Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 138 of 160
Found at i:25850488 original size:179 final size:177
Alignment explanation
Indices: 25850200--25850763 Score: 784
Period size: 179 Copynumber: 3.2 Consensus size: 177
25850190 AAAAAAAATA
* *
25850200 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTCAAAAAATA-TTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAAATATTTTTT
25850262 AGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAGTTAAAATTTTTCAAAAAAATATTTTTGGGA
66 AGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAG-TAAAATTTTTCAAAAAAATATTTTTGGG-
25850327 AAAAGTTGGAAGTATAAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGT
128 AAAAGTTGGAAGTATAAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGT
*
25850377 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAATATTTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAAATATTTTTT
* *
25850442 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAGTCAAAATTTTTCAAAAATATATTTTTGGGGT
66 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAGT-AAAATTTTTCAAAAAAATATTTTT-GGGA
* * * *
25850507 AAAGTTGGAAGTGTTAATTTTTTTTAAAAATAAATTTTTAAAAAAAGGT
129 AAAGTTGGAAGTATAAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGT
* *
25850556 TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAAATATTTTTG
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAAATATTTTTT
* * *
25850621 AGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC-AAAAAATAATTTTTTGAGG
66 AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAGTAAAATTTTTCAAAAAAAT-A-TTTTTG-GG
* * * ** * * *
25850683 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAGAA--T
128 AAAAGTTGGAAGTATAAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGT
* *
25850731 ATTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
25850764 CTACACAAAA
Statistics
Matches: 348, Mismatches: 31, Indels: 18
0.88 0.08 0.05
Matches are distributed among these distances:
175 37 0.11
176 7 0.02
177 84 0.24
178 4 0.01
179 205 0.59
180 11 0.03
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (177 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAAATATTTTTT
AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAGTAAAATTTTTCAAAAAAATATTTTTGGGAAA
AGTTGGAAGTATAAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGT
Found at i:25854314 original size:10 final size:10
Alignment explanation
Indices: 25854301--25854325 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25854291 AAAAGGTCTC
25854301 AAAAAAAAGA
1 AAAAAAAAGA
25854311 AAAAAAAAGA
1 AAAAAAAAGA
25854321 AAAAA
1 AAAAA
25854326 TACCACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:25854681 original size:30 final size:31
Alignment explanation
Indices: 25854647--25854724 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
25854637 ACCAACAATG
*
25854647 GATGAAAAATGAGAAAAAAAGAA-AAAAAAA
1 GATGAAAAATGAGAAAAAAAAAAGAAAAAAA
** *
25854677 GATGATGAAT-AAAAAAAAAAAAGAAAAAAA
1 GATGAAAAATGAGAAAAAAAAAAGAAAAAAA
*
25854707 GAAGAAAAAATGAGAAAA
1 GATG-AAAAATGAGAAAA
25854725 TGAAAAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 10 0.27
30 18 0.49
31 4 0.11
32 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.08
Consensus pattern (31 bp):
GATGAAAAATGAGAAAAAAAAAAGAAAAAAA
Found at i:25854724 original size:10 final size:11
Alignment explanation
Indices: 25854658--25854716 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 11
25854648 ATGAAAAATG
25854658 AGAAAAAAAGA
1 AGAAAAAAAGA
25854669 A-AAAAAAAGA
1 AGAAAAAAAGA
* ** *
25854679 TGATGAATA-A
1 AGAAAAAAAGA
25854689 A-AAAAAAA-A
1 AGAAAAAAAGA
25854698 AGAAAAAAAGA
1 AGAAAAAAAGA
25854709 AGAAAAAA
1 AGAAAAAA
25854717 TGAGAAAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
9 6 0.16
10 17 0.46
11 14 0.38
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (11 bp):
AGAAAAAAAGA
Found at i:25856043 original size:41 final size:41
Alignment explanation
Indices: 25855930--25856431 Score: 704
Period size: 41 Copynumber: 12.1 Consensus size: 41
25855920 ATGATTGTCA
25855930 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * *
25855972 AGGAGTAATTTACTTTTTCAAAGTCATGGTGCCTCTATTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
25856014 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
25856055 AGGAGCATTTTACTTTTCAAAGTCGCGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
25856096 AGGAGCATTTTACTTTTCAAAGTCGTGGTGCTTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
25856137 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
* * *
25856179 AGGAGCAATTTACTTTCCAAAGTCGTGATACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
25856220 AGGAGCATTTTAC-TTTCTAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
25856261 AGGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
* *
25856303 AGGAGCATTTTAC-ATTCTAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * * *
25856344 ATGAGCAATTTATTTTTCCAAAGTCGT-GAGCCTCTGGTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * *
25856385 AGGAGCCATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
25856426 AAGAGC
1 AGGAGC
25856432 TTTGATCAAA
Statistics
Matches: 412, Mismatches: 39, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
40 13 0.03
41 260 0.63
42 133 0.32
43 6 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:25856158 original size:124 final size:123
Alignment explanation
Indices: 25855930--25856431 Score: 704
Period size: 124 Copynumber: 4.0 Consensus size: 123
25855920 ATGATTGTCA
* *
25855930 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTTCAAAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAG
* * *
25855995 TCATGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
64 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
25856055 AGGAGCATTTTACTTTTCAAAGTCGCGGTACCTCTGTTTAGAGGAGCATTTTACTTTTCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
25856120 GTGGTGCTTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
* * *
25856179 AGGAGCAATTTACTTTCCAAAGTCGTGATACCTCTGTTTAGAGGAGCATTTTAC-TTTCTAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGT
*
25856243 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAG
65 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
25856303 AGGAGCATTTTAC-ATTCTAAAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAG
* * * * *
25856367 TCGT-GAGCCTCTGGTTAGAGGAGCCATTTACTTTTCAAAGTCGTTGAGCCTCTGTTTAG
64 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
25856426 AAGAGC
1 AGGAGC
25856432 TTTGATCAAA
Statistics
Matches: 342, Mismatches: 30, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
123 74 0.22
124 240 0.70
125 27 0.08
126 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (123 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:25856180 original size:165 final size:165
Alignment explanation
Indices: 25855930--25856431 Score: 726
Period size: 165 Copynumber: 3.0 Consensus size: 165
25855920 ATGATTGTCA
* *
25855930 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGTAATTTACTTTTTCAAAG
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
* * *
25855995 TCATGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG
65 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAG
*
25856060 CATTTTACTTTTCAAAGTCGCGGTACCTCTGTTTAG
130 CATTTTACTTTTCAAAGTCGTGGTACCTCTGTTTAG
* *
25856096 AGGAGCATTTTACTTTTCAAAGTCGTGGTGCTTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGT
* * *
25856161 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGATACCTCTGTTTAGAGGAGC
66 CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
25856226 ATTTTAC-TTTCTAAAGTCGTGGTGCCTCTGTTTAG
131 ATTTTACTTTTC-AAAGTCGTGGTACCTCTGTTTAG
* * *
25856261 AGGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCATTTTACATTCT-AAAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAG
* * * *
25856325 TCGTGGTGCCTCTGTTTAGATGAGCAATTTATTTTTCCAAAGTCGT-GAGCCTCTGGTTAGAGGA
65 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGA
*
25856389 GCCA-TTTACTTTTCAAAGTCGTTG-AGCCTCTGTTTAG
129 G-CATTTTACTTTTCAAAGTCGTGGTA-CCTCTGTTTAG
*
25856426 AAGAGC
1 AGGAGC
25856432 TTTGATCAAA
Statistics
Matches: 303, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
164 4 0.01
165 229 0.76
166 70 0.23
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (165 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAGT
CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
ATTTTACTTTTCAAAGTCGTGGTACCTCTGTTTAG
Found at i:25856634 original size:6 final size:6
Alignment explanation
Indices: 25856619--25856692 Score: 75
Period size: 6 Copynumber: 12.8 Consensus size: 6
25856609 TTTTTTTTTC
* *
25856619 TTTA-T TTTATT TTTATT TTTA-T TGTATT TTACATT TTTA-T TTTA-T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TTTATT TTTATT
* *
25856664 TTTATT TCTATT TTTATT TTTATT ATTAT
1 TTTATT TTTATT TTTATT TTTATT TTTAT
25856693 ATATATTTTA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
5 18 0.31
6 35 0.60
7 5 0.09
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:25856675 original size:29 final size:28
Alignment explanation
Indices: 25856623--25856692 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
25856613 TTTTTCTTTA
