATTAGAAAAAT
613 TATAATTCAGTCCATAGAAATACGATGCATATACAAATGATAACTTAAACCCATATT--AAAAAT
6588873 GTACCAACAATCTAGTGAGATGAAGCATTAAGTTCCTT
676 GTACCAACAATCTAGTGAGATGAAGCATTAAGTTCCTT
6588911 AA
1 AA
6588913 GCAAGGTCAA
Statistics
Matches: 704, Mismatches: 5, Indels: 56
0.92 0.01 0.07
Matches are distributed among these distances:
720 61 0.09
723 18 0.03
724 46 0.07
725 30 0.04
726 12 0.02
727 21 0.03
728 22 0.03
729 5 0.01
730 2 0.00
731 30 0.04
732 6 0.01
733 10 0.01
734 2 0.00
735 8 0.01
736 12 0.02
737 12 0.02
738 31 0.04
739 13 0.02
740 1 0.00
741 1 0.00
743 17 0.02
744 88 0.12
745 33 0.05
746 69 0.10
747 20 0.03
749 1 0.00
750 44 0.06
751 2 0.00
752 20 0.03
753 10 0.01
754 57 0.08
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (713 bp):
AAAAAATCGATTCAATTCGACTTTAAAAAATTCGAATAAAATTTGAATGATATAATATGACTCAA
TTAAACTATCTCTGATTTTTTTAACTCAAATCAACTCAACTGACCCGAATATTCTTCTATAATTC
TCATATCCCTAATTCCTCTGACATTTTAATTTAAATCTATTTGATCAAATTCAAATCATAAAACC
GCTAACACTATCAAATATTATGCATTGAGTTCTCATTCCAACAACAAATTTACTCTTACAATTAA
TCTCTCACTTGTATTCTTATGATACAAATTTAATCTTTTATAATTCCACCTTTTCATCTATCATT
TAACTCATTATACTTTCATCAATATTTTTCTTTTAAAAATTAAAGTTTAAATAAATTTATAATTT
TAAATGATAATTAATTTATTAAATAATATTGTAACATAAAAAATATGAATATATATATATATATA
TATATATATATACATGATTACAAAATTTATTAAATTAAATCAATCAATAGTATAAATATTTACAA
TAAAAACACAACTTAAGAAAAATCTTAATAAGACATTTTACTCAATTAATTCAAAAAAAAACTTT
AACTCGAGTCGATCGAATCTTGAAACCTATAATTCAGTCCATAGAAATACGATGCATATACAAAT
GATAACTTAAACCCATATTAAAAATGTACCAACAATCTAGTGAGATGAAGCATTAAGTTCCTT
Found at i:6597600 original size:21 final size:24
Alignment explanation
Indices: 6597545--6597610 Score: 105
Period size: 24 Copynumber: 2.7 Consensus size: 24
6597535 ATAAAATTTT
*
6597545 AAAAATAATATACTTTATTATTTAG
1 AAAAATAATAT-TTTTATTATTTAG
*
6597570 AAAAATAATATTTTTATTATTTGG
1 AAAAATAATATTTTTATTATTTAG
6597594 AAAAATAATATTTTTAT
1 AAAAATAATATTTTTAT
6597611 AAAAACATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 28 0.72
25 11 0.28
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (24 bp):
AAAAATAATATTTTTATTATTTAG
Found at i:6598226 original size:3 final size:3
Alignment explanation
Indices: 6598218--6598243 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6598208 GAATTGGGTT
6598218 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
6598244 AAGAATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:6600131 original size:23 final size:23
Alignment explanation
Indices: 6600105--6600173 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
6600095 CACCAAAATG
*
6600105 CAGAGAAAAACATATCAAAAAGA
1 CAGAGATAAACATATCAAAAAGA
* * *
6600128 CAGAGATAAACGTGTCATAAAGA
1 CAGAGATAAACATATCAAAAAGA
* * *
6600151 TAAAGATAAACATATCACAAAGA
1 CAGAGATAAACATATCAAAAAGA
6600174 TAGAATTATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.58, C:0.13, G:0.14, T:0.14
Consensus pattern (23 bp):
CAGAGATAAACATATCAAAAAGA
Found at i:6600735 original size:13 final size:13
Alignment explanation
Indices: 6600717--6600741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6600707 ACTTTTGTTT
6600717 TTATTTAATTAGG
1 TTATTTAATTAGG
6600730 TTATTTAATTAG
1 TTATTTAATTAG
