Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 49
Found at i:4217450 original size:18 final size:17
Alignment explanation
Indices: 4217401--4217458 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
4217391 AAAAGTAATA
4217401 AAAATAAAAGTAATAAA-
1 AAAATAAAAG-AATAAAG
4217418 AAAATAAAA-AATAAAG
1 AAAATAAAAGAATAAAG
*
4217434 CAAATAAACAGAATAAAG
1 AAAATAAA-AGAATAAAG
4217452 AAAATAA
1 AAAATAA
4217459 CAATGTACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 6 0.17
16 7 0.19
17 10 0.28
18 13 0.36
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAATAAAAGAATAAAG
Found at i:4217658 original size:15 final size:14
Alignment explanation
Indices: 4217638--4217682 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
4217628 CGATAACAAT
4217638 AATAATAGTAATAAA
1 AATAATA-TAATAAA
*
4217653 AATAATAATAATGAA
1 AATAAT-ATAATAAA
4217668 AATAATA-AATAAA
1 AATAATATAATAAA
4217681 AA
1 AA
4217683 AGGAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.26
14 1 0.04
15 18 0.67
16 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (14 bp):
AATAATATAATAAA
Found at i:4217703 original size:42 final size:43
Alignment explanation
Indices: 4217657--4217749 Score: 129
Period size: 42 Copynumber: 2.2 Consensus size: 43
4217647 AATAAAAATA
* *
4217657 ATAATAATGAAAATA-ATAAATA-AAAAAGGAATATATATATAT
1 ATAATAAT-AAAATAGAAAAATAGAAAAAAGAATATATATATAT
*
4217699 ATAATAA-AAAATAGAAAAATAGAAAAAATAATATATATATAT
1 ATAATAATAAAATAGAAAAATAGAAAAAAGAATATATATATAT
4217741 ATAATAATA
1 ATAATAATA
4217750 TATGAAAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
40 6 0.13
41 6 0.13
42 32 0.71
43 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (43 bp):
ATAATAATAAAATAGAAAAATAGAAAAAAGAATATATATATAT
Found at i:4218881 original size:2 final size:2
Alignment explanation
Indices: 4218876--4218900 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4218866 AATAACACAC
4218876 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 A
4218901 GTTATTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4219246 original size:15 final size:15
Alignment explanation
Indices: 4219226--4219261 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
4219216 ACTTTAATTC
4219226 CGTAGATCTAGACCT
1 CGTAGATCTAGACCT
4219241 CGTAGATCTAGACCT
1 CGTAGATCTAGACCT
4219256 C-TAGAT
1 CGTAGAT
4219262 TGAGATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (15 bp):
CGTAGATCTAGACCT
Found at i:4219665 original size:101 final size:101
Alignment explanation
Indices: 4219490--4219684 Score: 363
Period size: 101 Copynumber: 1.9 Consensus size: 101
4219480 TATACTCATG
*
4219490 AGGGTTTATTTTACGAAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
1 AGGGTTTATTCTACGAAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
4219555 GGTTATTCACATGTTCAAACCTTCAAACGAAGTATA
66 GGTTATTCACATGTTCAAACCTTCAAACGAAGTATA
* *
4219591 AGGGTTTATTCTACGGAAAGTCCTTTGTATTTTGTGATTCCCTATTTTGGTCATGAAATGAAAGT
1 AGGGTTTATTCTACGAAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
4219656 GGTTATTCACATGTTCAAACCTTCAAACG
66 GGTTATTCACATGTTCAAACCTTCAAACG
4219685 TTTTCGTTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 91 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (101 bp):
AGGGTTTATTCTACGAAAAGTCCTTTGTATTTTGTAATTCCCTATTTTGGTCATGAAATGAAAGT
GGTTATTCACATGTTCAAACCTTCAAACGAAGTATA
Found at i:4220036 original size:10 final size:9
Alignment explanation
Indices: 4220023--4220063 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
4220013 AAACGAACGT
4220023 AAACGAACAC
1 AAAC-AACAC
4220033 AAACAAACAC
1 AAAC-AACAC
4220043 AAA-AA-AC
1 AAACAACAC
4220050 AAACAACAC
1 AAACAACAC
4220059 AAACA
1 AAACA
4220064 CAAAAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
7 5 0.18
8 4 0.14
9 7 0.25
10 12 0.43
ACGTcount: A:0.71, C:0.27, G:0.02, T:0.00
Consensus pattern (9 bp):
AAACAACAC
Found at i:4220333 original size:14 final size:14
Alignment explanation
Indices: 4220314--4220369 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
4220304 GCTCTATGTT
4220314 CGAACATAAATGAA
1 CGAACATAAATGAA
4220328 CGAACATAAAT---
1 CGAACATAAATGAA
*
4220339 -GAATATAAATGAA
1 CGAACATAAATGAA
4220352 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
4220368 CG
1 CG
4220370 TTCACGAACG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
10 9 0.26
14 17 0.50
15 3 0.09
16 5 0.15
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:4224060 original size:2 final size:2
Alignment explanation
Indices: 4224048--4224083 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4224038 CTCACTAGAA
*
4224048 AG AG A- AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4224084 AGAAGCATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4234014 original size:21 final size:21
Alignment explanation
Indices: 4233988--4234027 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4233978 CAGAACCCCA
*
4233988 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
4234009 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
4234028 TCAAATGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:4240961 original size:36 final size:36
Alignment explanation
Indices: 4240914--4241099 Score: 259
Period size: 36 Copynumber: 5.2 Consensus size: 36
4240904 TCTGTTCTAG
*
4240914 TTGAATCGGAAGTG-CGAATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGTCG-ATGCTTCCTTCCGTTCGAC
*
4240950 TTGAATCGGAAGTG-CATATGCTTCCTTCCGTTCGAC
1 TTGAATCGGAAGTGTC-GATGCTTCCTTCCGTTCGAC
*
4240986 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCGAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAC
* *
4241022 TTGAATTGGAAGTGTCGATGCTTCCCTCCGTTCGAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAC
* * * *
4241058 TTGAATCGAAAGTGCCGATGCTTCCCTCCATTCGAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAC
4241094 TTGAAT
1 TTGAAT
4241100 GGATGCAAAC
Statistics
Matches: 137, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
36 136 0.99
37 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (36 bp):
TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAC
Found at i:4261089 original size:32 final size:31
Alignment explanation
Indices: 4261003--4261096 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 31
4260993 GTCTTTAGAA
* *
4261003 TTTTAAA-AATTTATAAAATGATCA-TCAATT
1 TTTTAAATAA-TTATAAAATGATAATTAAATT
*
4261033 TTTTTAATAATTATAAAATGATAATTAAATT
1 TTTTAAATAATTATAAAATGATAATTAAATT
*
4261064 TTATTAAATTATTATAAAA-GAATAATTAAATT
1 TT-TTAAATAATTATAAAATG-ATAATTAAATT
4261096 T
1 T
4261097 AGAGATAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 19 0.35
31 10 0.18
32 26 0.47
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (31 bp):
TTTTAAATAATTATAAAATGATAATTAAATT
Found at i:4261302 original size:59 final size:60
Alignment explanation
Indices: 4261141--4261302 Score: 206
Period size: 60 Copynumber: 2.7 Consensus size: 60
4261131 CCCTCATTTC
* * *
4261141 AAATTAGTCCTTAAACTTTTA-AACATTTCAATTTCATCCTAAAACTATAAATCCCATTCT
1 AAATTAGTCCTTAAACTTTTAGAACATTCCAATTTCATCC-CAAACTATAAATCCCAATCT
** * *
4261201 AAATTAGTCCTTGGACTTTT-GAACATTCCAATTTCATCCCAAACTATGAATCTCAATCT
1 AAATTAGTCCTTAAACTTTTAGAACATTCCAATTTCATCCCAAACTATAAATCCCAATCT
*
4261260 AAATTAGTCC-TAAACTTTTAGATC-TTCCAATTTCATCTCCAAA
1 AAATTAGTCCTTAAACTTTTAGAACATTCCAATTTCATC-CCAAA
4261303 TTCATCCAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
58 20 0.22
59 34 0.38
60 35 0.39
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (60 bp):
AAATTAGTCCTTAAACTTTTAGAACATTCCAATTTCATCCCAAACTATAAATCCCAATCT
Found at i:4261534 original size:59 final size:60
Alignment explanation
Indices: 4261469--4261620 Score: 166
Period size: 60 Copynumber: 2.5 Consensus size: 60
4261459 TTTAGAGACC
* * *
