Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 57 of 62
Found at i:13730375 original size:30 final size:30
Alignment explanation
Indices: 13730334--13730394 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
13730324 TCCCAGTTCC
*
13730334 AGAGTCAATTTCAATTTCACGGCGAAGGAT
1 AGAGCCAATTTCAATTTCACGGCGAAGGAT
13730364 AGAGCCAATTTCAATTTCACGGCGAAGGAT
1 AGAGCCAATTTCAATTTCACGGCGAAGGAT
13730394 A
1 A
13730395 TTGGCCTCGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (30 bp):
AGAGCCAATTTCAATTTCACGGCGAAGGAT
Found at i:13730612 original size:100 final size:102
Alignment explanation
Indices: 13730423--13730722 Score: 347
Period size: 100 Copynumber: 2.9 Consensus size: 102
13730413 CTCACATTGG
* *
13730423 AGTTCAACTTCACGACGAAGGGACCGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TT--TAAT-TCAGAGCCAATT
* *
13730488 TCAACTTCACAACGAAGGATATTGGACTCCG-GACAACGCA
62 TCAACTTCACAGCGAAGGATATTGGACTCCGAGACAACACA
* * * *
13730528 AGTTCAACTCCACGACGAAGGGACCGCTGTTTGTCAACAA-AATTTTATTCAGAGTCAATTTCAA
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTAATTCAGAGCCAATTTCAA
*
13730592 CTTCACAGCGAAGGATATTGGACT-TGAGACAACACA
66 CTTCACAGCGAAGGATATTGGACTCCGAGACAACACA
* * * **
13730628 AGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAATTT---AATT-CAGAGCCAAT
*
13730693 TTCAACTTCAC-GACGGAGGATATTGGACTC
61 TTCAACTTCACAG-CGAAGGATATTGGACTC
13730723 GGAACAATGC
Statistics
Matches: 169, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
99 1 0.01
100 80 0.47
101 4 0.02
102 5 0.03
103 2 0.01
104 2 0.01
105 40 0.24
106 35 0.21
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (102 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTAATTCAGAGCCAATTTCAA
CTTCACAGCGAAGGATATTGGACTCCGAGACAACACA
Found at i:13731322 original size:37 final size:37
Alignment explanation
Indices: 13731265--13731369 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
13731255 CATTTTCGTC
*
13731265 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAAATCCTAAAAATAGGATAAAATT
* * * * *
13731302 TTGCTAGGATTCAAAATCCTAAAAATAAGATAGAGTT
1 CTACTAGGATTCAAAATCCTAAAAATAGGATAAAATT
* * * *
13731339 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAAATCCTAAAAATAGGAT
13731370 CCACAAGAAC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAAATCCTAAAAATAGGATAAAATT
Found at i:13731755 original size:17 final size:18
Alignment explanation
Indices: 13731729--13731768 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13731719 ATTATATGGA
13731729 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
13731745 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
13731763 TATTAT
1 TATTAT
13731769 ATATGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:13731830 original size:42 final size:44
Alignment explanation
Indices: 13731768--13731854 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 44
13731758 GTTATTATTA
* *
13731768 TATATGTATATATATATATTAAAT-TATTTCATTTATTTTTTTAC
1 TATATGTATATATATATATTAAATATATTTC-TTTAATATTTTAC
* *
13731812 TATATTTATAT-TAT-TATTATATATATTTCTTTAATATTTTAC
1 TATATGTATATATATATATTAAATATATTTCTTTAATATTTTAC
13731854 T
1 T
13731855 TATAAGTCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 19 0.50
43 9 0.24
44 10 0.26
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (44 bp):
TATATGTATATATATATATTAAATATATTTCTTTAATATTTTAC
Found at i:13732042 original size:8 final size:8
Alignment explanation
Indices: 13732027--13732077 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
13732017 ATATTTATAG
13732027 TATT-TTT
1 TATTATTT
13732034 TATTATTT
1 TATTATTT
*
13732042 TCATTTTTT
1 T-ATTATTT
13732051 TATTCATTAT
1 TATT-ATT-T
*
13732061 TATTATAT
1 TATTATTT
13732069 TATTATTT
1 TATTATTT
13732077 T
1 T
13732078 GTTTAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
7 4 0.11
8 16 0.44
9 11 0.31
10 5 0.14
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (8 bp):
TATTATTT
Found at i:13732278 original size:2 final size:2
Alignment explanation
Indices: 13732271--13732309 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
13732261 TAATACTTTG
*
13732271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13732310 TTTTTTCCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:13734887 original size:50 final size:49
Alignment explanation
Indices: 13734788--13734909 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 49
13734778 CCCTACGTGG
*
13734788 CGTATAGCGCGG-AGCAGGGGGCGCGCTATACCCCACGTGTAACCCAATCAA
1 CGTATAACGCGGTA-CA-GGGGCGCGCTATACCCCACGTG-AACCCAATCAA
* *
13734839 CGTATAACGCGGTACAGGGGCGCGCTATACTCCACGTG-ACGCCAAATCAG
1 CGTATAACGCGGTACAGGGGCGCGCTATACCCCACGTGAAC-CC-AATCAA
* * *
13734889 CATATAACGCAGTTCAGGGGC
1 CGTATAACGCGGTACAGGGGC
13734910 CTGCTTTACT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
48 2 0.03
49 2 0.03
50 44 0.71
51 13 0.21
52 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.29, T:0.16
Consensus pattern (49 bp):
CGTATAACGCGGTACAGGGGCGCGCTATACCCCACGTGAACCCAATCAA
Found at i:13735004 original size:29 final size:28
Alignment explanation
Indices: 13734927--13734996 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
13734917 ACTACTACGG
* *
13734927 GTGTTAGATCGAGAAATATAATCTGATC
1 GTGTTAGATCGAAAAATATAATCTGACC
* *
13734955 GATATTAGATCAAAAAATATAATCTGACC
1 G-TGTTAGATCGAAAAATATAATCTGACC
13734984 AGTGTTAGATCGA
1 -GTGTTAGATCGA
13734997 TATATATACC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 1 0.03
29 32 0.94
30 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (28 bp):
GTGTTAGATCGAAAAATATAATCTGACC
Found at i:13741062 original size:31 final size:31
Alignment explanation
Indices: 13741009--13741078 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
13740999 TAAAAGGACT
* *
13741009 AAAATAAAATGCAGGAAATTAAAGGGGTAGA
1 AAAATAAAATGAAGGAAATTAAAGGGATAGA
* * *
13741040 AAAATAAAAT-AATGAAATTTAAAGTGATGGA
1 AAAATAAAATGAAGGAAA-TTAAAGGGATAGA
13741071 AAAATAAA
1 AAAATAAA
13741079 TAAATAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.60, C:0.01, G:0.19, T:0.20
Consensus pattern (31 bp):
AAAATAAAATGAAGGAAATTAAAGGGATAGA
Found at i:13741343 original size:32 final size:31
Alignment explanation
Indices: 13741239--13741363 Score: 135
Period size: 32 Copynumber: 3.8 Consensus size: 31
13741229 TTAGTTTGTG
*
13741239 CAATAAAATAAAATGTTAGTAA-GTTAGTAAGAA
1 CAATAAAATAAAA-GTTAG-AATGTTAGT-TGAA
*
13741272 CAATAAAAATAAAAAGTTAGAATGTCAGTATGAA
1 CAAT-AAAAT-AAAAGTTAGAATGTTAGT-TGAA
*
13741306 CAATAAAATAAAAGTTAGGATGTTAGTTCGAA
1 CAATAAAATAAAAGTTAGAATGTTAGTT-GAA
* *
13741338 AAATAAAATAAAGGTTAGAATGTTAG
1 CAATAAAATAAAAGTTAGAATGTTAG
13741364 CAAGTTAGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
31 1 0.01
32 42 0.52
33 11 0.14
34 23 0.28
35 4 0.05
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.26
Consensus pattern (31 bp):
CAATAAAATAAAAGTTAGAATGTTAGTTGAA
Found at i:13753839 original size:55 final size:54
Alignment explanation
Indices: 13753780--13753938 Score: 192
Period size: 55 Copynumber: 2.9 Consensus size: 54
13753770 CATAGTGTTG
* *
13753780 ATACAATAATTCACAAACTCATTATGAACTACGTGAGGCTGCATACATAGTGCCA
1 ATACAA-AATTCATAAACTCATTATGAACTACGTGAGGCTGCACACATAGTGCCA
* * *
13753835 ATACAGAAATTCATAAACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCA
1 ATACA-AAATTCATAAACTCATTATGAACTACGTGAGGCTGCACACATAGTGCCA
* * * ** *
13753890 ATACGGAAATTCATATACTCATTATGAATTTTGTGAGGTTGCACACATA
1 ATAC-AAAATTCATAAACTCATTATGAACTACGTGAGGCTGCACACATA
13753939 ACTCATTATG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
55 93 0.99
56 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (54 bp):
ATACAAAATTCATAAACTCATTATGAACTACGTGAGGCTGCACACATAGTGCCA
Found at i:13753968 original size:32 final size:34
Alignment explanation
Indices: 13753901--13753970 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 34
13753891 TACGGAAATT
* *
13753901 CATATACTCATTATGAATTTTGTGAGGTTGCACA
1 CATATACTCATTATGAATTCTGTGAAGTTGCACA
13753935 CATA-ACTCATTATGAACTTCT-T-AAGTTGCACA
1 CATATACTCATTATGAA-TTCTGTGAAGTTGCACA
13753967 CATA
1 CATA
13753971 GTGCCAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 13 0.39
33 13 0.39
34 7 0.21
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (34 bp):
CATATACTCATTATGAATTCTGTGAAGTTGCACA
Found at i:13754001 original size:87 final size:87
Alignment explanation
Indices: 13753850--13754025 Score: 266
Period size: 87 Copynumber: 2.0 Consensus size: 87
13753840 GAAATTCATA
* * * *
13753850 AACTCATTATGAATTTCGTGAGGTTGCACACATAGTGCCAATACGGAAATTCATATACTCATTAT
1 AACTCATTATGAACTTCGTGAAGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAT
13753915 GAATTT-TGTGAGGTTGCACACAT
66 GAATTTCT-T-AGGTTGCACACAT
* *
13753938 AACTCATTATGAACTTC-TTAAGTTGCACACATAGTGCCAATACGAAAATTCATAAACTTATTAT
1 AACTCATTATGAACTTCGTGAAGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAT
13754002 GAATTTCTTAGGTTGCACACAT
66 GAATTTCTTAGGTTGCACACAT
13754024 AA
1 AA
13754026 TGCCAATACG
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
86 15 0.19
87 49 0.60
88 17 0.21
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (87 bp):
AACTCATTATGAACTTCGTGAAGTTGCACACATAGTGCCAATACGAAAATTCATAAACTCATTAT
GAATTTCTTAGGTTGCACACAT
Found at i:13754017 original size:54 final size:54
Alignment explanation
Indices: 13753938--13754137 Score: 321
Period size: 54 Copynumber: 3.7 Consensus size: 54
13753928 TTGCACACAT
* * *
13753938 AACTCATTATGAACTTCTTAAGTTGCACACATAGTGCCAATACGAAAATTCATA
1 AACTTATTATGAATTTCTTAAGTTGCACACATAATGCCAATACGAAAATTCATA
*
13753992 AACTTATTATGAATTTCTTAGGTTGCACACATAATGCCAATACGAAAATTCATA
1 AACTTATTATGAATTTCTTAAGTTGCACACATAATGCCAATACGAAAATTCATA
* *
13754046 AACTTATTATGAATTTCTT-AGATTGCACACATAGTGCCAATACAAAAATTCATA
1 AACTTATTATGAATTTCTTAAG-TTGCACACATAATGCCAATACGAAAATTCATA
*
13754100 AACTTATTATGAATTCCTTAAGTTGCACACATAATGCC
1 AACTTATTATGAATTTCTTAAGTTGCACACATAATGCC
13754138 CATTCGGTAA
Statistics
Matches: 135, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 1 0.01
54 132 0.98
55 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (54 bp):
AACTTATTATGAATTTCTTAAGTTGCACACATAATGCCAATACGAAAATTCATA
Found at i:13754558 original size:20 final size:20
Alignment explanation
Indices: 13754522--13754563 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