6600742 TTTGTGATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATTTAATTAGG
Found at i:6609662 original size:169 final size:169
Alignment explanation
Indices: 6609383--6609720 Score: 676
Period size: 169 Copynumber: 2.0 Consensus size: 169
6609373 TTGAGCATAG
6609383 ACAGTCCTTGGTCCTGCAAGTAGCTTACACGACTCCACATTTCCTTGTCAAGCTTGATGGTTAAG
1 ACAGTCCTTGGTCCTGCAAGTAGCTTACACGACTCCACATTTCCTTGTCAAGCTTGATGGTTAAG
6609448 GCTCCAATGTCTTTTCGATTACCTTTTAAGCGGTTCAGTAAATCGATATTCTCATGTCGAAGAGA
66 GCTCCAATGTCTTTTCGATTACCTTTTAAGCGGTTCAGTAAATCGATATTCTCATGTCGAAGAGA
6609513 ATCAACTTCATGCCTACAACACTCCACTTCCCTTCTTAA
131 ATCAACTTCATGCCTACAACACTCCACTTCCCTTCTTAA
6609552 ACAGTCCTTGGTCCTGCAAGTAGCTTACACGACTCCACATTTCCTTGTCAAGCTTGATGGTTAAG
1 ACAGTCCTTGGTCCTGCAAGTAGCTTACACGACTCCACATTTCCTTGTCAAGCTTGATGGTTAAG
6609617 GCTCCAATGTCTTTTCGATTACCTTTTAAGCGGTTCAGTAAATCGATATTCTCATGTCGAAGAGA
66 GCTCCAATGTCTTTTCGATTACCTTTTAAGCGGTTCAGTAAATCGATATTCTCATGTCGAAGAGA
6609682 ATCAACTTCATGCCTACAACACTCCACTTCCCTTCTTAA
131 ATCAACTTCATGCCTACAACACTCCACTTCCCTTCTTAA
6609721 GGCCAATTCT
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 169 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (169 bp):
ACAGTCCTTGGTCCTGCAAGTAGCTTACACGACTCCACATTTCCTTGTCAAGCTTGATGGTTAAG
GCTCCAATGTCTTTTCGATTACCTTTTAAGCGGTTCAGTAAATCGATATTCTCATGTCGAAGAGA
ATCAACTTCATGCCTACAACACTCCACTTCCCTTCTTAA
Found at i:6617327 original size:6 final size:6
Alignment explanation
Indices: 6617318--6617343 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6617308 GAGTTCGAGT
6617318 CCATGC CCATGC CCATGC CCATGC CC
1 CCATGC CCATGC CCATGC CCATGC CC
6617344 TATTTATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.54, G:0.15, T:0.15
Consensus pattern (6 bp):
CCATGC
Found at i:6620270 original size:37 final size:37
Alignment explanation
Indices: 6620226--6620296 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
6620216 CCAGATATAT
6620226 ATTTAAATTAAATATATAAATATTATATATATATTTA
1 ATTTAAATTAAATATATAAATATTATATATATATTTA
* *
6620263 ATTTAAATTAAATTTATTAATATTATATATATAT
1 ATTTAAATTAAATATATAAATATTATATATATAT
6620297 ATATATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (37 bp):
ATTTAAATTAAATATATAAATATTATATATATATTTA
Found at i:6620322 original size:39 final size:37
Alignment explanation
Indices: 6620220--6620325 Score: 108
Period size: 37 Copynumber: 2.8 Consensus size: 37
6620210 ATCAGGCCAG
* * * *
6620220 ATATAT-ATTTAAATTAAATATATAAATATTATATAT
1 ATATATAATATAAAATAAATTTATTAATATTATATAT
* * *
6620256 ATATTTAATTTAAATTAAATTTATTAATATTATATAT
1 ATATATAATATAAAATAAATTTATTAATATTATATAT
6620293 ATATATATATATAAAATAATTATTT-TTAATATT
1 ATATATA-ATATAAAATAA--ATTTATTAATATT
6620326 TATCAGGCCT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
36 5 0.08
37 34 0.57
38 9 0.15
39 8 0.13
40 4 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (37 bp):
ATATATAATATAAAATAAATTTATTAATATTATATAT
Found at i:6623356 original size:2 final size:2
Alignment explanation
Indices: 6623300--6623339 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6623290 CCCGATTCAA
6623300 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
6623340 TTATTTGATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6625668 original size:48 final size:48