4261469 AATTTAGAATGAAGATCATAGTTTAGGGATGAAAATGAAAT-GTTCAAAGTGTGAGGATT
1 AATTTAGAATGAAGATCATAGTTTAGGGATGAAAATGAAATAGTTAAAAGTGTAAGGACT
** * * * *
4261528 AATTTAGAATGATA-ATCATAGTTTAATGATGAAATTGAAATATTTAAAAGTTTAATGACT
1 AATTTAGAATGA-AGATCATAGTTTAGGGATGAAAATGAAATAGTTAAAAGTGTAAGGACT
* *
4261588 AATTTAAAATG-AGAATCATAGATTAGGGATGAA
1 AATTTAGAATGAAG-ATCATAGTTTAGGGATGAA
4261621 TGATGCATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
58 1 0.01
59 36 0.47
60 39 0.51
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.33
Consensus pattern (60 bp):
AATTTAGAATGAAGATCATAGTTTAGGGATGAAAATGAAATAGTTAAAAGTGTAAGGACT
Found at i:4261607 original size:60 final size:58
Alignment explanation
Indices: 4261433--4261620 Score: 180
Period size: 59 Copynumber: 3.1 Consensus size: 58
4261423 CATATAATTT
* * *
4261433 AGGATAAAATTGAAATATTCAAAAAGTTTAGAGACCAATTTAGAATGAAGATCATAGTTTA
1 AGGATGAAATTGAAATATT-TAAAAGTTTA-AGACTAATTTAGAATGAA-ATCATAGTTTA
* * * * * * *
4261494 GGGATGAAAATGAAAT-GTTCAAAGTGTGAGGATTAATTTAGAATGATAATCATAGTTTA
1 AGGATGAAATTGAAATATTTAAAAGT-TTAAGACTAATTTAGAATGA-AATCATAGTTTA
* * *
4261553 ATGATGAAATTGAAATATTTAAAAGTTTAATGACTAATTTAAAATGAGAATCATAGATTA
1 AGGATGAAATTGAAATATTTAAAAGTTTAA-GACTAATTTAGAATGA-AATCATAGTTTA
*
4261613 GGGATGAA
1 AGGATGAA
4261621 TGATGCATTT
Statistics
Matches: 100, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
59 45 0.45
60 42 0.42
61 13 0.13
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.31
Consensus pattern (58 bp):
AGGATGAAATTGAAATATTTAAAAGTTTAAGACTAATTTAGAATGAAATCATAGTTTA
Found at i:4261897 original size:28 final size:29
Alignment explanation
Indices: 4261865--4261920 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
4261855 ACAGTTTAAG
4261865 CAACCGACC-AATATGATTACTCATATTA
1 CAACCGACCAAATATGATTACTCATATTA
* *
4261893 CAACCGACCAAATGTGATTACTCCTATT
1 CAACCGACCAAATATGATTACTCATATT
4261921 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.29
Consensus pattern (29 bp):
CAACCGACCAAATATGATTACTCATATTA
Found at i:4271186 original size:17 final size:17
Alignment explanation
Indices: 4271166--4271202 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
4271156 AAGTTGCGGA
4271166 TATTATTGAGGATAAAT
1 TATTATTGAGGATAAAT
*
4271183 TATTATTTAGGATAAAT
1 TATTATTGAGGATAAAT
4271200 TAT
1 TAT
4271203 GCATTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (17 bp):
TATTATTGAGGATAAAT
Found at i:4271210 original size:18 final size:17
Alignment explanation
Indices: 4271174--4271210 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
4271164 GATATTATTG
*
4271174 AGGATAAATTATTATTT
1 AGGATAAATTATCATTT
4271191 AGGATAAATTATGCATTT
1 AGGATAAATTAT-CATTT
4271209 AG
1 AG
4271211 TAATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (17 bp):
AGGATAAATTATCATTT
Found at i:4271228 original size:20 final size:17
Alignment explanation
Indices: 4271166--4271224 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
4271156 AAGTTGCGGA
* *
4271166 TATTATTGAGGATAAAT
1 TATTATTTAGAATAAAT
*
4271183 TATTATTTAGGATAAAT
1 TATTATTTAGAATAAAT
*
4271200 TATGCATTTAGTAATTAAAT
1 TAT-TATTTAG-AA-TAAAT
4271220 TATTA
1 TATTA
4271225 ATTTTGATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
17 19 0.54
18 6 0.17
19 2 0.06
20 8 0.23
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.46
Consensus pattern (17 bp):
TATTATTTAGAATAAAT
Found at i:4272310 original size:30 final size:30
Alignment explanation
Indices: 4272222--4272332 Score: 138
Period size: 31 Copynumber: 3.7 Consensus size: 30
4272212 AAAAAAATAA
*
4272222 TTTACGTTAAAT-AGATTACATAAAATT-TGT
1 TTTACGTAAAATGA-ATTACATAAAATTAT-T
* *
4272252 TTTATGTAAAATGAATTATATGAAAATTATT
1 TTTACGTAAAATGAATTACAT-AAAATTATT
4272283 TTTACGTAAAATGAATTACATAAAATTA-T
1 TTTACGTAAAATGAATTACATAAAATTATT
*
4272312 TTTATGTAAAATGAATTACAT
1 TTTACGTAAAATGAATTACAT
4272333 TTTCTTGAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
29 21 0.29
30 23 0.32
31 27 0.38
32 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (30 bp):
TTTACGTAAAATGAATTACATAAAATTATT
Found at i:4272323 original size:15 final size:15
Alignment explanation
Indices: 4272251--4272323 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
4272241 ATAAAATTTG
*
4272251 TTTTATGTAAAATGAA
1 TTTTATGTAAAAT-TA
*
4272267 TTATATG-AAAATTA
1 TTTTATGTAAAATTA
* *
4272281 TTTTTACGTAAAATGA
1 -TTTTATGTAAAATTA
* **
4272297 -ATTACATAAAATTA
1 TTTTATGTAAAATTA
4272311 TTTTATGTAAAAT
1 TTTTATGTAAAAT
4272324 GAATTACATT
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
14 12 0.28
15 19 0.44
16 12 0.28
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (15 bp):
TTTTATGTAAAATTA
Found at i:4272324 original size:29 final size:29
Alignment explanation
Indices: 4272236--4272332 Score: 140
Period size: 31 Copynumber: 3.2 Consensus size: 29
4272226 CGTTAAATAG
*
4272236 ATTACATAAAATTTGTTTTATGTAAAATGA
1 ATTACATAAAA-TTATTTTATGTAAAATGA
* *
4272266 ATTATATGAAAATTATTTTTACGTAAAATGA
1 ATTACAT-AAAATTA-TTTTATGTAAAATGA
4272297 ATTACATAAAATTATTTTATGTAAAATGA
1 ATTACATAAAATTATTTTATGTAAAATGA
4272326 ATTACAT
1 ATTACAT
4272333 TTTCTTGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.35
30 15 0.25
31 24 0.40
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (29 bp):
ATTACATAAAATTATTTTATGTAAAATGA
Found at i:4272850 original size:19 final size:18
Alignment explanation
Indices: 4272826--4272878 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
4272816 TAATATTTTT
*
4272826 TATTAAAATGATATTAAAA
1 TATTAAAATAATATT-AAA
**
4272845 TATTAATTTAATATTAAA
1 TATTAAAATAATATTAAA
4272863 TATATAAAATAATATT
1 TAT-TAAAATAATATT
4272879 TTTTGATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TATTAAAATAATATTAAA
Found at i:4273045 original size:42 final size:42
Alignment explanation
Indices: 4272993--4273072 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
4272983 TTACATTGAG
* ** * *
4272993 AAAATCAATTACATTTATCAAACACTGAATAATATTTTCCGT
1 AAAACCAATTACAACTATCAAACACTAAAAAATATTTTCCGT
4273035 AAAACCAATTACAACTATCAAACACTAAAAAATATTTT
1 AAAACCAATTACAACTATCAAACACTAAAAAATATTTT
4273073 TCAAAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (42 bp):
AAAACCAATTACAACTATCAAACACTAAAAAATATTTTCCGT
Found at i:4273080 original size:14 final size:14
Alignment explanation
Indices: 4273061--4273087 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4273051 ATCAAACACT
4273061 AAAAAATATTTTTC
1 AAAAAATATTTTTC
4273075 AAAAAATATTTTT
1 AAAAAATATTTTT
4273088 AGTTATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAAATATTTTTC
Found at i:4273143 original size:38 final size:38
Alignment explanation
Indices: 4273077--4273177 Score: 168
Period size: 38 Copynumber: 2.7 Consensus size: 38
4273067 TATTTTTCAA
* *
4273077 AAAATATTT-TTAGTTATCAAACATAAAAAAAATAAAG
1 AAAATATTTCTAAGTTATCAAACACAAAAAAAATAAAG
*
4273114 AAAATATTTCTCAGTTATCAAACACAAAAAAAATAAAG
1 AAAATATTTCTAAGTTATCAAACACAAAAAAAATAAAG
4273152 AAAATATTTCTAAGTTATCAAACACA
1 AAAATATTTCTAAGTTATCAAACACA
4273178 CCCTTAATTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
37 9 0.15
38 51 0.85
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (38 bp):
AAAATATTTCTAAGTTATCAAACACAAAAAAAATAAAG
Found at i:4281478 original size:33 final size:33
Alignment explanation
Indices: 4281436--4281502 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
4281426 CCACAAAAGC
4281436 ATAATGACAATTCAATATCTAAAATACGTGACA
1 ATAATGACAATTCAATATCTAAAATACGTGACA
4281469 ATAATGACAATTCAATATCTAAAATACGTGACA
1 ATAATGACAATTCAATATCTAAAATACGTGACA
4281502 A
1 A
4281503 AAAGGTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (33 bp):
ATAATGACAATTCAATATCTAAAATACGTGACA
Found at i:4281896 original size:21 final size:21
Alignment explanation
Indices: 4281872--4281983 Score: 90