*
25856623 TTTTATTTTTATTTTTATTGTATTTTACAT
1 TTTTA-TTTTATTTTTATTCTATTTT-CAT
*
25856653 TTTTATTTTA-TTTTATTTCTATTTTTAT
1 TTTTATTTTATTTTTA-TTCTATTTTCAT
25856681 TTTTATTATTAT
1 TTTTATT-TTAT
25856693 ATATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 14 0.40
29 16 0.46
30 5 0.14
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (28 bp):
TTTTATTTTATTTTTATTCTATTTTCAT
Found at i:25856700 original size:40 final size:40
Alignment explanation
Indices: 25856619--25856702 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
25856609 TTTTTTTTTC
* * *
25856619 TTTATTTTATTTTTATTTTTATTGTATTTTACATTTTTAT
1 TTTATTTTATTTCTATTTTTATTGTATTTTACATATATAT
*
25856659 TTTATTTTATTTCTATTTTTATT-T-TTATTATTATATATAT
1 TTTATTTTATTTCTATTTTTATTGTATT-TTA-CATATATAT
25856699 TTTA
1 TTTA
25856703 GGTATTTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 4 0.11
40 32 0.84
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (40 bp):
TTTATTTTATTTCTATTTTTATTGTATTTTACATATATAT
Found at i:25856701 original size:23 final size:23
Alignment explanation
Indices: 25856629--25856702 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
25856619 TTTATTTTAT
* *
25856629 TTTTATTTTTATTGTATTTTACAT-
1 TTTTATTTTTA-T-TATTATATATA
* *
25856653 TTTTA-TTTTATT-TTATTTCTA
1 TTTTATTTTTATTATTATATATA
25856674 TTTTTATTTTTATTATTATATATA
1 -TTTTATTTTTATTATTATATATA
25856698 TTTTA
1 TTTTA
25856703 GGTATTTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.10
21 1 0.03
22 6 0.15
23 17 0.43
24 12 0.30
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (23 bp):
TTTTATTTTTATTATTATATATA
Found at i:25856869 original size:20 final size:18
Alignment explanation
Indices: 25856844--25856891 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
25856834 TTATCTTATT
25856844 TATTTTCTTTTGATTTTTTA
1 TATTTT-TTTT-ATTTTTTA
**
25856864 TATTTTTCGTATTTTTTA
1 TATTTTTTTTATTTTTTA
25856882 TATTTTTTTT
1 TATTTTTTTT
25856892 TTATTTACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 16 0.67
19 2 0.08
20 6 0.25
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (18 bp):
TATTTTTTTTATTTTTTA
Found at i:25856879 original size:10 final size:9
Alignment explanation
Indices: 25856856--25856889 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
25856846 TTTTCTTTTG
25856856 ATTTTTTAT
1 ATTTTTTAT
**
25856865 ATTTTTCGT
1 ATTTTTTAT
25856874 ATTTTTTAT
1 ATTTTTTAT
25856883 ATTTTTT
1 ATTTTTT
25856890 TTTTATTTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:25856896 original size:20 final size:20
Alignment explanation
Indices: 25856844--25856897 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
25856834 TTATCTTATT
* *
25856844 TATTTTCTTTTGATTTTTTA
1 TATTTTTTTTTTATTTTTTA
**
25856864 TA--TTTTTCGTATTTTTTA
1 TATTTTTTTTTTATTTTTTA
25856882 TATTTTTTTTTTATTT
1 TATTTTTTTTTTATTT
25856898 ACTTGGCTGG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 14 0.54
20 12 0.46
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.78
Consensus pattern (20 bp):
TATTTTTTTTTTATTTTTTA
Found at i:25857719 original size:19 final size:19
Alignment explanation
Indices: 25857692--25857750 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
25857682 GCTCCAGGTT
*
25857692 TTTTTTTTAAATTTTTTTA
1 TTTTATTTAAATTTTTTTA
* *
25857711 TTTTATTTATTATTTGTTT-
1 TTTTATTTA-AATTTTTTTA
*
25857730 TTTTATTT-ATTTTTTTTA
1 TTTTATTTAAATTTTTTTA
25857748 TTT
1 TTT
25857751 ATTAGATTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 6 0.19
18 3 0.09
19 16 0.50
20 7 0.22
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTATTTAAATTTTTTTA
Found at i:25857794 original size:5 final size:5
Alignment explanation
Indices: 25857784--25857850 Score: 61
Period size: 5 Copynumber: 13.6 Consensus size: 5
25857774 TCTTTTTACC
* *
25857784 TTTAT TTTAT TTT-T TAT-T TTTAT TTTACT TTT-T TTTAT TTTAA TTT-T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT
25857831 TTTAT TTTCACT TTTAT TTT
1 TTTAT TTT-A-T TTTAT TTT
25857851 GTTTCATTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 13 0.25
5 29 0.56
6 6 0.12
7 4 0.08
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:25857797 original size:18 final size:19
Alignment explanation
Indices: 25857776--25857817 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
25857766 TTTAGTATTC
25857776 TTTTTACCTTTATTTTA-T
1 TTTTTACCTTTATTTTACT
**
25857794 TTTTTATTTTTATTTTACT
1 TTTTTACCTTTATTTTACT
25857813 TTTTT
1 TTTTT
25857818 TTATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTACCTTTATTTTACT
Found at i:25857801 original size:27 final size:28
Alignment explanation
Indices: 25857762--25857824 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
25857752 TTAGATTAGG
*
25857762 TTTATTTAGTA-TTCT-TTTTACCTTTAT
1 TTTATTTTGTATTTCTATTTTA-CTTTAT
* * *
25857789 TTTATTTTTTATTTTTATTTTACTTTTT
1 TTTATTTTGTATTTCTATTTTACTTTAT
25857817 TTTATTTT
1 TTTATTTT
25857825 AATTTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 9 0.30
28 16 0.53
29 5 0.17
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (28 bp):
TTTATTTTGTATTTCTATTTTACTTTAT
Found at i:25857830 original size:14 final size:13
Alignment explanation
Indices: 25857702--25857838 Score: 63
Period size: 12 Copynumber: 10.0 Consensus size: 13
25857692 TTTTTTTTAA
25857702 ATTTTTTTATTTT
1 ATTTTTTTATTTT
*
25857715 A-TTTATTA-TTT
1 ATTTTTTTATTTT
*
25857726 GTTTTTTTA-TTT
1 ATTTTTTTATTTT
25857738 ATTTTTTT-TATTT
1 ATTTTTTTAT-TTT
25857751 ATTAGATTAGGTTTATTTAGT
1 ATT---TT---TTTATTT--T
*
25857772 ATTCTTTTTACCTTT
1 ATT-TTTTTA-TTTT
*
25857787 ATTTTATT-TTTT
1 ATTTTTTTATTTT
25857799 A--TTTTTATTTT
1 ATTTTTTTATTTT
25857810 ACTTTTTTTTATTTT
1 A--TTTTTTTATTTT
25857825 AATTTTTTTATTTT
1 -ATTTTTTTATTTT
25857839 CACTTTTATT
Statistics
Matches: 96, Mismatches: 9, Indels: 37
0.68 0.06 0.26
Matches are distributed among these distances:
10 4 0.04
11 8 0.08
12 26 0.27
13 7 0.07
14 16 0.17
15 14 0.15
16 7 0.07
17 2 0.02
19 7 0.07
20 1 0.01
21 4 0.04
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (13 bp):
ATTTTTTTATTTT
Found at i:25857832 original size:29 final size:28
Alignment explanation
Indices: 25857777--25857850 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
25857767 TTAGTATTCT
*
25857777 TTTTACCTTTATTTTATTTTTTATTTTTA
1 TTTTA-CTTTTTTTTATTTTTTATTTTTA
25857806 TTTTACTTTTTTTTATTTTAATT-TTTTTA
1 TTTTACTTTTTTTTATTTT--TTATTTTTA
25857835 TTTTCACTTTTATTTT
1 TTTT-ACTTTT-TTTT
25857851 GTTTCATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
28 13 0.32
29 15 0.38
30 8 0.20
31 4 0.10
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTACTTTTTTTTATTTTTTATTTTTA
Found at i:25857948 original size:59 final size:60
Alignment explanation
Indices: 25857884--25858160 Score: 354
Period size: 59 Copynumber: 4.7 Consensus size: 60
25857874 AATAAAAATA
25857884 AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA--TTTC
1 AAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
* ** * * * * *
25857942 CAAAAAATATTTTTGAAAAAAAGTTAAAAATATCAATTTTCCTTGAAAGTCAAAATTTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATC-AAAGTTTTC
* *
25858003 AAAAAAATATTTTTG-GAGAAAAGTTGAAAATATCAATTTTTCTTAAAAATCAAAGTTTTC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
25858063 -AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
*
25858120 AAAAAAAAAATTTTTG-GGAAAAAGTTGAAAGTATCAATTTT
1 -AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT
25858161 TCCTACACAA
Statistics
Matches: 192, Mismatches: 18, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
57 43 0.22
58 10 0.05
59 83 0.43
60 9 0.05
61 47 0.24
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (60 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTTC
Found at i:25861458 original size:42 final size:41
Alignment explanation
Indices: 25861399--25861479 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 41
25861389 CAGAATACCA
**
25861399 AAAGCAATGCACTTAATCGTGTAGCAATAAAAATAAGATCGC
1 AAAGCAATGCACTTAATCGCATAGCAATAAAAA-AAGATCGC
* *
25861441 AAAGCAGTGCACTTAATCGCATAGCAGTAAAAAAAGATC
1 AAAGCAATGCACTTAATCGCATAGCAATAAAAAAAGATC
25861480 AGAGTAGTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 6 0.17
42 29 0.83
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (41 bp):
AAAGCAATGCACTTAATCGCATAGCAATAAAAAAAGATCGC
Found at i:25863407 original size:15 final size:17
Alignment explanation
Indices: 25863387--25863427 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
25863377 GGAGGGCGGC
25863387 GAAGAAG-GAG-AAGAA
1 GAAGAAGAGAGAAAGAA
25863402 GAAGAAGTAGAGAAAGAA
1 GAAGAAG-AGAGAAAGAA
25863420 GAAGAAGA
1 GAAGAAGA
25863428 AGCAAAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.30
17 4 0.17
18 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (17 bp):
GAAGAAGAGAGAAAGAA
Found at i:25863440 original size:21 final size:22
Alignment explanation
Indices: 25863389--25863443 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
25863379 AGGGCGGCGA
*
25863389 AGAAGGAGAAGAAGAAGAAGTAG
1 AGAA-GAGAAGAAGAAGAAGCAG
25863412 AGAA-AGAAGAAGAAGAAGCA-
1 AGAAGAGAAGAAGAAGAAGCAG
25863432 A-AACGAGAAGAA
1 AGAA-GAGAAGAA
25863444 CAACGGATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 2 0.07
20 1 0.03
21 22 0.76
