Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002352.1 Hibiscus syriacus cultivar Beakdansim tig00004797_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: 2012169
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:1887 original size:37 final size:37
Alignment explanation
Indices: 1845--1954 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
1835 ATTTGGGCCA
1845 CTTAAGCCTTCACCAAAGAGTAGTAAAGCAAATCCAT
1 CTTAAGCCTTCACCAAAGAGTAGTAAAGCAAATCCAT
* * * *
1882 TTTAAGCCTTCACCAAAGAGTAGTGAAGTAAATCAAT
1 CTTAAGCCTTCACCAAAGAGTAGTAAAGCAAATCCAT
*
1919 CTTAAGCCTTCACGAAAGAGTAGTGAAA-CAAATCCA
1 CTTAAGCCTTCACCAAAGAGTAGT-AAAGCAAATCCA
1955 AGATTGATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
37 61 0.97
38 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (37 bp):
CTTAAGCCTTCACCAAAGAGTAGTAAAGCAAATCCAT
Found at i:2020 original size:47 final size:48
Alignment explanation
Indices: 1951--2210 Score: 359
Period size: 47 Copynumber: 5.5 Consensus size: 48
1941 GTGAAACAAA
*
1951 TCCAAGA-TTGATATTCCCTTCAGAGTAAGCGGAACAAGT-TTTTTTC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
*
1997 TCCAAGATTTGATATTCCTTTCAGAGTAAGCGGAACAAGTCTC-TTTC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
*
2044 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTATCTTTTC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
* *
2092 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACATA-TCTCTCTTA
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACA-AGTCTCTTTTC
* * ** * **
2140 T-CAAGATTTGATATTCCATTTAGAGTAAGTAGAACATGTCTCCCTTC
1 TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
*
2187 TCAAAGATTTGATATTCCCTTCAG
1 TCCAAGATTTGATATTCCCTTCAG
2211 GAACAAGTCT
Statistics
Matches: 191, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
46 7 0.04
47 115 0.60
48 68 0.36
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (48 bp):
TCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTTTTC
Found at i:2120 original size:95 final size:95
Alignment explanation
Indices: 1950--2210 Score: 368
Period size: 95 Copynumber: 2.8 Consensus size: 95
1940 AGTGAAACAA
*
1950 ATCCAAGA-TTGATATTCCCTTCAGAGTAAGCGGAACAAGTTTTTTTCTCCAAGATTTGATATTC
1 ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTTCTTTTCTCCAAGATTTGATATTC
*
2014 CTTTCAGAGTAAGCGGAACA-AGTCTCT-TT
66 CCTTCAGAGTAAGCGGAACATA-TCTCTCTT
*
2043 CTCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTATCTTTTCTCCAAGATTTGATATT
1 ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGT-TCTTTTCTCCAAGATTTGATATT
2108 CCCTTCAGAGTAAGCGGAACATATCTCTCTT
65 CCCTTCAGAGTAAGCGGAACATATCTCTCTT
* * ** * ** *
2139 AT-CAAGATTTGATATTCCATTTAGAGTAAGTAGAACATGTCTCCCTTCTCAAAGATTTGATATT
1 ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGT-TCTTTTCTCCAAGATTTGATATT
2203 CCCTTCAG
65 CCCTTCAG
2211 GAACAAGTCT
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
93 7 0.05
94 32 0.21
95 108 0.72
96 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (95 bp):
ATCCAAGATTTGATATTCCCTTCAGAGTAAGCGGAACAAGTTCTTTTCTCCAAGATTTGATATTC
CCTTCAGAGTAAGCGGAACATATCTCTCTT
Found at i:2322 original size:65 final size:65
Alignment explanation
Indices: 2210--2331 Score: 190
Period size: 65 Copynumber: 1.9 Consensus size: 65
2200 ATTCCCTTCA
* * * * *
2210 GGAACAAGTCTGACCTGATTGAATGGATCAATTCCTCCATATTTGATATTTCCTTCAAAGTAAGT
1 GGAACAAGTCTGACCTGATTGAATGGATCAACTCCCCCAGATCTGATATTCCCTTCAAAGTAAGT
*
2275 GGAACAAGTCTGCCCTGATTGAATGGATCAACTCCCCCAGATCTGATATTCCCTTCA
1 GGAACAAGTCTGACCTGATTGAATGGATCAACTCCCCCAGATCTGATATTCCCTTCA
2332 GACGGAACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (65 bp):
GGAACAAGTCTGACCTGATTGAATGGATCAACTCCCCCAGATCTGATATTCCCTTCAAAGTAAGT
Found at i:3820 original size:11 final size:11
Alignment explanation
Indices: 3804--3828 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3794 ACGCCCTTTG
3804 TATATATATTA
1 TATATATATTA
3815 TATATATATTA
1 TATATATATTA
3826 TAT
1 TAT
3829 GTCCCTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATATTA
Found at i:4519 original size:48 final size:48
Alignment explanation
Indices: 4448--4543 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
4438 AAATAAGGTA
4448 ATATTCGGTTATTAGGCACAATAGTTGATCTCCCGCATTTACGCTCGG
1 ATATTCGGTTATTAGGCACAATAGTTGATCTCCCGCATTTACGCTCGG
4496 ATATTCGGTTATTAGGCACAATAGTTGATCTCCCGCATTTACGCTCGG
1 ATATTCGGTTATTAGGCACAATAGTTGATCTCCCGCATTTACGCTCGG
4544 GGGCGAATAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (48 bp):
ATATTCGGTTATTAGGCACAATAGTTGATCTCCCGCATTTACGCTCGG
Found at i:8424 original size:78 final size:78
Alignment explanation
Indices: 8295--8441 Score: 249
Period size: 78 Copynumber: 1.9 Consensus size: 78
8285 GTATAATACA
* * * *
8295 AGAAAAACAGAATAAGTTCATAATGTTTATAGATATAGCAAAACAAACGCAAACCTAACATTACC
1 AGAAAAACAGAATAAATTCATAATGTTGATAGATATAGCAAAAAAAACGCAAACCTAACATCACC
8360 CTATTTCTAGATG
66 CTATTTCTAGATG
*
8373 AGAAAAACAGAATAAATTCATAATGTTGATAGATATAGCAAAAAAAACGCAAACGTAACATCACC
1 AGAAAAACAGAATAAATTCATAATGTTGATAGATATAGCAAAAAAAACGCAAACCTAACATCACC
8438 CTAT
66 CTAT
8442 AGCAAGATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (78 bp):
AGAAAAACAGAATAAATTCATAATGTTGATAGATATAGCAAAAAAAACGCAAACCTAACATCACC
CTATTTCTAGATG
Found at i:8611 original size:19 final size:20
Alignment explanation
Indices: 8572--8611 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8562 AGATGCTACG
*
8572 ATGATGGTTGTGGCTGGGCT
1 ATGATGGTTGTGGCGGGGCT
8592 ATGATGGTTGT-GCGGGGCT
1 ATGATGGTTGTGGCGGGGCT
8611 A
1 A
8612 GGGTTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.12, C:0.10, G:0.45, T:0.33
Consensus pattern (20 bp):
ATGATGGTTGTGGCGGGGCT
Found at i:8984 original size:42 final size:42
Alignment explanation
Indices: 8919--9014 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
8909 CGTTTATATA
* * *
8919 AAAACACCACTATAGTATGTGTAAT-TCGCGGCATTAGTGCGT
1 AAAACGCCACTACAGTATGTGTAATCT-ACGGCATTAGTGCGT
* * *
8961 AAAACGCCACTACAGTACT-TGTAATCTACGGCGTTTGTGCTT
1 AAAACGCCACTACAGTA-TGTGTAATCTACGGCATTAGTGCGT
9003 AAAACGCCACTA
1 AAAACGCCACTA
9015 TAATATGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 44 0.96
43 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
AAAACGCCACTACAGTATGTGTAATCTACGGCATTAGTGCGT
Found at i:9078 original size:41 final size:40
Alignment explanation
Indices: 9003--9138 Score: 105
Period size: 41 Copynumber: 3.4 Consensus size: 40
8993 GTTTGTGCTT
* *
9003 AAAACGCCACTATAA-TATGACATTTAGC-AGCATTTGTATA
1 AAAACGCCACTA-AAGTATGAAAATTAGCGA-CATTTGTATA
* * * *
9043 AAAACGCCACTAGAGTATGTAAAATTAGTGACATTTTTACA
1 AAAACGCCACTAAAGTATG-AAAATTAGCGACATTTGTATA
* * * * * *
9084 TAAAACACCATTAAAGTATGACATTTTGCGACGTTTGTATA
1 -AAAACGCCACTAAAGTATGAAAATTAGCGACATTTGTATA
*
9125 AAAATGCCACTAAA
1 AAAACGCCACTAAA
9139 TTAGAGAATT
Statistics
Matches: 73, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
39 1 0.01
40 27 0.37
41 28 0.38
42 17 0.23
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.29
Consensus pattern (40 bp):
AAAACGCCACTAAAGTATGAAAATTAGCGACATTTGTATA
Found at i:16778 original size:21 final size:21
Alignment explanation
Indices: 16754--16794 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16744 CACATAAAAC
*
16754 TAAAAATCATACCTATTCTTA
1 TAAAAATCATACATATTCTTA
*
16775 TAAAAATCATATATATTCTT
1 TAAAAATCATACATATTCTT
16795 CAAACATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAATCATACATATTCTTA
Found at i:18506 original size:35 final size:35
Alignment explanation
Indices: 18460--18529 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
18450 ATTGCCCAGA
* *
18460 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAAGGGGTATAGATTCCCC
18495 GGGAACAGATTCCCCCCAAGGGGTATAGATTCCCC
1 GGGAACAGATTCCCCCCAAGGGGTATAGATTCCCC
18530 CTGCATGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.17
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAAGGGGTATAGATTCCCC
Found at i:19031 original size:32 final size:34
Alignment explanation
Indices: 18964--19033 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
18954 TTTTGTAAAG
* *
18964 GGGAAAGGTTCTAGCTTATCCCGTGTAAAATCTA
1 GGGAAAGGTTCTAGCTTAGCCAGTGTAAAATCTA
*
18998 GGGAAAGGTTCTAGTTTAGCCAG-G-AAAATCTA
1 GGGAAAGGTTCTAGCTTAGCCAGTGTAAAATCTA
19030 GGGA
1 GGGA
19034 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 12 0.36
33 1 0.03
34 20 0.61
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (34 bp):
GGGAAAGGTTCTAGCTTAGCCAGTGTAAAATCTA
Found at i:24624 original size:22 final size:22
Alignment explanation
Indices: 24592--24637 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
24582 ATTATTTCAT
*
24592 ATTAACGAATTAAAAAATATAA
1 ATTAACAAATTAAAAAATATAA
**
24614 ATTAACAAATTAATGAATATAA
1 ATTAACAAATTAAAAAATATAA
24636 AT
1 AT
24638 ATTAATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.30
Consensus pattern (22 bp):
ATTAACAAATTAAAAAATATAA
Found at i:26669 original size:345 final size:347
Alignment explanation
Indices: 26033--27151 Score: 1764
Period size: 345 Copynumber: 3.2 Consensus size: 347
26023 GAACAGTATA
* * * * *
26033 TTATGAACCCAATTCCTTTTTTCTACCATCCGAATAAAGTTGGTAAGTTTCAATAACTTGTAGTA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAGTAACATGTAGAA
** * *
26098 ATGGATAAAAATTTTGTTACAAATTTAAATTTTGATCAGTTTATAATTCTTTTATTTTATCTCTT
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTA-CTCTT
* * * * * * *
26163 ATAAA-A-A-GATAAGAAAATAGACAATGTAGAAAAAGAATATGTTATAAACTCAATTCCTTTTT
130 ATAAATAGATGATCAGGAAATGGACAATGCAGGAAAAGAATCTGTTATAAACCCAATTCCTTTTT
* * *
26225 TCTACCATCCGAAGAAAGTTGGTAAGTTTCAGGAACATGTAGAAATGGATAAATCTTTTGGTGCA
195 TCTACCATCCGAAGAAAGTTGGTAAGTTTCAAGAACATGTAGAAATGGATAAATCTTTTGTTACA
*
26290 AATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTTATAAATAGATGATCAAGAAAT
260 AATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTTATAAATAGATGGTCAAGAAAT
26355 GGACAATGCAGGAAAAGAATATG
325 GGACAATGCAGGAAAAGAATATG
*
26378 TTATAAACCCAATTCCTTTTTTCTACCATCTGAAGAAAGTTGGTAAGTTTCAGTAACATGTAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAGTAACATGTAGAA
26443 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTA-T-TTA
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTACTCTTA
* *
26506 TAAATAGATGATCAGGAAATGGATAATACAGGAAAAGAATCTGTTATAAACCCAATTCCTTTTTT
131 TAAATAGATGATCAGGAAATGGACAATGCAGGAAAAGAATCTGTTATAAACCCAATTCCTTTTTT
* * * *
26571 CTACCATCCGAAGAAAGTTGGTAAGTTCCAAGAACATATAGAAATGAATAAATATTTTGTTACAA
196 CTACCATCCGAAGAAAGTTGGTAAGTTTCAAGAACATGTAGAAATGGATAAATCTTTTGTTACAA
* *
26636 ATTTAAATTCTGATCGGTTTATAATTCTTTTATTTTATCTCTTATAAATAGATGGTCAAGAAATG