Period size: 21 Copynumber: 5.4 Consensus size: 21
4281862 GTTTCCAGAT
*
4281872 TCGCAACGCGAATTTCGACTA
1 TCGCAATGCGAATTTCGACTA
* *
4281893 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAATTTCGACTA
* *
4281914 TCGCAATGCGAATAT-GTA-AA
1 TCGCAATGCGAATTTCG-ACTA
* *
4281934 TCGCAATGCGAATAT-GTA-AA
1 TCGCAATGCGAATTTCG-ACTA
*
4281954 TCGCAATGCG-ATAGTCGACTA
1 TCGCAATGCGAAT-TTCGACTA
4281975 TCGCAATGC
1 TCGCAATGC
4281984 AAACTTGCGA
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.03
20 34 0.43
21 43 0.54
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTTCGACTA
Found at i:4281938 original size:20 final size:20
Alignment explanation
Indices: 4281913--4281964 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
4281903 AACTTGGACT
4281913 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
4281933 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
4281953 ATCGCAATGCGA
1 ATCGCAATGCGA
4281965 TAGTCGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:4293780 original size:14 final size:14
Alignment explanation
Indices: 4293763--4293805 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4293753 CTTTAACTTA
4293763 AAACCCTAAACTCT
1 AAACCCTAAACTCT
*
4293777 AAACACTAAACT-T
1 AAACCCTAAACTCT
* *
4293790 AAACCATAAAATCT
1 AAACCCTAAACTCT
4293804 AA
1 AA
4293806 CTTAGAGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCCTAAACTCT
Found at i:4294482 original size:23 final size:21
Alignment explanation
Indices: 4294456--4294507 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
4294446 TTAACCTTAG
4294456 AATTTATTAGGTTACTTTACAT-T
1 AATTT-TTAGGTTA-TTTA-ATAT
4294479 AATTGTTTAGGTTATTTAATAT
1 AATT-TTTAGGTTATTTAATAT
4294501 AATTTTT
1 AATTTTT
4294508 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.19
22 9 0.33
23 12 0.44
24 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.56
Consensus pattern (21 bp):
AATTTTTAGGTTATTTAATAT
Found at i:4294503 original size:22 final size:23
Alignment explanation
Indices: 4294462--4294504 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
4294452 TTAGAATTTA
4294462 TTAGGTTACTTTACATTAATTGT
1 TTAGGTTACTTTACATTAATTGT
4294485 TTAGGTTA-TTTA-ATATAATT
1 TTAGGTTACTTTACAT-TAATT
4294505 TTTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 9 0.47
23 8 0.42
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (23 bp):
TTAGGTTACTTTACATTAATTGT
Found at i:4301260 original size:16 final size:16
Alignment explanation
Indices: 4301239--4301273 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4301229 TTCAGTTACA
*
4301239 ATTAGAATATATCTAT
1 ATTAGAATATATATAT
*
4301255 ATTAGAATTTATATAT
1 ATTAGAATATATATAT
4301271 ATT
1 ATT
4301274 TATTATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (16 bp):
ATTAGAATATATATAT
Found at i:4301270 original size:20 final size:20
Alignment explanation
Indices: 4301245--4301284 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4301235 TACAATTAGA
*
4301245 ATATATCTATATTAGAATTT
1 ATATATATATATTAGAATTT
* *
4301265 ATATATATTTATTATAATTT
1 ATATATATATATTAGAATTT
4301285 TTATCTAGAT
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:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATATATATATTAGAATTT
Found at i:4302988 original size:184 final size:187
Alignment explanation
Indices: 4302679--4303047 Score: 717
Period size: 184 Copynumber: 2.0 Consensus size: 187
4302669 GCCCATCAAA
4302679 ATCGGTTACAGTCGCTACGAAGCTTAAAACAGCTACTGTTCCTCTCCAGGTTTGTTGCTCACTTT
1 ATCGGTTACAGTCGCTACGAAGCTTAAAACAGCTACTGTTCCTCTCCAGGTTTGTTGCTCACTTT
4302744 ACTTTTTTGAAGGGGGAAAATGTGATCAGAGATGGGTTTTAGATAGATTCCATGTTTGCACATTC
66 ACTTTTTTGAAGGGGGAAAATGTGATCAGAGATGGGTTTTAGATAGATTCCATGTTTGCACATTC
4302809 ATT-TTGCTTAAATTAGTTACGAACCCAAGA-T-TTAAATCAGTATTTACCTATTAC
131 ATTGTTGCTTAAATTAGTTACGAACCCAAGATTGTTAAATCAGTATTTACCTATTAC
4302863 ATCGGTTACAGTCGCTACGAAGCTTAAAACAGCTACTGTTCCTCTCCAGGTTTGTTGCTCACTTT
1 ATCGGTTACAGTCGCTACGAAGCTTAAAACAGCTACTGTTCCTCTCCAGGTTTGTTGCTCACTTT
4302928 ACTTTTTTGAAGGGGGAAAATGTGATCAGAGATGGGTTTTAGATAGATTCCATGTTTGCACATTC
66 ACTTTTTTGAAGGGGGAAAATGTGATCAGAGATGGGTTTTAGATAGATTCCATGTTTGCACATTC
4302993 ATTGTTGCTTAAATTAGTTACGAACCCAAGATTGTTAAATCAGTATTTACCTATT
131 ATTGTTGCTTAAATTAGTTACGAACCCAAGATTGTTAAATCAGTATTTACCTATT
4303048 TTGCTTAAAT
Statistics
Matches: 182, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
184 133 0.73
185 27 0.15
186 1 0.01
187 21 0.12
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (187 bp):
ATCGGTTACAGTCGCTACGAAGCTTAAAACAGCTACTGTTCCTCTCCAGGTTTGTTGCTCACTTT
ACTTTTTTGAAGGGGGAAAATGTGATCAGAGATGGGTTTTAGATAGATTCCATGTTTGCACATTC
ATTGTTGCTTAAATTAGTTACGAACCCAAGATTGTTAAATCAGTATTTACCTATTAC
Found at i:4307363 original size:15 final size:15
Alignment explanation
Indices: 4307343--4307383 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4307333 TCCTCCACCA
4307343 CCACCACCACCATCC
1 CCACCACCACCATCC
* *
4307358 CCACCACCAGCATGC
1 CCACCACCACCATCC
*
4307373 CCTCCACCACC
1 CCACCACCACC
4307384 TGCACTATCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.63, G:0.05, T:0.07
Consensus pattern (15 bp):
CCACCACCACCATCC
Found at i:4336742 original size:29 final size:29
Alignment explanation
Indices: 4336700--4336756 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
4336690 CTCTAGGTAC
* *
4336700 TTATTTTGATCAAAAAATACTTTAAGTAT
1 TTATTTTAACCAAAAAATACTTTAAGTAT
*
4336729 TTATTTTAACCAAAAAATATTTTAAGTA
1 TTATTTTAACCAAAAAATACTTTAAGTA
4336757 CTGAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (29 bp):
TTATTTTAACCAAAAAATACTTTAAGTAT
Found at i:4347277 original size:2 final size:2
Alignment explanation
Indices: 4347272--4347315 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4347262 CCAAAAAAAA
4347272 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
4347314 AT
1 AT
4347316 TCAGCTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4348718 original size:26 final size:27
Alignment explanation
Indices: 4348689--4348740 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
4348679 ATACGTGTCT
4348689 AAATA-AATAATAATATA-ATT-ATTATG
1 AAATATAAT-ATAA-ATACATTAATTATG
4348715 AAATATAATATAAATACATTAATTAT
1 AAATATAATATAAATACATTAATTAT
4348741 TAAGAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 3 0.13
26 12 0.52
27 8 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
AAATATAATATAAATACATTAATTATG
Found at i:4356275 original size:25 final size:27
Alignment explanation
Indices: 4356236--4356303 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
4356226 TTATTTATTT
* *
4356236 TAAATTATTTTATATTAAATAATAATAA
1 TAAA-TATTATATATGAAATAATAATAA
*
4356264 TAAATATTATATCATGCAATAATAATAA
1 TAAATATTATAT-ATGAAATAATAATAA
*
4356292 TAAA-ATAATATA
1 TAAATATTATATA
4356304 GAGTGATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 13 0.37
28 21 0.60
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (27 bp):
TAAATATTATATATGAAATAATAATAA
Found at i:4356649 original size:5 final size:5
Alignment explanation
Indices: 4356639--4356665 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4356629 ATATTATTTT
4356639 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
4356666 AGGTACTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:4358290 original size:21 final size:21
Alignment explanation
Indices: 4358246--4358290 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4358236 GATTTCTGGG
* * *
4358246 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
4358267 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
4358288 CAA
1 CAA
4358291 ACGAACATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:4359057 original size:31 final size:30
Alignment explanation
Indices: 4359018--4359083 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