13754512 AGTATTGATA
*
13754522 CTATTTTTGCATTATGGAAT
1 CTATTTTTGCATAATGGAAT
*
13754542 CTATTTTT-CAATAATGGTAT
1 CTATTTTTGC-ATAATGGAAT
13754562 CT
1 CT
13754564 TTACCTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (20 bp):
CTATTTTTGCATAATGGAAT
Found at i:13758245 original size:20 final size:20
Alignment explanation
Indices: 13758212--13758270 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
13758202 AAAGATAAAA
*
13758212 ATAAAATAAAAATAGAACGAG
1 ATAAAAT-AAAATAGAACAAG
*
13758233 ATAAAATAAAATAAAACAAG
1 ATAAAATAAAATAGAACAAG
13758253 ATAATAAGATAAAATAGA
1 AT-A-AA-ATAAAATAGA
13758271 GCAAAAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 13 0.41
21 8 0.25
22 2 0.06
23 9 0.28
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.17
Consensus pattern (20 bp):
ATAAAATAAAATAGAACAAG
Found at i:13759767 original size:54 final size:54
Alignment explanation
Indices: 13759708--13759966 Score: 286
Period size: 54 Copynumber: 4.8 Consensus size: 54
13759698 CCATAAGGAA
* * * ***
13759708 ATTCATAAACTTATTATGAATTTCGTGGGCTGCACACATAGTGCCT-AAACGGTT
1 ATTCATCAACATATGATGAATTTCGTGAATTGCACACATAGTG-CTAAAACGGTT
* * * * *
13759762 GTTCATCAACATATGATGAATTCCGTGAATTGTACACTTAGTGCTGAAACGGTT
1 ATTCATCAACATATGATGAATTTCGTGAATTGCACACATAGTGCTAAAACGGTT
* * * *
13759816 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTTAAAACGGTT
1 ATTCATCAACATATGATGAATTTCGTGAATTGCACACATAGTGCTAAAACGGTT
* * * * * *
13759870 ATTCATCAACATATGATGAATTTTGTGAATTGTACACTTAGTGTTGAAATGGTT
1 ATTCATCAACATATGATGAATTTCGTGAATTGCACACATAGTGCTAAAACGGTT
* * *
13759924 GTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTG
1 ATTCATCAACATATGATGAATTTCGTGAATTGCACACATAGTG
13759967 TCTATTTGGT
Statistics
Matches: 181, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 2 0.01
54 179 0.99
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (54 bp):
ATTCATCAACATATGATGAATTTCGTGAATTGCACACATAGTGCTAAAACGGTT
Found at i:13759967 original size:54 final size:54
Alignment explanation
Indices: 13759754--13759967 Score: 356
Period size: 54 Copynumber: 4.0 Consensus size: 54
13759744 CATAGTGCCT
* *
13759754 AAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGTACACTTAGTGCTG
1 AAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTTG
*
13759808 AAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTTA
1 AAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTTG
* ** *
13759862 AAACGGTTATTCATCAACATATGATGAATTTTGTGAATTGTACACTTAGTGTTG
1 AAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTTG
*
13759916 AAATGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGT
1 AAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGT
13759968 CTATTTGGTA
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 147 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (54 bp):
AAACGGTTGTTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTTG
Found at i:13760315 original size:20 final size:20
Alignment explanation
Indices: 13760287--13760326 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13760277 GTTCCAGGCT
13760287 CCATAGTATCGATACCTCTA
1 CCATAGTATCGATACCTCTA
* * *
13760307 CCATGGTATTGATACTTCTA
1 CCATAGTATCGATACCTCTA
13760327 TACTATGGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (20 bp):
CCATAGTATCGATACCTCTA
Found at i:13761797 original size:32 final size:33
Alignment explanation
Indices: 13761706--13761829 Score: 155
Period size: 32 Copynumber: 3.8 Consensus size: 33
13761696 TTAGTTTGTG
* * *
13761706 CAATAAAAATAAAATGTTAGTATATTAGTAAGAA
1 CAATAAAAATAAAA-GTTAGAATGTTAGTATGAA
13761740 CAATAAAAATAAAAAGTTAGAATGTTAGTATGAA
1 CAATAAAAAT-AAAAGTTAGAATGTTAGTATGAA
* *
13761774 CAAT-AAAATAAAAGTTAGGATGTTAGTTTGAA
1 CAATAAAAATAAAAGTTAGAATGTTAGTATGAA
13761806 CAAT-AAAAT-AAAGATTAGAATGTT
1 CAATAAAAATAAAAG-TTAGAATGTT
13761830 TGTAAGTTAG
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
31 4 0.05
32 39 0.48
33 5 0.06
34 30 0.37
35 4 0.05
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (33 bp):
CAATAAAAATAAAAGTTAGAATGTTAGTATGAA
Found at i:13761807 original size:66 final size:66
Alignment explanation
Indices: 13761706--13761829 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
13761696 TTAGTTTGTG
*
13761706 CAATAAAAATAAAATGTTAGTATATTAGTAAGAACAATAAAAATAAAAAGTTAGAATGTTAGTAT
1 CAATAAAAATAAAATGTTAGGATATTAGTAAGAACAAT-AAAATAAAAA-TTAGAATGTTAGTAT
13761771 GAA
64 GAA
* ** *
13761774 CAAT-AAAATAAAA-GTTAGGATGTTAGTTTGAACAATAAAATAAAGATTAGAATGTT
1 CAATAAAAATAAAATGTTAGGATATTAGTAAGAACAATAAAATAAAAATTAGAATGTT
13761830 TGTAAGTTAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 10 0.20
65 9 0.18
66 19 0.37
67 9 0.18
68 4 0.08
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (66 bp):
CAATAAAAATAAAATGTTAGGATATTAGTAAGAACAATAAAATAAAAATTAGAATGTTAGTATGA
A
Found at i:13765314 original size:21 final size:21
Alignment explanation
Indices: 13765288--13765363 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
13765278 TTGATGCATG
13765288 AGGTATCGATACCTTTATGAA
1 AGGTATCGATACCTTTATGAA
* * * *
13765309 AAGTATCGATACCATAAGGAA
1 AGGTATCGATACCTTTATGAA
* *
13765330 GAGGTATCGATACCTATATGGA
1 -AGGTATCGATACCTTTATGAA
*
13765352 GGGTATCGATAC
1 AGGTATCGATAC
13765364 TCGAGGAACT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
21 28 0.65
22 15 0.35
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (21 bp):
AGGTATCGATACCTTTATGAA
Found at i:13766229 original size:28 final size:28
Alignment explanation
Indices: 13766189--13766269 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
13766179 AGAGTCGAGG
* * *
13766189 GTTCTACGTGGTCCTTCGGGACATATGT
1 GTTCTATGTGGTCCTTCGAGACATATAT
*
13766217 GTTCTATGTGGTCATTCGAGACATATAT
1 GTTCTATGTGGTCCTTCGAGACATATAT
13766245 GTTCTATGTGGTCCTTCGAGACATA
1 GTTCTATGTGGTCCTTCGAGACATA
13766270 GTGGTCCTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (28 bp):
GTTCTATGTGGTCCTTCGAGACATATAT
Found at i:13767175 original size:21 final size:21
Alignment explanation
Indices: 13767146--13767202 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
13767136 CCTTTAAGGG
13767146 AAATGATCGATCCCTTACCAAA
1 AAAT-ATCGATCCCTTACCAAA
*
13767168 AAATATCGATCCATTACCAAA
1 AAATATCGATCCCTTACCAAA
*
13767189 AAATATTGATCCCT
1 AAATATCGATCCCT
13767203 CAACCGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (21 bp):
AAATATCGATCCCTTACCAAA
Found at i:13770137 original size:15 final size:16
Alignment explanation
Indices: 13770087--13770148 Score: 51
Period size: 15 Copynumber: 4.0 Consensus size: 16
13770077 TACTGAAAAG
*
13770087 TAAATGAATAAAAA-A
1 TAAATGCATAAAAATA
*
13770102 T-AATAGGATAAAAATA
1 TAAAT-GCATAAAAATA
*
13770118 TAAATGCATAAAAGTA
1 TAAATGCATAAAAATA
13770134 -AAATGC-TGAAAAATA
1 TAAATGCAT-AAAAATA
13770149 AAGAAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 4 0.10
15 21 0.54
16 11 0.28
17 3 0.08
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (16 bp):
TAAATGCATAAAAATA
Found at i:13773672 original size:18 final size:18
Alignment explanation
Indices: 13773649--13773754 Score: 158
Period size: 18 Copynumber: 5.9 Consensus size: 18
13773639 GAGGTTCTAC
13773649 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
13773667 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
13773685 GTGGTCATTTGGGACATA
1 GTGGTCCTTCGGGACATA
* *
13773703 GTGGTCCTTCTGGACACA
1 GTGGTCCTTCGGGACATA
*
13773721 GTGGTCCTTCGGAACATA
1 GTGGTCCTTCGGGACATA
*
13773739 GTGGTCCTACGGGACA
1 GTGGTCCTTCGGGACA
13773755 AATTCTACGC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 77 1.00
ACGTcount: A:0.19, C:0.22, G:0.32, T:0.27
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:13777653 original size:21 final size:22
Alignment explanation
Indices: 13777608--13777657 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
13777598 AAAAAATATG
13777608 AATATATAAAACATATTAAAAT
1 AATATATAAAACATATTAAAAT
* **
13777630 AATA-ATAAAACATTTTAAGTT
1 AATATATAAAACATATTAAAAT
13777651 AATATAT
1 AATATAT
13777658 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATATAAAACATATTAAAAT
Found at i:13777843 original size:17 final size:19
Alignment explanation
Indices: 13777808--13777844 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13777798 TTAAAATATA
13777808 TATATATTCATATTATTTT
1 TATATATTCATATTATTTT
*
13777827 TATATATTCGTATT-TTTT
1 TATATATTCATATTATTTT
13777845 GTTAATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (19 bp):
TATATATTCATATTATTTT
Found at i:13777861 original size:28 final size:26
Alignment explanation
Indices: 13777829--13777888 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
13777819 ATTATTTTTA
* *
13777829 TATATTCGTATTTTTTGTTAATGTAAAT
1 TATATTCGTAATTTTTATTAAT-T-AAT
* *
13777857 TATATTCTTAATTTTTATTTATTAAT
1 TATATTCGTAATTTTTATTAATTAAT
13777883 TATATT
1 TATATT
13777889 ATTTGTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.32
27 1 0.04
28 18 0.64
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (26 bp):
TATATTCGTAATTTTTATTAATTAAT
Found at i:13780068 original size:25 final size:25
Alignment explanation
Indices: 13780034--13780086 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
13780024 TATCTAATTC
13780034 TTTGGATTAATTAATGTTGATATGG
1 TTTGGATTAATTAATGTTGATATGG
* *
13780059 TTTGGGTTAATTAATGTTGATGTGG
1 TTTGGATTAATTAATGTTGATATGG
13780084 TTT
1 TTT
13780087 TCAAGCCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (25 bp):
TTTGGATTAATTAATGTTGATATGG
Found at i:13787205 original size:13 final size:15
Alignment explanation
Indices: 13787154--13787204 Score: 84
Period size: 15 Copynumber: 3.3 Consensus size: 15
13787144 TTATTATACG
*
13787154 AATATATATATCTTAA
1 AATATAT-TAACTTAA
13787170 AATATATTAACTTAA
1 AATATATTAACTTAA
13787185 AATATATTAACTTAA
1 AATATATTAACTTAA
13787200 AATAT
1 AATAT
13787205 TTTATTGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 27 0.79
16 7 0.21
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATATTAACTTAA
Found at i:13792962 original size:20 final size:20
Alignment explanation
Indices: 13792937--13792977 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13792927 TACTCTAAGT
* *
13792937 AAGAGTATTTATACTTTGTC
1 AAGAGTATCTATACTTGGTC
13792957 AAGAGTATCTATACTTGGTC