261 ATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTTATAAATAGATGGTCAAGAAATG
* * *
26701 AACAATGTAGGGAAAAAAAT-TG
326 GACAATGCA-GGAAAAGAATATG
*
26723 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTTAGTAACATGTAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAGTAACATGTAGAA
*
26788 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTATTTTATTTTATCTCTT
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTA-CTCTT
* *
26853 ATAAATAGATGGTCAGGAAATGGACAATGCAAGAAAAGAATCTGTTATAAACCCAATTCCTTTTT
130 ATAAATAGATGATCAGGAAATGGACAATGCAGGAAAAGAATCTGTTATAAACCCAATTCCTTTTT
* *
26918 TCTACCATCCGAATAAAGTTGGTAAGTTTCAATAACATGTAGAAATGGATAAATCTTTTGTTACA
195 TCTACCATCCGAAGAAAGTTGGTAAGTTTCAAGAACATGTAGAAATGGATAAATCTTTTGTTACA
*
26983 GATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTTATAAATAGATGGTCAAGAAAT
260 AATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTTATAAATAGATGGTCAAGAAAT
27048 GGACAATGCAGGAAAAGAATATG
325 GGACAATGCAGGAAAAGAATATG
* * * * *
27071 TTATAAACCCAATTCCTTTTTTCTATCATCCGAAGAAAATTGGTAAATTTCATTAACGTGTAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAGTAACATGTAGAA
*
27136 ATAGATAAATCTTTTG
66 ATGGATAAATCTTTTG
27152 AGATGGATTT
Statistics
Matches: 708, Mismatches: 58, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
342 7 0.01
343 2 0.00
344 1 0.00
345 411 0.58
346 9 0.01
347 10 0.01
348 268 0.38
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (347 bp):
TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAGTAACATGTAGAA
ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTACTCTTA
TAAATAGATGATCAGGAAATGGACAATGCAGGAAAAGAATCTGTTATAAACCCAATTCCTTTTTT
CTACCATCCGAAGAAAGTTGGTAAGTTTCAAGAACATGTAGAAATGGATAAATCTTTTGTTACAA
ATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTTATAAATAGATGGTCAAGAAATG
GACAATGCAGGAAAAGAATATG
Found at i:26998 original size:519 final size:518
Alignment explanation
Indices: 26033--27116 Score: 1757
Period size: 519 Copynumber: 2.1 Consensus size: 518
26023 GAACAGTATA
* * * * * * *
26033 TTATGAACCCAATTCCTTTTTTCTACCATCCGAATAAAGTTGGTAAGTTTCAATAACTTGTAGTA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTCCAAGAACATATAGAA
* *
26098 ATGGATAAAAATTTTGTTACAAATTTAAATTTTGATCAGTTTATAATTCTTTTATTTTATCTCTT
66 ATGAATAAAAATTTTGTTACAAATTTAAATTCTGATCAGTTTATAATTCTTTTATTTTATCTCTT
*
26163 ATAAAAAGATAAGAAAATAGACAATGTAGAAAAAGAATATGTTATAAACTCAATTCCTTTTTTCT
131 ATAAAAAGATAAGAAAATAGACAATGTAGAAAAAGAATATGTTATAAACCCAATTCCTTTTTTCT
*
26228 ACCATCCGAAGAAAGTTGGTAAGTTTCAGGAACATGTAGAAATGGATAAATCTTTTGGTGCAAAT
196 ACCATCCGAAGAAAGTTGGTAAGTTTCAGGAACATGTAGAAATGGATAAATCTTTTGGTACAAAT
*
26293 TTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTTATAAATAGATGATCAAGAAATGGA
261 TTAAATTTTGATCGGTCTATAATTATTTTATTTTATCTCTTATAAATAGATGATCAAGAAATGGA
* *
26358 CAATGCAGGAAAAGAATATGTTATAAACCCAATTCCTTTTTTCTACCATCTGAAGAAAGTTGGTA
326 CAATGCAAGAAAAGAATATGTTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTA
*
26423 AGTTTCAGTAACATGTAGAAATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATA
391 AGTTTCAATAACATGTAGAAATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATA
* * *
26488 ATTCTTTTATTTTA-T-TTATAAATAGATGATCAGGAAATGGATAATACAGGAAAAGAATCTG
456 ATTCTTTTATTTTACTCTTATAAATAGATGATCAAGAAATGGACAATACAGGAAAAGAATATG
26549 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTCCAAGAACATATAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTCCAAGAACATATAGAA
* *
26614 ATGAATAAATATTTTGTTACAAATTTAAATTCTGATCGGTTTATAATTCTTTTATTTTATCTCTT
66 ATGAATAAAAATTTTGTTACAAATTTAAATTCTGATCAGTTTATAATTCTTTTATTTTATCTCTT
*
26679 ATAAATAGATGGTCAAG-AAAT-GAACAATGTAGGGAAAAA-AAT-TGTTATAAACCCAATTCCT
131 ATAAA-A-A-GAT-AAGAAAATAG-ACAATGTA--GAAAAAGAATATGTTATAAACCCAATTCCT
* * *
26740 TTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTTAGTAACATGTAGAAATGGATAAATCTTTTGT
189 TTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAGGAACATGTAGAAATGGATAAATCTTTTGG
* *
26805 TACAAATTTAAATTTTGATCGGTCTATAATTATTTTATTTTATCTCTTATAAATAGATGGTCAGG
254 TACAAATTTAAATTTTGATCGGTCTATAATTATTTTATTTTATCTCTTATAAATAGATGATCAAG
* *
26870 AAATGGACAATGCAAGAAAAGAATCTGTTATAAACCCAATTCCTTTTTTCTACCATCCGAATAAA
319 AAATGGACAATGCAAGAAAAGAATATGTTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAA
*
26935 GTTGGTAAGTTTCAATAACATGTAGAAATGGATAAATCTTTTGTTACAGATTTAAATTTTGATCG
384 GTTGGTAAGTTTCAATAACATGTAGAAATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCG
* *
27000 GTCTATAATTCTTTTATTTTATCTCTTATAAATAGATGGTCAAGAAATGGACAATGCAGGAAAAG
449 GTCTATAATTCTTTTATTTTA-CTCTTATAAATAGATGATCAAGAAATGGACAATACAGGAAAAG
27065 AATATG
513 AATATG
* *
27071 TTATAAACCCAATTCCTTTTTTCTATCATCCGAAGAAAATTGGTAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAA
27117 ATTTCATTAA
Statistics
Matches: 525, Mismatches: 33, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
516 124 0.24
517 1 0.00
518 2 0.00
519 300 0.57
520 6 0.01
521 7 0.01
522 85 0.16
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (518 bp):
TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTCCAAGAACATATAGAA
ATGAATAAAAATTTTGTTACAAATTTAAATTCTGATCAGTTTATAATTCTTTTATTTTATCTCTT
ATAAAAAGATAAGAAAATAGACAATGTAGAAAAAGAATATGTTATAAACCCAATTCCTTTTTTCT
ACCATCCGAAGAAAGTTGGTAAGTTTCAGGAACATGTAGAAATGGATAAATCTTTTGGTACAAAT
TTAAATTTTGATCGGTCTATAATTATTTTATTTTATCTCTTATAAATAGATGATCAAGAAATGGA
CAATGCAAGAAAAGAATATGTTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTA
AGTTTCAATAACATGTAGAAATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATA
ATTCTTTTATTTTACTCTTATAAATAGATGATCAAGAAATGGACAATACAGGAAAAGAATATG
Found at i:27183 original size:174 final size:174
Alignment explanation
Indices: 26033--27151 Score: 1723
Period size: 174 Copynumber: 6.5 Consensus size: 174
26023 GAACAGTATA
* * * *
26033 TTATGAACCCAATTCCTTTTTTCTACCATCCGAATAAAGTTGGTAAGTTTCAATAACTTGTAGTA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAATAACATGTAGAA
** * *
26098 ATGGATAAAAATTTTGTTACAAATTTAAATTTTGATCAGTTTATAATTCTTTTATTTTATCTCTT
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
* * *
26163 ATAAA-A-A-GAT-AAGAAAATAGACAATGTAGAAAAAGAATATG
131 ATAAATAGATGATCAAG-AAATGGACAATGCAGGAAAAGAATATG
* **
26204 TTATAAACTCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAGGAACATGTAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAATAACATGTAGAA
* *
26269 ATGGATAAATCTTTTGGTGCAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
26334 ATAAATAGATGATCAAGAAATGGACAATGCAGGAAAAGAATATG
131 ATAAATAGATGATCAAGAAATGGACAATGCAGGAAAAGAATATG
* *
26378 TTATAAACCCAATTCCTTTTTTCTACCATCTGAAGAAAGTTGGTAAGTTTCAGTAACATGTAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAATAACATGTAGAA
26443 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTA--T-TT
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
* * * *
26505 ATAAATAGATGATCAGGAAATGGATAATACAGGAAAAGAATCTG
131 ATAAATAGATGATCAAGAAATGGACAATGCAGGAAAAGAATATG
* * *
26549 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTCCAAGAACATATAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAATAACATGTAGAA
* * * *
26614 ATGAATAAATATTTTGTTACAAATTTAAATTCTGATCGGTTTATAATTCTTTTATTTTATCTCTT
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
* * * *
26679 ATAAATAGATGGTCAAGAAATGAACAATGTAGGGAAAAAAAT-TG
131 ATAAATAGATGATCAAGAAATGGACAATGCA-GGAAAAGAATATG
* *
26723 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTTAGTAACATGTAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAATAACATGTAGAA
*
26788 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTATTTTATTTTATCTCTT
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
* * * *
26853 ATAAATAGATGGTCAGGAAATGGACAATGCAAGAAAAGAATCTG
131 ATAAATAGATGATCAAGAAATGGACAATGCAGGAAAAGAATATG
*
26897 TTATAAACCCAATTCCTTTTTTCTACCATCCGAATAAAGTTGGTAAGTTTCAATAACATGTAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAATAACATGTAGAA
*
26962 ATGGATAAATCTTTTGTTACAGATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
66 ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
*
27027 ATAAATAGATGGTCAAGAAATGGACAATGCAGGAAAAGAATATG
131 ATAAATAGATGATCAAGAAATGGACAATGCAGGAAAAGAATATG
* * * * *
27071 TTATAAACCCAATTCCTTTTTTCTATCATCCGAAGAAAATTGGTAAATTTCATTAACGTGTAGAA
1 TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAATAACATGTAGAA
*
27136 ATAGATAAATCTTTTG
66 ATGGATAAATCTTTTG
27152 AGATGGATTT
Statistics
Matches: 868, Mismatches: 71, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
171 279 0.32
172 2 0.00
173 10 0.01
174 565 0.65
175 12 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (174 bp):
TTATAAACCCAATTCCTTTTTTCTACCATCCGAAGAAAGTTGGTAAGTTTCAATAACATGTAGAA
ATGGATAAATCTTTTGTTACAAATTTAAATTTTGATCGGTCTATAATTCTTTTATTTTATCTCTT
ATAAATAGATGATCAAGAAATGGACAATGCAGGAAAAGAATATG
Found at i:28494 original size:27 final size:27
Alignment explanation
Indices: 28464--28519 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
28454 TAATTTAAAA
*
28464 TAATTTATTAATGCTTGATGCCGGATT
1 TAATTTATTAATACTTGATGCCGGATT
*
28491 TAATTTATTAATACTTGATGTCGGATT
1 TAATTTATTAATACTTGATGCCGGATT
28518 TA
1 TA
28520 CGAAAACCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (27 bp):
TAATTTATTAATACTTGATGCCGGATT
Found at i:29267 original size:19 final size:20
Alignment explanation
Indices: 29243--29282 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
29233 GAAACATTTT
29243 TATGAATAGTACT-ATATTG
1 TATGAATAGTACTGATATTG
29262 TATGAATAGTACTGATATTG
1 TATGAATAGTACTGATATTG
29282 T
1 T
29283 GCAAATAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (20 bp):
TATGAATAGTACTGATATTG
Found at i:29289 original size:20 final size:19
Alignment explanation
Indices: 29247--29293 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
29237 CATTTTTATG
**
29247 AATAGTACTATATTGTATG
1 AATAGTACTATATTGTACA
*
29266 AATAGTACTGATATTGTGCA
1 AATAGTACT-ATATTGTACA
29286 AATAGTAC
1 AATAGTAC
29294 CATGAACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (19 bp):
AATAGTACTATATTGTACA
Found at i:30012 original size:22 final size:22
Alignment explanation
Indices: 29987--30066 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
29977 ATGTGAAATT
* *
29987 TGTCCCGAATGACCTATGTATT
1 TGTCCCGAAGGACCTATGTATA
30009 TGTCCCGAAGGACCTATGTATA
1 TGTCCCGAAGGACCTATGTATA
*
30031 TGTCCCGAAGGACCTCTGTATA
1 TGTCCCGAAGGACCTATGTATA
30053 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
30067 ACGTAGACCC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:34118 original size:29 final size:29
Alignment explanation
Indices: 34073--34128 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