23 4 0.14
ACGTcount: A:0.62, C:0.04, G:0.33, T:0.02
Consensus pattern (22 bp):
AGAAGAGAAGAAGAAGAAGCAG
Found at i:25863443 original size:3 final size:3
Alignment explanation
Indices: 25863387--25863429 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
25863377 GGAGGGCGGC
* *
25863387 GAA GAA GGA GAA GAA GAA GAA GTA G-A GAAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA G
25863430 CAAAACGAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:25863815 original size:21 final size:22
Alignment explanation
Indices: 25863771--25863815 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
25863761 AATTGAAGAA
* *
25863771 TTTGATTTTTGCTATTTTTTAT
1 TTTGATTTTTGCTATTGTTGAT
*
25863793 TTTG-TTTTTGTTATTGTTGAT
1 TTTGATTTTTGCTATTGTTGAT
25863814 TT
1 TT
25863816 ATTATCATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.73
Consensus pattern (22 bp):
TTTGATTTTTGCTATTGTTGAT
Found at i:25870579 original size:52 final size:52
Alignment explanation
Indices: 25870477--25870579 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
25870467 ATAAGAAAAT
*
25870477 TTGTAAAAGAAAAATTTTAAGAAAAATATGATTCTTAATAGATAAATTTGAC
1 TTGTAAAAGAAAAATTTTAAGAAAAATATGATTCTTAATAGACAAATTTGAC
* * * *
25870529 TTGTAAGAGAATAATTTTAA-AAGGAAA-ATGATTCTTAATAGGCAAGTTTGA
1 TTGTAAAAGAAAAATTTTAAGAA--AAATATGATTCTTAATAGACAAATTTGA
25870580 TTTACAGGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
51 2 0.05
52 39 0.89
53 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.16, T:0.34
Consensus pattern (52 bp):
TTGTAAAAGAAAAATTTTAAGAAAAATATGATTCTTAATAGACAAATTTGAC
Found at i:25870591 original size:52 final size:53
Alignment explanation
Indices: 25870504--25870630 Score: 120
Period size: 52 Copynumber: 2.4 Consensus size: 53
25870494 TAAGAAAAAT
** * * *
25870504 ATGATTCTTAATAGATAAATTTGACTTGTAAGAGAATAATTTTAAAAGGA-AA
1 ATGATTCTTAATAGGCAAGTTTGACTTGTAAGAGAAAAATTATAAAAGGATAA
* *
25870556 ATGATTCTTAATAGGCAAGTTTGA-TT-TACAGGAGAAAAATTATAAGATGATAA
1 ATGATTCTTAATAGGCAAGTTTGACTTGTA-A-GAGAAAAATTATAAAAGGATAA
*
25870609 A-GATTTTTAAT-GGACAAGTTTG
1 ATGATTCTTAATAGG-CAAGTTTG
25870631 TATAGTTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
50 2 0.03
51 5 0.08
52 53 0.84
53 3 0.05
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.35
Consensus pattern (53 bp):
ATGATTCTTAATAGGCAAGTTTGACTTGTAAGAGAAAAATTATAAAAGGATAA
Found at i:25872648 original size:31 final size:30
Alignment explanation
Indices: 25872586--25872650 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
25872576 TTTCAAAATT
* * *
25872586 TAAATTTATCATCATATTTTTAATTTTAAA
1 TAAATTTATCATCATACTTATAATTTCAAA
* *
25872616 TAAATTTAATCATTATACTTATGATTTCAAA
1 TAAATTT-ATCATCATACTTATAATTTCAAA
25872647 TAAA
1 TAAA
25872651 AATGTCATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.48
Consensus pattern (30 bp):
TAAATTTATCATCATACTTATAATTTCAAA
Found at i:25872868 original size:31 final size:30
Alignment explanation
Indices: 25872833--25872926 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 30
25872823 TATTCTAATC
25872833 AAATTTATTTCAAAATTAAAAATATAATAGT
1 AAATTTATTT-AAAATTAAAAATATAATAGT
* * * *
25872864 AAATTTATTTTAAAGTTAAAAGTATGATCGT
1 AAATTTA-TTTAAAATTAAAAATATAATAGT
* *
25872895 AAATTTATAT-AAATTAAAACAT-TAATAAT
1 AAATTTATTTAAAATTAAAA-ATATAATAGT
25872924 AAA
1 AAA
25872927 ATTGAAGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
29 15 0.29
30 3 0.06
31 30 0.59
32 3 0.06
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (30 bp):
AAATTTATTTAAAATTAAAAATATAATAGT
Found at i:25878512 original size:12 final size:12
Alignment explanation
Indices: 25878495--25878520 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25878485 TTACAAATGC
25878495 ATGCTGACGTCA
1 ATGCTGACGTCA
25878507 ATGCTGACGTCA
1 ATGCTGACGTCA
25878519 AT
1 AT
25878521 TGTATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (12 bp):
ATGCTGACGTCA
Found at i:25879518 original size:13 final size:13
Alignment explanation
Indices: 25879500--25879525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25879490 AAGATATCAA
25879500 ATTAAACTTTTTT
1 ATTAAACTTTTTT
25879513 ATTAAACTTTTTT
1 ATTAAACTTTTTT
25879526 GAGTTGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTAAACTTTTTT
Found at i:25884163 original size:11 final size:11
Alignment explanation
Indices: 25884124--25884162 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
25884114 TTGAGTTAGA
25884124 TAAAAAATAAT
1 TAAAAAATAAT
25884135 TAAAAAATAAT
1 TAAAAAATAAT
*
25884146 TAAAAATTAAT
1 TAAAAAATAAT
25884157 TAAAAA
1 TAAAAA
25884163 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAAAATAAT
Found at i:25884168 original size:18 final size:18
Alignment explanation
Indices: 25884123--25884183 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 18
25884113 TTTGAGTTAG
25884123 ATAAAAAATAATTAAAAA
1 ATAAAAAATAATTAAAAA
25884141 ATAATTAAAAATTAATT-AAAA
1 AT-A--AAAAA-TAATTAAAAA
25884162 AT-AAAAATAATTTTAAAAA
1 ATAAAAAATAA--TTAAAAA
25884181 ATA
1 ATA
25884184 TTAATCATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
16 3 0.09
17 5 0.14
18 4 0.11
19 7 0.20
21 11 0.31
22 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAAAATAATTAAAAA
Found at i:25884814 original size:22 final size:22
Alignment explanation
Indices: 25884767--25884814 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
25884757 TAATACAATT
* *
25884767 TATTTGATAAAATTATATAAAA
1 TATTTAATAAAATTATAAAAAA
25884789 -ATTTAATAAAAATTA-AAAAAA
1 TATTTAAT-AAAATTATAAAAAA
25884810 TATTT
1 TATTT
25884815 TATGTTCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TATTTAATAAAATTATAAAAAA
Found at i:25884945 original size:2 final size:2
Alignment explanation
Indices: 25884938--25884965 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25884928 GATGTTGAGA
25884938 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
25884966 GCAGTCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25887090 original size:6 final size:6
Alignment explanation
Indices: 25887079--25887105 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25887069 CGGGGGGAAA
25887079 GAGAGT GAGAGT GAGAGT GAGAGT GAG
1 GAGAGT GAGAGT GAGAGT GAGAGT GAG
25887106 GGCGGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
GAGAGT
Found at i:25895819 original size:37 final size:37
Alignment explanation
Indices: 25895778--25895851 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
25895768 CTGGTAGAAT
25895778 ATTTAACTATTCTACCAAGCAAACATACTTAGGCTAG
1 ATTTAACTATTCTACCAAGCAAACATACTTAGGCTAG
*
25895815 ATTTAACTATTCTACTAAGCAAACATACTTAGGCTAG
1 ATTTAACTATTCTACCAAGCAAACATACTTAGGCTAG
25895852 CTCAAGAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (37 bp):
ATTTAACTATTCTACCAAGCAAACATACTTAGGCTAG
Found at i:25899690 original size:17 final size:18
Alignment explanation
Indices: 25899658--25899692 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25899648 ACGTATATTA
25899658 AATACAACATAAAATAAT
1 AATACAACATAAAATAAT
*
25899676 AATACAAGA-AAAATAAT
1 AATACAACATAAAATAAT
25899693 TTTTAGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (18 bp):
AATACAACATAAAATAAT
Found at i:25899962 original size:59 final size:59
Alignment explanation
Indices: 25899892--25900005 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 59
25899882 CACATTATTT
*
25899892 AAATAAATTCTT-ATAT-T-TTTATTGCATTCAACTAAAATTTAAAATTTTAATTTACACTC
1 AAATAAATTCTTAATATCTATTTA-T--ATTCAAATAAAATTTAAAATTTTAATTTACACTC
* * *
25899951 AAATAATTTCTTAATATCTAATTTATATTTAAATAAAATTTTAAATTTTAATTTA
1 AAATAAATTCTTAATATCT-ATTTATATTCAAATAAAATTTAAAATTTTAATTTA
25900006 TGTATTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
59 11 0.23
60 30 0.64
61 1 0.02
62 1 0.02
63 4 0.09
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (59 bp):
AAATAAATTCTTAATATCTATTTATATTCAAATAAAATTTAAAATTTTAATTTACACTC
Found at i:25900003 original size:30 final size:30
Alignment explanation
Indices: 25899919--25900006 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
25899909 TTTATTGCAT
* * *
25899919 TCAACTAAAATTTAAAATTTTAATTTACAC
1 TCAAATAAAATTTTAAATTTTAATTTATAC
* * *
25899949 TCAAAT--AATTTCTTAATATCTAATTTATAT
1 TCAAATAAAATTT-TAAAT-TTTAATTTATAC
*
25899979 TTAAATAAAATTTTAAATTTTAATTTAT
1 TCAAATAAAATTTTAAATTTTAATTTAT
25900007 GTATTAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
28 5 0.11
29 3 0.07
30 28 0.62
31 4 0.09
32 5 0.11
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (30 bp):
TCAAATAAAATTTTAAATTTTAATTTATAC
Found at i:25900288 original size:61 final size:61
Alignment explanation
Indices: 25900193--25900315 Score: 201
Period size: 61 Copynumber: 2.0 Consensus size: 61
25900183 GTTGTGTCTC
*
25900193 ATGTTGTATTTGACATGTGTAATAATACGAATTATTAAAATACTAACATGATACAAATTAT
1 ATGTTGTATTGGACATGTGTAATAATACGAATTATTAAAATACTAACATGATACAAATTAT
* * * *
25900254 ATGTTGTGTTGGACATGTGTAATAATATGAATTATTAAAATACTGACATGATATAAATTAT
1 ATGTTGTATTGGACATGTGTAATAATACGAATTATTAAAATACTAACATGATACAAATTAT
25900315 A
1 A
25900316 AAAAATATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (61 bp):
ATGTTGTATTGGACATGTGTAATAATACGAATTATTAAAATACTAACATGATACAAATTAT
Found at i:25900657 original size:31 final size:31
Alignment explanation