1 AAGAGTATCTATACTTGGTC
13792977 A
1 A
13792978 TTTTCCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (20 bp):
AAGAGTATCTATACTTGGTC
Found at i:13793831 original size:32 final size:32
Alignment explanation
Indices: 13793795--13793875 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
13793785 GGGAATATCT
*
13793795 AGAGCCTACCCAAGGGAGAACCTTAGGGCCTA
1 AGAGCCTACCCAAGGAAGAACCTTAGGGCCTA
* * * * * *
13793827 AGAGCATACCTAATGAAGTACCTTGGGGCCTT
1 AGAGCCTACCCAAGGAAGAACCTTAGGGCCTA
* *
13793859 AGAGCCTATCTAAGGAA
1 AGAGCCTACCCAAGGAA
13793876 ATGCCTTGTG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (32 bp):
AGAGCCTACCCAAGGAAGAACCTTAGGGCCTA
Found at i:13793883 original size:32 final size:32
Alignment explanation
Indices: 13793814--13793890 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
13793804 CCAAGGGAGA
* * *
13793814 ACCTTAGGGCCTAAGAGCATACCTAATGAAGT
1 ACCTTGGGGCCTAAGAGCATACCTAAGGAAAT
* * *
13793846 ACCTTGGGGCCTTAGAGCCTATCTAAGGAAAT
1 ACCTTGGGGCCTAAGAGCATACCTAAGGAAAT
* *
13793878 GCCTTGTGGCCTA
1 ACCTTGGGGCCTA
13793891 CCAGCTTGAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (32 bp):
ACCTTGGGGCCTAAGAGCATACCTAAGGAAAT
Found at i:13794089 original size:97 final size:97
Alignment explanation
Indices: 13793923--13794119 Score: 394
Period size: 97 Copynumber: 2.0 Consensus size: 97
13793913 TCCATACTCC
13793923 ATAATCCTACCCAGACAGTATCCCAATAACTAGTTCATACAGTAAATAATAGATTCCATGATCCA
1 ATAATCCTACCCAGACAGTATCCCAATAACTAGTTCATACAGTAAATAATAGATTCCATGATCCA
13793988 TAAATTATGAACGATTATATTTTCTAATGAAA
66 TAAATTATGAACGATTATATTTTCTAATGAAA
13794020 ATAATCCTACCCAGACAGTATCCCAATAACTAGTTCATACAGTAAATAATAGATTCCATGATCCA
1 ATAATCCTACCCAGACAGTATCCCAATAACTAGTTCATACAGTAAATAATAGATTCCATGATCCA
13794085 TAAATTATGAACGATTATATTTTCTAATGAAA
66 TAAATTATGAACGATTATATTTTCTAATGAAA
13794117 ATA
1 ATA
13794120 GGTAACTAGA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 100 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (97 bp):
ATAATCCTACCCAGACAGTATCCCAATAACTAGTTCATACAGTAAATAATAGATTCCATGATCCA
TAAATTATGAACGATTATATTTTCTAATGAAA
Found at i:13795024 original size:22 final size:22
Alignment explanation
Indices: 13794999--13795048 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
13794989 GATATATATT
13794999 TATTCATTCCAGAGTTTAAAGG
1 TATTCATTCCAGAGTTTAAAGG
13795021 TATTCATTCCAGAGTTTAAAGG
1 TATTCATTCCAGAGTTTAAAGG
13795043 TATTCA
1 TATTCA
13795049 ATCATTCTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (22 bp):
TATTCATTCCAGAGTTTAAAGG
Found at i:13795029 original size:26 final size:25
Alignment explanation
Indices: 13794998--13795055 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
13794988 TGATATATAT
13794998 TTATTCATTCCAGAGTTTAAAGG--
1 TTATTCATTCCAGAGTTTAAAGGTA
13795021 -TATTCATTCCAGAGTTTAAAGGTA
1 TTATTCATTCCAGAGTTTAAAGGTA
*
13795045 TTCAATCATTC
1 TT-ATTCATTC
13795056 TAGGGTTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 22 0.73
25 1 0.03
26 7 0.23
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (25 bp):
TTATTCATTCCAGAGTTTAAAGGTA
Found at i:13795109 original size:27 final size:28
Alignment explanation
Indices: 13795068--13795128 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
13795058 GGGTTTGGGA
*
13795068 GTATTTTAGGTTATTTCACACTTTAGGG
1 GTATTTTAGGTTATTTCACACTTTAAGG
* * *
13795096 GTATTTT-GGTTATTTTATAGTTTAAGG
1 GTATTTTAGGTTATTTCACACTTTAAGG
13795123 GTATTT
1 GTATTT
13795129 CAGTCATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.52
Consensus pattern (28 bp):
GTATTTTAGGTTATTTCACACTTTAAGG
Found at i:13796605 original size:28 final size:28
Alignment explanation
Indices: 13796570--13796661 Score: 175
Period size: 28 Copynumber: 3.3 Consensus size: 28
13796560 TGGGTGGTTC
13796570 GGGTTGGTGAAGGATATGGGTGGAATTT
1 GGGTTGGTGAAGGATATGGGTGGAATTT
13796598 GGGTTGGTGAAGGATATGGGTGGAATTT
1 GGGTTGGTGAAGGATATGGGTGGAATTT
*
13796626 GGGTTGGTGAAGGATATAGGTGGAATTT
1 GGGTTGGTGAAGGATATGGGTGGAATTT
13796654 GGGTTGGT
1 GGGTTGGT
13796662 TCACGAACAC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.33
Consensus pattern (28 bp):
GGGTTGGTGAAGGATATGGGTGGAATTT
Found at i:13801962 original size:13 final size:13
Alignment explanation
Indices: 13801944--13801973 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
13801934 TATTTTCTTG
13801944 ATATGATCACTTT
1 ATATGATCACTTT
13801957 ATATGATCACTTT
1 ATATGATCACTTT
13801970 ATAT
1 ATAT
13801974 CCACTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (13 bp):
ATATGATCACTTT
Found at i:13802826 original size:30 final size:30
Alignment explanation
Indices: 13802790--13803077 Score: 303
Period size: 30 Copynumber: 9.6 Consensus size: 30
13802780 GAAAGTGGTG
* * * * *
13802790 GTGTAGAAATGGATACTGCTAAAATGCGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
*
13802820 GTGTAGAAAGGGACAATGATGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
*
13802850 GTGTAGAAAGGGACAATGATGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
* *
13802880 GTGTTGAAAGGGACAATGCTGAAA-GTGGTG
1 GTGTAGAAAGGGACAATGCTGAAATG-GGTA
* * * * * *
13802910 GTGTGGAAATGGATAGTGCTGAAA-GTGCTG
1 GTGTAGAAAGGGACAATGCTGAAATG-GGTA
* * *
13802940 GTGTAGAAATGGATAATACTGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
13802970 GTGTAGAAAGGGACAATGCTGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
* * *
13803000 GTGTTGAAAGGGACAATGCTGAAA-GTGTTG
1 GTGTAGAAAGGGACAATGCTGAAATG-GGTA
* *
13803030 GTGTAGAAATGGATAATGCTGAAATGGGTA
1 GTGTAGAAAGGGACAATGCTGAAATGGGTA
* *
13803060 GTGTTGAAAGGGATAATG
1 GTGTAGAAAGGGACAATG
13803078 AGAAAGACAA
Statistics
Matches: 222, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.01
30 218 0.98
31 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.24
Consensus pattern (30 bp):
GTGTAGAAAGGGACAATGCTGAAATGGGTA
Found at i:13802858 original size:60 final size:60
Alignment explanation
Indices: 13802778--13803083 Score: 334
Period size: 60 Copynumber: 5.1 Consensus size: 60
13802768 AGTGGTTGTT
* * * * *
13802778 ATGAAAGTGGTGGTGTAGAAATGGATACTGCTAAAATGCGTAGTGTAGAAAGGGACAATG
1 ATGAAAGTGGTAGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTTGAAAGGGACAATG
* * *
13802838 ATGAAA-TGGGTAGTGTAGAAAGGGACAATGATGAAATGGGTAGTGTTGAAAGGGACAATG
1 ATGAAAGT-GGTAGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTTGAAAGGGACAATG
* * * * * * * * *
13802898 CTGAAAGTGGTGGTGTGGAAATGGATAGTGCTGAAA-GTGCTGGTGTAGAAATGGATAAT-
1 ATGAAAGTGGTAGTGTAGAAATGGATAATGCTGAAATG-GGTAGTGTTGAAAGGGACAATG
* *
13802957 ACTGAAA-TGGGTAGTGTAGAAAGGGACAATGCTGAAATGGGTAGTGTTGAAAGGGACAATG
1 A-TGAAAGT-GGTAGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTTGAAAGGGACAATG
* * * *
13803018 CTGAAAGTGTTGGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTTGAAAGGGATAATG
1 ATGAAAGTGGTAGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTTGAAAGGGACAATG
13803078 A-GAAAG
1 ATGAAAG
13803084 ACAAGTCTAG
Statistics
Matches: 200, Mismatches: 38, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
59 8 0.04
60 189 0.94
61 3 0.01
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.24
Consensus pattern (60 bp):
ATGAAAGTGGTAGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTTGAAAGGGACAATG
Found at i:13802902 original size:15 final size:15
Alignment explanation
Indices: 13802825--13802904 Score: 58
Period size: 15 Copynumber: 5.3 Consensus size: 15
13802815 GCGTAGTGTA
13802825 GAAAGGGACAATGAT
1 GAAAGGGACAATGAT
* *
13802840 GAAATGGG-TAGTG-T
1 GAAA-GGGACAATGAT
13802854 AGAAAGGGACAATGAT
1 -GAAAGGGACAATGAT
* * *
13802870 GAAATGGG-TAGTGTT
1 GAAA-GGGACAATGAT
*
13802885 GAAAGGGACAATGCT
1 GAAAGGGACAATGAT
13802900 GAAAG
1 GAAAG
13802905 TGGTGGTGTG
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
14 7 0.14
15 35 0.71
16 7 0.14
ACGTcount: A:0.40, C:0.05, G:0.36, T:0.19
Consensus pattern (15 bp):
GAAAGGGACAATGAT
Found at i:13802968 original size:120 final size:121
Alignment explanation
Indices: 13802779--13803082 Score: 456
Period size: 120 Copynumber: 2.5 Consensus size: 121
13802769 GTGGTTGTTA
*
13802779 TGAAAGTGGTGGTGTAGAAATGGATACTGCT-AAAATGCGTAGTGTAGAAAGGGACAATGATGAA
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAATGCGTAGTGTAGAAAGGGACAATGATGAA
13802843 ATGGGTAGTGTAGAAAGGGACAATGATGAAATGGGTAGTGTTGAAAGGGACAATGC
66 ATGGGTAGTGTAGAAAGGGACAATGATGAAATGGGTAGTGTTGAAAGGGACAATGC
* * * * * *
13802899 TGAAAGTGGTGGTGTGGAAATGGATAGTGCTGAAAGTGC-TGGTGTAGAAATGGATAAT-ACTGA
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAATGCGTAGTGTAGAAAGGGACAATGA-TGA
*
13802962 AATGGGTAGTGTAGAAAGGGACAATGCTGAAATGGGTAGTGTTGAAAGGGACAATGC
65 AATGGGTAGTGTAGAAAGGGACAATGATGAAATGGGTAGTGTTGAAAGGGACAATGC
* * * *
13803019 TGAAAGTGTTGGTGTAGAAATGGATAATGCTG-AAATGGGTAGTGTTGAAAGGGATAATGA-GAA
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAATGCGTAGTGTAGAAAGGGACAATGATGAA
13803082 A
66 A
13803083 GACAAGTCTA
Statistics
Matches: 165, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
119 9 0.05
120 149 0.90
121 7 0.04
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.24
Consensus pattern (121 bp):
TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAATGCGTAGTGTAGAAAGGGACAATGATGAA
ATGGGTAGTGTAGAAAGGGACAATGATGAAATGGGTAGTGTTGAAAGGGACAATGC
Found at i:13802992 original size:90 final size:90
Alignment explanation
Indices: 13802806--13803077 Score: 343
Period size: 90 Copynumber: 3.0 Consensus size: 90
13802796 AAATGGATAC
* * * * * * * *
13802806 TGCTAAAATGCGTAGTGTAGAAAGGGACAATGATGAAA-TGGGTAGTGTAGAAAGGGACAATGA-
1 TGCTGAAATGGGTAGTGTGGAAAGGGACAATGCTGAAAGT-GCTGGTGTAGAAATGGATAAT-AC
13802869 TGAAATGGGTAGTGTTGAAAGGGACAA
64 TGAAATGGGTAGTGTTGAAAGGGACAA
* * * *
13802896 TGCTGAAA-GTGGTGGTGTGGAAATGGATAGTGCTGAAAGTGCTGGTGTAGAAATGGATAATACT
1 TGCTGAAATG-GGTAGTGTGGAAAGGGACAATGCTGAAAGTGCTGGTGTAGAAATGGATAATACT
*
13802960 GAAATGGGTAGTGTAGAAAGGGACAA
65 GAAATGGGTAGTGTTGAAAGGGACAA
* * *
13802986 TGCTGAAATGGGTAGTGTTGAAAGGGACAATGCTGAAAGTGTTGGTGTAGAAATGGATAATGCTG
1 TGCTGAAATGGGTAGTGTGGAAAGGGACAATGCTGAAAGTGCTGGTGTAGAAATGGATAATACTG
*
13803051 AAATGGGTAGTGTTGAAAGGGATAA
66 AAATGGGTAGTGTTGAAAGGGACAA
13803076 TG
1 TG
13803078 AGAAAGACAA
Statistics
Matches: 156, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
89 2 0.01
90 152 0.97
91 2 0.01