34063 CGTTGACCGA
* * *
34073 GTGACATATTAGTAATTATTTTGAAAATG
1 GTGACATATTAGGAATTAATTCGAAAATG
*
34102 GTGACATATTGGGAATTAATTCGAAAA
1 GTGACATATTAGGAATTAATTCGAAAA
34129 GATACTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (29 bp):
GTGACATATTAGGAATTAATTCGAAAATG
Found at i:34163 original size:25 final size:25
Alignment explanation
Indices: 34124--34276 Score: 74
Period size: 25 Copynumber: 5.7 Consensus size: 25
34114 GAATTAATTC
* * *
34124 GAAAAGATACTATTTTTGTAATTTTT
1 GAAAA-ATGCTATTTTCGTAATTTTG
*
34150 TAAAAATGCTATTTTCGTAATTTTG
1 GAAAAATGCTATTTTCGTAATTTTG
* *
34175 GAAAAATGAC-ATTTTAGTAAATATTTT
1 GAAAAATG-CTATTTTCGT-AAT-TTTG
* * * *
34202 GAAAATTGTGCTATATTGGTAATTAATTT
1 GAAAA--ATGCTATTTTCGTAATT--TTG
* *
34231 TAAAATGGTGCTATTTTCGTAATTTTG
1 GAAAA--ATGCTATTTTCGTAATTTTG
* *
34258 AAAAAAATGTTATTTTCGT
1 -GAAAAATGCTATTTTCGT
34277 TGACCACTTT
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
25 31 0.31
26 19 0.19
27 11 0.11
28 8 0.08
29 31 0.31
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (25 bp):
GAAAAATGCTATTTTCGTAATTTTG
Found at i:34235 original size:29 final size:30
Alignment explanation
Indices: 34197--34254 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
34187 TTTAGTAAAT
* *
34197 ATTTTGAAAATTGTGCTATATTGGTAATTA
1 ATTTTGAAAATGGTGCTATATTCGTAATTA
*
34227 ATTTT-AAAATGGTGCTATTTTCGTAATT
1 ATTTTGAAAATGGTGCTATATTCGTAATT
34255 TTGAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (30 bp):
ATTTTGAAAATGGTGCTATATTCGTAATTA
Found at i:34262 original size:107 final size:108
Alignment explanation
Indices: 34074--34276 Score: 259
Period size: 107 Copynumber: 1.9 Consensus size: 108
34064 GTTGACCGAG
*
34074 TGACATATTAGTAATTATTTTGAAAATGGTGACATATTGGGAATTAATTCGAAAAGATACTATTT
1 TGACATATTAGTAAATATTTTGAAAATGGTGACATATTGGGAATTAATTCGAAAAGATACTATTT
* *
34139 TTGTAATTTTT-TAAAAATGCTATTTTCGTAATTTTGGAAAAA
66 TCGTAATTTTTGAAAAAATGCTATTTTCGTAATTTTGGAAAAA
* * * ** * *
34181 TGACATTTTAGTAAATATTTTGAAAATTGTG-CTATATTGGTAATTAATTTTAAAATGGTGCTAT
1 TGACATATTAGTAAATATTTTGAAAATGGTGAC-ATATTGGGAATTAATTCGAAAA-GATACTAT
*
34245 TTTCGTAA-TTTTGAAAAAAATGTTATTTTCGT
64 TTTCGTAATTTTTG-AAAAAATGCTATTTTCGT
34277 TGACCACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
106 1 0.01
107 51 0.63
108 13 0.16
109 16 0.20
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.44
Consensus pattern (108 bp):
TGACATATTAGTAAATATTTTGAAAATGGTGACATATTGGGAATTAATTCGAAAAGATACTATTT
TCGTAATTTTTGAAAAAATGCTATTTTCGTAATTTTGGAAAAA
Found at i:34980 original size:24 final size:24
Alignment explanation
Indices: 34944--35063 Score: 114
Period size: 24 Copynumber: 5.0 Consensus size: 24
34934 GAATAGTTAC
34944 CTGATATGATACTTGACCTGAATT
1 CTGATATGATACTTGACCTGAATT
* * * * *
34968 TTTATATGCTACTTGACATGGATT
1 CTGATATGATACTTGACCTGAATT
* * *
34992 CTGATCTGTTACATGACCTGAATT
1 CTGATATGATACTTGACCTGAATT
* * *
35016 TTTATATGATACTTGACCTGGATT
1 CTGATATGATACTTGACCTGAATT
* * *
35040 CTGATCTGTTACCTGACCTGAATT
1 CTGATATGATACTTGACCTGAATT
35064 ATGTTTTAAT
Statistics
Matches: 72, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (24 bp):
CTGATATGATACTTGACCTGAATT
Found at i:35009 original size:48 final size:48
Alignment explanation
Indices: 34957--35063 Score: 187
Period size: 48 Copynumber: 2.2 Consensus size: 48
34947 ATATGATACT
*
34957 TGACCTGAATTTTTATATGCTACTTGACATGGATTCTGATCTGTTACA
1 TGACCTGAATTTTTATATGATACTTGACATGGATTCTGATCTGTTACA
* *
35005 TGACCTGAATTTTTATATGATACTTGACCTGGATTCTGATCTGTTACC
1 TGACCTGAATTTTTATATGATACTTGACATGGATTCTGATCTGTTACA
35053 TGACCTGAATT
1 TGACCTGAATT
35064 ATGTTTTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (48 bp):
TGACCTGAATTTTTATATGATACTTGACATGGATTCTGATCTGTTACA
Found at i:36284 original size:3 final size:3
Alignment explanation
Indices: 36276--36313 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
36266 TCTCATGTAG
36276 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
36314 GAGTTTCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:37966 original size:30 final size:30
Alignment explanation
Indices: 37901--38001 Score: 157
Period size: 31 Copynumber: 3.3 Consensus size: 30
37891 TTCAACGTTC
*
37901 AAGTGACCAAAATTTAATATAATAATAATGT
1 AAGTGACCAAAATTTAATA-AATGATAATGT
*
37932 AAGTGACCAAAATTTAATAAATGATAACGT
1 AAGTGACCAAAATTTAATAAATGATAATGT
*
37962 AAGTGACCAAAATTTAATAAAATGATAATAT
1 AAGTGACCAAAATTTAAT-AAATGATAATGT
37993 AAGTGACCA
1 AAGTGACCA
38002 GAACTTATTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
30 27 0.42
31 38 0.58
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (30 bp):
AAGTGACCAAAATTTAATAAATGATAATGT
Found at i:40610 original size:33 final size:33
Alignment explanation
Indices: 40566--40638 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
40556 CGGGTTTGAA
* *
40566 TCGGGTCGGGTTTTTTTAAGT-TAGATATTCGGG
1 TCGGGTTGGGTTTTTTTAAGTGT-GATATTCAGG
40599 TCGGGTTGGGTTTTTTTAAGTGTGATATTCAGG
1 TCGGGTTGGGTTTTTTTAAGTGTGATATTCAGG
*
40632 TTGGGTT
1 TCGGGTT
40639 TAGGGTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.14, C:0.07, G:0.34, T:0.45
Consensus pattern (33 bp):
TCGGGTTGGGTTTTTTTAAGTGTGATATTCAGG
Found at i:44511 original size:14 final size:14
Alignment explanation
Indices: 44492--44522 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
44482 AGGTTTATTT
44492 AGGGTTTGAGGGGA
1 AGGGTTTGAGGGGA
44506 AGGGTTTGAGGGGA
1 AGGGTTTGAGGGGA
44520 AGG
1 AGG
44523 ATGATAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.58, T:0.19
Consensus pattern (14 bp):
AGGGTTTGAGGGGA
Found at i:56599 original size:15 final size:15
Alignment explanation
Indices: 56581--56635 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
56571 AAAATGGAAA
56581 AATGAAAAAAAAAAG
1 AATGAAAAAAAAAAG
*
56596 AATGAATAAAAAAAG
1 AATGAAAAAAAAAAG
*
56611 AA--AAAGAAAAAATG
1 AATGAAA-AAAAAAAG
*
56625 AAGGAAAAAAA
1 AATGAAAAAAA
56636 GAGGGTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.06
14 9 0.26
15 20 0.59
16 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (15 bp):
AATGAAAAAAAAAAG
Found at i:56632 original size:26 final size:26
Alignment explanation
Indices: 56578--56637 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
56568 GAAAAAATGG
* *
56578 AAAAATGAAAAAAAAAAGAATGAATA
1 AAAAAAGAAAAAAAAAAGAATGAAGA
*
56604 AAAAAAGAAAAAGAAAA-AATGAAGGA
1 AAAAAAGAAAAAAAAAAGAATGAA-GA
56630 AAAAAAGA
1 AAAAAAGA
56638 GGGTTCAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAAAGAATGAAGA
Found at i:57987 original size:56 final size:56
Alignment explanation
Indices: 57916--59640 Score: 2221
Period size: 56 Copynumber: 31.0 Consensus size: 56
57906 ATGAAGCAAA
* ** ** *
57916 AGAAGAGTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAATGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * * *
57972 AGAAGGTAGTTCGAGTTCTATACTCCCTGAAAGAAAGAGAGAGCAAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* ** * ** *
58028 AGAAGATTGTTCGAGTTCTATAGTCCCTGAAAGAAAGATAGAGCAAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* *
58084 AGAAGATTGTTCGAGTTCTATACTCCCGGAAAAAAAGAGGGAGCGAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * *
58140 AGAAGATTGATCGAGTTCTATGCTCCCTAAAAGAAAGAGGGAGCGAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * ** *
58196 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAATGAGGGAGCGAACTCGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * *
58252 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGAGAGCAAACTCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * * * *
58308 AGAAGATTGTCCGTGTTCTATACTCCTTGAAAGAAAGAGAGAGCGAACCCATTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * ** *
58364 AGAAGATTGTTCAAGTTCTATACTCCCTGAAAGAAAGAGGGAGAGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * *
58420 AGAAGATTGTTCGAGTTCTATAGTCCCTGATAGAAAGAGGG-GACAAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAG-CGAACCCGTTTGT
* * ** **
58476 AGAATATTGTTCGAGTTTTATTTTCCCTGAAAGAAAGAATGAGCGAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * * *
58532 AGAAGATTGTTTGAGTTCTATACTCCCTGAAATAAAGAGGGAGCGAACCCCATTTAT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAA-CCCGTTTGT
* ** *
58589 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGGGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
*
58645 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAAGGAGCGAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * *
58701 AGAAGATTGCTCGAGTTCTATACTCCTTGAAAAAAAGAGGGAGCGAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* **
58757 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAAAAAGAGGGAGCGAA-CCGTAGGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
** *
58812 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * ** *
58868 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAGAGAGGGAGCGAACCTGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
58924 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * ** *
58980 AAAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAATAGGGAATGAATCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* ** *
59036 AGAAGATTGTTCGAGTTCTATAATCCCTGAAAGAAAGAGGGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* *
59092 AGAAGATTGTTCGAGTTCTATA-TGCCTGAAAGAAAGAGGGAACGAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * * * * *
59147 AAAATATTGTTCGAGTTATATTCTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * *
59203 AGAAGATTGTTCGAGTTCTATACTCCCTAAAAGAAAGAGGGAGCGAGCCCATTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * ** ** *
59259 AGAAGATTATTCGAGTTCTATACTCACTGAAAGAAAGAATGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * **
59315 AGAAGATTGTTCGAGTTCTATACTCCCTGAATGAAAGAGAGAGCGAACTTGTTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* ** *
59371 AAAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGTAAACCCATTTGT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * * * *
59427 AAAAGATTGTTTGAGTTCTATACTCTCTGAAAGAAAGAGGGAGAGAACCCG-TAG-
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
** * ** *
59481 A-AAGA-TGTTCGAGTTCTATACTCCCT-ACTGAAAAAGGGAGCGAACCCGTAGGA
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* * ** *
59534 AGAAGA-TGTTTGAGTTCTATACTCCCT-AAAGAAAGAGGAAGCGAACCCGTAGGA
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
* **
59588 AGAAGA-TATTCGAGTTCTATACTCCCTGAAAGAAAGAATGAGCGAACCCGTTT
1 AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTT
59641 TCAAAAGATT
Statistics
Matches: 1454, Mismatches: 206, Indels: 19
0.87 0.12 0.01
Matches are distributed among these distances:
51 18 0.01
52 20 0.01
53 5 0.00
54 73 0.05
55 121 0.08
56 1165 0.80
57 52 0.04
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (56 bp):
AGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTTTGT
Found at i:66567 original size:23 final size:23
Alignment explanation
Indices: 66504--66590 Score: 106
Period size: 23 Copynumber: 3.9 Consensus size: 23
66494 TGGGTTGTCA
* *
66504 AACATTAAACGAACACGTTCAC-
1 AACATTAGACGAACATGTTCACT
* *
66526 AATATTACA-GAACATGTTCACT
1 AACATTAGACGAACATGTTCACT
*
66548 AACATTAGACGAATATGTTCACT
1 AACATTAGACGAACATGTTCACT
*
66571 AACATTAGACGAATATGTTC
1 AACATTAGACGAACATGTTC
66591 GTGAATGTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.19
22 14 0.25
23 32 0.56
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (23 bp):
AACATTAGACGAACATGTTCACT
Found at i:67387 original size:20 final size:21
Alignment explanation
Indices: 67348--67395 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
67338 TATTATGGTT
*
67348 TCTATACTCTTTGTTTGAGTA
1 TCTATACCCTTTGTTTGAGTA
*
67369 TTTATACCCTTTG-TTGAGTA
1 TCTATACCCTTTGTTTGAGTA
67389 TCTATAC
1 TCTATAC
67396 TCCCTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.50
Consensus pattern (21 bp):
TCTATACCCTTTGTTTGAGTA
Found at i:67713 original size:27 final size:26
Alignment explanation
Indices: 67655--67716 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
67645 CTTAGTTTTT
*
67655 TTTA-ATTATTAAAATATATAAGATC
1 TTTATATTATTAAAATATATAAAATC
67680 TTTATATTATTAAAA-ATTAATAAAAT-
1 TTTATATTATTAAAATA-T-ATAAAATC
67706 TTTAATATTAT
1 TTT-ATATTAT
67717 ATATTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.16
26 14 0.44
27 13 0.41
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TTTATATTATTAAAATATATAAAATC
Found at i:69375 original size:35 final size:35
Alignment explanation
Indices: 69329--69440 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 35
69319 AAAACAGTCC
* *
69329 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
69364 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* ** * *
69399 TCAA-TTCAATTTTAAACCTTAAATTCTAAAATACT
1 TCAATTTC-ATTCTAAACCCCAAATTCCAAAATAAT
69434 TCAATTT
1 TCAATTT
69441 AAGTTTTAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
34 3 0.04
35 63 0.93
36 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:72899 original size:18 final size:18
Alignment explanation
Indices: 72858--72905 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
72848 TATATATAGT
72858 AATAAAAAA-TAAAAAAA
1 AATAAAAAACTAAAAAAA
*
72875 AACTAAAAAACTAAAAATA
1 AA-TAAAAAACTAAAAAAA
*
72894 AATAAATAACTA
1 AATAAAAAACTA
72906 TAATCAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 16 0.59
19 9 0.33
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
AATAAAAAACTAAAAAAA
Found at i:73034 original size:22 final size:22
Alignment explanation
Indices: 72996--73037 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
72986 ATGTAAAATG
72996 ATATGAATTAAATAAAATGTCC
1 ATATGAATTAAATAAAATGTCC
*
73018 ATATGTATATAAA-AAAATGT
1 ATATGAAT-TAAATAAAATGT
73038 AAAATAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (22 bp):
ATATGAATTAAATAAAATGTCC
Found at i:73342 original size:27 final size:26
Alignment explanation
Indices: 73284--73343 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
73274 TAATGAAGGT
* *
73284 AAATATAATAAGAACAAAAAGTAAAG
1 AAATATAATAAAAACAAAAAGTAAAC
* *
73310 AAATATAATAAAATACAAAATGTATAC
1 AAATATAATAAAA-ACAAAAAGTAAAC
*
73337 ATATATA
1 AAATATA
73344 TATATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (26 bp):
AAATATAATAAAAACAAAAAGTAAAC
Found at i:73344 original size:2 final size:2
Alignment explanation
Indices: 73332--73374 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
73322 ATACAAAATG
*
73332 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
73373 TA
1 TA
73375 ACATATAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:73382 original size:12 final size:14
Alignment explanation
Indices: 73332--73381 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
73322 ATACAAAATG
73332 TATACATATATATA
1 TATACATATATATA
*
73346 TATATATATATATA
1 TATACATATATATA
*
73360 TATATATATA-ATA
1 TATACATATATATA
73373 TA-ACATATA
1 TATACATATA
73382 AGTAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 6 0.18
13 5 0.15
14 23 0.68
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TATACATATATATA
Found at i:75197 original size:105 final size:105
Alignment explanation
Indices: 74889--75752 Score: 1472
Period size: 105 Copynumber: 8.4 Consensus size: 105
74879 GTGTTGTTTC
74889 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA-
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
74953 CAGC-GT---TTCGTCGTG-AGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * * *
74988 GAGTCCAATATCCTTCGTTGTGAAGCAGCAATTGGCTCTGAAATTGAG-AATGTTCGTTGATAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
75052 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
75092 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
75157 CAGCGGTCCCTTCGTCGTGAAGTTGAGCTTGCGTTATCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
75197 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
75262 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
75302 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
75367 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
75407 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
75472 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
75512 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATG-TTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
75576 CAGCTGTCCCTTC-TCGTGAAGTTGAACTT--GTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
75613 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-AAAT-ATTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
75676 CAGCGGTCCCTTCGT-GTGAAG-TGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
75714 G-GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
75753 GGTAAACCTG
Statistics
Matches: 732, Mismatches: 22, Indels: 21
0.94 0.03 0.03
Matches are distributed among these distances:
98 13 0.02
99 56 0.08
100 73 0.10
101 65 0.09
103 25 0.03
104 87 0.12
105 413 0.56
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:87255 original size:18 final size:16
Alignment explanation
Indices: 87216--87259 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
87206 AATATATAAC
87216 AATAATAGAAA-AACTA
1 AATAATA-AAATAACTA
87232 AATAATGAAAATAACTA
1 AATAAT-AAAATAACTA
87249 TAATAATAAAA
1 -AATAATAAAA
87260 AAATAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.36
17 10 0.40
18 6 0.24
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (16 bp):
AATAATAAAATAACTA
Found at i:87415 original size:22 final size:24
Alignment explanation
Indices: 87389--87436 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
87379 TAAAAAAAAC
87389 TAATGATAATA-TA-AAATATATA
1 TAATGATAATAGTATAAATATATA
* *
87411 TAATGCTAATAGTATATATATATA
1 TAATGATAATAGTATAAATATATA
87435 TA
1 TA
87437 TATATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 2 0.09
24 10 0.45
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
TAATGATAATAGTATAAATATATA
Found at i:98389 original size:55 final size:55
Alignment explanation
Indices: 98260--98535 Score: 358
Period size: 55 Copynumber: 5.0 Consensus size: 55
98250 GTGGTGCCTA
* * * * * * *
98260 TACGG-TAGTTCATCAACTCATGTTGAATTCTGCGG-GTTGTACACATCGTGCTTG
1 TACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* * * * *
98314 TACTGTTTTTCATCAACTCATGATGAATTCTGTGGATTTCCACATATAGTGCATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* * * *
98369 TACGGTTATTCATCAACTCATGATGAATTCAGTGGATTTTCACATATGGTGCATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
*
98424 TACGGTTATTCATCAACTCATGATGAAATCCGTGGATTTGCACACATAGTGCATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
* *
98479 TGCGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
98534 TA
1 TA
98536 GTACACATAG
Statistics
Matches: 196, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
54 29 0.15
55 167 0.85
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (55 bp):
TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTGCATG
Found at i:98887 original size:20 final size:20
Alignment explanation
Indices: 98862--98905 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
98852 TGGCTCAATA
98862 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
98882 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
98902 GTAT
1 GTAT
98906 TGGTACTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:101221 original size:20 final size:20
Alignment explanation
Indices: 101196--101234 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
101186 TCTGGGTTCA
*
101196 AATATCGATACTAGATAAAC
1 AATATCAATACTAGATAAAC
*
101216 AATATCAATACTGGATAAA
1 AATATCAATACTAGATAAA
101235 TTGGGATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (20 bp):
AATATCAATACTAGATAAAC
Found at i:104315 original size:7 final size:7
Alignment explanation
Indices: 104303--104356 Score: 99
Period size: 7 Copynumber: 7.7 Consensus size: 7
104293 AGGTCACTTC
104303 TCTCTCT
1 TCTCTCT
104310 TCTCTCT
1 TCTCTCT
104317 TCTCTCT
1 TCTCTCT
104324 TCTCTCT
1 TCTCTCT
104331 TCTCTCT
1 TCTCTCT
*
104338 TCTTTCT
1 TCTCTCT
104345 TCTCTCT
1 TCTCTCT
104352 TCTCT
1 TCTCT
104357 TAGAGTTTCG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (7 bp):
TCTCTCT
Found at i:109591 original size:157 final size:153
Alignment explanation
Indices: 109307--109619 Score: 502
Period size: 157 Copynumber: 2.0 Consensus size: 153
109297 ACCAATTGAT
*
109307 ATTTAACGCTTATACCCTAGCATTCCCGACGCTCGAACCCAGGACCTCAAGTTATAACAATTATT
1 ATTTAACGCTTATACCCTAGCATTCCCGACGCTCGAACCCAGGACCTCAAGTTATAAAAATTATT
*
109372 TACCATTGATCGCTTAATTCGTACCCTAAAACTTAACTTGGTTTTACTAATTAAGCAACATGAAT
66 TACCATAGATCGCTTAATTCGTACCCTAAAACTTAACTTGGTTTTACTAATTAAGCAACATGAAT
109437 TA-TGGGCTTCATCTAATTATCC
131 TAGTGGGCTTCATCTAATTATCC
* * *
109459 ATTTAACGTTTATACCCTAGCATTCTCGACGCTTGAACCCAGGACCTCAAGTAATAATAAAAATT
1 ATTTAACGCTTATACCCTAGCATTCCCGACGCTCGAACCCAGGACCTCAAGT--T-ATAAAAATT
* *
109524 ATTTACCATCGAGATCGCTTGATTCGTACCCTAAAACTTAACTTTGTTTTACTAATTAAGCAACA
63 ATTTACCAT--AGATCGCTTAATTCGTACCCTAAAACTTAACTTGGTTTTACTAATTAAGCAACA
109589 TGAATTATGTGGGCTTCATCTAATTATCC
126 TGAATTA-GTGGGCTTCATCTAATTATCC
109618 AT
1 AT
109620 CCATCTCAAG
Statistics
Matches: 147, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
152 49 0.33
154 1 0.01
155 17 0.12