Alignment explanation
Indices: 6625597--6627006 Score: 1258
Period size: 48 Copynumber: 29.7 Consensus size: 48
6625587 GCCTTCTCGA
* * * ** * *
6625597 GAAAGTTATCAGAGCTCCGATAATCATCAACAGCAGCAGCAGTCTCAG
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
** * * * * * *
6625645 GAAAGTTATCAGAGTTTTGATAATGTTGAACAAAAGCATCAACCTAAA
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
*
6625693 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATC-GACCTAAG
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAG-CCTCAG
* *
6625741 GAAAGTTATCAGAGTTCCGACCATCTTCAACAACAGCATCAGCCTC-G
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* *
6625788 AGAAAGTTACCAGAGTTCCGATCATCTTCAACTAAAA-CATC-GACCTAAG
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAAC-AAAAGCATCAG-CCTCAG
* * *
6625837 GAAAGTTATCAGAGTTCCGACCATCTTCAACAACAGCATCAGTCTC-G
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * * * *
6625884 AGAAAGTTACCAGAGTTCTGATCATCCTCAACAAAAGTATC-GACCTAAG
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAG-CCTCAG
* * * * **
6625933 GAAAGTTATCAGAGTTCTGACCATTTTCAACAGCAA-CATCAATCTC-G
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACA-AAAGCATCAGCCTCAG
* *
6625980 AGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATC-GACCTAAG
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAG-CCTCAG
* * *
6626029 GAAAGTTATCAGAGTTCCGACCATCTTCAACAACAGCATCAGTCTC-G
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
** *
6626076 AGAAAGTTATCAGAGTTCCGGCCATCTTCAACAACAGCATCAGCCTC-G
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * *
6626124 AGAAAGTTACCAGAGTTCTGATCATCTTCAACAAAAGCATC-GACCTAAG
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAG-CCTCAG
* * *
6626173 GAAAGTTATCAGAGTTCCGACCATCTTCAACAACAGCATCAGTCTC-G
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * * * ** *
6626220 AGAAAGTTACCAAAGTTTCGACCATCTTCAACAGCAGCATCAGTCTC-G
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* *
6626268 AGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATC-GACCTAAG
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAG-CCTCAG
* *
6626317 GAAAGTTATCAGAGTTCCGACCATCTTCAACAACAGCATCAGCCTC-G
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * *
6626364 TGAAAGTTACCAGAGTTCTGATCATCTTCAACAAAAGCATC-GACCTAAG
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAG-CCTCAG
* * *
6626413 GAAAGTTATCAGAGTTCCGACCATCTTCAACAACAGCATCAGTCTC-G
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* *
6626460 AGAAAGTTACCAGAATTCCGATCATCTTCAACAAAAGCATC-GACCTCAG
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAG-CCTCAG
* * ** *
6626509 GAAAGTTATCAAAGTTCCGACCATCTTCAACAGCAGCATCAGTCTC-G
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * * *
6626556 AGAAAGTTACCAGAATTCTGATCATCTTCAACAAAAGCATCAGCCTAAG
1 -GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * * **
6626605 GAAAGTTATCAGAGTTCTGATAATCTTCAACAAAAGCATCAACCAAAG
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * *
6626653 GGAAGTTATCAGAGTTCCGATCATCTTCAAC--AA-CATCAGTCTCAA
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* ** * * *