ACGTcount: A:0.35, C:0.05, G:0.36, T:0.24
Consensus pattern (90 bp):
TGCTGAAATGGGTAGTGTGGAAAGGGACAATGCTGAAAGTGCTGGTGTAGAAATGGATAATACTG
AAATGGGTAGTGTTGAAAGGGACAA
Found at i:13803053 original size:15 final size:15
Alignment explanation
Indices: 13802945--13803077 Score: 65
Period size: 15 Copynumber: 8.9 Consensus size: 15
13802935 TGCTGGTGTA
*
13802945 GAAATGGATAATACT
1 GAAATGGATAATGCT
* *
13802960 GAAATGGGTAGTG-T
1 GAAATGGATAATGCT
* *
13802974 AGAAAGGGACAATGCT
1 -GAAATGGATAATGCT
* * *
13802990 GAAATGGGTAGTGTT
1 GAAATGGATAATGCT
* *
13803005 GAAAGGGACAATGCT
1 GAAATGGATAATGCT
* **
13803020 GAAA-GTGTTGGTG-T
1 GAAATG-GATAATGCT
13803034 AGAAATGGATAATGCT
1 -GAAATGGATAATGCT
* * *
13803050 GAAATGGGTAGTGTT
1 GAAATGGATAATGCT
*
13803065 GAAAGGGATAATG
1 GAAATGGATAATG
13803078 AGAAAGACAA
Statistics
Matches: 82, Mismatches: 30, Indels: 12
0.66 0.24 0.10
Matches are distributed among these distances:
14 3 0.04
15 76 0.93
16 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.35, T:0.25
Consensus pattern (15 bp):
GAAATGGATAATGCT
Found at i:13805881 original size:22 final size:22
Alignment explanation
Indices: 13805853--13805895 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13805843 TAGTGTTGAT
13805853 GGAACTTGACTTACTTTATCAA
1 GGAACTTGACTTACTTTATCAA
13805875 GGAACTTGACTTACTTTATCA
1 GGAACTTGACTTACTTTATCA
13805896 TATACCTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (22 bp):
GGAACTTGACTTACTTTATCAA
Found at i:13806276 original size:15 final size:15
Alignment explanation
Indices: 13806256--13806286 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13806246 AAACACATAC
13806256 AAACTTCCATTACAA
1 AAACTTCCATTACAA
13806271 AAACTTCCATTACAA
1 AAACTTCCATTACAA
13806286 A
1 A
13806287 TCTTTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
AAACTTCCATTACAA
Found at i:13807081 original size:18 final size:19
Alignment explanation
Indices: 13807060--13807101 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
13807050 TATTTTTATC
13807060 TTTAATTATAATAT-AATA
1 TTTAATTATAATATGAATA
*
13807078 TTT-ATTATAATTTGAATA
1 TTTAATTATAATATGAATA
13807096 -TTAATT
1 TTTAATT
13807102 TTTTTAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTAATTATAATATGAATA
Found at i:13807088 original size:23 final size:25
Alignment explanation
Indices: 13807041--13807089 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
13807031 AACTACAATA
* *
13807041 TATAATATATATTTTTATCTTTAAT
1 TATAATATATATATTTATCTATAAT
13807066 TATAATATA-ATATTTAT-TATAAT
1 TATAATATATATATTTATCTATAAT
13807089 T
1 T
13807090 TGAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 7 0.32
25 9 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TATAATATATATATTTATCTATAAT
Found at i:13807931 original size:39 final size:39
Alignment explanation
Indices: 13807877--13807970 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 39
13807867 ATTTTAAAAT
*
13807877 ATAATTTAGATTGTTAAT-GT-GAAATAATTTAAGAAATTA
1 ATAATTTAGAATGTT-ATGGTGGAAA-AATTTAAGAAATTA
* *
13807916 ATAATTTATAATGTTATGGTGGTAAAATTTAAGAAATTA
1 ATAATTTAGAATGTTATGGTGGAAAAATTTAAGAAATTA
*
13807955 GA-CATTTAGAATGTTA
1 -ATAATTTAGAATGTTA
13807971 GAGTAAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
38 2 0.04
39 41 0.87
40 4 0.09
ACGTcount: A:0.44, C:0.01, G:0.15, T:0.40
Consensus pattern (39 bp):
ATAATTTAGAATGTTATGGTGGAAAAATTTAAGAAATTA
Found at i:13808034 original size:2 final size:2
Alignment explanation
Indices: 13808021--13808052 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13808011 AAATAAAAAT
*
13808021 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13808053 ATAAATCGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13811130 original size:10 final size:10
Alignment explanation
Indices: 13811115--13811142 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
13811105 AAAAAGCAAG
13811115 GAGAGGGATA
1 GAGAGGGATA
13811125 GAGAGGGATA
1 GAGAGGGATA
13811135 GAGAGGGA
1 GAGAGGGA
13811143 GGGAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.54, T:0.07
Consensus pattern (10 bp):
GAGAGGGATA
Found at i:13814052 original size:2 final size:2
Alignment explanation
Indices: 13814047--13814085 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
13814037 TCTCTCTCTC
*
13814047 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13814086 TCCTTTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13819462 original size:6 final size:6
Alignment explanation
Indices: 13819453--13819564 Score: 197
Period size: 6 Copynumber: 18.7 Consensus size: 6
13819443 ATAATTAGTG
* *
13819453 ATGATA ATGATA ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA
1 ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA
*
13819501 ATGAAA ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA
1 ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA ATGACA
13819549 ATGACA ATGACA ATGA
1 ATGACA ATGACA ATGA
13819565 TAATAATAAT
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 103 1.00
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (6 bp):
ATGACA
Found at i:13820118 original size:131 final size:130
Alignment explanation
Indices: 13819783--13820122 Score: 414
Period size: 131 Copynumber: 2.6 Consensus size: 130
13819773 GACACAGCTA
* *
13819783 CTACGTGATGAGGAGATATGGTCGGTGGATGACAAGGTTCCTACGCGATGAGGATGGCTGGCCAT
1 CTACGTGATGAGGAGGTATGGTCGGTGGATGACAAGGTTCCTACGTGATGAGGAT-GCTGGCCAT
* * *
13819848 CTTTAGGGAGGGTGATAACACGGTTCCTATGCGATGAGGATGGCTGGTTATCTAGGGGTGACACG
65 CTTTAGGGA---TGATAACACGATTCCTAAGCGATGAGGATGACTGGTTATCTAGGGGTGACACG
*
13819913 GCTC
127 ACTC
* * * * * **
13819917 TTACGTGATGAGGAGGTCTGGTTGGTGGATGACATA-GTTCCTATGTGATGAGGATGGTAAACCA
1 CTACGTGATGAGGAGGTATGGTCGGTGGATGACA-AGGTTCCTACGTGATGAGGATGCT-GGCCA
* *
13819981 TCTTTAGGGATGATAACACGATTCCTAAGTGATGAGGATGACTGGTTATCT-GAGGTTGACACGA
64 TCTTTAGGGATGATAACACGATTCCTAAGCGATGAGGATGACTGGTTATCTAG-GGGTGACACGA
13820045 CTC
128 CTC
* * * *
13820048 CTACGTGATGAGGAGGTATGGTCGGGGGATGACACGGTTCCTACGTGATGAGGACGACTGGCCAA
1 CTACGTGATGAGGAGGTATGGTCGGTGGATGACAAGGTTCCTACGTGATGAGGATG-CTGGCCAT
*
13820113 ATTTAGGGAT
65 CTTTAGGGAT
13820123 AATGGTTTCA
Statistics
Matches: 174, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
130 1 0.01
131 109 0.63
132 1 0.01
133 2 0.01
134 60 0.34
135 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (130 bp):
CTACGTGATGAGGAGGTATGGTCGGTGGATGACAAGGTTCCTACGTGATGAGGATGCTGGCCATC
TTTAGGGATGATAACACGATTCCTAAGCGATGAGGATGACTGGTTATCTAGGGGTGACACGACTC
Found at i:13820258 original size:66 final size:66
Alignment explanation
Indices: 13820127--13820318 Score: 271
Period size: 66 Copynumber: 2.9 Consensus size: 66
13820117 AGGGATAATG
* * * * * *
13820127 GTTTCAAGGGAAACCGTCTCGAGAGAGAC--AATTTGTTTCAAGGGAAACAAACTCAAAGATTGG
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGGG
13820190 T
66 T
* * *
13820191 GTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAAGGATCTCAAAGATGGG
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGGG
13820256 T
66 T
* *
13820257 GTTTCAAGAGAAACTGTCTCAAAAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGAT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGAT
13820319 TTTTAATTTT
Statistics
Matches: 112, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
64 26 0.23
66 86 0.77
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (66 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGGG
T
Found at i:13820354 original size:21 final size:22
Alignment explanation
Indices: 13820323--13820363 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13820313 AAAGATTTTT
13820323 AATTTTGTTTCAAGAGAGACTA
1 AATTTTGTTTCAAGAGAGACTA
*
13820345 AATTTT-TTTCAAGGGAGAC
1 AATTTTGTTTCAAGAGAGAC
13820364 ATACTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (22 bp):
AATTTTGTTTCAAGAGAGACTA
Found at i:13820405 original size:45 final size:44
Alignment explanation
Indices: 13820353--13820453 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 44
13820343 TAAATTTTTT
*
13820353 TCAAGGGAGACATACTCAAAGATTGGTATTTCAAGAG-AATCTGTC
1 TCAAGGGAGACAGACTCAAAGATTGGTATTTCAAGAGAAAT-TG-C
* * *
13820398 TCAAGGGAAATAGACTCAAAGATTGGTGTTTCAAGAGAAATTGC
1 TCAAGGGAGACAGACTCAAAGATTGGTATTTCAAGAGAAATTGC
13820442 TCAAGGGAGACA
1 TCAAGGGAGACA
13820454 AAACTTGTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
44 11 0.22
45 35 0.71
46 3 0.06
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (44 bp):
TCAAGGGAGACAGACTCAAAGATTGGTATTTCAAGAGAAATTGC
Found at i:13820682 original size:72 final size:71
Alignment explanation
Indices: 13820589--13820787 Score: 220
Period size: 72 Copynumber: 2.7 Consensus size: 71
13820579 ACGTAATTTG
* * *
13820589 TTTTGAGAGAAATTGTCTCTAGTGAGACAAAAGTTGTTTTTAGAGGAAACAATCTTAAGTGAGAT
1 TTTTAAGAAAAATTGTCTCTAGTGAGACAAAATTTGTTTTTAGA--AAACAATCTTAAGTGAGAT
**
13820654 -AATTTTT
64 AAATTTAC
* * ****
13820661 TTTTAAGAAAAATTGTATCTAGCGAGACAAAATTTGTTTTTAGAAAGTTGTCTTAAGTGAGATAA
1 TTTTAAGAAAAATTGTCTCTAGTGAGACAAAATTTGTTTTTAGAAAACAATCTTAAGTGAGAT-A
13820726 AATTTAC
65 AATTTAC
* **
13820733 TTTTAAGAAAAACTGTCTCTTAGTGAGACAAAATTTGTTTCGAGACAAACAATCT
1 TTTTAAGAAAAATTGTCTC-TAGTGAGACAAAATTTGTTTTTAGA-AAACAATCT
13820788 CCTAGGTGAT
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
70 15 0.15
72 61 0.59
73 22 0.21
74 5 0.05
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (71 bp):
TTTTAAGAAAAATTGTCTCTAGTGAGACAAAATTTGTTTTTAGAAAACAATCTTAAGTGAGATAA
ATTTAC
Found at i:13826006 original size:18 final size:18
Alignment explanation
Indices: 13825979--13826065 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
13825969 ATTGAATATT
13825979 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
13825997 TGTCCTGAAGGA-CACTA
1 TGTCCCGAAGGACCACTA
*
13826014 -GTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
13826031 TGTTCCGAAGGACTACTA
1 TGTCCCGAAGGACCACTA
*
13826049 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
13826066 GATAATCCCT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
16 9 0.16
17 10 0.17
18 39 0.67
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:13826024 original size:34 final size:36
Alignment explanation
Indices: 13825979--13826065 Score: 126
Period size: 34 Copynumber: 2.5 Consensus size: 36