Indices: 25900621--25900689 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
25900611 TTAATACTCA
25900621 TTTAATATGTAT-TTA-AT-ATATATATTTAAAT
1 TTTAATAT-TATATTACATAAT-TATA-TTAAAT
*
25900652 TTTAAT-TTATATTACATAATTATATTAATT
1 TTTAATATTATATTACATAATTATATTAAAT
25900682 TTTAATAT
1 TTTAATAT
25900690 CAAATTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
29 3 0.09
30 15 0.45
31 13 0.39
32 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (31 bp):
TTTAATATTATATTACATAATTATATTAAAT
Found at i:25909955 original size:21 final size:21
Alignment explanation
Indices: 25909931--25909993 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
25909921 AGTTTTTACA
25909931 TGAAGCTTATTACTTGTTTGG
1 TGAAGCTTATTACTTGTTTGG
* **
25909952 TGAA---TA-TAGTT-TTTACA
1 TGAAGCTTATTACTTGTTT-GG
25909969 TGAAGCTTATTACTTGTTTGG
1 TGAAGCTTATTACTTGTTTGG
25909990 TGAA
1 TGAA
25909994 TATTTTGTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
16 3 0.10
17 8 0.27
18 2 0.07
20 2 0.07
21 12 0.40
22 3 0.10
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (21 bp):
TGAAGCTTATTACTTGTTTGG
Found at i:25909962 original size:38 final size:38
Alignment explanation
Indices: 25909920--25909996 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
25909910 TGGCAAAACT
25909920 TAGTTTTTACATGAAGCTTATTACTTGTTTGGTGAATA
1 TAGTTTTTACATGAAGCTTATTACTTGTTTGGTGAATA
25909958 TAGTTTTTACATGAAGCTTATTACTTGTTTGGTGAATA
1 TAGTTTTTACATGAAGCTTATTACTTGTTTGGTGAATA
25909996 T
1 T
25909997 TTTGTCAGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (38 bp):
TAGTTTTTACATGAAGCTTATTACTTGTTTGGTGAATA
Found at i:25912269 original size:29 final size:30
Alignment explanation
Indices: 25912227--25912299 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
25912217 CACTTTTCTT
* *
25912227 AAATAAACTCTTATACTTTTA-TTGTACCC
1 AAATAAGCTCTTATACTTTGATTTGTACCC
* * *
25912256 AAATAAGCCCTTATTCTTTGATTTGTATCC
1 AAATAAGCTCTTATACTTTGATTTGTACCC
*
25912286 AATTAAGCTCTTAT
1 AAATAAGCTCTTAT
25912300 TTCAAACAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 17 0.47
30 19 0.53
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (30 bp):
AAATAAGCTCTTATACTTTGATTTGTACCC
Found at i:25912357 original size:30 final size:30
Alignment explanation
Indices: 25912323--25912422 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 30
25912313 TTGATTTATA
* * *
25912323 TTAAGGGTTTTTTTAGGTACAAATTAAAAG
1 TTAAGGGCTTATTTAGATACAAATTAAAAG
*
25912353 TTAAGGGCTTATTTAGATACAAATTAAAAA
1 TTAAGGGCTTATTTAGATACAAATTAAAAG
* * * *
25912383 TTGAGGGCTTATTTGGATGCAAATTAAAGG
1 TTAAGGGCTTATTTAGATACAAATTAAAAG
*
25912413 TCAAGGGCTT
1 TTAAGGGCTT
25912423 CTTTGGGTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (30 bp):
TTAAGGGCTTATTTAGATACAAATTAAAAG
Found at i:25914443 original size:2 final size:2
Alignment explanation
Indices: 25914438--25914472 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
25914428 TCTCTCTCTC
*
25914438 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25914473 GTATGTACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:25918538 original size:26 final size:27
Alignment explanation
Indices: 25918508--25918569 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
25918498 ATTCATTTCA
25918508 ACTTGAATATATATTTC-CAACATTTT
1 ACTTGAATATATATTTCTCAACATTTT
* ***
25918534 ACTTG-TTATATATTTCTGGCCATTTT
1 ACTTGAATATATATTTCTCAACATTTT
25918560 ACTTGAATAT
1 ACTTGAATAT
25918570 TTCCAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 10 0.34
26 16 0.55
27 3 0.10
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (27 bp):
ACTTGAATATATATTTCTCAACATTTT
Found at i:25919781 original size:11 final size:11
Alignment explanation
Indices: 25919760--25919796 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
25919750 TAAATTTAAT
25919760 ATTTAAAATTTG
1 ATTT-AAATTTG
25919772 ATTTAAATTTG
1 ATTTAAATTTG
25919783 A-TTAAATTTG
1 ATTTAAATTTG
25919793 ATTT
1 ATTT
25919797 TTTAGTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 10 0.42
12 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
ATTTAAATTTG
Found at i:25920536 original size:33 final size:32
Alignment explanation
Indices: 25920461--25920536 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
25920451 GGGGCCACGG
25920461 AATA-AGGACAAAATGACGGCAAAAGTTTGGT
1 AATAGAGGACAAAATGACGGCAAAAGTTTGGT
* * * *
25920492 AATTGAAGACAAAATGAGGGTAAAAGTTTTGGT
1 AATAGAGGACAAAATGACGGCAAAAG-TTTGGT
25920525 AGA-AGAGGACAA
1 A-ATAGAGGACAA
25920537 CACGAGGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 3 0.08
32 18 0.50
33 14 0.39
34 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.28, T:0.20
Consensus pattern (32 bp):
AATAGAGGACAAAATGACGGCAAAAGTTTGGT
Found at i:25920781 original size:16 final size:17
Alignment explanation
Indices: 25920756--25920788 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25920746 AATTTATAAT
*
25920756 TTATTTGATAT-AAAAC
1 TTATTAGATATGAAAAC
25920772 TTATTAGATATGAAAAC
1 TTATTAGATATGAAAAC
25920789 CTAAATAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TTATTAGATATGAAAAC
Found at i:25930908 original size:4 final size:4
Alignment explanation
Indices: 25930899--25930948 Score: 57
Period size: 4 Copynumber: 12.0 Consensus size: 4
25930889 ATTTTTAAAA
*
25930899 TTAT TTAT TTAATT TTAT ATT-T TTAT TTAT TTAT TTAT TTAT ATAT TTAT
1 TTAT TTAT TT-A-T TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
25930949 ATTAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 2 0.05
4 31 0.77
5 4 0.10
6 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:25930931 original size:26 final size:26
Alignment explanation
Indices: 25930899--25930951 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
25930889 ATTTTTAAAA
*
25930899 TTATTTATTTAATTT-TATATTTTTAT
1 TTATTTATTT-ATTTATATATTTATAT
25930925 TTATTTATTTATTTATATATTTATAT
1 TTATTTATTTATTTATATATTTATAT
25930951 T
1 T
25930952 AAAAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (26 bp):
TTATTTATTTATTTATATATTTATAT
Found at i:25930980 original size:22 final size:22
Alignment explanation
Indices: 25930934--25930998 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 22
25930924 TTTATTTATT
25930934 TATTTATATATTTATATTAAAAATAA
1 TATTT-TATATTT-TA--AAAAATAA
25930960 TATTTTATATTTTAAAAAATAA
1 TATTTTATATTTTAAAAAATAA
25930982 TATTTTATTAATTTTAA
1 TATTTTA-T-ATTTTAA
25930999 GTAAGATCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 15 0.41
23 1 0.03
24 9 0.24
25 7 0.19
26 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTTATATTTTAAAAAATAA
Found at i:25932072 original size:15 final size:16
Alignment explanation
Indices: 25932042--25932074 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25932032 ATTAATTAAA
*
25932042 AATAATATTTTATAAT
1 AATAATATTATATAAT
25932058 AATAA-ATTATATAAT
1 AATAATATTATATAAT
25932073 AA
1 AA
25932075 CAATCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAATATTATATAAT
Found at i:25941372 original size:28 final size:29
Alignment explanation
Indices: 25941319--25941379 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
25941309 AACTAATAAA
* *
25941319 TTTATAATTTAAATATCTCATCAAAAAAT
1 TTTAAAATTTAAATATCACATCAAAAAAT
*
25941348 TTTAAAATTTAAATATCACAT-AAAATAT
1 TTTAAAATTTAAATATCACATCAAAAAAT
25941376 TTTA
1 TTTA
25941380 TTATAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (29 bp):
TTTAAAATTTAAATATCACATCAAAAAAT
Found at i:25942225 original size:59 final size:59
Alignment explanation
Indices: 25942160--25942289 Score: 190
Period size: 59 Copynumber: 2.2 Consensus size: 59
25942150 ATATCCTATT
* * * * *
25942160 ATAATTATAAAAATATTTATCT-TTTTATAATTAATCATAATTATTATAATTTTTTTTTC
1 ATAATTATAAAAAAACTTAT-TGTATTATAATTAATCAAAATTATTATAATTTTTTTATC
25942219 ATAATTATAAAAAAACTTATTGTATTATAATTAATCAAAATTATTATAATTTTTTTATC
1 ATAATTATAAAAAAACTTATTGTATTATAATTAATCAAAATTATTATAATTTTTTTATC
*
25942278 ATAATAATAAAA
1 ATAATTATAAAA
25942290 TACCCTTACT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 1 0.02
59 63 0.98
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (59 bp):
ATAATTATAAAAAAACTTATTGTATTATAATTAATCAAAATTATTATAATTTTTTTATC
Found at i:25942631 original size:21 final size:21
Alignment explanation
Indices: 25942592--25942631 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25942582 TTTTATTTGG
*
25942592 AAATTATTATAATACTTTATT
1 AAATTATTATAATAATTTATT
25942613 AAATTATATATAA-AATTTA
1 AAATTAT-TATAATAATTTA
25942632 ATATAATATA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATTATTATAATAATTTATT
Found at i:25942659 original size:128 final size:124
Alignment explanation
Indices: 25942427--25942790 Score: 366
Period size: 128 Copynumber: 2.9 Consensus size: 124
25942417 TTTATAAGTT
* * * * * *
25942427 CTTTATAAAAAGTTAACATTTGAGATTTTATTTTAAAATTATTATAACATCCTTATTAAGTTACA
1 CTTTATAAAAATTTAACATATGACATTTTA-TTTAAAATTATTAT-A-ATACTTATTAAATTATA
* *
25942492 TATTAAATTTTAACATAATATAAAATTAAT-CATACATTAAATTATTAAAATACTTATATCA-TA
63 TA-TAAAATTTAATATAATATAAAATTAATACAT--ATTAAATTATTAAAATACTTATATCATTA
* *
25942555 GCTTTATAAAAATTTTA-ATATGTAACATTTTATTTGGAAATTATTATAATACTTTATTAAATTA
1 -CTTTATAAAAATTTAACATATG--ACATTTTATTT-AAAATTATTATAATAC-TTATTAAATTA
* * *