4359008 GTCGAGGGTT
**
4359018 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTAACGA-ACATATGGACAG
*
4359048 TATACCTATGTTCTAAGGAACATATGGACAG
1 T-TACCTATGTTCTAACGAACATATGGACAG
4359079 TTACC
1 TTACC
4359084 GAGGATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 5 0.16
31 21 0.68
32 5 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (30 bp):
TTACCTATGTTCTAACGAACATATGGACAG
Found at i:4359108 original size:30 final size:30
Alignment explanation
Indices: 4359072--4359224 Score: 272
Period size: 30 Copynumber: 5.1 Consensus size: 30
4359062 AAGGAACATA
4359072 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4359102 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4359132 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4359162 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
4359192 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4359221 TGGA
1 TGGA
4359225 TAGGTCCTTC
Statistics
Matches: 120, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
29 18 0.15
30 102 0.85
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:4363329 original size:21 final size:21
Alignment explanation
Indices: 4363285--4363329 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4363275 GATTTCTGGG
* * *
4363285 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
4363306 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
4363327 CAA
1 CAA
4363330 ACGAACATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:4364143 original size:30 final size:30
Alignment explanation
Indices: 4364107--4364259 Score: 272
Period size: 30 Copynumber: 5.1 Consensus size: 30
4364097 AAGGAACATA
4364107 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4364137 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4364167 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4364197 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
4364227 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
4364256 TGGA
1 TGGA
4364260 TAGGTCTTTC
Statistics
Matches: 120, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
29 18 0.15
30 102 0.85
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:4367679 original size:20 final size:19
Alignment explanation
Indices: 4367641--4367679 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4367631 TCATCAGAAA
* *
4367641 AAAAAAGTTGAAACCAAAG
1 AAAAAAGTCGAAACAAAAG
4367660 AAAAAAGTCGAACACAAAAG
1 AAAAAAGTCGAA-ACAAAAG
4367680 GAAGATGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAAAAGTCGAAACAAAAG
Found at i:4372207 original size:15 final size:16
Alignment explanation
Indices: 4372187--4372221 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4372177 TGAAAGATCA
*
4372187 TTTTGGTATTTATT-T
1 TTTTGGTATATATTAT
4372202 TTTTGGTATATATTAT
1 TTTTGGTATATATTAT
4372218 TTTT
1 TTTT
4372222 ACACGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (16 bp):
TTTTGGTATATATTAT
Found at i:4372387 original size:47 final size:47
Alignment explanation
Indices: 4372336--4372440 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 47
4372326 TAAAATGATA
*
4372336 ATATAATATGTGTCA-CGTTACCCAAACCAATGGCAACTATAACGATG
1 ATATAATATGTGT-AGCGTCACCCAAACCAATGGCAACTATAACGATG
* * * * * * *
4372383 ATATAACATGTGTAGCGTCACCTAAACTAATGTCACCTATAATGATT
1 ATATAATATGTGTAGCGTCACCCAAACCAATGGCAACTATAACGATG
*
4372430 ATATGATATGT
1 ATATAATATGT
4372441 ATCATGTCAT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
46 1 0.02
47 46 0.98
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (47 bp):
ATATAATATGTGTAGCGTCACCCAAACCAATGGCAACTATAACGATG
Found at i:4373695 original size:2 final size:2
Alignment explanation
Indices: 4373684--4373728 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
4373674 ATAATTTCAT
4373684 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4373725 TA TA
1 TA TA
4373729 GGATATTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4380985 original size:89 final size:89
Alignment explanation
Indices: 4380885--4381064 Score: 238
Period size: 91 Copynumber: 2.0 Consensus size: 89
4380875 TAATTATTAA
* * * *
4380885 AAGTTATAAAATGATTATTTGATTATTTAGTACATTCTAACA-TTA-AAAGAAAATTAAAGATCA
1 AAGTTACAAAATAATCACTTGATTATTTAGTACATTCTAA-ATTTATAAA-AAAATTAAAGATCA
4380948 TCTGAGTTGAATGTCAATATGTTTAT
64 TCTGAGTTGAATGTCAATATGTTTAT
** *
4380974 AAGTTACAAAATAATCACTTGATTATTTAGTATGTTCTAAATTTTATTAAAAAAATTAATGATCA
1 AAGTTACAAAATAATCACTTGATTATTTAGTACATTCTAAA-TTTA-TAAAAAAATTAAAGATCA
*
4381039 TCTGAGTTGAATGTTAATATGTTTAT
64 TCTGAGTTGAATGTCAATATGTTTAT
4381065 TGAGATGTGA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 1 0.01
89 34 0.43
90 3 0.04
91 38 0.48
92 3 0.04
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (89 bp):
AAGTTACAAAATAATCACTTGATTATTTAGTACATTCTAAATTTATAAAAAAATTAAAGATCATC
TGAGTTGAATGTCAATATGTTTAT
Found at i:4381860 original size:16 final size:18
Alignment explanation
Indices: 4381824--4381861 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4381814 ATTATTTATT
4381824 TTTGAATTAATATGCTAAA
1 TTTGAATTAATAT-CTAAA
4381843 TTTG-ATTAATAT-TAAA
1 TTTGAATTAATATCTAAA
4381859 TTT
1 TTT
4381862 TATAGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (18 bp):
TTTGAATTAATATCTAAA
Found at i:4388098 original size:125 final size:125
Alignment explanation
Indices: 4387849--4388099 Score: 486
Period size: 126 Copynumber: 2.0 Consensus size: 125
4387839 TATCGAAAAC
4387849 TCGAATCGAGTCGAATTTAGTTATTTCTCCTGGGAATATATGGGAATTGAACATACATGAGAAAA
1 TCGAATCGAGTCGAATTTAGTTATTTCTCCTGGGAATATATGGGAATTGAACATACATGAGAAAA
4387914 ACAAAAATTATCACTGACATTTACCTGGAAAACCCTCACCAGATATATGCAGTTCAAGTT
66 ACAAAAATTATCACTGACATTTACCTGGAAAACCCTCACCAGATATATGCAGTTCAAGTT
4387974 TCGAATCGAGTCGAATTTTAGTTATTTCTCCTGGGAATATATGGGAATTGAACATACATGAGAAA
1 TCGAATCGAGTCGAA-TTTAGTTATTTCTCCTGGGAATATATGGGAATTGAACATACATGAGAAA
4388039 AACAAAAATTATCACTGACATTTACCT-GAAAACCCTCACCAGATATATGCAGTTCAAGTT
65 AACAAAAATTATCACTGACATTTACCTGGAAAACCCTCACCAGATATATGCAGTTCAAGTT
4388099 T
1 T
4388100 TGGGTCACTT
Statistics
Matches: 125, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
125 49 0.39
126 76 0.61
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (125 bp):
TCGAATCGAGTCGAATTTAGTTATTTCTCCTGGGAATATATGGGAATTGAACATACATGAGAAAA
ACAAAAATTATCACTGACATTTACCTGGAAAACCCTCACCAGATATATGCAGTTCAAGTT
Found at i:4389487 original size:2 final size:2
Alignment explanation
Indices: 4389480--4389541 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
4389470 GTGAAGTTTG
4389480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4389522 TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA
4389542 AATACTTATC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4395325 original size:23 final size:23
Alignment explanation
Indices: 4395295--4395354 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
4395285 AATGTTCGTA
* *
4395295 AACATATTCGTTTAATATTTATG
1 AACATATTCGTTTAACATTTATC
* * *
4395318 AACATATTCATTTAGCGTTTATC
1 AACATATTCGTTTAACATTTATC
*
4395341 AACATATTAGTTTA
1 AACATATTCGTTTA
4395355 GAATAAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (23 bp):
AACATATTCGTTTAACATTTATC
Found at i:4398349 original size:7 final size:7
Alignment explanation
Indices: 4398337--4398376 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
4398327 AATGATAATA
4398337 TATTATT
1 TATTATT
4398344 TATTA-T
1 TATTATT
4398350 TATTTATT
1 TA-TTATT
4398358 TA-T-TT
1 TATTATT
4398363 TATTATT
1 TATTATT
4398370 TATTATT
1 TATTATT
4398377 CATTTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 4 0.14
6 5 0.17
7 17 0.59
8 3 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTATT
Found at i:4398366 original size:19 final size:19
Alignment explanation