13825969 ATTGAATATT
13825979 TGTCCCGAAGGACCACTATG-TCCTGAAGGAC-ACTA
1 TGTCCCGAAGGACCACTATGTTCC-GAAGGACTACTA
*
13826014 -GTCCCAAAGGACCACTATGTTCCGAAGGACTACTA
1 TGTCCCGAAGGACCACTATGTTCCGAAGGACTACTA
*
13826049 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
13826066 GATAATCCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
34 25 0.54
35 7 0.15
36 14 0.30
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (36 bp):
TGTCCCGAAGGACCACTATGTTCCGAAGGACTACTA
Found at i:13826331 original size:2 final size:2
Alignment explanation
Indices: 13826324--13826361 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13826314 TATAACAGTA
13826324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13826362 GCATGTACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13826794 original size:16 final size:19
Alignment explanation
Indices: 13826754--13826800 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 19
13826744 AATAAAAGAT
13826754 GGTATCGATACCTTCCTTAA
1 GGTATCGATACC-TCCTTAA
13826774 GGTATCGATACC-CC-T-A
1 GGTATCGATACCTCCTTAA
13826790 GGTATCGATAC
1 GGTATCGATAC
13826801 TGTTCTGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 12 0.44
17 1 0.04
18 2 0.07
20 12 0.44
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (19 bp):
GGTATCGATACCTCCTTAA
Found at i:13827711 original size:23 final size:23
Alignment explanation
Indices: 13827680--13827729 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
13827670 GCTGTACAGA
*
13827680 CTCAGCAGCTATCATAGGACAAT
1 CTCACCAGCTATCATAGGACAAT
* *
13827703 CTCACCAGCTATCATGGGATAAT
1 CTCACCAGCTATCATAGGACAAT
13827726 CTCA
1 CTCA
13827730 AACAAAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (23 bp):
CTCACCAGCTATCATAGGACAAT
Found at i:13829559 original size:18 final size:18
Alignment explanation
Indices: 13829533--13829567 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13829523 ACTGAATATT
*
13829533 TGTCTCGAAAGACCACTA
1 TGTCCCGAAAGACCACTA
*
13829551 TGTCCCGAAGGACCACT
1 TGTCCCGAAAGACCACT
13829568 GATAATCCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:13836082 original size:18 final size:18
Alignment explanation
Indices: 13836059--13836111 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
13836049 ACTGAATATT
*
13836059 TGTCCCGAAGGACCGCTA
1 TGTCCCGAAGGACCACTA
13836077 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
13836095 TGTCTCGAATGACCACT
1 TGTCCCGAAGGACCACT
13836112 GATAATCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:13836377 original size:2 final size:2
Alignment explanation
Indices: 13836370--13836415 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
13836360 TATAACAATA
13836370 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13836412 AT AT
1 AT AT
13836416 GCATGTACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13836850 original size:36 final size:37
Alignment explanation
Indices: 13836810--13836881 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
13836800 GTTCAAAGAT
*
13836810 GGTATCGATACCT-TCCTT-AAGGTATCGGTACCCCTG
1 GGTATCGATA-CTGTCCTTCAAGGTATCAGTACCCCTG
*
13836846 GGTATCGATACTGTTCTTCAAGGTATCAGTACCCCT
1 GGTATCGATACTGTCCTTCAAGGTATCAGTACCCCT
13836882 CGAATTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 2 0.06
36 14 0.44
37 16 0.50
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (37 bp):
GGTATCGATACTGTCCTTCAAGGTATCAGTACCCCTG
Found at i:13838835 original size:5 final size:5
Alignment explanation
Indices: 13838825--13838864 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
13838815 ACATTTTTAC
* *
13838825 AAAAT AAAAT AAACT AAAAT AAAAC AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
13838865 ATAGGTGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:13840504 original size:3 final size:3
Alignment explanation
Indices: 13840496--13840599 Score: 163
Period size: 3 Copynumber: 34.7 Consensus size: 3
13840486 GCAAAAAATG
13840496 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
13840544 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA TGA TGA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13840592 TAA TAA TA
1 TAA TAA TA
13840600 TTATTTTCTA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13841348 original size:10 final size:10
Alignment explanation
Indices: 13841324--13841378 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
13841314 AACGAACACA
*
13841324 ATAAACGAAC
1 ATAAACAAAC
*
13841334 GTAAACAAAC
1 ATAAACAAAC
*
13841344 ATAAATAAAC
1 ATAAACAAAC
13841354 A-AAACAAAC
1 ATAAACAAAC
**
13841363 ATAAATGAAC
1 ATAAACAAAC
13841373 ATAAAC
1 ATAAAC
13841379 CACAACTACA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
9 8 0.22
10 28 0.78
ACGTcount: A:0.65, C:0.16, G:0.05, T:0.13
Consensus pattern (10 bp):
ATAAACAAAC
Found at i:13841358 original size:19 final size:20
Alignment explanation
Indices: 13841335--13841378 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
13841325 TAAACGAACG
13841335 TAAACAAACATAAATAAACA
1 TAAACAAACATAAATAAACA
*
13841355 -AAACAAACATAAATGAACA
1 TAAACAAACATAAATAAACA
13841374 TAAAC
1 TAAAC
13841379 CACAACTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.68, C:0.16, G:0.02, T:0.14
Consensus pattern (20 bp):
TAAACAAACATAAATAAACA
Found at i:13841595 original size:14 final size:13
Alignment explanation
Indices: 13841576--13841636 Score: 62
Period size: 10 Copynumber: 5.0 Consensus size: 13
13841566 TTAAATGAAC
13841576 ATAAACGAACGAAA
1 ATAAACGAAC-AAA
13841590 ATAAACGAAC---
1 ATAAACGAACAAA
13841600 ATAAACGAACAAA
1 ATAAACGAACAAA
13841613 TATAAACGAAC---
1 -ATAAACGAACAAA
13841624 ATAAACGAACAAA
1 ATAAACGAACAAA
13841637 CATATTATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
10 20 0.50
14 20 0.50
ACGTcount: A:0.64, C:0.16, G:0.10, T:0.10
Consensus pattern (13 bp):
ATAAACGAACAAA
Found at i:13841599 original size:24 final size:24
Alignment explanation
Indices: 13841567--13841636 Score: 115
Period size: 24 Copynumber: 2.9 Consensus size: 24
13841557 GAGCTAAACT
*
13841567 TAAATGAACATAAACGAACGAAA-A
1 TAAACGAACATAAACGAAC-AAATA
13841591 TAAACGAACATAAACGAACAAATA
1 TAAACGAACATAAACGAACAAATA
13841615 TAAACGAACATAAACGAACAAA
1 TAAACGAACATAAACGAACAAA
13841637 CATATTATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 3 0.07
24 41 0.93
ACGTcount: A:0.63, C:0.16, G:0.10, T:0.11
Consensus pattern (24 bp):
TAAACGAACATAAACGAACAAATA
Found at i:13841638 original size:14 final size:14
Alignment explanation
Indices: 13841573--13841640 Score: 55
Period size: 14 Copynumber: 5.4 Consensus size: 14
13841563 AACTTAAATG
13841573 AACATAAACGAACGA
1 AACATAAACGAAC-A
13841588 AA-ATAAACG----
1 AACATAAACGAACA
13841597 AACATAAACGAACA
1 AACATAAACGAACA
*
13841611 AATATAAACG----
1 AACATAAACGAACA
13841621 AACATAAACGAACA
1 AACATAAACGAACA
13841635 AACATA
1 AACATA
13841641 TTATTGAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 19
0.67 0.03 0.30
Matches are distributed among these distances:
9 2 0.05
10 16 0.38
14 22 0.52
15 2 0.05
ACGTcount: A:0.63, C:0.18, G:0.09, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACA
Found at i:13844365 original size:34 final size:30
Alignment explanation
Indices: 13844326--13844394 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 30
13844316 TTGATATAAC
13844326 AATTTAAGGAAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--AAAAAT-GTTTTTGGACTT-AATTG
* *
13844360 AATTT-ACAAAATGTTTTTGGACTTCATTG
1 AATTTAAAAAAATGTTTTTGGACTTAATTG
13844389 AATTTA
1 AATTTA
13844395 TTCAAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 9 0.28
30 12 0.38
31 5 0.16
33 1 0.03
34 5 0.16
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAAAAAAATGTTTTTGGACTTAATTG
Found at i:13844405 original size:29 final size:30
Alignment explanation
Indices: 13844336--13844394 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
13844326 AATTTAAGGA
13844336 AAAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAAAT-GTTTTTGGACTTGAATTGAATTTAC
*
13844367 AAAATGTTTTTGGACTT-CATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
13844395 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.37
30 12 0.44
31 5 0.19
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAC
Found at i:13844503 original size:21 final size:20
Alignment explanation
Indices: 13844474--13844572 Score: 110
Period size: 21 Copynumber: 4.8 Consensus size: 20
13844464 AGGGTGTCAA
*
13844474 AGTGAATCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
13844495 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCA-CCCTGC
13844516 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* * *
13844537 TAGTGCATCGATGCACCATAC
1 -AGTGCATCCATGCACCCTGC
13844558 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
13844573 TCAAACACCG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.06
20 14 0.21
21 35 0.51
22 13 0.19
23 2 0.03
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.21
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:13844636 original size:20 final size:21
Alignment explanation
Indices: 13844593--13844646 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
13844583 AATGCAATTA
13844593 GTGCATCGATGCATCAAGGCT
1 GTGCATCGATGCATCAAGGCT
*
13844614 GTGCATCGATGCATC-ATGCT
1 GTGCATCGATGCATCAAGGCT
*
13844634 GTGCATCCATGCA
1 GTGCATCGATGCA
13844647 CGAAAGCTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (21 bp):
GTGCATCGATGCATCAAGGCT
Found at i:13849182 original size:12 final size:12
Alignment explanation
Indices: 13849167--13849218 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
13849157 AAAAAAAAAC
13849167 AAAAAAAGGCAA
1 AAAAAAAGGCAA
*
13849179 AAAAAAAGG--T
1 AAAAAAAGGCAA
13849189 AAAAAAAGGCACA
1 AAAAAAAGGCA-A
*
13849202 AAAAAAAAGCAA
1 AAAAAAAGGCAA
13849214 AAAAA
1 AAAAA
13849219 GCCAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.77, C:0.08, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAAAAAGGCAA
Found at i:13849183 original size:22 final size:22
Alignment explanation
Indices: 13849155--13849225 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
13849145 TGTTATTTTA
*
13849155 AAAAAAAAAAACAAAAAAAGGC
1 AAAAAAAAAAGCAAAAAAAGGC
* *
13849177 AAAAAAAAAGGTAAAAAAAGGC
1 AAAAAAAAAAGCAAAAAAAGGC