25942619 TATATAAAATTTAATATAATATAAAATTAACTACATATTAAATTACTAAAATATTTTTATCATTA
61 TATATAAAATTTAATATAATATAAAATTAA-TACATATTAAATTATTAAAATACTTATATCATTA
* * * * * *
25942684 CTTTATAGAAATTTAACATATGACATTTTATTTTAAACTTACTATAATGC--CTT-GATT-TAT-
1 CTTTATAAAAATTTAACATATGACATTTTA-TTTAAAATTATTATAATACTTATTAAATTATATA
*
25942744 TAAAATTTAATATAATATAAAATTAATTATATATTAAATTATTAAAA
65 TAAAATTTAATATAATATAAAATTAA-TACATATTAAATTATTAAAA
25942791 AATAATTTCA
Statistics
Matches: 202, Mismatches: 24, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
121 44 0.22
122 3 0.01
123 3 0.01
124 2 0.01
127 20 0.10
128 71 0.35
129 39 0.19
130 20 0.10
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (124 bp):
CTTTATAAAAATTTAACATATGACATTTTATTTAAAATTATTATAATACTTATTAAATTATATAT
AAAATTTAATATAATATAAAATTAATACATATTAAATTATTAAAATACTTATATCATTA
Found at i:25942809 original size:121 final size:124
Alignment explanation
Indices: 25942491--25942821 Score: 336
Period size: 121 Copynumber: 2.7 Consensus size: 124
25942481 ATTAAGTTAC
* * * * * *
25942491 ATATTAAATTTTAACATAATATAAAATTAATCATACATTAAATTATTAAAATACTTATATCATAG
1 ATATTAAAATTTAATATAATATAAAATTAATTATATATTAAATTATTAAAA-AATTATTTCATAG
* * *
25942556 CTTTATAAAAATTTTA-ATATGTAACATTTTATTTGGAAATTATTATAATACTTTATTAAATT
65 CTTTATAGAAATTTAACATATG-AACATTTTATTTGGAAATTACTATAATAC--TATTAAATT
* * * * *
25942618 ATATATAAAATTTAATATAATATAAAATTAACTACATATTAAATTACTAAAATATTTTTATCATT
1 ATAT-TAAAATTTAATATAATATAAAATTAATTATATATTAAATTATTAAAAAATTATT-TCA-T
* * * *
25942683 A-CTTTATAGAAATTTAACATATG-ACATTTTATTT-TAAACTTACTATAATGC-CTT-GATT
63 AGCTTTATAGAAATTTAACATATGAACATTTTATTTGGAAA-TTACTATAATACTATTAAATT
* *
25942741 -TATTAAAATTTAATATAATATAAAATTAATTATATATTAAATTATTAAAAAATAATTTCAATCG
1 ATATTAAAATTTAATATAATATAAAATTAATTATATATTAAATTATTAAAAAATTATTTC-ATAG
25942805 CTTTAT-GAAAATTTAAC
65 CTTTATAG-AAATTTAAC
25942822 GCGTAATATT
Statistics
Matches: 171, Mismatches: 25, Indels: 22
0.78 0.11 0.10
Matches are distributed among these distances:
120 4 0.02
121 64 0.37
122 3 0.02
123 3 0.02
124 2 0.01
126 3 0.02
127 28 0.16
128 57 0.33
129 7 0.04
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (124 bp):
ATATTAAAATTTAATATAATATAAAATTAATTATATATTAAATTATTAAAAAATTATTTCATAGC
TTTATAGAAATTTAACATATGAACATTTTATTTGGAAATTACTATAATACTATTAAATT
Found at i:25942978 original size:22 final size:22
Alignment explanation
Indices: 25942928--25942983 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
25942918 AATAAAATTT
* *
25942928 TAAAAATATATAATAAGATAAA
1 TAAAAATATATAAAAACATAAA
*
25942950 TATAAATATATAAAAACATAACA
1 TAAAAATATATAAAAACATAA-A
25942973 -AAAAATTATAT
1 TAAAAA-TATAT
25942984 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAAATATATAAAAACATAAA
Found at i:25953013 original size:22 final size:22
Alignment explanation
Indices: 25952987--25953030 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25952977 ATTTTTTGTC
*
25952987 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
25953009 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
25953031 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:25956947 original size:22 final size:22
Alignment explanation
Indices: 25956922--25956965 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25956912 ATTTTTTGTC
* *
25956922 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAGAGATACAAATA
25956944 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
25956966 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:25961415 original size:49 final size:46
Alignment explanation
Indices: 25961327--25961433 Score: 142
Period size: 49 Copynumber: 2.3 Consensus size: 46
25961317 CCAAGTTGAC
*
25961327 AATGAGTTCGAATGAGTTTTTTGAAAGCAACTTAAAAGCTTATTAA
1 AATGAGTTCCAATGAGTTTTTTGAAAGCAACTTAAAAGCTTATTAA
* *
25961373 AATGAGTTCCAATGAGTATTTTTTGAAAGCTACTTTAAAAGCTTGTTAA
1 AATGAGTTCCAATGAG--TTTTTTGAAAGCAAC-TTAAAAGCTTATTAA
**
25961422 ACCGAGTTCCAA
1 AATGAGTTCCAA
25961434 ACTTCCAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
46 15 0.28
48 14 0.26
49 24 0.45
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (46 bp):
AATGAGTTCCAATGAGTTTTTTGAAAGCAACTTAAAAGCTTATTAA
Found at i:25965658 original size:15 final size:17
Alignment explanation
Indices: 25965627--25965663 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
25965617 TTTTAATTAA
25965627 ATTTAAAGTTAATTTTT
1 ATTTAAAGTTAATTTTT
25965644 ATTTAAA-TT-ATTTTT
1 ATTTAAAGTTAATTTTT
25965659 ATTTA
1 ATTTA
25965664 TTTTTATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTAAAGTTAATTTTT
Found at i:25965669 original size:21 final size:20
Alignment explanation
Indices: 25965641--25965696 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
25965631 AAAGTTAATT
25965641 TTTA-TTTAAATTATTTTTA
1 TTTATTTTAAATTATTTTTA
* *
25965660 TTTATTTTTATATGT-CTTTTA
1 TTTA-TTTTAAAT-TATTTTTA
*
25965681 TTTATTTAAAATTATT
1 TTTATTTTAAATTATT
25965697 AAAATTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 7
0.70 0.12 0.17
Matches are distributed among these distances:
19 5 0.18
20 7 0.25
21 15 0.54
22 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATTTTAAATTATTTTTA
Found at i:25966911 original size:21 final size:21
Alignment explanation
Indices: 25966887--25966930 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
25966877 AATGGTCAAT
*
25966887 TCAATTATAAAAT-TTTAAAAA
1 TCAATT-TAAAATATATAAAAA
*
25966908 TCAATTTAATATATATAAAAA
1 TCAATTTAAAATATATAAAAA
25966929 TC
1 TC
25966931 GAATCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
TCAATTTAAAATATATAAAAA
Found at i:25967670 original size:2 final size:2
Alignment explanation
Indices: 25967663--25967703 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
25967653 ATTTGATCTT
25967663 TA TA TA TA TA TA TA TA TA TA T- TA TA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25967702 TA
1 TA
25967704 ACACAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:25967680 original size:12 final size:12
Alignment explanation
Indices: 25967663--25967703 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 12
25967653 ATTTGATCTT
25967663 TATATATATATA
1 TATATATATATA
25967675 TATATATAT-TA
1 TATATATATATA
25967686 TAT-TATATAT-
1 TATATATATATA
25967696 TATATATA
1 TATATATA
25967704 ACACAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.30
11 10 0.37
12 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATATATATA
Found at i:25976895 original size:14 final size:14
Alignment explanation
Indices: 25976876--25976908 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
25976866 CCTCCCTCCC
25976876 TGTCCTTGGGTCCT
1 TGTCCTTGGGTCCT
25976890 TGTCCTTGGGTCCT
1 TGTCCTTGGGTCCT
25976904 TGTCC
1 TGTCC
25976909 AAATCTACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.00, C:0.30, G:0.27, T:0.42
Consensus pattern (14 bp):
TGTCCTTGGGTCCT
Found at i:25985821 original size:22 final size:22
Alignment explanation
Indices: 25985795--25985838 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25985785 TATATATTTA
25985795 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
*
25985817 TATTTGTATTCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
25985839 GACAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:25986108 original size:26 final size:26
Alignment explanation
Indices: 25986061--25986127 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
25986051 AAAATTTTTC
* * * *
25986061 AGCC-TTCATTGCTGACTTCTATTTT
1 AGCCTTTCATTGCCGAATCCTATTTA
*
25986086 AGGCTTTCATTGCCGAATCCTATTTA
1 AGCCTTTCATTGCCGAATCCTATTTA
25986112 AGCCTTT-ATTGCCGAA
1 AGCCTTTCATTGCCGAA
25986128 CCCTTTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (26 bp):
AGCCTTTCATTGCCGAATCCTATTTA
Found at i:25989471 original size:22 final size:22
Alignment explanation
Indices: 25989431--25989474 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25989421 TGTATATTTA
*
25989431 TATTTGTATATCTAAAATTAAG
1 TATTTGTATACCTAAAATTAAG
* *
25989453 TATTTGTATCCCTATAATTAAG
1 TATTTGTATACCTAAAATTAAG
25989475 GACAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (22 bp):
TATTTGTATACCTAAAATTAAG
Found at i:25993347 original size:14 final size:14
Alignment explanation
Indices: 25993328--25993355 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25993318 ACGATAACTT
25993328 ATTTTGGTTTACAA
1 ATTTTGGTTTACAA
25993342 ATTTTGGTTTACAA
1 ATTTTGGTTTACAA
25993356 CATGTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
ATTTTGGTTTACAA
Found at i:25993689 original size:13 final size:14
Alignment explanation
Indices: 25993671--25993699 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25993661 TTCATCCAAA
25993671 TAAAATA-TATAAT
1 TAAAATATTATAAT
25993684 TAAAATATTATAAT
1 TAAAATATTATAAT
25993698 TA
1 TA
25993700 TATAAGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:25996769 original size:23 final size:23
Alignment explanation
Indices: 25996739--25996782 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
25996729 CAGGTCAATT
*
25996739 GAAAATTTGAGATTTAAATATCA
1 GAAAATTTGAAATTTAAATATCA
*
25996762 GAAAATTTGAAATTTGAATAT
1 GAAAATTTGAAATTTAAATAT
25996783 AAAAAAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (23 bp):
GAAAATTTGAAATTTAAATATCA
Found at i:25997341 original size:26 final size:26