Indices: 4398342--4398382 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4398332 TAATATATTA
*
4398342 TTTATTA-TTATTTATTTAT
1 TTTATTATTTA-TTATTCAT
4398361 TTTATTATTTATTATTCAT
1 TTTATTATTTATTATTCAT
4398380 TTT
1 TTT
4398383 TTTCCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTATTATTTATTATTCAT
Found at i:4398397 original size:26 final size:26
Alignment explanation
Indices: 4398337--4398390 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4398327 AATGATAATA
*
4398337 TATTATTTATTATTATTTATTTATTT
1 TATTATTTATTATTATTTATTTACTT
* *
4398363 TATTATTTATTATTCATTTTTTTCCTT
1 TATTATTTATTATT-ATTTATTTACTT
4398390 T
1 T
4398391 TTGTTTAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (26 bp):
TATTATTTATTATTATTTATTTACTT
Found at i:4402019 original size:16 final size:16
Alignment explanation
Indices: 4401998--4402030 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4401988 TGTAGATCAA
4401998 AAAGATTAGTAGACAT
1 AAAGATTAGTAGACAT
4402014 AAAGATTAGTAGACAT
1 AAAGATTAGTAGACAT
4402030 A
1 A
4402031 CGCTGATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
AAAGATTAGTAGACAT
Found at i:4408630 original size:24 final size:24
Alignment explanation
Indices: 4408598--4408652 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
4408588 TATCAAGTTC
* *
4408598 AACTCGAACTCGAAAATATATTGA
1 AACTCGAACTCAAAAAAATATTGA
* *
4408622 AACTTGAACTCAAAAAAATTTTGA
1 AACTCGAACTCAAAAAAATATTGA
*
4408646 AGCTCGA
1 AACTCGA
4408653 TTGAAGCCTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (24 bp):
AACTCGAACTCAAAAAAATATTGA
Found at i:4414736 original size:26 final size:27
Alignment explanation
Indices: 4414693--4414746 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
4414683 AATCAATTTG
4414693 ACCACCGAACTTTCAATTGAATCAATC
1 ACCACCGAACTTTCAATTGAATCAATC
* *
4414720 ACCACC-AACTTTTAATTGATTCAATC
1 ACCACCGAACTTTCAATTGAATCAATC
4414746 A
1 A
4414747 AACTACTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.30
Consensus pattern (27 bp):
ACCACCGAACTTTCAATTGAATCAATC
Found at i:4417671 original size:6 final size:6
Alignment explanation
Indices: 4417660--4417750 Score: 147
Period size: 6 Copynumber: 16.0 Consensus size: 6
4417650 CAAAATCGCA
4417660 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
4417708 ACGACC ACGACC ACGACC -CGACC -CGACC -CGACC -CGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
4417751 CGAGACGAGA
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 25 0.29
6 60 0.71
ACGTcount: A:0.30, C:0.53, G:0.18, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:4418443 original size:6 final size:6
Alignment explanation
Indices: 4418432--4418486 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
4418422 TCTCGTCTCG
4418432 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
4418480 GGTCGT G
1 GGTCGT G
4418487 TGGTCTGGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:4418629 original size:20 final size:19
Alignment explanation
Indices: 4418604--4418657 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
4418594 TGGAAGCTCG
*
4418604 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTT-AA
4418624 CGTTGCGATTTTCCTTTTAA
1 CGTTGCGATTTT-CTTTTAA
4418644 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
4418658 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 2 0.06
20 25 0.78
21 5 0.16
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (19 bp):
CGTTGCGATTTTCTTTTAA
Found at i:4418684 original size:19 final size:20
Alignment explanation
Indices: 4418644--4418694 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
4418634 TTCCTTTTAA
*
4418644 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
4418664 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
4418683 CGTTGCGATTTT
1 CGTTGCGATTTT
4418695 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:4420881 original size:21 final size:21
Alignment explanation
Indices: 4420834--4420887 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
4420824 TTGATGTCTT
* *
4420834 CTGAGATTGGATTGGTGCTAC
1 CTGAGGTTGGATTGGCGCTAC
* *
4420855 CTGAGGTTGGGTTGGCGTTAC
1 CTGAGGTTGGATTGGCGCTAC
*
4420876 CTGAGGCTGGAT
1 CTGAGGTTGGAT
4420888 CAATATTACC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.39, T:0.31
Consensus pattern (21 bp):
CTGAGGTTGGATTGGCGCTAC
Found at i:4433068 original size:16 final size:16
Alignment explanation
Indices: 4433047--4433083 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4433037 AATATTATAG
*
4433047 AATATTGTTAAGGAAC
1 AATATTGTTAAAGAAC
4433063 AATATTGTTAAAGAAC
1 AATATTGTTAAAGAAC
4433079 AATAT
1 AATAT
4433084 CATAGAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (16 bp):
AATATTGTTAAAGAAC
Found at i:4442182 original size:25 final size:25
Alignment explanation
Indices: 4442154--4442202 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
4442144 AATGAAGAAT
4442154 GTGGGTCGAAATTATACCTACACAG
1 GTGGGTCGAAATTATACCTACACAG
4442179 GTGGGTCGAAATTATACCTACACA
1 GTGGGTCGAAATTATACCTACACA
4442203 AATTAGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
GTGGGTCGAAATTATACCTACACAG
Found at i:4445060 original size:161 final size:159
Alignment explanation
Indices: 4444796--4445102 Score: 406
Period size: 161 Copynumber: 1.9 Consensus size: 159
4444786 AATAAAAGAT
* * * * *
4444796 TCTCTTTTCAAAGGCTTAATTATAAAATAAGTATCTAAACTAAATCGATTTCATAATAAGTGTTC
1 TCTCTTTTCAAAGGCTTAACTATAAAAT-AGTATATAAACTAAATCCATTTCAAAATAAGTGTCC
* * * *
4444861 AACTATTTTTTGAATCATCTAGGTGTCTAATGTTACAAACGTTAATATTTTAGGTGCCCGCAATG
65 AACTATTTTTTGAATAATCTAGGTGTCTAACGTTACAAACGTTAACATTTTAGGTGCCCGCAACG
4444926 TAATAGA-CATTAAAAAAACCCCGTGAAGCC
130 TAAT-GACCATTAAAAAAACCCCGTGAAGCC
* *
4444956 TCTCTTTTCAAAGGCTTAACTATAAAAT-GTGTATAAACTAAA-CCACTTTTCACAAATAGGTGT
1 TCTCTTTTCAAAGGCTTAACTATAAAATAGTATATAAACTAAATCCA--TTTCA-AAATAAGTGT
* *
4445019 CCAAACTATTTTTTGAATAAT-TCAGGTGTCTAACGTTACAAAGGTTAACATTTTAGGTGCCCGT
63 CC-AACTATTTTTTGAATAATCT-AGGTGTCTAACGTTACAAACGTTAACATTTTAGGTGCCCGC
4445083 AACGTAATGACCATTAAAAA
126 AACGTAATGACCATTAAAAA
4445103 TTCCGTAAGT
Statistics
Matches: 128, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
157 2 0.02
158 12 0.09
159 5 0.04
160 39 0.30
161 70 0.55
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (159 bp):
TCTCTTTTCAAAGGCTTAACTATAAAATAGTATATAAACTAAATCCATTTCAAAATAAGTGTCCA
ACTATTTTTTGAATAATCTAGGTGTCTAACGTTACAAACGTTAACATTTTAGGTGCCCGCAACGT
AATGACCATTAAAAAAACCCCGTGAAGCC
Found at i:4449398 original size:21 final size:23
Alignment explanation
Indices: 4449374--4449417 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
4449364 CTAAATAATA
*
4449374 TATTTAAAAAAAT-AT-TAATTG
1 TATTCAAAAAAATAATCTAATTG
*
4449395 TATTCAATAAAATAATCTAATTG
1 TATTCAAAAAAATAATCTAATTG
4449418 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (23 bp):
TATTCAAAAAAATAATCTAATTG
Found at i:4460293 original size:16 final size:18
Alignment explanation
Indices: 4460272--4460305 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4460262 AAATATCTAA
4460272 TAAAT-ATTT-ATATTTT
1 TAAATAATTTAATATTTT
4460288 TAAATAATTTAATATTTT
1 TAAATAATTTAATATTTT
4460306 GGCCACTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 4 0.25
18 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TAAATAATTTAATATTTT
Found at i:4469405 original size:23 final size:25
Alignment explanation
Indices: 4469365--4469414 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
4469355 GTGCGTAAAA
4469365 TATACTTTAGATTGTTTTA-AAATT
1 TATACTTTAGATTGTTTTATAAATT
* *
4469389 TATA-TTTAGTTTTTTTTATAAATT
1 TATACTTTAGATTGTTTTATAAATT
4469413 TA
1 TA
4469415 AATATAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (25 bp):
TATACTTTAGATTGTTTTATAAATT
Found at i:4469788 original size:60 final size:59