*
13849199 ACAAAAAAAAAGCAAAAAAAGCC
1 A-AAAAAAAAAGCAAAAAAAGGC
13849222 AAAA
1 AAAA
13849226 TTTCAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 23 0.55
23 19 0.45
ACGTcount: A:0.77, C:0.10, G:0.11, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAAGCAAAAAAAGGC
Found at i:13862988 original size:17 final size:17
Alignment explanation
Indices: 13862966--13863018 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
13862956 AATTAAGAGT
13862966 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* *
13862983 TAGTTTGATGAATGAAC
1 TAGTTTAATAAATGAAC
*
13863000 TAGTTTAATTAATGAAC
1 TAGTTTAATAAATGAAC
13863017 TA
1 TA
13863019 ACTTTTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:13869009 original size:13 final size:13
Alignment explanation
Indices: 13868991--13869018 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13868981 ATGAATGTTC
13868991 ATCTTTTAATTAG
1 ATCTTTTAATTAG
13869004 ATCTTTTAATTAG
1 ATCTTTTAATTAG
13869017 AT
1 AT
13869019 GCATGGCACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (13 bp):
ATCTTTTAATTAG
Found at i:13869546 original size:13 final size:13
Alignment explanation
Indices: 13869528--13869553 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13869518 CAGATTGATG
13869528 CGATTCAAAATGC
1 CGATTCAAAATGC
13869541 CGATTCAAAATGC
1 CGATTCAAAATGC
13869554 GTTGGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
CGATTCAAAATGC
Found at i:13873003 original size:44 final size:46
Alignment explanation
Indices: 13872953--13873041 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 46
13872943 ATGCCAAGGT
* *
13872953 GGAGAAGGAAAGGTTGGAAAAGAA-AAGGAAGAAGAT-AAGAACAA
1 GGAGAAGGAAAGATTAGAAAAGAAGAAGGAAGAAGATGAAGAACAA
* *
13872997 GGAGAAGGAAAGATTAGAAAAGAAGAGGGGAGAAGATGAAGAACA
1 GGAGAAGGAAAGATTAGAAAAGAAGAAGGAAGAAGATGAAGAACA
13873042 TGGACGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 22 0.56
45 10 0.26
46 7 0.18
ACGTcount: A:0.55, C:0.02, G:0.36, T:0.07
Consensus pattern (46 bp):
GGAGAAGGAAAGATTAGAAAAGAAGAAGGAAGAAGATGAAGAACAA
Found at i:13873004 original size:24 final size:23
Alignment explanation
Indices: 13872972--13873041 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 23
13872962 AAGGTTGGAA
13872972 AAGAA-AAGGAAGAAGATAAGAAC
1 AAGAAGAAGG-AGAAGATAAGAAC
* *
13872995 AAGGAGAAGGA-AAGATTAGAA-
1 AAGAAGAAGGAGAAGATAAGAAC
*
13873016 AAGAAGAGGGGAGAAGATGAAGAAC
1 AAGAAGA-AGGAGAAGAT-AAGAAC
13873041 A
1 A
13873042 TGGACGAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
21 6 0.16
22 12 0.32
23 10 0.27
24 8 0.22
25 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.33, T:0.06
Consensus pattern (23 bp):
AAGAAGAAGGAGAAGATAAGAAC
Found at i:13873054 original size:49 final size:44
Alignment explanation
Indices: 13872954--13873072 Score: 123
Period size: 44 Copynumber: 2.6 Consensus size: 44
13872944 TGCCAAGGTG
* * *
13872954 GAGAAGGAAAGGTTGGAAAAGAAAAGGAAGAAGATAAGAACAAG
1 GAGAAGGAAAGATTAGAAAAGAAAAGGAAGAAGATAAGAACAAC
* *
13872998 GAGAAGGAAAGATTAGAAAAGAAGAGGGGAGAAGATGAAGAACATGGAC
1 GAGAAGGAAAGATTAGAAAAGAA-AAGGAAGAAGAT-AAGAACA---AC
*
13873047 GAGAAGGAAA-ATTTGAAAAAGAAAAG
1 GAGAAGGAAAGATTAG-AAAAGAAAAG
13873073 ATGAGCTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
44 21 0.34
45 10 0.16
46 7 0.11
48 6 0.10
49 18 0.29
ACGTcount: A:0.55, C:0.03, G:0.34, T:0.08
Consensus pattern (44 bp):
GAGAAGGAAAGATTAGAAAAGAAAAGGAAGAAGATAAGAACAAC
Found at i:13875503 original size:90 final size:90
Alignment explanation
Indices: 13875364--13875660 Score: 434
Period size: 90 Copynumber: 3.3 Consensus size: 90
13875354 TCATGTTTAT
* * * *
13875364 AATGCA-CCATTATGCATTATTAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATT
1 AATGCACCCA-TATGCATT-TCAACTATAGTATACTTTTCTATTGATAATGTACCCATATGCATT
* * *
13875428 TCAACTATAGCATACCTTTCTGCTAAC
64 TCAACTATAGCATACATTTCTGTTGAC
*
13875455 AATGCACCCATATGCATTTCAACTATAGTATACTTTTCTATTGGTAATGTACCCATATGCATTTC
1 AATGCACCCATATGCATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATGCATTTC
* *
13875520 AAGTATAGCATACATTTATGTTGAC
66 AACTATAGCATACATTTCTGTTGAC
*
13875545 AATGCACCCATATGCATTTCAACTATAGTATACTTTTCTTTTGATAATGTACCCATATGCATTTC
1 AATGCACCCATATGCATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATGCATTTC
* ** *
13875610 AACTACAATATACTTTTCTGTTGAC
66 AACTATAGCATACATTTCTGTTGAC
13875635 AATGCACCCATATGCATTTCAACTAT
1 AATGCACCCATATGCATTTCAACTAT
13875661 GGGATCCTTT
Statistics
Matches: 187, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
90 170 0.91
91 14 0.07
92 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (90 bp):
AATGCACCCATATGCATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATGCATTTC
AACTATAGCATACATTTCTGTTGAC
Found at i:13875693 original size:45 final size:45
Alignment explanation
Indices: 13875357--13875660 Score: 394
Period size: 45 Copynumber: 6.7 Consensus size: 45
13875347 CCTCCATTCA
* * *
13875357 TGTTTATAATGCA-CCATTATGCATTATTAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCA-TATGCATT-TCAACTATAGTATACTTTTC
* *
13875403 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
* * *
13875448 TGCTAACAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
* * * * * * *
13875493 TATTGGTAATGTACCCATATGCATTTCAAGTATAGCATACATTTA
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
*
13875538 TGTTGACAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
* * * *
13875583 TTTTGATAATGTACCCATATGCATTTCAACTACAATATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
*
13875628 TGTTGACAATGCACCCATATGCATTTCAACTAT
1 TGTTGATAATGCACCCATATGCATTTCAACTAT
13875661 GGGATCCTTT
Statistics
Matches: 222, Mismatches: 35, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
45 199 0.90
46 20 0.09
47 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
Found at i:13880862 original size:23 final size:23
Alignment explanation
Indices: 13880836--13880900 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
13880826 CCTCAAGGAG
*
13880836 GGAATCGGTTCCCATTCAAAGAA
1 GGAATCGGTTCCCCTTCAAAGAA
*
13880859 GGAATCGGTTCCCCTTCAAAGGA
1 GGAATCGGTTCCCCTTCAAAGAA
13880882 GGAATCGGTTCCCCTTCAA
1 GGAATCGGTTCCCCTTCAA
13880901 GGGGGTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (23 bp):
GGAATCGGTTCCCCTTCAAAGAA
Found at i:13891299 original size:45 final size:45
Alignment explanation
Indices: 13891207--13891591 Score: 427
Period size: 45 Copynumber: 8.6 Consensus size: 45
13891197 CCTCCATTCA
* *
13891207 TGTTTATAATGCA-CCATTATGCATTATTAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCA-TATGCATT-TCAACTATAGCATACTTTTC
* * * *
13891253 TGCTGATAATGCACCCGTATGCATTTCAACTATAACATACCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* *
13891298 TGATT-ACAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
1 TG-TTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * * *
13891343 TGTTGATAATGTACACATATGCATTTCAACTATATCATACCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * * *
13891388 TGTTGACAATGCATCCATATGCATTTAAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
** * * *
13891433 TGTTGATAATTTATCCATATGCATTTCAACTATAGTATATTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * *
13891478 TGTTGATAATGCACCCATATGCATTTCGACTATAGTATAATTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * *
13891523 TGTTGACAATGCACCCATATGCATTT-AACTATGGCAT-CCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*** *
13891566 ATGCCAATAATACACCCATATGCATT
1 -TGTTGATAATGCACCCATATGCATT
13891592 ATTATTTTCA
Statistics
Matches: 288, Mismatches: 47, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
43 4 0.01
44 30 0.10
45 232 0.81
46 20 0.07
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
Found at i:13922172 original size:13 final size:13
Alignment explanation
Indices: 13922154--13922188 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
13922144 AGTACACCAA
13922154 AATATCATCAATG
1 AATATCATCAATG
13922167 AATATCATCAATG
1 AATATCATCAATG
*
13922180 AATACCATC
1 AATATCATC
13922189 GTAAACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.29
Consensus pattern (13 bp):
AATATCATCAATG
Found at i:13927974 original size:45 final size:45
Alignment explanation
Indices: 13927877--13927979 Score: 120
Period size: 45 Copynumber: 2.2 Consensus size: 45
13927867 AGAAATGCAT
* * *
13927877 AAATATTAAAAT-AATAAACTAAACAAACAAACAAAAACAAAGGA
1 AAATAATAAAATAAATAAACTAAACAAACAAAAAAAAAAAAAGGA
13927921 AAATAATAAAATAAATGAAACTAAA-AAACAAAAAAATAAAAAATGGTA
1 AAATAATAAAATAAAT-AAACTAAACAAACAAAAAAA-AAAAAA-GG-A
*
13927969 AAATAAAAAAA
1 AAATAATAAAA
13927980 ATCAGAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
44 11 0.22
45 13 0.26
46 13 0.26
47 2 0.04
48 11 0.22
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.15
Consensus pattern (45 bp):
AAATAATAAAATAAATAAACTAAACAAACAAAAAAAAAAAAAGGA
Found at i:13928273 original size:17 final size:17
Alignment explanation
Indices: 13928253--13928317 Score: 87
Period size: 17 Copynumber: 3.8 Consensus size: 17
13928243 GGTCGGGTAG
13928253 GGTCGAAACACGGGTCA
1 GGTCGAAACACGGGTCA
*
13928270 GGTCAAAACACGGGTCA
1 GGTCGAAACACGGGTCA
*
13928287 GGTTGAAACACGGGT-A
1 GGTCGAAACACGGGTCA
*
13928303 TGGTTGAAACACGGG
1 -GGTCGAAACACGGG
13928318 CCGGGCTGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
16 1 0.02
17 43 0.98
ACGTcount: A:0.31, C:0.18, G:0.35, T:0.15
Consensus pattern (17 bp):
GGTCGAAACACGGGTCA
Found at i:13929225 original size:16 final size:16
Alignment explanation
Indices: 13929204--13929239 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13929194 AAATAAAATA
13929204 AATAAATAAAAATAAT
1 AATAAATAAAAATAAT
**
13929220 AATAAATACTAATAAT
1 AATAAATAAAAATAAT
13929236 AATA
1 AATA
13929240 TTATATAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
AATAAATAAAAATAAT
Found at i:13929232 original size:10 final size:10
Alignment explanation
Indices: 13929194--13929239 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
13929184 AAAATTAAAA
13929194 AAATAA-AAT
1 AAATAATAAT
13929203 AAATAAATAA-
1 AAAT-AATAAT
13929213 AAATAATAAT
1 AAATAATAAT
*
13929223 AAATACTAAT
1 AAATAATAAT
13929233 -AATAATA
1 AAATAATA
13929240 TTATATAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 15 0.47
10 15 0.47