Alignment explanation
Indices: 25997306--25997373 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
25997296 CTGCAAGAGC
* *
25997306 CAAAACGACGTCGTTTCAATAAAGAT
1 CAAAATGACGTCGTTTCAATAAAAAT
25997332 CAAAATGACGTCGTTTCAATAAAAAT
1 CAAAATGACGTCGTTTCAATAAAAAT
*
25997358 CAAAATGATGTCGTTT
1 CAAAATGACGTCGTTT
25997374 TAACACTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (26 bp):
CAAAATGACGTCGTTTCAATAAAAAT
Found at i:25997651 original size:21 final size:21
Alignment explanation
Indices: 25997585--25997651 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
25997575 AAAAAATTTT
* * * *
25997585 TTTTGAATTTTTTTATAAATT
1 TTTTAAATTTTATTATTAATA
* *
25997606 TTTATAAATATTATT-TTTATGA
1 TTT-TAAATTTTATTATTAAT-A
25997628 TTTTAAATTTTATTATTAATA
1 TTTTAAATTTTATTATTAATA
25997649 TTT
1 TTT
25997652 ATGCATGTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
21 20 0.57
22 15 0.43
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTTAAATTTTATTATTAATA
Found at i:26010037 original size:49 final size:49
Alignment explanation
Indices: 26009905--26010238 Score: 422
Period size: 49 Copynumber: 6.8 Consensus size: 49
26009895 TTTCGAGAAT
** *
26009905 AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTTCCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCTTTTTCA
* * * * *
26009954 AGATGATGAATTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGTTTTTTTA
1 AGATGA-GATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCTTTTTCA
* * *
26010004 AGATGAGATTTTTAAAGTTATTGAGCCTTTGCTTAGAGGAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCTTTTTCA
* *
26010053 AGATGA-ATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGAAACTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCTTTTTCA
* * * * *
26010101 AGATAAAATTTTTAATGTTGTTGAGCTTATGCTTAGAGAAGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCTTTTTCA
* *
26010150 AGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGATG-AGCTTTTTCA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGA-GAAGCTTTTTCA
* **
26010199 AGATGA-ATTTTTAAAGTCGTTGAGCCTCTATTTAGAGAAG
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAG
26010239 TTATTTTAAA
Statistics
Matches: 251, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.00
48 71 0.28
49 137 0.55
50 42 0.17
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (49 bp):
AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAGCTTTTTCA
Found at i:26010177 original size:146 final size:147
Alignment explanation
Indices: 26009905--26010237 Score: 481
Period size: 146 Copynumber: 2.3 Consensus size: 147
26009895 TTTCGAGAAT
* *
26009905 AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTTCCAAGATGATGAATTTTAA
1 AGATGA-ATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAACTTTTCCAAGATGATAAATTTTAA
* * * * * * *
26009970 AGTTATTGAGCCTCTGCTTAGAGGAGTTTTTTTAAGATGAGATTTTTAAAGTTATTGAGCCTTTG
65 AGTTATTGAGCCTATGCTTAGAGAAGCTTTTTCAAGATAAAATTTTTAAAGTTATTGAGCCTCTG
26010035 CTTAGAGGAGCTTTTTCA
130 CTTAGAGGAGCTTTTTCA
* *
26010053 AGATGAATTTTTAAAGTTGTTGAGCCTCTGTTTAGAGAAACTTTTTCAAGAT-A-AAATTTTTAA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAACTTTTCCAAGATGATAAA-TTTTAA
* * * *
26010116 TGTTGTTGAGCTTATGCTTAGAGAAGCTTTTTCAAGATAAAATTTTTAAAGTTGTTGAGCCTCTG
65 AGTTATTGAGCCTATGCTTAGAGAAGCTTTTTCAAGATAAAATTTTTAAAGTTATTGAGCCTCTG
*
26010181 CTTAGATGAGCTTTTTCA
130 CTTAGAGGAGCTTTTTCA
*
26010199 AGATGAATTTTTAAAGTCGTTGAGCCTCTATTTAGAGAA
1 AGATGAATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAA
26010238 GTTATTTTAA
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
145 2 0.01
146 115 0.69
147 43 0.26
148 6 0.04
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (147 bp):
AGATGAATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAACTTTTCCAAGATGATAAATTTTAAA
GTTATTGAGCCTATGCTTAGAGAAGCTTTTTCAAGATAAAATTTTTAAAGTTATTGAGCCTCTGC
TTAGAGGAGCTTTTTCA
Found at i:26010234 original size:97 final size:97
Alignment explanation
Indices: 26009905--26010238 Score: 426
Period size: 97 Copynumber: 3.4 Consensus size: 97
26009895 TTTCGAGAAT
*
26009905 AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTTCCAAGATGATGAA-TTTTA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTTTCAAGAT-A-GAATTTTTA
* * *
26009969 AAGTTATTGAGCCTCTGCTTAGAGGAGTTTTTTTA
64 AAGTTGTTGAGCCTCTGCTTAGA-GAGCTTTTTCA
* * ** *
26010004 AGATGAGATTTTTAAAGTTATTGAGCCTTTGCTTAGAGGAGCTTTTTCAAGAT-GAATTTTTAAA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTTTCAAGATAGAATTTTTAAA
* *
26010068 GTTGTTGAGCCTCTGTTTAGAGAAACTTTTTCA
66 GTTGTTGAGCCTCTGCTTAGAG-AGCTTTTTCA
* * * *
26010101 AGATAAAATTTTTAATGTTGTTGAG-CT-TATGCTTAGAGAAGCTTTTTCAAGATAAAATTTTTA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTAT--TTAGAGAAGCTTTTTCAAGATAGAATTTTTA
26010164 AAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCA
64 AAGTTGTTGAGCCTCTGCTTAGA-GAGCTTTTTCA
*
26010199 AGATGA-ATTTTTAAAGTCGTTGAGCCTCTATTTAGAGAAG
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAG
26010239 TTATTTTAAA
Statistics
Matches: 203, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
95 1 0.00
96 6 0.03
97 99 0.49
98 46 0.23
99 51 0.25
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (97 bp):
AGATGAGATTTTTAAAGTTGTTGAGCCTCTATTTAGAGAAGCTTTTTCAAGATAGAATTTTTAAA
GTTGTTGAGCCTCTGCTTAGAGAGCTTTTTCA
Found at i:26010306 original size:45 final size:45
Alignment explanation
Indices: 26010211--26010410 Score: 185
Period size: 44 Copynumber: 4.5 Consensus size: 45
26010201 ATGAATTTTT
* * *
26010211 AAAGTCGTTGAGCCTCTATTTAGAGAAG-TTATTTTAAATTTTCA
1 AAAGTCATTGAGCCTCTATTTAAAGAAGCTTCTTTTAAATTTTCA
26010255 AAAGTCATTGAGCCTCTATTTAAAGAAGCTTCTTTTAAATTTTCA
1 AAAGTCATTGAGCCTCTATTTAAAGAAGCTTCTTTTAAATTTTCA
* * * * * *
26010300 AAAGTCATTAAACATCTACTTATATG-AGCTTC-TTTAAATTTTTA
1 AAAGTCATTGAGCCTCTATTTA-AAGAAGCTTCTTTTAAATTTTCA
* ** * * * *
26010344 AAAGTCATTAAGCCTCTGCTCATAGGAGC-T-TTTTAAATTTTTAA
1 AAAGTCATTGAGCCTCTATTTAAAGAAGCTTCTTTTAAA-TTTTCA
*
26010388 AAATGTCATTGAACCTCTATTTA
1 AAA-GTCATTGAGCCTCTATTTA
26010411 GAAAAACCTT
Statistics
Matches: 129, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
43 8 0.06
44 66 0.51
45 53 0.41
46 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (45 bp):
AAAGTCATTGAGCCTCTATTTAAAGAAGCTTCTTTTAAATTTTCA
Found at i:26010396 original size:89 final size:89
Alignment explanation
Indices: 26010243--26010406 Score: 206
Period size: 89 Copynumber: 1.8 Consensus size: 89
26010233 GAGAAGTTAT
* * * *
26010243 TTTAAATTTTCAAAAGTCATTGAGCCTCTATTTAAAGAAGCTTCTTTTAAATTTTCAAAAGTCAT
1 TTTAAATTTTCAAAAGTCATTAAGCCTCTACTCAAAGAAGCTTCTTTTAAATTTTAAAAAGTCAT
26010308 TAAACATCTACTTATATGAGCTTC
66 TAAACATCTACTTATATGAGCTTC
* * * *
26010332 TTTAAATTTTTAAAAGTCATTAAGCCTCTGCTCATAGGAGC-T-TTTTAAATTTTTAAAAATGTC
1 TTTAAATTTTCAAAAGTCATTAAGCCTCTACTCAAAGAAGCTTCTTTTAAA-TTTTAAAAA-GTC
* *
26010395 ATTGAACCTCTA
64 ATTAAACATCTA
26010407 TTTAGAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 7 0.11
88 9 0.14
89 47 0.75
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (89 bp):
TTTAAATTTTCAAAAGTCATTAAGCCTCTACTCAAAGAAGCTTCTTTTAAATTTTAAAAAGTCAT
TAAACATCTACTTATATGAGCTTC
Found at i:26010570 original size:9 final size:9
Alignment explanation
Indices: 26010556--26010593 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
26010546 CCATTTTGTA
26010556 TTATTTTTT
1 TTATTTTTT
26010565 TTATTTTTT
1 TTATTTTTT
*
26010574 TTACTTTTAT
1 TTA-TTTTTT
26010584 TTATTTTTT
1 TTATTTTTT
26010593 T
1 T
26010594 CTTATCCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (9 bp):
TTATTTTTT
Found at i:26010765 original size:23 final size:23
Alignment explanation
Indices: 26010739--26010787 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
26010729 AGGCTAATTG
*
26010739 AAAATTTGAGATTTGAATCTAAA
1 AAAATCTGAGATTTGAATCTAAA
*
26010762 AAAATCTGAGATTTGAATCTCAA
1 AAAATCTGAGATTTGAATCTAAA
26010785 AAA
1 AAA
26010788 GCTCTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (23 bp):
AAAATCTGAGATTTGAATCTAAA
Found at i:26018198 original size:14 final size:14
Alignment explanation
Indices: 26018179--26018208 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26018169 GTGAACATAT
*
26018179 TTTATATTTATTTA
1 TTTATAATTATTTA
26018193 TTTATAATTATTTA
1 TTTATAATTATTTA
26018207 TT
1 TT
26018209 AAATTTAATA
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATAATTATTTA
Found at i:26018309 original size:21 final size:22
Alignment explanation
Indices: 26018284--26018328 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
26018274 TTTATTTCAT
*
26018284 TTATTT-ATATTTACAAATAAA
1 TTATTTAATATTCACAAATAAA
*
26018305 TTATTTAATATTCATAAATAAA
1 TTATTTAATATTCACAAATAAA
26018327 TT
1 TT
26018329 CAATAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATTTAATATTCACAAATAAA
Found at i:26018470 original size:21 final size:22
Alignment explanation
Indices: 26018428--26018487 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
26018418 ATTTAATATT
*
26018428 AATACATTAAAAAGTATATTTAA
1 AATATATTAAAAA-TATATTTAA
* *
26018451 AATATATTAAAAATCT-TTTAT
1 AATATATTAAAAATATATTTAA
* *
26018472 AATGTTTTAAAAATAT
1 AATATATTAAAAATAT
26018488 TATTGTGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 17 0.55