Alignment explanation
Indices: 4469676--4469811 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
4469666 ATATGCCCCT
4469676 AAACTATGACCCTCATTTCAAATTAGTCCTTAAACTTTTAAAAGTTCAAATTTCATCATC
1 AAACTATGACCCTCATTTCAAATTAGTCCTTAAACTTTTAAAAG-TCAAATTTCATCATC
* * * * *
4469736 AAACTATGAGCCTCA-TTCTAAATTAGTCTTTAAACTTTTGAACAA-TCCAATTTCATCCTT
1 AAACTATGACCCTCATTTC-AAATTAGTCCTTAAACTTTT-AA-AAGTCAAATTTCATCATC
* *
4469796 AAACTACGACTCTCAT
1 AAACTATGACCCTCAT
4469812 GTTGAATTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 3 0.05
60 57 0.89
61 2 0.03
62 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (59 bp):
AAACTATGACCCTCATTTCAAATTAGTCCTTAAACTTTTAAAAGTCAAATTTCATCATC
Found at i:4470161 original size:60 final size:59
Alignment explanation
Indices: 4469998--4470166 Score: 141
Period size: 60 Copynumber: 2.8 Consensus size: 59
4469988 GATAAAATTA
* * *
4469998 AAATGTTCAAAAAGTTTAGGG-ATCAATTTAGAATGAAGATCATAGTTTGGGGATGAAAATG
1 AAATGTT--AAAAGATTAGGGAAT-AATTTAGAATGAAGATCATAATTTAGGGATGAAAATG
* * * * *
4470059 AAATGTTCAGA-ATTATGAGGACA-AATTTAGAATGATA-TTCATATTTTAGGGATGAAATTAG
1 AAATGTTAAAAGATTA-G-GGA-ATAATTTAGAATGA-AGATCATAATTTAGGGATGAAAAT-G
*
4470120 AATAT-TTAAAAGATTAGGGAATAATTTAGAATGAAGGTCATAATTTA
1 AA-ATGTTAAAAGATTAGGGAATAATTTAGAATGAAGATCATAATTTA
4470167 AGGACGTGAT
Statistics
Matches: 87, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
58 3 0.03
59 5 0.06
60 56 0.64
61 16 0.18
62 7 0.08
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.33
Consensus pattern (59 bp):
AAATGTTAAAAGATTAGGGAATAATTTAGAATGAAGATCATAATTTAGGGATGAAAATG
Found at i:4475799 original size:2 final size:2
Alignment explanation
Indices: 4475792--4475824 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4475782 GTTTACCCTT
4475792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4475825 GATAAACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4479387 original size:17 final size:17
Alignment explanation
Indices: 4479350--4479421 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 17
4479340 ATAAATATAC
4479350 TAAT-AATAATT-AATA
1 TAATAAATAATTAAATA
*
4479365 -ATATAAATTATTAAATA
1 TA-ATAAATAATTAAATA
* *
4479382 TAATAAACAATTAAAACA
1 TAATAAATAATT-AAATA
*
4479400 TAAT-AATAAATAAATA
1 TAATAAATAATTAAATA
4479416 TAATAA
1 TAATAA
4479422 TTAAAATATA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
14 1 0.02
15 2 0.05
16 14 0.32
17 18 0.41
18 9 0.20
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATAAATAATTAAATA
Found at i:4487890 original size:2 final size:2
Alignment explanation
Indices: 4487883--4487916 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4487873 ACATAAATAA
4487883 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
4487917 TTAAAGTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4489112 original size:2 final size:2
Alignment explanation
Indices: 4489043--4489103 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
4489033 ATGATCCTTT
4489043 TA TA TA TA TA TA TA TA TA TA T- 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 TA TA TA TA TA
4489084 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
4489104 CACATATATG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4498021 original size:2 final size:2
Alignment explanation
Indices: 4498014--4498041 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4498004 ACATAAATAA
4498014 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
4498042 TTAAAGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4499250 original size:2 final size:2
Alignment explanation
Indices: 4499184--4499241 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
4499174 ATGATCCTTT
4499184 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4499226 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
4499242 CACATATATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4505676 original size:37 final size:36
Alignment explanation
Indices: 4505614--4505732 Score: 161
Period size: 35 Copynumber: 3.3 Consensus size: 36
4505604 ATCCCATTAT
* *
4505614 CATTTTTC-AACAAACATCTATCAAACTTTGAAAAA
1 CATTTTTCAAACAAACATTTACCAAACTTTGAAAAA
*
4505649 CTATTTTTCAAATAAACATTTACCAAACTTTGAAAAA
1 C-ATTTTTCAAACAAACATTTACCAAACTTTGAAAAA
* *
4505686 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAACAAACATTTACCAAACTTTGAAAAA
4505721 CATTTTTACAAA
1 CATTTTT-CAAA
4505733 GTTGGTTACC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 34 0.45
36 12 0.16
37 29 0.39
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (36 bp):
CATTTTTCAAACAAACATTTACCAAACTTTGAAAAA
Found at i:4505688 original size:21 final size:21
Alignment explanation
Indices: 4505662--4505725 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
4505652 TTTTTCAAAT
4505662 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTGAA
*
4505683 AAACATTT-TCAAA----G--
1 AAACATTTACCAAACTTTGAA
4505697 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTGAA
*
4505718 AATCATTT
1 AAACATTT
4505726 TTACAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
14 8 0.24
15 4 0.12
16 1 0.03
19 1 0.03
20 4 0.12
21 15 0.45
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (21 bp):
AAACATTTACCAAACTTTGAA
Found at i:4509820 original size:16 final size:16
Alignment explanation
Indices: 4509796--4509828 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4509786 TATCGCCGAC
*
4509796 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
4509812 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
4509828 C
1 C
4509829 ATGAATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:4510296 original size:37 final size:36
Alignment explanation
Indices: 4510237--4510355 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
4510227 ATCCCATTAT
* *
4510237 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAATAAACATTTACCAAACTTTGAAAAA
4510272 CTATTTTTCAAATAAACATTTACCAAACTTTGAAAAA
1 C-ATTTTTCAAATAAACATTTACCAAACTTTGAAAAA
*
4510309 CA-TTTTCAAATAAACATTTACCAAACTTTGAAAAT
1 CATTTTTCAAATAAACATTTACCAAACTTTGAAAAA
4510344 CATTTTTTCAAA
1 CA-TTTTTCAAA
4510356 GTTGGTTACC
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
35 35 0.45
36 8 0.10
37 34 0.44
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (36 bp):
CATTTTTCAAATAAACATTTACCAAACTTTGAAAAA
Found at i:4510311 original size:21 final size:21
Alignment explanation
Indices: 4510285--4510348 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
4510275 TTTTTCAAAT
4510285 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTGAA
*
4510306 AAACATTT-TCAAA---T---
1 AAACATTTACCAAACTTTGAA
4510320 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTGAA
*
4510341 AATCATTT
1 AAACATTT
4510349 TTTCAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
14 8 0.24
15 4 0.12
17 1 0.03
18 1 0.03
20 4 0.12
21 15 0.45
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (21 bp):
AAACATTTACCAAACTTTGAA
Found at i:4514376 original size:22 final size:22
Alignment explanation
Indices: 4514348--4514390 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4514338 TAGATGCATG
*
4514348 TATTAA-TTAATTAATTAAAACT
1 TATTAATTTAAAT-ATTAAAACT
4514370 TATTAATTTAAATATTAAAAC
1 TATTAATTTAAATATTAAAAC
4514391 GTTCATCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTAATTTAAATATTAAAACT
Found at i:4517364 original size:4 final size:4
Alignment explanation
Indices: 4517357--4517583 Score: 436
Period size: 4 Copynumber: 56.8 Consensus size: 4
4517347 CATACATACA
4517357 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4517405 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4517453 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