157 58 0.39
159 22 0.15
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (153 bp):
ATTTAACGCTTATACCCTAGCATTCCCGACGCTCGAACCCAGGACCTCAAGTTATAAAAATTATT
TACCATAGATCGCTTAATTCGTACCCTAAAACTTAACTTGGTTTTACTAATTAAGCAACATGAAT
TAGTGGGCTTCATCTAATTATCC
Found at i:113012 original size:16 final size:16
Alignment explanation
Indices: 112991--113022 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
112981 ATCATGACAC
112991 ATGCTATGTCATCAAT
1 ATGCTATGTCATCAAT
113007 ATGCTATGTCATCAAT
1 ATGCTATGTCATCAAT
113023 TGATTACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
ATGCTATGTCATCAAT
Found at i:117136 original size:41 final size:41
Alignment explanation
Indices: 117091--117217 Score: 128
Period size: 47 Copynumber: 3.0 Consensus size: 41
117081 GTCATGACAA
* *
117091 CTATGACGACAATGATTACCATGATGAACTCTAAATTCAAT
1 CTATGAAGACAATGATTACCATGACGAACTCTAAATTCAAT
* * * *
117132 CTATGATGATAATGACAATGATGATCATGACGGACTCTAAATTCAGT
1 C--T-ATG--AA-GACAATGATTACCATGACGAACTCTAAATTCAAT
* *
117179 CTATGAAGACAATGACTACCATGACGAATTCTAAATTCA
1 CTATGAAGACAATGATTACCATGACGAACTCTAAATTCA
117218 GTTAATGACT
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
41 28 0.41
42 2 0.03
43 1 0.01
44 6 0.09
45 1 0.01
46 1 0.01
47 30 0.43
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (41 bp):
CTATGAAGACAATGATTACCATGACGAACTCTAAATTCAAT
Found at i:117169 original size:47 final size:47
Alignment explanation
Indices: 117098--117194 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
117088 CAACTATGAC
* * * *
117098 GACAATGATTACCATGATGAACTCTAAATTCAATCTATGATGATAAT
1 GACAATGATGACCATGACGAACTCTAAATTCAATCTATGAAGACAAT
* * *
117145 GACAATGATGATCATGACGGACTCTAAATTCAGTCTATGAAGACAAT
1 GACAATGATGACCATGACGAACTCTAAATTCAATCTATGAAGACAAT
117192 GAC
1 GAC
117195 TACCATGACG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (47 bp):
GACAATGATGACCATGACGAACTCTAAATTCAATCTATGAAGACAAT
Found at i:117218 original size:41 final size:41
Alignment explanation
Indices: 117091--117266 Score: 131
Period size: 41 Copynumber: 4.1 Consensus size: 41
117081 GTCATGACAA
* * * *
117091 CTATGACGACAATGATTACCATGATGAACTCTAAATTCAAT
1 CTATGAAGACAATGACTACCATGACGAACTCTAAATTCAGT
* *
117132 CTATGATGATAATGACAATGA-TGATCATGACGGACTCTAAATTCAGT
1 C--T-ATG--AA-GACAATGACT-ACCATGACGAACTCTAAATTCAGT
*
117179 CTATGAAGACAATGACTACCATGACGAATTCTAAATTCAGT
1 CTATGAAGACAATGACTACCATGACGAACTCTAAATTCAGT
** * * * * *
117220 -TAATGACTATAACGACTACCATAAAGAATTCTAAATTCAGT
1 CT-ATGAAGACAATGACTACCATGACGAACTCTAAATTCAGT
*
117261 ATATGA
1 CTATGA
117267 CAACTATGAC
Statistics
Matches: 111, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
40 1 0.01
41 67 0.60
42 4 0.04
43 1 0.01
44 6 0.05
45 1 0.01
46 2 0.02
47 29 0.26
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (41 bp):
CTATGAAGACAATGACTACCATGACGAACTCTAAATTCAGT
Found at i:121253 original size:2 final size:2
Alignment explanation
Indices: 121246--121272 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
121236 AATTCAAACC
121246 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 A
121273 GTTCAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:129287 original size:64 final size:64
Alignment explanation
Indices: 129152--129316 Score: 165
Period size: 64 Copynumber: 2.6 Consensus size: 64
129142 AAACAAGCCT
* * ** * *
129152 GGAGTGCATCGATATATGATCTGTGCATTGGTACACAAAATGCATTCGATGTTTAAAATATTCA
1 GGAGTGCATCGATACATGATCTGTGCATCGGTACACAAAATGCATTCGAAATTCAAAATATTAA
* **
129216 GGAGTGCATCGATACATG-CCTTGTGCATCGGTACACAAAATGCATTCGAAATTCAATTTATTTA
1 GGAGTGCATCGATACATGATC-TGTGCATCGGTACACAAAATGCATTCGAAATTCAAAATA-TTA
129280 A
64 A
* * *
129281 GG-GTGCATTGATGCGTTGAT-TGGTGCATCGGTACAC
1 GGAGTGCATCGATAC-ATGATCT-GTGCATCGGTACAC
129317 TACTTTGAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
63 1 0.01
64 61 0.73
65 21 0.25
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (64 bp):
GGAGTGCATCGATACATGATCTGTGCATCGGTACACAAAATGCATTCGAAATTCAAAATATTAA
Found at i:132717 original size:7 final size:7
Alignment explanation
Indices: 132705--132740 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
132695 CTCTCGTCCT
132705 ACTTGCA
1 ACTTGCA
132712 ACTTGCA
1 ACTTGCA
132719 ACTTGCA
1 ACTTGCA
132726 ACTTGCA
1 ACTTGCA
132733 ACTTGCA
1 ACTTGCA
132740 A
1 A
132741 GGCCATATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (7 bp):
ACTTGCA
Found at i:133302 original size:10 final size:10
Alignment explanation
Indices: 133212--133305 Score: 50
Period size: 10 Copynumber: 9.0 Consensus size: 10
133202 TTAAATAAAT
133212 AATAAA-ATA
1 AATAAATATA
*
133221 CATAAATATA
1 AATAAATATA
*
133231 AAAAAATATAA
1 AATAAATAT-A
* *
133242 AATGAATGAAA
1 AATAAAT-ATA
133253 AATAACATATA
1 AATAA-ATATA
133264 AA-AAATCAATA
1 AATAAAT--ATA
* *
133275 AATAAAAAAGTT
1 AAT-AAATA-TA
133287 AA-AAATATA
1 AATAAATATA
133296 AATAAATATA
1 AATAAATATA
133306 TAAATAAAGC
Statistics
Matches: 63, Mismatches: 12, Indels: 19
0.67 0.13 0.20
Matches are distributed among these distances:
9 10 0.16
10 23 0.37
11 21 0.33
12 6 0.10
13 3 0.05
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (10 bp):
AATAAATATA
Found at i:142271 original size:23 final size:22
Alignment explanation
Indices: 142239--142288 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
142229 TAGGCTCTGC
* *
142239 GCCCTGAGATCATTCTCGGGTAG
1 GCCCTAAGAT-ATTCTCAGGTAG
* *
142262 GCCCTAAGATGTTCTTAGGTAG
1 GCCCTAAGATATTCTCAGGTAG
142284 GCCCT
1 GCCCT
142289 GTGGCCCTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (22 bp):
GCCCTAAGATATTCTCAGGTAG
Found at i:149942 original size:95 final size:94
Alignment explanation
Indices: 149772--149967 Score: 286
Period size: 95 Copynumber: 2.1 Consensus size: 94
149762 GGACAATTTA
** * *
149772 ATATATAAACACCTTTATCAGGTTAGCTGAATATTATCCATAAAGTCAGGGCGTTTAACCAATTA
1 ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTA
* *
149837 CCTTACAGGGACAGCTCAAGCTTTATTGT
66 CCTTACAGGGACAACTCAAGCTTTATTAT
*
149866 ATAGTATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATT
1 ATA-TATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATT
* *
149931 -GCTCTAGAGGGACAACTCAAGCTTTATTAT
65 ACCT-TACAGGGACAACTCAAGCTTTATTAT
149961 ATATATA
1 ATATATA
149968 TAATATTATA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
94 9 0.10
95 82 0.90
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (94 bp):
ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTA
CCTTACAGGGACAACTCAAGCTTTATTAT
Found at i:154095 original size:38 final size:40
Alignment explanation
Indices: 154036--154113 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 40
154026 AAAACACCGA
* *
154036 AAAAAAGATTAAATAAATATAT-A-ATAAAAATAAAAAAT
1 AAAAAAGATAAAATAAATATATGATATAAAAAGAAAAAAT
* *
154074 AAAAAAGAATAAAAT-ACTATATGATATATAAAGAAAAAAT
1 AAAAAAG-ATAAAATAAATATATGATATAAAAAGAAAAAAT
154114 GTTTTAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
38 13 0.39
39 7 0.21
40 13 0.39
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (40 bp):
AAAAAAGATAAAATAAATATATGATATAAAAAGAAAAAAT
Found at i:154221 original size:33 final size:31
Alignment explanation
Indices: 154108--154253 Score: 116
Period size: 35 Copynumber: 4.4 Consensus size: 31
154098 TATATAAAGA
154108 AAAAATGTTTTAAAACTTTATATAATATA-TATTTC
1 AAAAATGTTTTAAAAC--TATAT--TATAGT-TTTC
* * *
154143 AAAGATATTTTCAAAACCATATATTATA-TAATTTT
1 AAAAATGTTTT-AAAA-C-TATATTATAGT--TTTC
*
154178 AAAAATGTTTTCAAACTATATGTTATAGTTTTC
1 AAAAATGTTTTAAAACTATA--TTATAGTTTTC
*
154211 AAAAACGTTTTAAAACTATATTATATGTTTTC
1 AAAAATGTTTTAAAACTATATTATA-GTTTTC
154243 AAAAATGTTTT
1 AAAAATGTTTT
154254 TTTAAAACTA
Statistics
Matches: 93, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
31 5 0.05
32 20 0.22
33 22 0.24
34 13 0.14
35 23 0.25
36 9 0.10
37 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (31 bp):
AAAAATGTTTTAAAACTATATTATAGTTTTC
Found at i:154304 original size:36 final size:34
Alignment explanation
Indices: 154109--154327 Score: 198
Period size: 36 Copynumber: 6.3 Consensus size: 34
154099 ATATAAAGAA
* *
154109 AAAATGTTTTAAAACTTTATATAATAT-ATATTTC
1 AAAATGTTTTAAAACTATATATTATATAAT-TTTC
* * *
154143 AAAGATATTTTCAAAACCATATATTATATAATTTTA
1 AAA-ATGTTTT-AAAACTATATATTATATAATTTTC
* * *
154179 AAAATGTTTTCAAACTATAT-GT-TATAGTTTTC
1 AAAATGTTTTAAAACTATATATTATATAATTTTC
* *
154211 AAAAACGTTTTAAAAC--TATATTATAT-GTTTTC
1 -AAAATGTTTTAAAACTATATATTATATAATTTTC
*
154243 AAAAATGTTTTTTTAAAACTATATATTATATAAATTTC
1 -AAAATG---TTTTAAAACTATATATTATATAATTTTC
154281 AAAATGATTTTAAAAACTATATATTATATACATTTTC
1 AAAATG-TTTT-AAAACTATATATTATATA-ATTTTC
154318 AAAATGTTTT
1 AAAATGTTTT
154328 TTTTAAAAAA
Statistics
Matches: 152, Mismatches: 19, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
31 3 0.02
32 21 0.14
33 17 0.11
34 11 0.07
35 25 0.16
36 42 0.28
37 29 0.19
38 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (34 bp):
AAAATGTTTTAAAACTATATATTATATAATTTTC
Found at i:154723 original size:18 final size:18
Alignment explanation
Indices: 154694--154746 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
154684 CAAAATAGAT
154694 AAAATCAATAATTCAATC
1 AAAATCAATAATTCAATC
* * *
154712 AAAGTTAATAATTTAATC
1 AAAATCAATAATTCAATC
*
154730 AAAATCAATGATTCAAT
1 AAAATCAATAATTCAAT
154747 TATATTCAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (18 bp):
AAAATCAATAATTCAATC
Found at i:156924 original size:34 final size:35
Alignment explanation
Indices: 156875--156969 Score: 135
Period size: 34 Copynumber: 2.8 Consensus size: 35
156865 GCACCGATTA
156875 TATATATATATATATATATATAAT-TTTTAT-ATTTT
1 TATAT-TA-ATATATATATATAATATTTTATAATTTT
156910 TATATTAAT-TATATATATAATATTTTATAATTTT
1 TATATTAATATATATATATAATATTTTATAATTTT
*
156944 TATATTAAT-TATATATAAAATATTTT
1 TATATTAATATATATATATAATATTTT
156970 TAGGTTCGGG
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
32 12 0.21
33 8 0.14
34 32 0.56
35 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (35 bp):
TATATTAATATATATATATAATATTTTATAATTTT
Found at i:156928 original size:32 final size:34
Alignment explanation
Indices: 156887--156969 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
156877 TATATATATA
156887 TATATATATAAT-TTTTAT-ATTTTTATATTAAT
1 TATATATATAATATTTTATAATTTTTATATTAAT
156919 TATATATATAATATTTTATAATTTTTATATTAAT
1 TATATATATAATATTTTATAATTTTTATATTAAT
*
156953 TATATATAAAATATTTT
1 TATATATATAATATTTT
156970 TAGGTTCGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 12 0.25
33 6 0.12
34 30 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (34 bp):
TATATATATAATATTTTATAATTTTTATATTAAT