11 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATAATAAT
Found at i:13929288 original size:16 final size:17
Alignment explanation
Indices: 13929264--13929297 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13929254 ATATATATAT
13929264 ATATATATATATTAAAA
1 ATATATATATATTAAAA
*
13929281 ATAT-TATATTTTAAAA
1 ATATATATATATTAAAA
13929297 A
1 A
13929298 AAGTTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATATATATTAAAA
Found at i:13929412 original size:37 final size:36
Alignment explanation
Indices: 13929301--13929555 Score: 240
Period size: 37 Copynumber: 7.1 Consensus size: 36
13929291 TTAAAAAAAG
*
13929301 TTTTCAAAACTATATATTATAT-AGTTTTCAAAAATGA
1 TTTT-AAAACTATATATTATATAATTTTTC-AAAATGA
* * ** **
13929338 -TTTAAAA--A-ATATTAAATAAGTTTTCAATTTTTT
1 TTTTAAAACTATATATTATATAATTTTTCAA-AATGA
* *
13929371 TTTTAAAACTTTATATTATATAACTTTTCGAAAATGA
1 TTTTAAAACTATATATTATATAATTTTTC-AAAATGA
**
13929408 TTTTAAAACTATATATTATATTTTTTTTCAAAAAT-A
1 TTTTAAAACTATATATTATATAATTTTTC-AAAATGA
13929444 TTTTATAAACTATATATTATATAAGTTTTTCAAAATG-
1 TTTTA-AAACTATATATTATATAA-TTTTTCAAAATGA
*
13929481 TTTTAAAAACTATATATTATATAAGTTTTCAAAATG-
1 TTTT-AAAACTATATATTATATAATTTTTCAAAATGA
* *
13929517 TTTTAAAAACCATATATTATATAAATTTT-AAAATGA
1 TTTT-AAAACTATATATTATATAATTTTTCAAAATGA
13929553 TTT
1 TTT
13929556 CAATCTATAA
Statistics
Matches: 184, Mismatches: 22, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
32 10 0.05
33 9 0.05
34 7 0.04
35 10 0.05
36 50 0.27
37 89 0.48
38 9 0.05
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTTAAAACTATATATTATATAATTTTTCAAAATGA
Found at i:13929572 original size:2 final size:2
Alignment explanation
Indices: 13929561--13929589 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13929551 GATTTCAATC
13929561 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13929590 AGATAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13930441 original size:85 final size:85
Alignment explanation
Indices: 13930294--13931297 Score: 1136
Period size: 85 Copynumber: 11.8 Consensus size: 85
13930284 ATGTATCGTC
* * * * ** * *
13930294 GAGCTGAATGGAATCGAACTCGATA-AT-TTCTGTTGATAGATAACTTTTCTCGACTTAAGCTAT
1 GAGCTGAATGTAATCGAACTCGA-AGGTCTT-TGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
* * *
13930357 GCTGTAAATCTGACATGCCCTT
64 GCTGTAAATTTGATATGCCTTT
* * * * * *
13930379 GAGATGAATGCAATCGAACTCGAAAGTATTTGTTGGCAGATAGCACTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
13930444 TGTAAATTTGATATGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * * * *
13930464 GAGCTGAATGTAATCGAACTCGTAGGTCTTTATTCACAGATAGCCCATCTGGCCTTGAGCTATAC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
13930529 TGTAAATTTGATATGCATTT
66 TGTAAATTTGATATGCCTTT
* * * * * * * *
13930549 GAGCAGAATGTAGTCGAACTCTAAGGTCTTTATTGATAGATAACCCTTCTCTCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
13930614 TGTAAATTTG--ATGCACCTT
66 TGTAAATTTGATATGC-CTTT
* * * * * *
13930633 GATCTGAGTGTAATCAAACTCGAAAGTC-TTGATTGACAGATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTG-TTGACAGATAGCCCTTCTCGCCTTGAGCTATG
*
13930697 CTGTAAATTGGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * **
13930718 GAGCTAAATGTAATCTAACTCGAAGGTCTTTTGTTAACAGATAACCCTTCTCGTGTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
13930783 CTGTAAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * * *
13930804 GAGCTGAGTATAATCGAACTCGAAGGCCTTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
13930869 TGTAAATTTGATATACCTTT
66 TGTAAATTTGATATGCCTTT
* * * * * *
13930889 GAGATGAGTGTAATTGAACTCGAAGGTCTTTTGTTGACAAATAGCCCTTCTCGGCTTGAGCTATA
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* * * *
13930954 TTGTAAATTCGATGTGCATTT
65 CTGTAAATTTGATATGCCTTT
** * ** *
13930975 GAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGACAGATAGCCCTTCTCATCTTGAGCTATGT
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
13931040 TGTAAATTTGATGTGCCTTT
66 TGTAAATTTGATATGCCTTT
* * * *
13931060 GAGATGAATGTAATCGAACTCAAAGGTCTTTTTTTGACAGATAGCCCTCCTCGCCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
* * *
13931125 CTGTAAATTTGTTGTGCCTCT
65 CTGTAAATTTGATATGCCTTT
* * * * *
13931146 GAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACATATAACCCTTCTCGCCTTAAGTTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
13931211 TGTAAATTTGATATTCCTTT
66 TGTAAATTTGATATGCCTTT
* * *
13931231 GAGCTGATTGTAATCAAACTCGAAGGTGTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
13931296 TG
66 TG
13931298 CCAATAGTTC
Statistics
Matches: 780, Mismatches: 129, Indels: 20
0.84 0.14 0.02
Matches are distributed among these distances:
83 6 0.01
84 64 0.08
85 484 0.62
86 223 0.29
87 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCTTT
Found at i:13930860 original size:171 final size:171
Alignment explanation
Indices: 13930325--13931297 Score: 1166
Period size: 171 Copynumber: 5.7 Consensus size: 171
13930315 GATAATTTCT
* ** * * * * * *
13930325 GTTGATAGATAACTTTTCTCGACTTAAGCTATGCTGTAAATCTGACATGCCCTTGAGATGAATGC
1 GTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGATGAATGT
* * * *
13930390 AATCGAACTCGAAAGT-ATTTGTTGGCAGATAGCACTTCTCGCCTTGAGCTATGCTGTAAATTTG
66 AATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTG
* * *
13930454 ATATGCCTTTGAGCTGAATGTAATCGAACTCGTAGGTCTTT
131 ATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
* * * * * * *
13930495 ATTCACAGATAGCCCATCTGGCCTTGAGCTATACTGTAAATTTGATATGCATTTGAGCA-GAATG
1 GTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAG-ATGAATG
* * * * * * *
13930559 TAGTCGAACTCTAAGGTC-TTTATTGATAGATAACCCTTCTCTCCTTGAGTTATGCTGTAAATTT
65 TAATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTT
* * * *
13930623 G--ATGCACCTTGATCTGAGTGTAATCAAACTCGAAAGTCTTG
130 GATATGC-CTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
* * * * *
13930664 ATTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTAAATGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGATGAATGT
* * * **
13930729 AATCTAACTCGAAGGTCTTTTGTTAACAGATAACCCTTCTCGTGTTGAGCTATGCTGTAAATTTG
66 AATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTG
* *
13930794 ATATGCCTTTGAGCTGAGTATAATCGAACTCGAAGGCCTTG
131 ATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
* * *
13930835 GTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATACCTTTGAGATGAGTGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGATGAATGT
* * * ** *
13930900 AATTGAACTCGAAGGTCTTTTGTTGACAAATAGCCCTTCTCGGCTTGAGCTATATTGTAAATTCG
66 AATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTG
* * * * *
13930965 ATGTGCATTTGAGCTGAGCGTAATCGAACTCAAAGGTCTTT
131 ATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
* ** * *
13931006 GTTGACAGATAGCCCTTCTCATCTTGAGCTATGTTGTAAATTTGATGTGCCTTTGAGATGAATGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGATGAATGT
* * *
13931071 AATCGAACTCAAAGGTCTTTTTTTGACAGATAGCCCTCCTCGCCTTGAGCTATGCTGTAAATTTG
66 AATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTG
* * * *
13931136 TTGTGCCTCTGAGCTGAATGTAATCGAACTCGAAGGTCTTG
131 ATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
* * * * * *
13931177 GTTGACATATAACCCTTCTCGCCTTAAGTTATGCTGTAAATTTGATATTCCTTTGAGCTGATTGT
1 GTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGATGAATGT
* *
13931242 AATCAAACTCGAAGGT-GTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTG
66 AATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTG
13931298 CCAATAGTTC
Statistics
Matches: 674, Mismatches: 122, Indels: 14
0.83 0.15 0.02
Matches are distributed among these distances:
168 4 0.01
169 96 0.14
170 177 0.26
171 393 0.58
172 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (171 bp):
GTTGACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGATGAATGT
AATCGAACTCGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTG
ATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
Found at i:13932977 original size:18 final size:17
Alignment explanation
Indices: 13932954--13932989 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13932944 ACTTATAAAA
13932954 AGAAATTTCAAAAATATG
1 AGAAATTTCAAAAA-ATG
*
13932972 AGAAATTTTAAAAAATG
1 AGAAATTTCAAAAAATG
13932989 A
1 A
13932990 TTTCAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.28
Consensus pattern (17 bp):
AGAAATTTCAAAAAATG
Found at i:13936040 original size:19 final size:19
Alignment explanation
Indices: 13935993--13936030 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13935983 ATAATCAAAG
13935993 ATAAAT-AATTAGAATTTA
1 ATAAATAAATTAGAATTTA
13936011 ATAAATAAATTAGAATTTA
1 ATAAATAAATTAGAATTTA
13936030 A
1 A
13936031 ACTTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
ATAAATAAATTAGAATTTA
Found at i:13936529 original size:18 final size:18
Alignment explanation
Indices: 13936483--13936533 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
13936473 ATATGAAAAT
13936483 AATAAACAAAACAAAGGAA
1 AATAAA-AAAACAAAGGAA
** * *
13936502 AATACTAAAATAAATGAA
1 AATAAAAAAACAAAGGAA
13936520 AATAAAAAAACAAA
1 AATAAAAAAACAAA
13936534 ATATAAAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.75, C:0.08, G:0.06, T:0.12
Consensus pattern (18 bp):
AATAAAAAAACAAAGGAA
Found at i:13936636 original size:3 final size:3
Alignment explanation
Indices: 13936628--13936704 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
13936618 AACAGAAGGA
* *
13936628 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
13936676 AAT AGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13936705 ATAAAAAAAG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13939247 original size:417 final size:417
Alignment explanation
Indices: 13938463--13939252 Score: 1189
Period size: 417 Copynumber: 1.9 Consensus size: 417
13938453 AAATGTTTTC
13938463 GATAGTATAATTTTTTCATAATGATTAAAATATATAACTACAAAAAAAATTGATTACAAAAAACT
1 GATAGTATAATTTTTTCATAATGATTAAAATATATAACTACAAAAAAAATTGATTACAAAAAACT
* * * *
13938528 TGACTTTTATTATCTGATGTGATAATTTTTTCTATAATAATAAATATAAATTATAATTACAAAAC
66 TGAATTTTATTATCTGATATGATAATTTTTTCTATAACAATAAATATAAATTATAATTACAAAAA
* * * *
13938593 TTATCAATATAGCTTTTTGAAACAAAAAAGTAGAGAAAAATATTTATCATAATATATCTTATCAC
131 TTATCAATATAACTTTTTGAAACAAAAAAGTAGAGAAAAATAGTAATCATAATATATCTTATAAC
* * *