4517501 TATG TATG TATG TATG TATG CATG TATG TATG CATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4517549 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
4517584 ATAAATACTA
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 219 1.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:4529537 original size:5 final size:5
Alignment explanation
Indices: 4529523--4529597 Score: 77
Period size: 5 Copynumber: 15.8 Consensus size: 5
4529513 ATCAATATAC
* * *
4529523 AAAAT AAAA- ATAA- AAAAT CACAT AAAAT AAAAT AAAAT AAAAT -AAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
4529569 AAAAT CACAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
4529598 AACAATTGAT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
4 12 0.21
5 45 0.79
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:4529560 original size:33 final size:34
Alignment explanation
Indices: 4529523--4529598 Score: 138
Period size: 33 Copynumber: 2.3 Consensus size: 34
4529513 ATCAATATAC
4529523 AAAATAAAAAT-AAAAAATCACATAAAATAAAAT
1 AAAATAAAAATAAAAAAATCACATAAAATAAAAT
4529556 AAAAT-AAAATAAAAAAATCACATAAAATAAAAT
1 AAAATAAAAATAAAAAAATCACATAAAATAAAAT
4529589 AAAATAAAAA
1 AAAATAAAAA
4529599 ACAATTGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
32 5 0.12
33 32 0.78
34 4 0.10
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (34 bp):
AAAATAAAAATAAAAAAATCACATAAAATAAAAT
Found at i:4529572 original size:23 final size:23
Alignment explanation
Indices: 4529546--4529592 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4529536 AAAATCACAT
4529546 AAAATAAAATAAAATAAAATAAA
1 AAAATAAAATAAAATAAAATAAA
* *
4529569 AAAATCACATAAAATAAAATAAA
1 AAAATAAAATAAAATAAAATAAA
4529592 A
1 A
4529593 TAAAAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (23 bp):
AAAATAAAATAAAATAAAATAAA
Found at i:4533246 original size:21 final size:21
Alignment explanation
Indices: 4533203--4533246 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4533193 GATAAAAAAA
* * *
4533203 TTTATCTAAAATATTATTATT
1 TTTACCTAAAACATCATTATT
4533224 TTTACCTAAAACATCATT-TT
1 TTTACCTAAAACATCATTATT
4533244 TTT
1 TTT
4533247 CAATATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTACCTAAAACATCATTATT
Found at i:4533282 original size:30 final size:30
Alignment explanation
Indices: 4533248--4533313 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
4533238 CATTTTTTTC
* *
4533248 AATATTTTTTGATTATTTTTAACGCTTAAT
1 AATATTTTTCGATTATTTTTAACGCCTAAT
* **
4533278 AATA-TTTTCGGTTATTTTTAGTGCCTAAT
1 AATATTTTTCGATTATTTTTAACGCCTAAT
4533307 AATATTT
1 AATATTT
4533314 CCGGTCATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.55
Consensus pattern (30 bp):
AATATTTTTCGATTATTTTTAACGCCTAAT
Found at i:4533292 original size:29 final size:29
Alignment explanation
Indices: 4533260--4533339 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
4533250 TATTTTTTGA
* *
4533260 TTATTTTTAACGCTTAATAATATTTTCGG
1 TTATTTTTAACGCCTAATAATATTTCCGG
**
4533289 TTATTTTTAGTGCCTAATAATATTTCCGG
1 TTATTTTTAACGCCTAATAATATTTCCGG
* * *
4533318 TCATTTTTTAGCCCCTAATAAT
1 TTA-TTTTTAACGCCTAATAAT
4533340 GTTTTCAATC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 27 0.63
30 16 0.37
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (29 bp):
TTATTTTTAACGCCTAATAATATTTCCGG
Found at i:4537120 original size:50 final size:50
Alignment explanation
Indices: 4537051--4537206 Score: 167
Period size: 50 Copynumber: 3.1 Consensus size: 50
4537041 TTAGAAGGAA
* * *
4537051 AGCGCGCCCCCTGCACCGCGTTATATGCTGATTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGATATACGCTGATATGGCGCCACGTGGGTAT
* * * *
4537101 AGCGTGCCCCCTGCCCCGCGATATACGGTGATATGGCGTCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGATATACGCTGATATGGCGCCACGTGGGTAT
* *
4537151 AGCGCGCCCCCTG-ATCCGCGCTATAC-CTGGATAT--CTGACACGTGAGGTAT
1 AGCGCGCCCCCTGCA-CCGCGATATACGCT-GATATGGC-GCCACGTG-GGTAT
4537201 AGCGCG
1 AGCGCG
4537207 GTGCAGGGGG
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 8 0.09
50 81 0.90
ACGTcount: A:0.17, C:0.31, G:0.30, T:0.22
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGATATACGCTGATATGGCGCCACGTGGGTAT
Found at i:4537656 original size:110 final size:110
Alignment explanation
Indices: 4537463--4537684 Score: 399
Period size: 110 Copynumber: 2.0 Consensus size: 110
4537453 TGGAAATCAT
*
4537463 ATATCTCTACACTTTGCTGAAACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAATAGTAA
1 ATATCTCGACACTTTGCTGAAACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAATAGTAA
*
4537528 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
* * *
4537573 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGAAACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAATAGTAA
4537638 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
4537683 AT
1 AT
4537685 TTTTGTAATT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (110 bp):
ATATCTCGACACTTTGCTGAAACGGTAACATTTTAACGTTTTAATTTAATTTAAATTAATAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTA
Found at i:4538332 original size:35 final size:35
Alignment explanation
Indices: 4538264--4538348 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 35
4538254 ATATTTTAGT
*
4538264 TAATTTTGTTTATTACCATTTAATATTAGTTATTG
1 TAATTTTGTTTATTACCATTTAATATTACTTATTG
4538299 TAATTTTGTTATCATTTACCATTT-A-ATT-CTTATTG
1 TAATTTTGTT-T-A-TTACCATTTAATATTACTTATTG
*
4538334 TAAGTTTGTTGTATT
1 TAATTTTGTT-TATT
4538349 TAAATATCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 26 0.59
36 4 0.09
37 2 0.05
38 9 0.20
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.58
Consensus pattern (35 bp):
TAATTTTGTTTATTACCATTTAATATTACTTATTG
Found at i:4539265 original size:51 final size:50
Alignment explanation
Indices: 4539159--4539281 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 50
4539149 CGCTACGTGG
* * * *
4539159 CGTATAACGC-GTATCAGGGGGCGCGCTATACCCCACGTGTAACCCAGTCAG
1 CGTATAGCGCGGT-TCAGGGGGAGCGCTATACCCCACGTG-AACCCAATCAA
* *
4539210 CGTATAGTGCGGTTCAGGGGGAGCGCTATACTCCACGTG-ACGCCAAATCAA
1 CGTATAGCGCGGTTCAGGGGGAGCGCTATACCCCACGTGAAC-CC-AATCAA
*
4539261 CGTATAGCGCGGTGCAGGGGG
1 CGTATAGCGCGGTTCAGGGGG
4539282 CGCGTTTTCC
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
49 2 0.03
50 2 0.03
51 55 0.90
52 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.33, T:0.18
Consensus pattern (50 bp):
CGTATAGCGCGGTTCAGGGGGAGCGCTATACCCCACGTGAACCCAATCAA
Found at i:4550527 original size:20 final size:20
Alignment explanation
Indices: 4550504--4550551 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
4550494 AATCAATTTC
*
4550504 CAAATTTGCAACACAGAAGT
1 CAAATTCGCAACACAGAAGT
*
4550524 CAAATTCGCAACACATAAGT
1 CAAATTCGCAACACAGAAGT
4550544 CAAATTCG
1 CAAATTCG
4550552 TAAAGCGCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACACAGAAGT
Found at i:4550664 original size:62 final size:61
Alignment explanation
Indices: 4550579--4550834 Score: 242
Period size: 62 Copynumber: 4.2 Consensus size: 61
4550569 CACAACGCAA
* * *
4550579 TGCGATTTTGAAGAATCGTGTTGCGAATTTGAGAACCGCGTTGCGATTTTGGAGAACCGCAT
1 TGCGATTTTG-AGAATCGAGTTGCGAATTTGAAAACCGCGTTGCGATTTTGGAGAACCGCGT
* * *
4550641 TGCGATTTTAGAGAACCGAGTTGCGAATTTGAAAA-----TCGC-ATTGTGGAGAACCGCGT
1 TGCGATTTT-GAGAATCGAGTTGCGAATTTGAAAACCGCGTTGCGATTTTGGAGAACCGCGT
* * *
4550697 TGCGTTTTTGGAGAATCGCGTTGC-AATTTTGGAAAACCGCGTTGCGATTTTGAAGAACCGCGT
1 TGCGATTTT-GAGAATCGAGTTGCGAA-TTT-GAAAACCGCGTTGCGATTTTGGAGAACCGCGT
* ** * * * *
4550760 TGCGATTTTGAAAAATC-ACGTTGCGAATTTGAAAATAGCGTTGTGATTTTAGATAATCGCGT
1 TGCGATTTTG-AGAATCGA-GTTGCGAATTTGAAAACCGCGTTGCGATTTTGGAGAACCGCGT
4550822 TGCGATTTT-AGAA
1 TGCGATTTTGAGAA
4550835 ATTGTGTTAC
Statistics
Matches: 158, Mismatches: 24, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
55 2 0.01
56 38 0.24
57 8 0.05
60 3 0.02