Found at i:158660 original size:35 final size:35
Alignment explanation
Indices: 158599--158724 Score: 108
Period size: 35 Copynumber: 3.6 Consensus size: 35
158589 GCAAACTCTA
* ** * *
158599 AATACGACACATGACACAGTGTTATGCGTTATTTG
1 AATACGACACATGACACACTACTATGCATTATCTG
**
158634 AATGTGACACATGACACACTACTATGCATTATCTG
1 AATACGACACATGACACACTACTATGCATTATCTG
* * ** ** *
158669 AATACGACACATGAAACATTTTTGGGCATTGTCTG
1 AATACGACACATGACACACTACTATGCATTATCTG
* *
158704 AATGCGACTCATGACACACTA
1 AATACGACACATGACACACTA
158725 TTAGTATCTG
Statistics
Matches: 70, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (35 bp):
AATACGACACATGACACACTACTATGCATTATCTG
Found at i:164563 original size:8 final size:8
Alignment explanation
Indices: 164550--164590 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
164540 CTCATTTTCA
164550 GAGAATTT
1 GAGAATTT
164558 GAGAATTT
1 GAGAATTT
*
164566 -AGAGTTT
1 GAGAATTT
*
164573 GGGAATTT
1 GAGAATTT
164581 GAGAATTT
1 GAGAATTT
164589 GA
1 GA
164591 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:164889 original size:128 final size:128
Alignment explanation
Indices: 164661--165289 Score: 1071
Period size: 128 Copynumber: 4.9 Consensus size: 128
164651 TAATCGGAGT
164661 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
164726 CATTGCCCTATTATGTTACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
164789 ACTATTTACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCGGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
164854 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTT
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
*
164917 ACTATTCACATGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
* * *
164982 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACATATCATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
165045 ACTATTCACATGAAGGCGCGTTCCCGAGGGCGCGCCTTCCATTATTTCGTCAGAAAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
165110 CATTGCTCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** * * *
165173 TC-AGGGGACATGAAGGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCATAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
*
165237 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTATATATATCAGTA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
165290 AATCAGGTAA
Statistics
Matches: 471, Mismatches: 29, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
127 1 0.00
128 470 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:165380 original size:32 final size:32
Alignment explanation
Indices: 165344--165415 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
165334 AGCAAGTTAA
* * *
165344 GAATAACTTAAATTAAACGTTATGTGA-AATTT
1 GAATAAATTAAATAAAACGTTATG-GATAAATT
* *
165376 GAATAAATTAGATAAAATGTTATGGATAAATT
1 GAATAAATTAAATAAAACGTTATGGATAAATT
165408 GAATAAAT
1 GAATAAAT
165416 GTGAAGTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 2 0.06
32 32 0.94
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (32 bp):
GAATAAATTAAATAAAACGTTATGGATAAATT
Found at i:165766 original size:32 final size:34
Alignment explanation
Indices: 165688--165785 Score: 121
Period size: 32 Copynumber: 3.0 Consensus size: 34
165678 AAATTTAATG
* *
165688 TTAAATTTCAAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * *
165722 TTAAATTT-GAATAATAT-TTTTTTATTTT-ATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
165753 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
165786 AACATTTATC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
31 10 0.19
32 18 0.34
33 16 0.30
34 9 0.17
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:166339 original size:21 final size:21
Alignment explanation
Indices: 166288--166339 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
166278 TATGGTATAA
*
166288 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
166309 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
166330 AACCCTGCGG
1 AACCCTGCGG
166340 AGATGGCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:166369 original size:21 final size:21
Alignment explanation
Indices: 166343--166390 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
166333 CCTGCGGAGA
*
166343 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
166364 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
166385 GGGCAT
1 TGGCAT
166391 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:168159 original size:31 final size:31
Alignment explanation
Indices: 168123--168202 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 31
168113 CTAAATAAAT
* *
168123 AATAATTATATAAAT-ATTATTTTAATAAAAA
1 AATAA-TATATAAATAAATATATTAATAAAAA
* *
168154 AATAATATTTACATAAATATATTAAT-AAAA
1 AATAATATATAAATAAATATATTAATAAAAA
*
168184 AATAACTATTTAAA-AAATA
1 AATAA-TATATAAATAAATA
168203 CTAACATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 21 0.50
31 21 0.50
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (31 bp):
AATAATATATAAATAAATATATTAATAAAAA
Found at i:168170 original size:34 final size:31
Alignment explanation
Indices: 168114--168195 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 31
168104 TTAATAATTC
* * *
168114 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATATTTACATAAATA-TA--TTAA
168148 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATATTTACATAAATATATTAA
168179 T-AAAAAATAACTATTTA
1 TAAAAAAATAA-TATTTA
168196 AAAAATACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
30 9 0.20
31 11 0.25
33 2 0.05
34 22 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAAATAATATTTACATAAATATATTAA
Found at i:168197 original size:15 final size:14
Alignment explanation
Indices: 168150--168202 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
168140 TATTTTAATA
168150 AAAAAATAATATTT
1 AAAAAATAATATTT
*
168164 ACATAAAT-ATATTAAT
1 A-AAAAATAATATT--T
168180 AAAAAATAACTATTT
1 AAAAAATAA-TATTT
168195 AAAAAATA
1 AAAAAATA
168203 CTAACATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.19
15 19 0.59
16 3 0.09
17 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAAATAATATTT
Found at i:172441 original size:23 final size:24
Alignment explanation
Indices: 172395--172444 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
172385 AAAAATTATA
172395 GTATTAATAATATTATTTATAATT
1 GTATTAATAATATTATTTATAATT
*
172419 GTATTAATGAT-TTATTTCA-AATT
1 GTATTAATAATATTATTT-ATAATT
172442 GTA
1 GTA
172445 GCGAGAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
GTATTAATAATATTATTTATAATT
Found at i:174769 original size:197 final size:200
Alignment explanation
Indices: 174282--174970 Score: 802
Period size: 197 Copynumber: 3.5 Consensus size: 200
174272 TAGGTCATAT
* *
174282 GTGTCGATACACTTTATAAAAGTATCGACCCCAAAATCATCGAAACCCATAATT-TAATGTAATA
1 GTGTCGATACA-TTTATAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
** * * * * * * * * *
174346 GGTAAATTAATAGTATAACCGGTATAAATATACCG-GTTAATTACAAAACAGGTAAACATAATGT
65 GGTAAATTTGTAATGTAACCGGTATAAATATACCGTTTTTATGAGAGAATAGGTCAACATAATGT
* * *
174410 ATAGACACTTGTGGAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTGCACG
130 ATTGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACG
174475 CATAAA
195 CATAAA
*
174481 GTGTCAATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTAT-AAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
174546 TGTAATTTTTTAATGTAACTGGTATAAATATACCGATTTTTATGAGAGAATAGGTCTACATAATG
65 GGTAAATTTGTAATGTAACCGGTATAAATATACCG-TTTTTATGAGAGAATAGGTCAACATAATG
* * *
174611 TATTGACACTTGTGTAATTTTGTGTCGATAATTTTTGTCCA-AATG-ATGCCCAAAAGGGGTGCA
129 TATTGACACTTGTGTAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCA
174674 CGCATAAA
193 CGCATAAA
* * *
174682 GTGTCGATACA-TT-TAAAAGTCTCTATCCC-AAAATATCG-AACCACATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACC-CATAATTATAATGTAATA
* * * * *
174743 TGTAATTTTGTAATGTAACCGGTATAAATATATCGGTTTTATGTGAGAATA-GTCAACATAA--T
65 GGTAAATTTGTAATGTAACCGGTATAAATATACCGTTTTTATGAGAGAATAGGTCAACATAATGT
* * *
174805 A-T-ACAC-TGT-TAAATATGGGTCGATACTTTTT-TCCAGAATGAATGCTC-AACGAGGTGCAC
130 ATTGACACTTGTGT-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCAC
174864 GCATAAA
194 GCATAAA
* * *
174871 GTGTCGATACATTTA-AAATTGTATCGATCCCAAAAACATCGAAAACGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
174935 GGTAAATTTGAAATGTTACCAGTATAAATAAACCGT
65 GGTAAATTTGTAATGTAACCGGTATAAATATACCGT
174971 ATAGTTAAAA
Statistics
Matches: 422, Mismatches: 54, Indels: 35
0.83 0.11 0.07
Matches are distributed among these distances:
188 4 0.01
189 48 0.11
190 15 0.04
191 13 0.03
192 54 0.13
193 5 0.01
195 9 0.02
196 18 0.04
197 58 0.14
198 18 0.04
199 46 0.11
200 40 0.09
201 34 0.08
202 39 0.09
203 21 0.05
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAAATTTGTAATGTAACCGGTATAAATATACCGTTTTTATGAGAGAATAGGTCAACATAATGTA
TTGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGC
ATAAA
Found at i:175088 original size:88 final size:87
Alignment explanation
Indices: 174991--175151 Score: 270
Period size: 88 Copynumber: 1.8 Consensus size: 87
174981 AATAGGTCAA
* * *
174991 ATAAACGCTACCTATTACATTATGTAAGCGA-TACCTAATATGTTATTGTACTTGATATATATTT
1 ATAAACGCTACCTATTACATTATATAAGC-ACTACATAATATGTTATTATACTTGATA-ATATTT
175055 CCGGTTAAATACTTATTCTATTAT
64 CCGGTTAAATACTTATTCTATTAT
175079 ATAAACGCTACCTATTACATTATATAAGCACTACATAATATGTTATTATACTTGATAATATTTCC
1 ATAAACGCTACCTATTACATTATATAAGCACTACATAATATGTTATTATACTTGATAATATTTCC
175144 GGTTAAAT
66 GGTTAAAT
175152 TATATAACAT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
87 17 0.25
88 52 0.75
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (87 bp):
ATAAACGCTACCTATTACATTATATAAGCACTACATAATATGTTATTATACTTGATAATATTTCC
GGTTAAATACTTATTCTATTAT
Found at i:175973 original size:29 final size:29
Alignment explanation
Indices: 175940--176039 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 29
175930 TTATTAAGTC
*
175940 TTTGAATATTAAAAGTTATAAAATAATCA
1 TTTGACTATTAAAAGTTATAAAATAATCA
* ** ** *
175969 TTTGATTATTGGAAGTTATTTTATTAAATCA
1 TTTGACTATTAAAAGTTA-TAAAAT-AATCA
* *
176000 TTTGACTATTAAAAAATTATAAAATAGTCA
1 TTTGACTATT-AAAAGTTATAAAATAATCA
176030 TTTGACTATT
1 TTTGACTATT
176040 TATTATGTTC
Statistics
Matches: 54, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
29 15 0.28
30 17 0.31
31 17 0.31
32 5 0.09
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (29 bp):
TTTGACTATTAAAAGTTATAAAATAATCA
Found at i:177880 original size:15 final size:15
Alignment explanation
Indices: 177862--177896 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