6626698 GAAAGTTATCAGAGTTCTGAAAATCTTCAACAAAAACATCAACCTAAG
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * * * * * * * * *
6626746 GAAAGTTATCAAAATACTGATCAACTACAACAACAGTATCAGTCTCAA
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * * * *
6626794 GAAAGTTATCAGAATTCTGATAATCTTCAACAAAAGCATC-GACCTAAA
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAG-CCTCAG
** * * * * * *
6626842 GACTGTTATCCGAGTTCCGACCATCTTCAACAAGAGCATAAGCCCCGG
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
* * *
6626890 GAAAGTTATCAGAATTCCG------TTCAACAACAGCATCCA-CCTCAA
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCAT-CAGCCTCAG
* * * *
6626932 AAAAGTGATCAGAGTT-C--T-A-C-TCAACAAAAGCATCCGCTTCCA-
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCT-CAG
*
6626974 GAAAGTTATCGGAGTTCCGATCATCTTCAACAA
1 GAAAGTTATCAGAGTTCCGATCATCTTCAACAA
6627007 TGGCACCAGG
Statistics
Matches: 1111, Mismatches: 198, Indels: 106
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.00
42 56 0.05
43 4 0.00
45 35 0.03
46 3 0.00
47 23 0.02
48 967 0.87
49 21 0.02
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (48 bp):
GAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCAGCCTCAG
Found at i:6625773 original size:96 final size:96
Alignment explanation
Indices: 6625592--6626730 Score: 1399
Period size: 96 Copynumber: 11.9 Consensus size: 96
6625582 CATCGGCCTT
* * * * ** * * *
6625592 CTCGAGAAAGTTATCAGAGCTCCGATAATCATCAACAGCAGCAGC-AGTCTCAGGAAAGTTATCA
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCTAAGGAAAGTTATCA
** ** * * * *
6625656 GAGTTTTGATAATGTTGAACAAAAGCATCAAC
65 GAGTTCCGACCATCTTCAACAACAGCATCAGC
** *
6625688 CTAAAGAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
6625753 AGTTCCGACCATCTTCAACAACAGCATCAGC
66 AGTTCCGACCATCTTCAACAACAGCATCAGC
6625784 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACTAAAA-CATCGACCTAAGGAAAGTTATCA
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAAC-AAAAGCATCGACCTAAGGAAAGTTATCA
*
6625848 GAGTTCCGACCATCTTCAACAACAGCATCAGT
65 GAGTTCCGACCATCTTCAACAACAGCATCAGC
* * *
6625880 CTCGAGAAAGTTACCAGAGTTCTGATCATCCTCAACAAAAGTATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
* * * * **
6625945 AGTTCTGACCATTTTCAACAGCAACATCAAT
66 AGTTCCGACCATCTTCAACAACAGCATCAGC
6625976 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
*
6626041 AGTTCCGACCATCTTCAACAACAGCATCAGT
66 AGTTCCGACCATCTTCAACAACAGCATCAGC
* ** * * *
6626072 CTCGAGAAAGTTATCAGAGTTCCGGCCATCTTCAACAACAGCATC-AGCCT-CGAGAAAGTTACC
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCTAAG-GAAAGTTATC
* * *
6626135 AGAGTTCTGATCATCTTCAACAAAAGCATC-GAC
64 AGAGTTCCGACCATCTTCAACAACAGCATCAG-C
* * * * * * *
6626168 CT-AAGGAAAGTTATCAGAGTTCCGACCATCTTCAACAACAGCATC-AGTCT-CGAGAAAGTTAC
1 CTCGA-GAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCTAAG-GAAAGTTAT
* * * *
6626230 CAAAGTTTCGACCATCTTCAACAGCAGCATCAGT
63 CAGAGTTCCGACCATCTTCAACAACAGCATCAGC
6626264 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
6626329 AGTTCCGACCATCTTCAACAACAGCATCAGC
66 AGTTCCGACCATCTTCAACAACAGCATCAGC
* *
6626360 CTCGTGAAAGTTACCAGAGTTCTGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
*