22 2 0.06
23 12 0.39
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (22 bp):
AATATATTAAAAATATATTTAA
Found at i:26018650 original size:18 final size:20
Alignment explanation
Indices: 26018621--26018668 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
26018611 ATTTGTTATT
*
26018621 TTATTTACTTTGA-TTCTTA
1 TTATTTATTTTGATTTCTTA
*
26018640 TT-TTTATTTTGATTTTTTA
1 TTATTTATTTTGATTTCTTA
26018659 TTATTTATTT
1 TTATTTATTT
26018669 ATTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.36
19 9 0.36
20 7 0.28
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (20 bp):
TTATTTATTTTGATTTCTTA
Found at i:26018675 original size:13 final size:12
Alignment explanation
Indices: 26018609--26018678 Score: 56
Period size: 13 Copynumber: 5.6 Consensus size: 12
26018599 TTAGGTCAAA
*
26018609 TTATTTGTTATT
1 TTATTTTTTATT
26018621 TTATTTACTTTGATT
1 TTATTT--TTT-ATT
26018636 CTTA-TTTTTATT
1 -TTATTTTTTATT
26018648 TTGATTTTTTA--
1 TT-ATTTTTTATT
26018659 TTATTTATTTATT
1 TTATTT-TTTATT
26018672 TTATTTT
1 TTATTTT
26018679 AAGATAATAG
Statistics
Matches: 48, Mismatches: 1, Indels: 18
0.72 0.01 0.27
Matches are distributed among these distances:
10 4 0.08
11 8 0.17
12 11 0.23
13 15 0.31
14 2 0.04
15 5 0.10
16 3 0.06
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (12 bp):
TTATTTTTTATT
Found at i:26019257 original size:21 final size:18
Alignment explanation
Indices: 26019214--26019252 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
26019204 CAACCGGGTT
*
26019214 AGAAAGAAAAGAGAGGAA
1 AGAAAGAAAAGAGAGAAA
26019232 AGAAAGAAGAAGAGAGAAA
1 AGAAAGAA-AAGAGAGAAA
26019251 AG
1 AG
26019253 GGAAAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAAGAGAGAAA
Found at i:26023607 original size:12 final size:12
Alignment explanation
Indices: 26023592--26023664 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
26023582 TTAAAAGTAG
*
26023592 TAATAAAAATTT
1 TAATAAAAAATT
26023604 TAATAAAAAATT
1 TAATAAAAAATT
26023616 TATATCAAATAAATT
1 TA-AT-AAA-AAATT
* *
26023631 TAAT-TAAGA-T
1 TAATAAAAAATT
**
26023641 TAATATTTAAATT
1 TAATA-AAAAATT
26023654 TAATAAAAAAT
1 TAATAAAAAAT
26023665 AATTTAAGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
10 5 0.10
11 2 0.04
12 21 0.44
13 8 0.17
14 5 0.10
15 7 0.15
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (12 bp):
TAATAAAAAATT
Found at i:26031738 original size:15 final size:15
Alignment explanation
Indices: 26031715--26031757 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
26031705 TTGAAAAATG
26031715 ATAAAAAAAATGAAAA
1 ATAAAAAAAAT-AAAA
26031731 ATAAAAAAAATAAAA
1 ATAAAAAAAATAAAA
26031746 ATGAAAAAAAAT
1 AT-AAAAAAAAT
26031758 TTGATGGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (15 bp):
ATAAAAAAAATAAAA
Found at i:26032007 original size:13 final size:13
Alignment explanation
Indices: 26031989--26032026 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
26031979 ACTGATTGAT
26031989 AAATGAAAAAGAA
1 AAATGAAAAAGAA
26032002 AAATG-AAAAGAA
1 AAATGAAAAAGAA
*
26032014 AAGATGAGAAAGA
1 AA-ATGAAAAAGA
26032027 GGTACGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 9 0.41
13 8 0.36
14 5 0.23
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (13 bp):
AAATGAAAAAGAA
Found at i:26032045 original size:1 final size:1
Alignment explanation
Indices: 26032034--26032090 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
26032024 AGAGGTACGC
* * * * ** *
26032034 AAAATAAAAAAAAAAACAAAACAAACAAAAAGCAAAAAAAAAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
26032091 GAGACTTAAA
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:26032070 original size:26 final size:26
Alignment explanation
Indices: 26032039--26032091 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
26032029 TACGCAAAAT
* *
26032039 AAAAAAAAAAACAAAACAAACAAAAAGC
1 AAAAAAAAAAA-AAAAAAAC-AAAAAGC
26032067 AAAAAAAAAAAAAAAAAACAAAAAG
1 AAAAAAAAAAAAAAAAAACAAAAAG
26032092 AGACTTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 6 0.26
28 11 0.48
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAAAAAAAACAAAAAGC
Found at i:26032073 original size:19 final size:19
Alignment explanation
Indices: 26032034--26032090 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
26032024 AGAGGTACGC
* *
26032034 AAAATAAAAAAAAA-AACA
1 AAAAAAAAAAAAAACAAAA
* * *
26032052 AAACAAACAAAAAGCAAAA
1 AAAAAAAAAAAAAACAAAA
26032071 AAAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAACAAAA
26032090 A
1 A
26032091 GAGACTTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAAAAACAAAA
Found at i:26033350 original size:19 final size:18
Alignment explanation
Indices: 26033287--26033361 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
26033277 ACTGAAACTT
26033287 TTACAAATCTTTGAATTG
1 TTACAAATCTTTGAATTG
*** *
26033305 CTTGTGAATATTTGAAGTTG
1 -TTACAAATCTTTGAA-TTG
*
26033325 TTGCAAA-CGTTTGAATTG
1 TTACAAATC-TTTGAATTG
26033343 TTTACAAATCTTTGAATTG
1 -TTACAAATCTTTGAATTG
26033362 CTTGCGAACC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
18 3 0.07
19 37 0.84
20 4 0.09
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (18 bp):
TTACAAATCTTTGAATTG
Found at i:26034135 original size:64 final size:64
Alignment explanation
Indices: 26034061--26034199 Score: 178
Period size: 64 Copynumber: 2.2 Consensus size: 64
26034051 AAAATTTTAA
* * *
26034061 ATTTTATTTTCAGACCTGTGATTTAATCTCAG-TCA-CTCGTTTTGATATT-GAGTT-AGTCTAG
1 ATTTTATTTTCAGACCTGTGATTCAATC-CAGATCACCT-ATTTTAAT-TTCG-GTTCAGTCTAG
26034122 ATC
62 ATC
26034125 ATTTTATTTTCAGACCTGTGATTCAATCCAGATCACCTATTTTAATTTCGGTTCAGTCTAGATC
1 ATTTTATTTTCAGACCTGTGATTCAATCCAGATCACCTATTTTAATTTCGGTTCAGTCTAGATC
26034189 ATTTTAGTTTT
1 ATTTTA-TTTT
26034200 TTGACCCACA
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
63 8 0.12
64 53 0.79
65 6 0.09
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.46
Consensus pattern (64 bp):
ATTTTATTTTCAGACCTGTGATTCAATCCAGATCACCTATTTTAATTTCGGTTCAGTCTAGATC
Found at i:26035780 original size:28 final size:28
Alignment explanation
Indices: 26035748--26035802 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
26035738 TTCTCCTTCC
26035748 TTTATGATATTTTTACAT-ATTTTTATTA
1 TTTAT-ATATTTTTACATGATTTTTATTA
* *
26035776 TTTATTTATTTTTGCATGATTTTTATT
1 TTTATATATTTTTACATGATTTTTATT
26035803 CGCATTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.24, C:0.04, G:0.05, T:0.67
Consensus pattern (28 bp):
TTTATATATTTTTACATGATTTTTATTA
Found at i:26039737 original size:28 final size:28
Alignment explanation
Indices: 26039705--26039759 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
26039695 AACCCAAACG
* *
26039705 AATAACGGA-CCAAATTGATATAAAAAAA
1 AATAACGAACCCAAA-TGAAATAAAAAAA
*
26039733 AATAATGAACCCAAATGAAATAAAAAA
1 AATAACGAACCCAAATGAAATAAAAAA
26039760 TAATCCTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (28 bp):
AATAACGAACCCAAATGAAATAAAAAAA
Found at i:26040094 original size:18 final size:19
Alignment explanation
Indices: 26040070--26040111 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
26040060 TTTTTTAATT
*
26040070 TAATATAAATATATTTATA
1 TAATATAAATAAATTTATA
*
26040089 -AATATACATAAATTTATA
1 TAATATAAATAAATTTATA
26040107 TAATA
1 TAATA
26040112 ATATTATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATATAAATAAATTTATA
Found at i:26040503 original size:7 final size:7
Alignment explanation
Indices: 26040478--26040529 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
26040468 TTATTTTTAT
26040478 TAAATTA
1 TAAATTA
* *
26040485 AAAATAA
1 TAAATTA
26040492 TTAAATTA
1 -TAAATTA
26040500 TAAATTA
1 TAAATTA
*
26040507 TAAATTG
1 TAAATTA
26040514 TAAATTA
1 TAAATTA
26040521 TAAATTA
1 TAAATTA
26040528 TA
1 TA
26040530 TTTCATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 33 0.87
8 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (7 bp):
TAAATTA
Found at i:26040583 original size:19 final size:18
Alignment explanation
Indices: 26040546--26040589 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
26040536 AATATCGATC
* *
26040546 AAAATAAATTAATTTATT
1 AAAATTAATTAATTAATT
26040564 AAAATTAATTAAATTAATT
1 AAAATTAATT-AATTAATT
*
26040583 AATATTA
1 AAAATTA
26040590 TTTTATATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTAATTAATTAATT
Found at i:26042155 original size:2 final size:2
Alignment explanation
Indices: 26042148--26042175 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26042138 TTTCCTCGTG
26042148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26042176 AAGATAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26044763 original size:6 final size:6
Alignment explanation
Indices: 26044740--26044782 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
26044730 TGTTGCGATT
* *
26044740 GGTGAA GGTG-G GGCTGAG GTTGAG GGTGAG GGTGAG GGTGAG G
1 GGTGAG GGTGAG GG-TGAG GGTGAG GGTGAG GGTGAG GGTGAG G
26044783 AAAAGGATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 2 0.06
6 28 0.88
7 2 0.06
ACGTcount: A:0.16, C:0.02, G:0.63, T:0.19
Consensus pattern (6 bp):
GGTGAG
Found at i:26050906 original size:358 final size:355
Alignment explanation
Indices: 26050055--26051185 Score: 1432
Period size: 358 Copynumber: 3.2 Consensus size: 355