177852 TAAAATTGTA
177862 AAATTTAAATTACAG
1 AAATTTAAATTACAG
* *
177877 AAATTTATATTACTG
1 AAATTTAAATTACAG
177892 AAATT
1 AAATT
177897 AAGACTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (15 bp):
AAATTTAAATTACAG
Found at i:178013 original size:12 final size:13
Alignment explanation
Indices: 177986--178018 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
177976 TAATATATCC
*
177986 TTTAAAATTATAT
1 TTTAAAAATATAT
177999 TTTAAAAAT-TAT
1 TTTAAAAATATAT
178011 TTTAAAAA
1 TTTAAAAA
178019 ATGAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:178784 original size:18 final size:19
Alignment explanation
Indices: 178748--178784 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
178738 TCACGAATGT
178748 AAGATTACCAGTCGGAATAA
1 AAGATTACCAG-CGGAATAA
178768 AAGATTACCAG-GGAATA
1 AAGATTACCAGCGGAATA
178785 GGATACTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGCGGAATAA
Found at i:178998 original size:30 final size:31
Alignment explanation
Indices: 178928--178998 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 31
178918 TTACAAATTG
*
178928 TAAATATTTATATATTTTCTTTAAAAATTAA
1 TAAATATTTATATAATTTCTTTAAAAATTAA
178959 TTCATAATATTTATATAATTT-TTTACAAAATTAA
1 -T-A-AATATTTATATAATTTCTTTA-AAAATTAA
178993 -AAATAT
1 TAAATAT
178999 AAAAAGGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
30 5 0.14
31 1 0.03
32 1 0.03
33 5 0.14
34 23 0.66
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (31 bp):
TAAATATTTATATAATTTCTTTAAAAATTAA
Found at i:181163 original size:5 final size:5
Alignment explanation
Indices: 181155--181221 Score: 57
Period size: 5 Copynumber: 13.2 Consensus size: 5
181145 ATGAAATTAA
* * * *
181155 AATAT AATAT ATATAT AATA- AATA- AAAAT AAAAT AAAAAT AATAT ACTATT
1 AATAT AATAT A-ATAT AATAT AATAT AATAT AATAT -AATAT AATAT AATA-T
181206 AATAT AATAT AATAT A
1 AATAT AATAT AATAT A
181222 TAATAAAAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 7 0.13
5 33 0.61
6 14 0.26
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:181170 original size:11 final size:11
Alignment explanation
Indices: 181156--181241 Score: 54
Period size: 11 Copynumber: 7.8 Consensus size: 11
181146 TGAAATTAAA
181156 ATATAATATAT
1 ATATAATATAT
*
181167 ATATAATAAATAA
1 ATATAAT--ATAT
* * *
181180 AAATAAAATAA
1 ATATAATATAT
*
181191 AAATAATATACT
1 ATATAATATA-T
181203 AT-TAATATA-
1 ATATAATATAT
181212 ATATAATATAT
1 ATATAATATAT
*
181223 A-ATAA-AAACT
1 ATATAATATA-T
181233 ATATAATAT
1 ATATAATAT
181242 TATTTTCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
9 4 0.07
10 13 0.22
11 32 0.54
12 2 0.03
13 8 0.14
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAATATAT
Found at i:181194 original size:37 final size:38
Alignment explanation
Indices: 181140--181229 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 38
181130 CCTAGATCTA
*
181140 ATAAAATGAAATTAAAATATAATATA-TATATAATA-AAT
1 ATAAAAT-AAAATAAAATATAATATACTAT-TAATATAAT
181178 A-AAAATAAAATAAAA-ATAATATACTATTAATATAAT
1 ATAAAATAAAATAAAATATAATATACTATTAATATAAT
* *
181214 ATAATATATAATAAAA
1 ATAAAATAAAATAAAA
181230 ACTATATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
35 13 0.28
36 15 0.33
37 17 0.37
38 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (38 bp):
ATAAAATAAAATAAAATATAATATACTATTAATATAAT
Found at i:181230 original size:37 final size:34
Alignment explanation
Indices: 181142--181243 Score: 98
Period size: 37 Copynumber: 2.8 Consensus size: 34
181132 TAGATCTAAT
*
181142 AAAATGAAATTAAAATATAATATATATATAATAAATA
1 AAAAT-AAAATAAAA-ATAATATATAT-TAATAAATA
181179 AAAATAAAATAAAAATAATATACTATTAATATAATA
1 AAAATAAAATAAAAATAATATA-TATTAATA-AATA
* *
181215 TAATATATAATAAAAACT-ATATAATATTA
1 -AAAATAAAATAAAAA-TAATAT-ATATTA
181244 TTTTCAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
35 13 0.23
36 15 0.26
37 27 0.47
38 2 0.04
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (34 bp):
AAAATAAAATAAAAATAATATATATTAATAAATA
Found at i:181257 original size:17 final size:17
Alignment explanation
Indices: 181235--181290 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
181225 TAAAAACTAT
*
181235 ATAATATTATTTTCAAA
1 ATAATATTGTTTTCAAA
181252 ATAATA-TGTTTTCGAAA
1 ATAATATTGTTTTC-AAA
*
181269 TTATATATATGTTTTCAAA
1 ATA-ATAT-TGTTTTCAAA
181288 ATA
1 ATA
181291 TTTTAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 6 0.19
17 11 0.34
18 3 0.09
19 5 0.16
20 7 0.22
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (17 bp):
ATAATATTGTTTTCAAA
Found at i:181269 original size:16 final size:16
Alignment explanation
Indices: 181244--181290 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 16
181234 TATAATATTA
181244 TTTTCAAAATAATATG
1 TTTTCAAAATAATATG
181260 TTTTCGAAATTATATATATG
1 TTTTC-AAA--ATA-ATATG
181280 TTTTCAAAATA
1 TTTTCAAAATA
181291 TTTTAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
19 6 0.22
20 10 0.37
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTCAAAATAATATG
Found at i:181397 original size:74 final size:74
Alignment explanation
Indices: 181303--181572 Score: 261
Period size: 74 Copynumber: 3.7 Consensus size: 74
181293 TTAAAAACTA
* *
181303 TATACATTTTCAAATATGTTTTCAAAACA-ATATTATATATGTTTTAAAAACCTTTTTTTAAAAA
1 TATACATTTTCAAAAATGTTTTCAAAACATATACTATATATGTTTTAAAAACCTTTTTTT-AAAA
*
181367 AATTATATAT
65 AACTATATAT
* * * ****
181377 TATACGTTTTCAAAACTGTTTTAAAAAC-TATA-TATTATATGTTTTCAAATTTTTTTTTTTAAA
1 TATACATTTTCAAAAATGTTTTCAAAACATATACTA-TATATGTTTT-AAAAACCTTTTTTTAAA
181440 AAACTATATAT
64 AAACTATATAT
** * * * * *
181451 TAT--ATTTAAAAAAATATTTTTAAAACTATATACTATACAT-TTTCAAAAACC--ATTTTAAAA
1 TATACATTTTCAAAAATGTTTTCAAAAC-ATATACTATATATGTTTTAAAAACCTTTTTTTAAAA
181511 AACTATATAT
65 AACTATATAT
*
181521 TATACATTTTCAAAAGTATGTTTTCAAAACATATACTATATA-CTTTTAAAAA
1 TATACATTTTCAAAA--ATGTTTTCAAAACATATACTATATATGTTTTAAAAA
181573 TTACGTTTGA
Statistics
Matches: 157, Mismatches: 28, Indels: 23
0.75 0.13 0.11
Matches are distributed among these distances:
70 21 0.13
72 28 0.18
73 24 0.15
74 72 0.46
75 12 0.08
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (74 bp):
TATACATTTTCAAAAATGTTTTCAAAACATATACTATATATGTTTTAAAAACCTTTTTTTAAAAA
ACTATATAT
Found at i:181409 original size:35 final size:36
Alignment explanation
Indices: 181358--181535 Score: 157
Period size: 37 Copynumber: 4.9 Consensus size: 36
181348 AAAAACCTTT
* * *
181358 TTTTAAAAAAATTATATATTATACGTTTTCAAAACTG
1 TTTT-AAAAAACTATATATTATACATTTTCAAAACTA
** ** *
181395 TTTT-AAAAACTATATATTATATGTTTTCAAATTTTTTT
1 TTTTAAAAAACTATATATTATACATTTTCAAA---ACTA
** *
181433 TTTTAAAAAACTATATATTAT--ATTTAAAAAAATA
1 TTTTAAAAAACTATATATTATACATTTTCAAAACTA
* * *
181467 TTTT-TAAAACTATATACTATACATTTTCAAAAACCA
1 TTTTAAAAAACTATATATTATACATTTTC-AAAACTA
181503 TTTTAAAAAACTATATATTATACATTTTCAAAA
1 TTTTAAAAAACTATATATTATACATTTTCAAAA
181536 GTATGTTTTC
Statistics
Matches: 114, Mismatches: 19, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
33 14 0.12
34 5 0.04
35 29 0.25
36 13 0.11
37 32 0.28
38 5 0.04
39 16 0.14
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (36 bp):
TTTTAAAAAACTATATATTATACATTTTCAAAACTA
Found at i:181494 original size:72 final size:73
Alignment explanation
Indices: 181355--181497 Score: 180
Period size: 72 Copynumber: 2.0 Consensus size: 73
181345 TTTAAAAACC
* ** * * * **
181355 TTTTTTTAAAAAAATTATATATTATACGTTTTCAAAACTGTTTTAAAAACTATATATTATATGTT
1 TTTTTTTAAAAAAACTATATATTATAC-TTTAAAAAAATATTTTAAAAACTATATACTATACATT
181420 TTCAAATTT
65 TTCAAATTT
* *
181429 TTTTTTTTAAAAAACTATATATTATA-TTTAAAAAAATATTTTTAAAACTATATACTATACATTT
1 TTTTTTTAAAAAAACTATATATTATACTTTAAAAAAATATTTTAAAAACTATATACTATACATTT
181493 TCAAA
66 TCAAA
181498 AACCATTTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 35 0.59
74 24 0.41
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (73 bp):
TTTTTTTAAAAAAACTATATATTATACTTTAAAAAAATATTTTAAAAACTATATACTATACATTT
TCAAATTT
Found at i:181499 original size:37 final size:36
Alignment explanation
Indices: 181432--181560 Score: 115
Period size: 37 Copynumber: 3.6 Consensus size: 36
181422 CAAATTTTTT
*
181432 TTTTTAAAAAACTATATA-T-TATA-TTT-AAAAAAA
1 TTTTT-AAAAACTATATACTATACATTTTCAAAAAAA
* *
181465 TATTTTTAAAACTATATACTATACATTTTCAAAAACCA
1 T-TTTTAAAAACTATATACTATACATTTTCAAAAA-AA
* * **
181503 TTTTAAAAAACTATATATTATACATTTTCAAAAGTA
1 TTTTTAAAAACTATATACTATACATTTTCAAAAAAA
*
181539 TGTTTTCAAAAC-ATATACTATA
1 T-TTTTAAAAACTATATACTATA
181561 TACTTTTAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
33 12 0.15
34 5 0.06
35 3 0.04
36 14 0.18
37 42 0.54
38 2 0.03
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (36 bp):
TTTTTAAAAACTATATACTATACATTTTCAAAAAAA
Found at i:204069 original size:21 final size:21
Alignment explanation
Indices: 204043--204099 Score: 98
Period size: 21 Copynumber: 2.7 Consensus size: 21
204033 CATATGAAAT
204043 TTGTCCCG-AAGAACCACTGTA
1 TTGTCCCGAAAG-ACCACTGTA
204064 TTGTCCCGAAAGACCACTGTA
1 TTGTCCCGAAAGACCACTGTA
204085 TTGTCCCGAAAGACC
1 TTGTCCCGAAAGACC
204100 TATGAAACCC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (21 bp):
TTGTCCCGAAAGACCACTGTA
Found at i:204966 original size:21 final size:21
Alignment explanation
Indices: 204942--204984 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
204932 CTGAAATTTT
*
204942 TGTTTAAGCCAGAAAAATCAC
1 TGTTCAAGCCAGAAAAATCAC
* * *
204963 TGTTCATGCCCGAAAATTCAC
1 TGTTCAAGCCAGAAAAATCAC
204984 T
1 T
204985 ATATCAACTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (21 bp):
TGTTCAAGCCAGAAAAATCAC
Found at i:207316 original size:23 final size:23
Alignment explanation
Indices: 207282--207327 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
207272 CAATCTTATA
* *
207282 TGGCACTACGGTGTATTTCTACG
1 TGGCACTACGGTGCATTTATACG
*
207305 TGGCACTTCGGTGCATTTATACG
1 TGGCACTACGGTGCATTTATACG
207328 AGTTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (23 bp):
TGGCACTACGGTGCATTTATACG
Found at i:208144 original size:22 final size:22
Alignment explanation
Indices: 208116--208177 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
208106 TAGAATTTGA
208116 TACTGTTCACGGTACTGTTCAT
1 TACTGTTCACGGTACTGTTCAT
* * * *
208138 TACTGTTCATGGTATTCTACAT
1 TACTGTTCACGGTACTGTTCAT
**
208160 TACT-TTCACATTACTGTT
1 TACTGTTCACGGTACTGTT
208178 GATACCGTAT
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
21 8 0.27
22 22 0.73
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (22 bp):
TACTGTTCACGGTACTGTTCAT
Found at i:215796 original size:2 final size:2
Alignment explanation