6626425 AGTTCCGACCATCTTCAACAACAGCATCAGT
66 AGTTCCGACCATCTTCAACAACAGCATCAGC
* * *
6626456 CTCGAGAAAGTTACCAGAATTCCGATCATCTTCAACAAAAGCATCGACCTCAGGAAAGTTATCAA
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
* *
6626521 AGTTCCGACCATCTTCAACAGCAGCATCAGT
66 AGTTCCGACCATCTTCAACAACAGCATCAGC
* *
6626552 CTCGAGAAAGTTACCAGAATTCTGATCATCTTCAACAAAAGCATC-AGCCTAAGGAAAGTTATCA
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCTAAGGAAAGTTATCA
* ** * *
6626616 GAGTTCTGATAATCTTCAACAAAAGCATCAAC
65 GAGTTCCGACCATCTTCAACAACAGCATCAGC
** * * *
6626648 C-AAAGGGAAGTTATCAGAGTTCCGATCATCTTCAAC--AA-CATC-AGTCTCAA-GAAAGTTAT
1 CTCGA-GAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCT-AAGGAAAGTTAT
* **
6626707 CAGAGTTCTGAAAATCTTCAACAA
63 CAGAGTTCCGACCATCTTCAACAA
6626731 AAACATCAAC
Statistics
Matches: 933, Mismatches: 96, Indels: 31
0.88 0.09 0.03
Matches are distributed among these distances:
93 40 0.04
94 4 0.00
95 10 0.01
96 870 0.93
97 9 0.01
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (96 bp):
CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
AGTTCCGACCATCTTCAACAACAGCATCAGC
Found at i:6626906 original size:96 final size:96
Alignment explanation
Indices: 6625592--6626880 Score: 1387
Period size: 96 Copynumber: 13.5 Consensus size: 96
6625582 CATCGGCCTT
* * * * ** * * *
6625592 CTCGAGAAAGTTATCAGAGCTCCGATAATCATCAACAGCAGCAGC-AGTCTCAGGAAAGTTATCA
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCTAAGGAAAGTTATCA
* ** * * * *
6625656 GAGTTTTGATAATGTTGAACAAAAGCATCAAC
65 GAGTTCTGACCATCTTCAACAACAGCATCAGC
** *
6625688 CTAAAGAAAGTTATCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
*
6625753 AGTTCCGACCATCTTCAACAACAGCATCAGC
66 AGTTCTGACCATCTTCAACAACAGCATCAGC
6625784 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACTAAAA-CATCGACCTAAGGAAAGTTATCA
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAAC-AAAAGCATCGACCTAAGGAAAGTTATCA
* *
6625848 GAGTTCCGACCATCTTCAACAACAGCATCAGT
65 GAGTTCTGACCATCTTCAACAACAGCATCAGC
* * *
6625880 CTCGAGAAAGTTACCAGAGTTCTGATCATCCTCAACAAAAGTATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
* * * **
6625945 AGTTCTGACCATTTTCAACAGCAACATCAAT
66 AGTTCTGACCATCTTCAACAACAGCATCAGC
6625976 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
* *
6626041 AGTTCCGACCATCTTCAACAACAGCATCAGT
66 AGTTCTGACCATCTTCAACAACAGCATCAGC
* ** * * *
6626072 CTCGAGAAAGTTATCAGAGTTCCGGCCATCTTCAACAACAGCATC-AGCCT-CGAGAAAGTTACC
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCTAAG-GAAAGTTATC
* *
6626135 AGAGTTCTGATCATCTTCAACAAAAGCATC-GAC
64 AGAGTTCTGACCATCTTCAACAACAGCATCAG-C
* * * * * * *
6626168 CT-AAGGAAAGTTATCAGAGTTCCGACCATCTTCAACAACAGCATC-AGTCT-CGAGAAAGTTAC
1 CTCGA-GAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCTAAG-GAAAGTTAT
* * *
6626230 CAAAGTT-TCGACCATCTTCAACAGCAGCATCAGT
63 CAGAGTTCT-GACCATCTTCAACAACAGCATCAGC
6626264 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
*
6626329 AGTTCCGACCATCTTCAACAACAGCATCAGC
66 AGTTCTGACCATCTTCAACAACAGCATCAGC
* *
6626360 CTCGTGAAAGTTACCAGAGTTCTGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
* *
6626425 AGTTCCGACCATCTTCAACAACAGCATCAGT
66 AGTTCTGACCATCTTCAACAACAGCATCAGC
* * *