26050045 AATGCATTTT
* * *
26050055 ATAATAAAAGACGCCTTTAATAATCTAAAAAATTCTTTTTAAGAAAATTATTAAAGGCGTTGTTA
1 ATAATAAAAGACGCCTTTAATAATCAAAAAAATTTTTTTTAAGAAAATTATTGAAGGCGTTGTTA
* * * *
26050120 TCTACAATCATCTTCACTAATTATATACAAACTATGATAGGAATTATTAAATGCATCTTTCTT-G
66 TCTACAATCACCTTCACTAATTATCTACAAACTATGATAAGAATTATTAAAGGCATCTTTCTTAG
* * * *
26050184 AATATACT-CCTTCAATAAC-TGTTAAAATTTTTATGGCGGTATGTAGAAGGTATTTTACAGTAG
131 AA-ATA-TGCCTTCAATAACGTGTTAAAATTTGTGTGACGGTATATAGAAGGTATTTTACAGTAG
* *
26050247 AAGACACCCTTAATGATTTCTAAAATTTTTAGT-GAGAAAATTTTGAAGGCGTCTGTTATTAACA
194 AAGA-TCCTTTAATGATTTCTAAAATTTTTAGTGGA-AAAATTTTGAAGGCGTCTGTTATTAACA
** * * * * *
26050311 AATGCCTTCAACAATGGATTACTAAGTTTACATGTATATTGAAGGTGCCTTTTCGAATAAACGCT
257 AATGCCTTCAGTAATTGATTACTAAGTTTAAAAGTATATTGAAGGTGCCTTTTCGAATAAATGCC
*
26050376 TTCCATAACCATCGTGGTATATTGAAGGTGTTTT
322 TTCCATAACCATCGTGGTATATTGAAGGTGTTTC
* * * ***
26050410 ATAATAAAAGACGCCTTTAATAATCTGAAAAAAA--ATTTTTAAAAAAAATATTGAAATTGTTGT
1 ATAATAAAAGACGCCTTTAATAATC--AAAAAAATTTTTTTTAAGAAAATTATTGAAGGCGTTGT
* * *
26050473 TATCTGCAACCACCTTCACTAATTATCTACAAACTATGATAAAAATTATTAAAGGCATCTTTCTT
64 TATCTACAATCACCTTCACTAATTATCTACAAACTATGATAAGAATTATTAAAGGCATCTTTCTT
* * *
26050538 AGATATATGCCTTCAATAATCGTGTTAAAATTTGTGTGATGGTATATAGAAAGTATTTTACAGTA
129 AGAAATATGCCTTCAATAA-CGTGTTAAAATTTGTGTGACGGTATATAGAAGGTATTTTACAGTA
* * * *
26050603 GAAGATGCCTTTAATTATTCCCAAAATTTTTAGTGGAAAAATTTTGAAGGCGTATGTTATTAACA
193 GAAGAT-CCTTTAATGATTTCTAAAATTTTTAGTGGAAAAATTTTGAAGGCGTCTGTTATTAACA
** * * * *
26050668 AACACCTTCAGTAATTGATTACTAAATTTAAAGGTATATTGAATGTGCCTTTTCAAATAAAATGC
257 AATGCCTTCAGTAATTGATTACTAAGTTTAAAAGTATATTGAAGGTGCCTTTTCGAAT-AAATGC
* * *
26050733 CTTCTATAACCATTGTGATATATTGAAGGTGTTTC
321 CTTCCATAACCATCGTGGTATATTGAAGGTGTTTC
* *
26050768 ATAATAAAAGATGCCTTTAATAATTCAAAAAAATTTTTTTTAA-AAAATTATTGAAGGCATTGTT
1 ATAATAAAAGACGCCTTTAATAA-TCAAAAAAATTTTTTTTAAGAAAATTATTGAAGGCGTTGTT
* * * * *
26050832 ATCTATAATCGCCTTCACTAATTATCTACAAATTGTTATAAGAATTATTAAAGGCATCTTTCTTA
65 ATCTACAATCACCTTCACTAATTATCTACAAACTATGATAAGAATTATTAAAGGCATCTTTCTTA
*
26050897 GAAATATGCCTTCAATAACTGTGTTAAAATTTGTGTGACAGTATATAGAAGGTATTTTACAGTAG
130 GAAATATGCCTTCAATAAC-GTGTTAAAATTTGTGTGACGGTATATAGAAGGTATTTTACAGTAG
* * * * *
26050962 AAGACTCCTTTAATGATTTTTAAAATTTTTAATGAAAAAATTTTGAAGGCATCTATTATTAACAA
194 AAGA-TCCTTTAATGATTTCTAAAATTTTTAGTGGAAAAATTTTGAAGGCGTCTGTTATTAACAA
** *
26051027 ATGCCTTCAGTAA-TGTATTACTAAGTTTAAAAGTATATTGAAGGTGTTTTTTTGAATAAATGCC
258 ATGCCTTCAGTAATTG-ATTACTAAGTTTAAAAGTATATTGAAGGTGCCTTTTCGAATAAATGCC
* * * *
26051091 TTCCATAATCATCATGGTATATTAAAGGCGTTTC
322 TTCCATAACCATCGTGGTATATTGAAGGTGTTTC
* ** * * * *
26051125 ATAGTAAAAGACGCCTTTAATAATCCTAAAAACTTTTGTTAAGCAAATTATTGAAGCCGTT
1 ATAATAAAAGACGCCTTTAATAATCAAAAAAATTTTTTTTAAGAAAATTATTGAAGGCGTT
26051186 AACGTAAAAA
Statistics
Matches: 663, Mismatches: 97, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
354 1 0.00
355 118 0.18
356 18 0.03
357 226 0.34
358 290 0.44
359 10 0.02
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (355 bp):
ATAATAAAAGACGCCTTTAATAATCAAAAAAATTTTTTTTAAGAAAATTATTGAAGGCGTTGTTA
TCTACAATCACCTTCACTAATTATCTACAAACTATGATAAGAATTATTAAAGGCATCTTTCTTAG
AAATATGCCTTCAATAACGTGTTAAAATTTGTGTGACGGTATATAGAAGGTATTTTACAGTAGAA
GATCCTTTAATGATTTCTAAAATTTTTAGTGGAAAAATTTTGAAGGCGTCTGTTATTAACAAATG
CCTTCAGTAATTGATTACTAAGTTTAAAAGTATATTGAAGGTGCCTTTTCGAATAAATGCCTTCC
ATAACCATCGTGGTATATTGAAGGTGTTTC
Found at i:26051243 original size:23 final size:23
Alignment explanation
Indices: 26051194--26051243 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
26051184 TTAACGTAAA
* * *
26051194 AAATACCTTCACTAATTATTTGC
1 AAATACCTTAACTAATTATCTAC
* *
26051217 AAATGCCTTAACTAATTATCTAT
1 AAATACCTTAACTAATTATCTAC
26051240 AAAT
1 AAAT
26051244 TGTGATAGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
AAATACCTTAACTAATTATCTAC
Found at i:26059498 original size:21 final size:20
Alignment explanation
Indices: 26059474--26059530 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
26059464 ATTTTTGTAT
*
26059474 TAATTTTATTGATATATTAAA
1 TAATTTTATTGATATA-AAAA
*
26059495 TAATTATATTTGA-ATAAAAA
1 TAATTTTA-TTGATATAAAAA
26059515 TAATTATTATATGATA
1 TAATT-TTAT-TGATA
26059531 AATGGTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 9 0.31
21 15 0.52
22 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TAATTTTATTGATATAAAAA
Found at i:26059531 original size:20 final size:20
Alignment explanation
Indices: 26059492--26059532 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
26059482 TTGATATATT
*
26059492 AAATAATTATATTTGAATAA
1 AAATAATTATATATGAATAA
26059512 AAATAATTATTATATG-ATAA
1 AAATAATTA-TATATGAATAA
26059532 A
1 A
26059533 TGGTTATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
AAATAATTATATATGAATAA
Found at i:26062096 original size:20 final size:21
Alignment explanation
Indices: 26062071--26062117 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
26062061 TTTTTATTTT
*
26062071 AACAGGAGTAG-AGGTCGAGA
1 AACAGGAGAAGAAGGTCGAGA
* *
26062091 AACAGGAGAAGAAGGTTGAGG
1 AACAGGAGAAGAAGGTCGAGA
26062112 AACAGG
1 AACAGG
26062118 GTTTAAAGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.43, C:0.09, G:0.40, T:0.09
Consensus pattern (21 bp):
AACAGGAGAAGAAGGTCGAGA
Found at i:26071129 original size:21 final size:21
Alignment explanation
Indices: 26071103--26071143 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
26071093 AGGTGGGGGA
26071103 GTTGCGGTTGACGGAGGTGGT
1 GTTGCGGTTGACGGAGGTGGT
26071124 GTTGCGGTTGACGGAGGTGG
1 GTTGCGGTTGACGGAGGTGG
26071144 GGGTGAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.54, T:0.27
Consensus pattern (21 bp):
GTTGCGGTTGACGGAGGTGGT
Found at i:26071153 original size:21 final size:21
Alignment explanation
Indices: 26071108--26071155 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
26071098 GGGGAGTTGC
* * *
26071108 GGTTGACGGAGGTGGTGTTGC
1 GGTTGACGGAGGTGGGGGTGA
26071129 GGTTGACGGAGGTGGGGGTGA
1 GGTTGACGGAGGTGGGGGTGA
26071150 GGTTGA
1 GGTTGA
26071156 GGGTGAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.06, G:0.56, T:0.25
Consensus pattern (21 bp):
GGTTGACGGAGGTGGGGGTGA
Found at i:26071154 original size:27 final size:25
Alignment explanation
Indices: 26071091--26071150 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 25
26071081 AGAGGCGATG
26071091 GGAGGTGGGG-GAGTTGCGGTTGAC
1 GGAGGTGGGGTGAGTTGCGGTTGAC
26071115 GGAGGT--GGT--GTTGCGGTTGAC
1 GGAGGTGGGGTGAGTTGCGGTTGAC
26071136 GGAGGTGGGGGTGAG
1 GGAGGT-GGGGTGAG
26071151 GTTGAGGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
21 18 0.60
22 2 0.07
24 9 0.30
26 1 0.03
ACGTcount: A:0.12, C:0.07, G:0.60, T:0.22
Consensus pattern (25 bp):
GGAGGTGGGGTGAGTTGCGGTTGAC
Found at i:26071329 original size:21 final size:21
Alignment explanation
Indices: 26071291--26071364 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
26071281 AAGCTGGTGG
* * *
26071291 AGGAGTAGAGGGTCGAGGAGC
1 AGGAGAAGAAGGTTGAGGAGC
26071312 AGGAGAAGAAGGTTGAGGAGC
1 AGGAGAAGAAGGTTGAGGAGC
* ** *
26071333 AGGGGTTGAAGGCTGAGGAGC
1 AGGAGAAGAAGGTTGAGGAGC
*
26071354 AGGAGACGAAG
1 AGGAGAAGAAG
26071365 CTGCAGCACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.32, C:0.08, G:0.50, T:0.09
Consensus pattern (21 bp):
AGGAGAAGAAGGTTGAGGAGC
Found at i:26073330 original size:41 final size:43
Alignment explanation
Indices: 26073247--26073347 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 43
26073237 TATTTGTGTA
*
26073247 ATATTTATTTTATGTTAAATATATATAAAATATAAAAATTATT
1 ATATTTAATTTATGTTAAATATATATAAAATATAAAAATTATT
* * *
26073290 ATATTATAATTTATGTT-GATATAT-TAAAA-ATAATATTTATT
1 ATATT-TAATTTATGTTAAATATATATAAAATATAAAAATTATT
*
26073331 -T-TTT-ATTTTTGTTAAAT
1 ATATTTAATTTATGTTAAAT
26073348 TTACATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
37 8 0.16
38 3 0.06
39 2 0.04
40 1 0.02
41 10 0.20
42 5 0.10
43 11 0.22
44 10 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (43 bp):
ATATTTAATTTATGTTAAATATATATAAAATATAAAAATTATT
Found at i:26073395 original size:18 final size:18
Alignment explanation
Indices: 26073373--26073421 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
26073363 AAAATTTTAA
*
26073373 ATTATATTATTTTCATATC
1 ATTATATTATATT-ATATC
* *
26073392 -TTATGTTATATTGTATC
1 ATTATATTATATTATATC
26073409 ATTATATTATATT
1 ATTATATTATATT
26073422 TAAAATTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (18 bp):
ATTATATTATATTATATC
Found at i:26080197 original size:2 final size:2
Alignment explanation
Indices: 26080190--26080225 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
26080180 TCATTGAAAT
*
26080190 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26080226 CATGAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:26081561 original size:19 final size:19
Alignment explanation
Indices: 26081523--26081561 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
26081513 AGCAGATAGT
*
26081523 AATGAGAAGATATATAAAA
1 AATGAGAAGATAAATAAAA
26081542 AATGAGAAGATAAATCAAAA
1 AATGAGAAGATAAAT-AAAA
26081562 TCATAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.64, C:0.03, G:0.15, T:0.18
Consensus pattern (19 bp):
AATGAGAAGATAAATAAAA
Done.