Indices: 215789--215830 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
215779 TATAACTACA
215789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
215830 A
1 A
215831 AATACTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:220553 original size:21 final size:21
Alignment explanation
Indices: 220529--220570 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
220519 AGGGTTTAAA
*
220529 ATTTAAGATTTAAGTTTTAGG
1 ATTTAAGATTTAAGGTTTAGG
* *
220550 ATTTAGGGTTTAAGGTTTAGG
1 ATTTAAGATTTAAGGTTTAGG
220571 GTAAGATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (21 bp):
ATTTAAGATTTAAGGTTTAGG
Found at i:222832 original size:28 final size:28
Alignment explanation
Indices: 222791--222865 Score: 132
Period size: 28 Copynumber: 2.7 Consensus size: 28
222781 CCCGAAGGAC
*
222791 CTATGTCTCGAAGGACCACATATCACAT
1 CTATGTCCCGAAGGACCACATATCACAT
*
222819 CTATGTCCCAAAGGACCACATATCACAT
1 CTATGTCCCGAAGGACCACATATCACAT
222847 CTATGTCCCGAAGGACCAC
1 CTATGTCCCGAAGGACCAC
222866 TCCTTAATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (28 bp):
CTATGTCCCGAAGGACCACATATCACAT
Found at i:222945 original size:21 final size:21
Alignment explanation
Indices: 222910--222968 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
222900 AATAGGTGTA
* * *
222910 CCAAAGTACCGCATATATGTT
1 CCAAAGGACCACATATATGTC
**
222931 CCAAAGGATTACATATATGTC
1 CCAAAGGACCACATATATGTC
*
222952 CCGAAGGACCACATATA
1 CCAAAGGACCACATATA
222969 AACCTCGACT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
CCAAAGGACCACATATATGTC
Found at i:223840 original size:15 final size:15
Alignment explanation
Indices: 223820--223859 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
223810 TTACTTAATG
223820 GTATCGATACCCCAA
1 GTATCGATACCCCAA
223835 GTATCGATACCCCAA
1 GTATCGATACCCCAA
*
223850 ATATCGATAC
1 GTATCGATAC
223860 TACTCATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (15 bp):
GTATCGATACCCCAA
Found at i:237473 original size:17 final size:16
Alignment explanation
Indices: 237451--237496 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 16
237441 TTGCTTTAGA
237451 AATTTAATTTTTTATAT
1 AATTTAATTTTTT-TAT
237468 AATTTAAATATTTTTTAT
1 AATTT-AAT-TTTTTTAT
237486 AATTTAATTTT
1 AATTTAATTTT
237497 GAATCTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.11
17 8 0.30
18 11 0.41
19 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTAATTTTTTTAT
Found at i:237859 original size:22 final size:22
Alignment explanation
Indices: 237827--237877 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
237817 GCGGACTGCT
*
237827 TGATTATTAGCTGTATCATATA
1 TGATTAATAGCTGTATCATATA
237849 TGATTAATAGCTGTATCATATA
1 TGATTAATAGCTGTATCATATA
237871 TGATTAA
1 TGATTAA
237878 GGACATTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (22 bp):
TGATTAATAGCTGTATCATATA
Found at i:248561 original size:15 final size:15
Alignment explanation
Indices: 248543--248571 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
248533 TTCATTTCAA
248543 AATTTTATAAAATAC
1 AATTTTATAAAATAC
248558 AATTTTATAAAATA
1 AATTTTATAAAATA
248572 ACTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTTATAAAATAC
Found at i:248771 original size:20 final size:20
Alignment explanation
Indices: 248730--248771 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
248720 TTTTCTGGAT
*
248730 TTGGTTTTCCAAAAATGTAA
1 TTGGTTTTCCAAAAATGCAA
*
248750 TTGGTTTTCTAGAAAAT-CAA
1 TTGGTTTTCCA-AAAATGCAA
248770 TT
1 TT
248772 ACAACCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (20 bp):
TTGGTTTTCCAAAAATGCAA
Found at i:263994 original size:28 final size:26
Alignment explanation
Indices: 263948--264002 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 26
263938 CCGAATTCGG
*
263948 TGCCCCCTTAGCAGTCGTTTTTGACT
1 TGCCCCCTTAGCAGCCGTTTTTGACT
263974 TGCCCCCTTTTAGCAGCCGTTTTTGACT
1 TGCCCCC--TTAGCAGCCGTTTTTGACT
264002 T
1 T
264003 TACAATCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 7 0.27
28 19 0.73
ACGTcount: A:0.11, C:0.31, G:0.18, T:0.40
Consensus pattern (26 bp):
TGCCCCCTTAGCAGCCGTTTTTGACT
Found at i:267150 original size:28 final size:28
Alignment explanation
Indices: 267103--267159 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
267093 TCGAATTCGG
* *
267103 TGCCCCCCTTTAGCAACCGTTTTTTACT
1 TGCCCCCCTTTAACAACCGTTTTTGACT
*
267131 TGCCCCCCTTTAACAGCCGTTTTTGACT
1 TGCCCCCCTTTAACAACCGTTTTTGACT
267159 T
1 T
267160 TACACACCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.35, G:0.12, T:0.39
Consensus pattern (28 bp):
TGCCCCCCTTTAACAACCGTTTTTGACT
Found at i:292380 original size:35 final size:34
Alignment explanation
Indices: 292335--292402 Score: 109
Period size: 35 Copynumber: 2.0 Consensus size: 34
292325 ATCTTAATCG
* *
292335 TCTATTTGAATTATCTAACGGTCCTAAATTTGTA
1 TCTATTTGAATTATATAACGATCCTAAATTTGTA
292369 TCTATTTTGAATTATATAACGATCCTAAATTTGT
1 TCTA-TTTGAATTATATAACGATCCTAAATTTGT
292403 GTAAATTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (34 bp):
TCTATTTGAATTATATAACGATCCTAAATTTGTA
Found at i:294860 original size:16 final size:16
Alignment explanation
Indices: 294816--294863 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
294806 AATACAAAAA
**
294816 AGGAAAATAATCGAAT
1 AGGAAAATAATTAAAT
* *
294832 GGGCAAA-AATTAAAT
1 AGGAAAATAATTAAAT
294847 AGGAAAATAATTAAAT
1 AGGAAAATAATTAAAT
294863 A
1 A
294864 AAAAGAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.58, C:0.04, G:0.17, T:0.21
Consensus pattern (16 bp):
AGGAAAATAATTAAAT
Found at i:296630 original size:138 final size:138
Alignment explanation
Indices: 296381--296781 Score: 431
Period size: 138 Copynumber: 2.9 Consensus size: 138
296371 TTATTCTCTG
* * *
296381 TGAGTTCTTCTCATTATGAACTCTTCATTTATCCACCTTCTTGTGTGATGGACAAT--C-CCAAG
1 TGAGTTCTTCTCATTATGAACTCCTCATTTATCCACCTCCTTGTGCGAT--A-AATGACTCCAAG
* * * * * * *
296443 TTGAAC-AGACTTTTCTCATTACGAGCTTCTTCTACCTCGTTGGATGAGTTCA-TCTTATTATGA
63 TTGAACAAG-CTCTTCTCATTACGAACTTCTTCTTCCTTGTTGGACGAGTT-ATTCTCATTACGA
*
296506 ACCCTTCATCGGGA
126 ACCCTTCATC-AGA
* * *
296520 -GAGTTCTTCTCATTATGAACTCCTCATTTACCCACCTCCTTGTGGGATAAATGACTCCAGGTTG
1 TGAGTTCTTCTCATTATGAACTCCTCATTTATCCACCTCCTTGTGCGATAAATGACTCCAAGTTG
296584 AACAAGCTCTTCTCATTACGAACTTCTTCTTCCTTGTTGGACGAGTTATTCTCATTACGAACCCT
66 AACAAGCTCTTCTCATTACGAACTTCTTCTTCCTTGTTGGACGAGTTATTCTCATTACGAACCCT
296649 TCATCAGA
131 TCATCAGA
* * * * * * * *
296657 TGAGTTATTCTCATTATGAACTCCTCATTTATCTATCTCCTTGTGCAATAGACGATTCCATGTTG
1 TGAGTTCTTCTCATTATGAACTCCTCATTTATCCACCTCCTTGTGCGATAAATGACTCCAAGTTG
* * * * *
296722 AACAATCTCTTCTCATTACGATCTTCTTC-TCCTT-TCTCGGACAAGTTCTTCTAATTACGA
66 AACAAGCTCTTCTCATTACGAACTTCTTCTTCCTTGT-T-GGACGAGTTATTCTCATTACGA
296782 GCTCTTCCTT
Statistics
Matches: 226, Mismatches: 28, Indels: 17
0.83 0.10 0.06
Matches are distributed among these distances:
135 3 0.01
136 2 0.01
137 10 0.04
138 209 0.92
139 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (138 bp):
TGAGTTCTTCTCATTATGAACTCCTCATTTATCCACCTCCTTGTGCGATAAATGACTCCAAGTTG
AACAAGCTCTTCTCATTACGAACTTCTTCTTCCTTGTTGGACGAGTTATTCTCATTACGAACCCT
TCATCAGA
Found at i:297777 original size:8 final size:8
Alignment explanation
Indices: 297752--297785 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
297742 TTTTCTTTTG
297752 TTTTTCTAT
1 TTTTTCT-T
297761 TTCTTTCTT
1 TT-TTTCTT
297770 TTTTTCTT
1 TTTTTCTT
297778 TTTTTCTT
1 TTTTTCTT
297786 GTCTTAAGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 14 0.58
9 5 0.21
10 5 0.21
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:297783 original size:16 final size:18
Alignment explanation
Indices: 297743--297785 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
297733 GAACCCTTAT
*
297743 TTTCTTT-TGTTTTTCTA
1 TTTCTTTCTTTTTTTCTA
297760 TTTCTTTCTTTTTTTCT-
1 TTTCTTTCTTTTTTTCTA
297777 TTT-TTTCTT
1 TTTCTTTCTT
297786 GTCTTAAGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 8 0.33
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTCTTTCTTTTTTTCTA
Found at i:301872 original size:22 final size:22
Alignment explanation
Indices: 301846--301899 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
301836 CTCCATATAA
*
301846 GTATCGATACCTCTTTCATA-TG
1 GTATCGATACCT-TTTCATACAG
*
301868 GTATCGATA-GTTTTCATACAG
1 GTATCGATACCTTTTCATACAG
301889 GTATCGATACC
1 GTATCGATACC
301900 AAATGAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 7 0.26
21 11 0.41
22 9 0.33
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GTATCGATACCTTTTCATACAG
Found at i:306180 original size:15 final size:15
Alignment explanation
Indices: 306155--306217 Score: 90
Period size: 15 Copynumber: 4.2 Consensus size: 15
306145 CGTAGGACTC
*
306155 CTACATCCCGAAGGA
1 CTACGTCCCGAAGGA
*
306170 CTATGTCCCGAAGGA
1 CTACGTCCCGAAGGA
*
306185 CTACATCCCGAAGGA
1 CTACGTCCCGAAGGA
*
306200 CTACGTCCCGAATGA
1 CTACGTCCCGAAGGA
306215 CTA
1 CTA
306218 TTATACCCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (15 bp):
CTACGTCCCGAAGGA
Found at i:306191 original size:30 final size:30
Alignment explanation
Indices: 306155--306217 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
306145 CGTAGGACTC
*
306155 CTACATCCCGAAGGACTATGTCCCGAAGGA
1 CTACATCCCGAAGGACTACGTCCCGAAGGA
*
306185 CTACATCCCGAAGGACTACGTCCCGAATGA
1 CTACATCCCGAAGGACTACGTCCCGAAGGA
306215 CTA
1 CTA
306218 TTATACCCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (30 bp):
CTACATCCCGAAGGACTACGTCCCGAAGGA
Found at i:306344 original size:29 final size:29
Alignment explanation
Indices: 306302--306379 Score: 149
Period size: 29 Copynumber: 2.7 Consensus size: 29
306292 TTTCATATGT
306302 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
306330 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
306359 TCATGTAGCTCATGTCATTTC
1 TCATGTAGCTCATGTCATTTC
306380 ATATCATGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.14
29 42 0.86
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:306911 original size:64 final size:63
Alignment explanation
Indices: 306734--306912 Score: 207
Period size: 64 Copynumber: 2.8 Consensus size: 63
306724 TAATGAAGAT
* * * ** * * * **
306734 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT-TTACTATTAATGGG
* *
306798 ATGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-TGAATTGCATTCGATGTTT-ACTATTAATGGG
*
306862 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTACATTCGATGTTT
1 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTT
306913 TTATTTTAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
63 2 0.02
64 95 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTACTATTAATGGG
Done.