6626456 CTCGAGAAAGTTACCAGAATTCCGATCATCTTCAACAAAAGCATCGACCTCAGGAAAGTTATCAA
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
* * *
6626521 AGTTCCGACCATCTTCAACAGCAGCATCAGT
66 AGTTCTGACCATCTTCAACAACAGCATCAGC
* *
6626552 CTCGAGAAAGTTACCAGAATTCTGATCATCTTCAACAAAAGCATC-AGCCTAAGGAAAGTTATCA
1 CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCTAAGGAAAGTTATCA
** * *
6626616 GAGTTCTGATAATCTTCAACAAAAGCATCAAC
65 GAGTTCTGACCATCTTCAACAACAGCATCAGC
** * * *
6626648 C-AAAGGGAAGTTATCAGAGTTCCGATCATCTTCAAC--AA-CATC-AGTCTCAA-GAAAGTTAT
1 CTCGA-GAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCT-AAGGAAAGTTAT
** * * *
6626707 CAGAGTTCTGAAAATCTTCAACAAAAACATCAAC
63 CAGAGTTCTGACCATCTTCAACAACAGCATCAGC
* * * * * * * * * * *
6626741 CT-AAGGAAAGTTATCAAAATACTGATCAACTACAACAACAGTATC-AGTCTCAA-GAAAGTTAT
1 CTCGA-GAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGA-CCT-AAGGAAAGTTAT
* ** *
6626803 CAGAATTCTGATAATCTTCAACAAAAGCATC-GAC
63 CAGAGTTCTGACCATCTTCAACAACAGCATCAG-C
** ** * *
6626837 CTAAAGACTGTTATCC-GAGTTCCGACCATCTTCAACAAGAGCAT
1 CTCGAGAAAGTTA-CCAGAGTTCCGATCATCTTCAACAAAAGCAT
6626881 AAGCCCCGGG
Statistics
Matches: 1050, Mismatches: 120, Indels: 46
0.86 0.10 0.04
Matches are distributed among these distances:
93 77 0.07
94 4 0.00
95 12 0.01
96 945 0.90
97 12 0.01
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (96 bp):
CTCGAGAAAGTTACCAGAGTTCCGATCATCTTCAACAAAAGCATCGACCTAAGGAAAGTTATCAG
AGTTCTGACCATCTTCAACAACAGCATCAGC
Found at i:6629288 original size:48 final size:48
Alignment explanation
Indices: 6629031--6629464 Score: 393
Period size: 48 Copynumber: 9.1 Consensus size: 48
6629021 CAAGAGCCGG
* *
6629031 CAGCACCAGCCTCGGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
1 CAGCATCAGCCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
* * * * *
6629079 CATCATCAGACTCAAGAAGGTTATCAGAGTT-TGGATAATCTTCAACAA
1 CAGCATCAGCCTCAGGAAAGTTATCAGAGTTCT-GATCATCTTCAACAA
* * * * * *
6629127 AAGCATCTA-CCTAAGGAGAGTTGTCAGCGTTCTGGTCATCTTCAACAA
1 CAGCATC-AGCCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
* * * * *
6629175 GAGCAT-AGGTCTCAAGAAGGTTATCACAGTTC----CA-C-TCAACAA
1 CAGCATCA-GCCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
* * ***
6629217 CAGAATCGGGCTCCTCAGGAAAGTTATCAGAGTTCTGATCAAAGTCAACAA
1 CAGCATC-AG--CCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
* * * * *
6629268 CAACATCAGCCTCAGAAAAGTTATCAGAGTTTTGATCATCTTAAACTA
1 CAGCATCAGCCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
* * *
6629316 CAGCCTCAGCCTCGGGAAAGTTATCAGAGTTCTGATCATCTTCAACGA
1 CAGCATCAGCCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
**
6629364 CAGCATCAGCCTTGGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
1 CAGCATCAGCCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
* * * *
6629412 CAGCATC-GACCTAAGGGAAGTTATCAGAGTTCCGACCATCTTCAACAA
1 CAGCATCAG-CCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
*
6629460 TAGCA
1 CAGCA
6629465 GGCACCGGTT
Statistics
Matches: 309, Mismatches: 61, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
42 11 0.04
43 2 0.01
44 2 0.01
45 19 0.06
46 1 0.00
47 2 0.01
48 255 0.83
49 4 0.01
50 1 0.00