13938658 TATAATTAAAATTTATAACTACAAGTATAATTTATCACAAAAATGTGAAGACCATTATTTTTTGT
196 TATAATTAAAATTTATAACTACAAATATAATTTATCACAAAAACGTGAAGACCATTATTTTTTAT
*
13938723 AACAATGTTTATTGTAATAATTATAAACACTTATAGTTACAAAATTTGTTACTATATGATTTTTT
261 AACAATGTTTATTGTAATAATTATAAACACTTATAGTTACAAAATTTGTCACTATATGATTTTTT
*
13938788 TAGGCACAAAAAAATATGGAGGAAAATCTTTATGATAATATATTTTGTTACAATATAATATTTTT
326 TAGGCACAAAAAAATATGGAGGAAAATCTTTATGACAATATATTTTGTTACAATATAATATTTTT
13938853 GACAGAAAAAATAGGGAAAATAGTTCT
391 GACAGAAAAAATAGGGAAAATAGTTCT
* * *
13938880 GATAGTATAA-TTTTTCATAATGATTAAAATATATAAGTACAAAAATAATTTATTACAAAAAAAC
1 GATAGTATAATTTTTTCATAATGATTAAAATATATAACTACAAAAAAAATTGATTAC-AAAAAAC
* * *
13938944 TTGAATTTTATTATTTGATATGATAATTTTTTCTATAACAATAACTATAAATTATAATTATAAAA
65 TTGAATTTTATTATCTGATATGATAATTTTTTCTATAACAATAAATATAAATTATAATTACAAAA
* *
13939009 ATTATCAATATAAC-TTTTGAAACAAAAAAGT-GGGAAAAATAGTAATGACAATTAATCTATGC-
130 ATTATCAATATAACTTTTTGAAACAAAAAAGTAGAGAAAAATAGTAAT--C-A-TAATATAT-CT
* * *
13939071 TATAACTATAGTTAAAATTTATAACTACAAATATAATTTGTCA-AAAAACGTGAATACCATTATT
190 TATAACTATAATTAAAATTTATAACTACAAATATAATTTATCACAAAAACGTGAAGACCATTATT
* * *
13939135 TTTTATGACAATGTTTTTTGTAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGG
255 TTTTATAACAATGTTTATTGTAATAATTATAAACACTTATAGTTACAAAATTTGTCACTATAT-G
* * * *
13939200 A-TTTTTT-GGTACAAAAATATATGGAGGGAAATCTTTGTGACAATATATTTTGT
319 ATTTTTTTAGGCACAAAAAAATATGGAGGAAAATCTTTATGACAATATATTTTGT
13939253 CACTATAATT
Statistics
Matches: 335, Mismatches: 31, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
415 12 0.04
416 60 0.18
417 130 0.39
418 84 0.25
419 48 0.14
420 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (417 bp):
GATAGTATAATTTTTTCATAATGATTAAAATATATAACTACAAAAAAAATTGATTACAAAAAACT
TGAATTTTATTATCTGATATGATAATTTTTTCTATAACAATAAATATAAATTATAATTACAAAAA
TTATCAATATAACTTTTTGAAACAAAAAAGTAGAGAAAAATAGTAATCATAATATATCTTATAAC
TATAATTAAAATTTATAACTACAAATATAATTTATCACAAAAACGTGAAGACCATTATTTTTTAT
AACAATGTTTATTGTAATAATTATAAACACTTATAGTTACAAAATTTGTCACTATATGATTTTTT
TAGGCACAAAAAAATATGGAGGAAAATCTTTATGACAATATATTTTGTTACAATATAATATTTTT
GACAGAAAAAATAGGGAAAATAGTTCT
Found at i:13946707 original size:19 final size:19
Alignment explanation
Indices: 13946664--13946707 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
13946654 ATAATTTTTG
* *
13946664 AATATCTAGCTTCATACAG
1 AATATTTAGCTTCATACAA
13946683 AATATTTAGCTTCATACAA
1 AATATTTAGCTTCATACAA
13946702 AATATT
1 AATATT
13946708 ATTTCTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (19 bp):
AATATTTAGCTTCATACAA
Found at i:13947286 original size:34 final size:30
Alignment explanation
Indices: 13947211--13947336 Score: 128
Period size: 30 Copynumber: 4.1 Consensus size: 30
13947201 ATTGGATTAG
*
13947211 CACTATAGTGTGTAAGGACAGTTAGTGCAA
1 CACTATAGTGTGTAAGGACACTTAGTGCAA
*
13947241 CACTATGGTGTGTAAGGACACTTAGTGCATA
1 CACTATAGTGTGTAAGGACACTTAGTGCA-A
* **
13947272 TGGTACTATAGTGTGTAAGGACACTTAGTAAAA
1 ---CACTATAGTGTGTAAGGACACTTAGTGCAA
* * *
13947305 CAATGTAGTGTGTAAGGA-AGCTCAGTGCAA
1 CACTATAGTGTGTAAGGACA-CTTAGTGCAA
13947335 CA
1 CA
13947337 TTGTGGCCTG
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
29 1 0.01
30 51 0.65
31 1 0.01
33 1 0.01
34 25 0.32
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (30 bp):
CACTATAGTGTGTAAGGACACTTAGTGCAA
Found at i:13947300 original size:17 final size:17
Alignment explanation
Indices: 13947248--13947300 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
13947238 CAACACTATG
13947248 GTGTGTAAGGACACTTA
1 GTGTGTAAGGACACTTA
** * *
13947265 GTGCATATGG-TACTATA
1 GTGTGTAAGGACACT-TA
13947282 GTGTGTAAGGACACTTA
1 GTGTGTAAGGACACTTA
13947299 GT
1 GT
13947301 AAAACAATGT
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.32
Consensus pattern (17 bp):
GTGTGTAAGGACACTTA
Found at i:13947332 original size:64 final size:64
Alignment explanation
Indices: 13947212--13947333 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
13947202 TTGGATTAGC
* ** * * *
13947212 ACTATAGTGTGTAAGGACAGTTAGTGCAACACTATGGTGTGTAAGGACACTTAGTGCATATGGT
1 ACTATAGTGTGTAAGGACACTTAGTAAAACAATATAGTGTGTAAGGACACTCAGTGCATATGGT
*
13947276 ACTATAGTGTGTAAGGACACTTAGTAAAACAATGTAGTGTGTAAGGA-AGCTCAGTGCA
1 ACTATAGTGTGTAAGGACACTTAGTAAAACAATATAGTGTGTAAGGACA-CTCAGTGCA
13947334 ACATTGTGGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 1 0.02
64 49 0.98
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (64 bp):
ACTATAGTGTGTAAGGACACTTAGTAAAACAATATAGTGTGTAAGGACACTCAGTGCATATGGT
Found at i:13952508 original size:34 final size:30
Alignment explanation
Indices: 13952435--13952491 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
13952425 GGATTAGCAA
13952435 TATAGTGTGTAAGGACACTCAGTGCATCAC
1 TATAGTGTGTAAGGACACTCAGTGCATCAC
* * *
13952465 TATGGTGTGTAAGGACAGTTAGTGCAT
1 TATAGTGTGTAAGGACACTCAGTGCAT
13952492 ATGGTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (30 bp):
TATAGTGTGTAAGGACACTCAGTGCATCAC
Found at i:13971057 original size:10 final size:10
Alignment explanation
Indices: 13971042--13971079 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
13971032 GTTTCACACG
*
13971042 AACGAATATA
1 AACGAACATA
13971052 AACGAACATA
1 AACGAACATA
13971062 AACGAACATA
1 AACGAACATA
13971072 AACGAACA
1 AACGAACA
13971080 AGACAAACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.61, C:0.18, G:0.11, T:0.11
Consensus pattern (10 bp):
AACGAACATA
Found at i:13971362 original size:14 final size:14
Alignment explanation
Indices: 13971343--13971369 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13971333 CCTCTGTTCA
13971343 AACATAAATGAACG
1 AACATAAATGAACG
13971357 AACATAAATGAAC
1 AACATAAATGAAC
13971370 ATATAATCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:13973531 original size:21 final size:21
Alignment explanation
Indices: 13973502--13973554 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13973492 ATTCTGACTA
13973502 TCGCATTGCGATTTGCCAAAT
1 TCGCATTGCGATTTGCCAAAT
* * *
13973523 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTGCCAAAT
*
13973544 TCGCAATGCGA
1 TCGCATTGCGA
13973555 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTGCCAAAT
Found at i:13973569 original size:20 final size:20
Alignment explanation
Indices: 13973544--13973881 Score: 259
Period size: 20 Copynumber: 16.6 Consensus size: 20
13973534 TTTTCCTAAT
13973544 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
13973564 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
13973584 TCGCAACGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
13973604 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
13973624 TCGCAACGCGAATTAAGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
13973645 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
13973665 TCGCAATGCGAATTACGTAAA
1 TCGCAATGCGAA-TACGTAAA
* *
13973686 TCGCAATGCGAATTACAT-AT
1 TCGCAATGCGAA-TACGTAAA
* * * *
13973706 TCGCATTGC-AATTTTCCTAAT
1 TCGCAATGCGAA--TACGTAAA
* * *
13973727 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGA-ATACGTAAA
* * * * *
13973747 TCGCATTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
*
13973768 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
*** *
13973788 TCGCAACAAGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
** *
13973808 TCGCAACACGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
13973828 TCGCAATGTGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
13973849 TCGCAATGCGAATACCTAAA
1 TCGCAATGCGAATACGTAAA
*
13973869 TCGCAATGTGAAT
1 TCGCAATGCGAAT
13973882 CTGACTATCG
Statistics
Matches: 265, Mismatches: 45, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
19 2 0.01
20 178 0.67
21 84 0.32
22 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:13973875 original size:41 final size:41
Alignment explanation
Indices: 13973544--13973901 Score: 322
Period size: 41 Copynumber: 8.8 Consensus size: 41
13973534 TTTTCCTAAT
*
13973544 TCGCAATGCGAA-TACGTAAATCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAA
* *
13973584 TCGCAACGCGAA-TACGTAAATCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAA
* * *
13973624 TCGCAACGCGAATTAAGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAA
* *
13973665 TCGCAATGCGAATTACGTAAATCGCAATGCGAATTACAT-AT
1 TCGCAATGCGAATTACGTAAATCGCAATGCG-ATTACGTAAA
* * * * * *
13973706 TCGCATTGC-AATTTTCCTAATTCGCATTGCGATTTACGT-AT
1 TCGCAATGCGAA-TTACGTAAATCGCAATGCGA-TTACGTAAA
* * * * * * *
13973747 TCGCATTGCGATTTTCATAATTCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAA
* **
13973788 TCGCAA--CAAGATTACGTAAATCGCAACACGATTACGTAAA
1 TCGCAATGCGA-ATTACGTAAATCGCAATGCGATTACGTAAA
* * * * *
13973828 TCGCAATGTGAATTAGGAAAATCGCAATGCGAATACCTAAA
1 TCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAA
*
13973869 TCGCAATGTGAATCTGAC-T--ATCGCAATGCGATT
1 TCGCAATGCGAAT-T-ACGTAAATCGCAATGCGATT
13973902 TACATAGCGC
Statistics
Matches: 265, Mismatches: 42, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
39 2 0.01
40 99 0.37
41 154 0.58
42 9 0.03
43 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (41 bp):
TCGCAATGCGAATTACGTAAATCGCAATGCGATTACGTAAA
Found at i:13974513 original size:33 final size:33
Alignment explanation
Indices: 13974455--13974547 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
13974445 CGAGAATGAA
**
13974455 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
*
13974489 AATCGCAACGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
* **
13974522 AATCGCAACACGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
13974548 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 42 0.79
34 11 0.21
ACGTcount: A:0.44, C:0.25, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:13974640 original size:20 final size:19
Alignment explanation
Indices: 13974590--13974665 Score: 80
Period size: 20 Copynumber: 3.9 Consensus size: 19
13974580 GTTGAAATTT
**
13974590 TCATTTCGCGTTGCGATTT
1 TCATTTCGCGTTGCGATAG
13974609 TCATTTCGCGTTGCGATAG
1 TCATTTCGCGTTGCGATAG
* **
13974628 TCATTTCCGCGTTACGATTT
1 TCATTT-CGCGTTGCGATAG
*
13974648 TCATTCTCTCGTTGCGAT
1 TCATT-TCGCGTTGCGAT
13974666 TTTCATTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 23 0.48
20 24 0.50
21 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TCATTTCGCGTTGCGATAG
Done.