51 12 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (48 bp):
CAGCATCAGCCTCAGGAAAGTTATCAGAGTTCTGATCATCTTCAACAA
Found at i:6629389 original size:189 final size:189
Alignment explanation
Indices: 6629040--6629395 Score: 421
Period size: 189 Copynumber: 1.9 Consensus size: 189
6629030 GCAGCACCAG
* *** * *
6629040 CCTCGGGAAAGTTATCAGAGTTCTGATCATCTTCAACAACATCATCAGACTCAAGAAGGTTATCA
1 CCTCAGGAAAGTTATCAGAGTTCTGATCAAAGTCAACAACAACATCAGACTCAAGAAAGTTATCA
* * * * *
6629105 GAGTTTGGATAATCTTCAACAAAAGCATCTACCTAAGGAGAGTTGTCAGCGTTCTGGTCATCTTC
66 GAGTTTGGATAATCTTAAACAAAAGCATCTACCTAAGGAAAGTTATCAGAGTTCTGATCATCTTC
* * *
6629170 AACAAGAGCATAGGTCTCAAGAAGGTTATCACAGTTCCACTCAACAACAGAATCGGGCT
131 AACAACAGCATAGGCCTCAAGAAAGTTATCACAGTTCCACTCAACAACAGAATCGGGCT
*
6629229 CCTCAGGAAAGTTATCAGAGTTCTGATCAAAGTCAACAACAACATCAGCCTC-AGAAAAGTTATC
1 CCTCAGGAAAGTTATCAGAGTTCTGATCAAAGTCAACAACAACATCAGACTCAAG-AAAGTTATC
* * * * * **
6629293 AGAGTTTTGATCATCTTAAACTACAGCCTC-AGCCTCGGGAAAGTTATCAGAGTTCTGATCATCT
65 AGAGTTTGGATAATCTTAAACAAAAGCATCTA-CCTAAGGAAAGTTATCAGAGTTCTGATCATCT
* *** *
6629357 TCAACGACAGCATCA-GCCTTGGGAAAGTTATCAGAGTTC
129 TCAACAACAGCAT-AGGCCTCAAGAAAGTTATCACAGTTC
6629396 TGATCATCTT
Statistics
Matches: 137, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
188 3 0.02
189 133 0.97
190 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (189 bp):
CCTCAGGAAAGTTATCAGAGTTCTGATCAAAGTCAACAACAACATCAGACTCAAGAAAGTTATCA
GAGTTTGGATAATCTTAAACAAAAGCATCTACCTAAGGAAAGTTATCAGAGTTCTGATCATCTTC
AACAACAGCATAGGCCTCAAGAAAGTTATCACAGTTCCACTCAACAACAGAATCGGGCT
Found at i:6635953 original size:18 final size:18
Alignment explanation
Indices: 6635930--6635968 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6635920 TTTTCTTTTG
6635930 TTTTTATCTTTATTTTAT
1 TTTTTATCTTTATTTTAT
*
6635948 TTTTTATCTTTATTTTGT
1 TTTTTATCTTTATTTTAT
6635966 TTT
1 TTT
6635969 GGTTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTATCTTTATTTTAT
Found at i:6638764 original size:16 final size:17
Alignment explanation
Indices: 6638745--6638776 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6638735 TACTATCATA
6638745 ATATTAT-TTTTATATT
1 ATATTATATTTTATATT
6638761 ATATTATATTTTATAT
1 ATATTATATTTTATAT
6638777 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:6638911 original size:24 final size:22
Alignment explanation
Indices: 6638884--6638928 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6638874 AATAGTATAA
6638884 TCATTAAAATATTTTTATAAATTT
1 TCATTAAAATA--TTTATAAATTT
*
6638908 TCATTTAAATATTTATAAATT
1 TCATTAAAATATTTATAAATT
6638929 AATATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
24 10 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
TCATTAAAATATTTATAAATTT
Found at i:6643731 original size:40 final size:41
Alignment explanation
Indices: 6643647--6643738 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 41
6643637 ATATTGAATG
* * * *
6643647 GAGGTGGACATGAGTGTCTTATGGTTCAAGTGGGCATGTGT
1 GAGGTGGATATGAGTGTCTTATGGTTCAAGTAGGCACGTAT
6643688 GAGGTGGATATGAGTGT-TTATGGTTCAAGTAGGCACGTAT
1 GAGGTGGATATGAGTGTCTTATGGTTCAAGTAGGCACGTAT
6643728 GAGGTGGATAT
1 GAGGTGGATAT
6643739 AGTTTGGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 31 0.66
41 16 0.34
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.32
Consensus pattern (41 bp):
GAGGTGGATATGAGTGTCTTATGGTTCAAGTAGGCACGTAT
Found at i:6654041 original size:6 final size:6
Alignment explanation
Indices: 6654030--6654061 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
6654020 GACATCAGAA
6654030 TCGGAC TCGGAC TCGGAC TCGGAC TCGGAC TC
1 TCGGAC TCGGAC TCGGAC TCGGAC TCGGAC TC
6654062 ATGACGTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.34, G:0.31, T:0.19
Consensus pattern (6 bp):
TCGGAC
Found at i:6657459 original size:64 final size:64
Alignment explanation
Indices: 6657391--6657547 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 64
6657381 TTGAAGGTGT
* ***
6657391 ATCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAGAAACATCGAATGCA-ATTAGT
1 ATCGATGCATTAGTAATGCATCGATGCATC-CCAATAATAATA-AAACATCGAATGCATATTA-T
6657453 GC
63 GC
* * * *
6657455 ATCGATGCATAAGTCATGCATCGATGCATCCCAATAATAATACAACATCGAATGCATTTTATGC
1 ATCGATGCATTAGTAATGCATCGATGCATCCCAATAATAATAAAACATCGAATGCATATTATGC
* *
6657519 ACCGATGCATTAGTAGTGCATCGATGCAT
1 ATCGATGCATTAGTAATGCATCGATGCAT
6657548 ACCTTCATTA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
64 70 0.90
65 8 0.10
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (64 bp):
ATCGATGCATTAGTAATGCATCGATGCATCCCAATAATAATAAAACATCGAATGCATATTATGC
Found at i:6658036 original size:25 final size:25
Alignment explanation
Indices: 6658002--6658077 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
6657992 GGGTAGAGGG
*
6658002 TCTACGCGGTCCTTCGAGATAATAT
1 TCTACGCGGTCCTTCGGGATAATAT
*
6658027 TCTACGCGGTCCTTCGGGACAATAT
1 TCTACGCGGTCCTTCGGGATAATAT
6658052 TCTACGCGGTCCTTCGGGATATATAT
1 TCTACGCGGTCCTTCGGGATA-ATAT
6658078 ATATATATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 43 0.91
26 4 0.09
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (25 bp):
TCTACGCGGTCCTTCGGGATAATAT
Found at i:6658241 original size:23 final size:23
Alignment explanation
Indices: 6658197--6658241 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6658187 ATTATTATAT
*
6658197 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
6658220 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
6658242 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:6674569 original size:19 final size:19
Alignment explanation
Indices: 6674536--6674659 Score: 67
Period size: 17 Copynumber: 7.1 Consensus size: 19
6674526 TATTTTGCTT
*
6674536 AAAGAAGAAATAAAAGAGA
1 AAAGAAGAAAAAAAAGAGA
6674555 AAAGAAGAAAAAAAATGATG-
1 AAAGAAGAAAAAAAA-GA-GA
* * *
6674575 -ATGATGAAAAAAACGA-A
1 AAAGAAGAAAAAAAAGAGA
6674592 AAA-AAGAAAAAAAA-A-A
1 AAAGAAGAAAAAAAAGAGA
* *
6674608 GAAG-AG-AAAAAATG-GA
1 AAAGAAGAAAAAAAAGAGA
*
6674624 AAA-AA-AATAAAAAGAGA
1 AAAGAAGAAAAAAAAGAGA
*
6674641 AAA-ATG-AAAAAAAGAGA
1 AAAGAAGAAAAAAAAGAGA
6674658 AA
1 AA
6674660 TAAAAGGAGG
Statistics
Matches: 80, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
15 6 0.08
16 16 0.20
17 27 0.34
18 3 0.04
19 25 0.31
20 2 0.03
21 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.06
Consensus pattern (19 bp):
AAAGAAGAAAAAAAAGAGA
Done.