62 68 0.43
63 37 0.23
64 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (61 bp):
TGCGATTTTGAGAATCGAGTTGCGAATTTGAAAACCGCGTTGCGATTTTGGAGAACCGCGT
Found at i:4550794 original size:119 final size:118
Alignment explanation
Indices: 4550579--4550804 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 118
4550569 CACAACGCAA
* * *
4550579 TGCGATTTTGAAGAATCGTGTTGCGAATTTGAGAACCGCGTTGCGATTTTGGAGAACCGCATTGC
1 TGCGATTTTGAAGAATCGCGTTGCGAATTTGAAAACCGCGTTGCGATTTTGAAGAACCGCATTGC
* *
4550644 GATTTTAGAGAACCGAGTTGCGAATTTGAAAATCGCATTGTGGAGAACCGCGT
66 GATTTTAGAAAACCGAGTTGCGAATTTGAAAATAGCATTGTGGAGAACCGCGT
* * *
4550697 TGCGTTTTTGGAGAATCGCGTTGC-AATTTTGGAAAACCGCGTTGCGATTTTGAAGAACCGCGTT
1 TGCGATTTTGAAGAATCGCGTTGCGAA-TTT-GAAAACCGCGTTGCGATTTTGAAGAACCGCATT
* *
4550761 GCGATTTT-GAAAAATC-ACGTTGCGAATTTGAAAATAGCGTTGTG
64 GCGATTTTAG-AAAACCGA-GTTGCGAATTTGAAAATAGCATTGTG
4550805 ATTTTAGATA
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
117 2 0.02
118 26 0.28
119 66 0.70
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (118 bp):
TGCGATTTTGAAGAATCGCGTTGCGAATTTGAAAACCGCGTTGCGATTTTGAAGAACCGCATTGC
GATTTTAGAAAACCGAGTTGCGAATTTGAAAATAGCATTGTGGAGAACCGCGT
Found at i:4550831 original size:21 final size:20
Alignment explanation
Indices: 4550579--4550835 Score: 173
Period size: 21 Copynumber: 12.7 Consensus size: 20
4550569 CACAACGCAA
*
4550579 TGCGATTTTGAAGAATCGTGT
1 TGCGATTTTGAA-AATCGCGT
* * *
4550600 TGCGAATTTGAGAACCGCGT
1 TGCGATTTTGAAAATCGCGT
* * *
4550620 TGCGATTTTGGAGAACCGCAT
1 TGCGATTTT-GAAAATCGCGT
* * *
4550641 TGCGATTTTAGAGAACCGAGT
1 TGCGATTTT-GAAAATCGCGT
* *
4550662 TGCGAATTTGAAAATCGCAT
1 TGCGATTTTGAAAATCGCGT
* * *
4550682 T--G---TGGAGAACCGCGT
1 TGCGATTTTGAAAATCGCGT
* *
4550697 TGCGTTTTTGGAGAATCGCGT
1 TGCGATTTT-GAAAATCGCGT
* *
4550718 TGCAATTTTGGAAAACCGCGT
1 TGCGATTTT-GAAAATCGCGT
*
4550739 TGCGATTTTGAAGAACCGCGT
1 TGCGATTTTGAA-AATCGCGT
*
4550760 TGCGATTTTGAAAAATCACGT
1 TGCGATTTTG-AAAATCGCGT
* *
4550781 TGCGAATTTGAAAATAGCGT
1 TGCGATTTTGAAAATCGCGT
* *
4550801 TGTGATTTTAGATAATCGCGT
1 TGCGATTTT-GAAAATCGCGT
4550822 TGCGATTTTAGAAA
1 TGCGATTTT-GAAA
4550836 TTGTGTTACA
Statistics
Matches: 190, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
15 10 0.05
17 1 0.01
18 1 0.01
20 41 0.22
21 135 0.71
22 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGAAAATCGCGT
Found at i:4550866 original size:40 final size:40
Alignment explanation
Indices: 4550816--4550906 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
4550806 TTTTAGATAA
*
4550816 TCGCGTTGCGATTTTAGAAATTGTGTTACAAAACT-GAAGT
1 TCGCGTTGCGATTTTAGAAACTGTGTTACAAAACTAG-AGT
* * * *
4550856 TCTCGTTGCGATTTTGGAAACTGTGTTGCGAAACTAGAGT
1 TCGCGTTGCGATTTTAGAAACTGTGTTACAAAACTAGAGT
4550896 TCGCGTTGCGA
1 TCGCGTTGCGA
4550907 ATTTGTTGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.34
Consensus pattern (40 bp):
TCGCGTTGCGATTTTAGAAACTGTGTTACAAAACTAGAGT
Found at i:4551000 original size:2 final size:2
Alignment explanation
Indices: 4550993--4551018 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4550983 TTATTTTCTC
4550993 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
4551019 GAGTTAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4554567 original size:32 final size:30
Alignment explanation
Indices: 4554531--4554634 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 30
4554521 GTTTTTATTT
4554531 TAGTATTTAACTTTTGCATTTCAAAAAAAAAA
1 TAGTATTTAACTTTTGCATTTC--AAAAAAAA
*
4554563 TAGTATTTAACATTTGCATTTCAAAAAAAA
1 TAGTATTTAACTTTTGCATTTCAAAAAAAA
4554593 -A-TATTTAACTTTTGCATTT--AAAAAAA
1 TAGTATTTAACTTTTGCATTTCAAAAAAAA
4554619 TAGTATTTAACTTTTG
1 TAGTATTTAACTTTTG
4554635 ACAAAAAAAC
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.10
27 1 0.01
28 30 0.44
29 1 0.01
30 8 0.12
32 21 0.31
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (30 bp):
TAGTATTTAACTTTTGCATTTCAAAAAAAA
Found at i:4554788 original size:18 final size:19
Alignment explanation
Indices: 4554753--4554789 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4554743 CCCTTCCACT
4554753 AATATTTTAATGTTTTAAA
1 AATATTTTAATGTTTTAAA
*
4554772 AATATTTTTAT-TTTTAAA
1 AATATTTTAATGTTTTAAA
4554790 TATTTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AATATTTTAATGTTTTAAA
Found at i:4554807 original size:2 final size:2
Alignment explanation
Indices: 4554800--4554830 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4554790 TATTTAACAA
*
4554800 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4554831 CACTAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4555068 original size:17 final size:18
Alignment explanation
Indices: 4555043--4555076 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4555033 AATCTTAAAT
*
4555043 TATTAATAAAATTAATAC
1 TATTAATAAAATAAATAC
4555061 TATT-ATAAAATAAATA
1 TATTAATAAAATAAATA
4555077 AATACCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTAATAAAATAAATAC
Found at i:4559737 original size:20 final size:20
Alignment explanation
Indices: 4559643--4560011 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
4559633 GATTTTCCAT
* ** *
4559643 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
4559663 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
4559683 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4559703 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
4559723 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
4559743 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4559763 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4559783 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4559803 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
4559823 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4559843 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4559863 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4559883 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
4559903 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4559923 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4559943 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4559963 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4559983 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4560003 AATCACAAC
1 AATCGCAAC
4560012 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:4561169 original size:19 final size:19
Alignment explanation
Indices: 4561147--4561437 Score: 390
Period size: 19 Copynumber: 16.4 Consensus size: 19
4561137 CGGAAAATAC
*
4561147 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4561166 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
4561180 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4561199 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4561213 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4561232 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4561251 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
4561265 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
4561284 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4561303 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4561322 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4561341 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4561360 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4561379 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
4561393 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4561412 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
4561430 AATCGCAA
1 AATCGCAA
4561438 CGAGATAATC
Statistics
Matches: 244, Mismatches: 8, Indels: 41
0.83 0.03 0.14
Matches are distributed among these distances:
14 38 0.16
15 1 0.00
16 14 0.06
17 13 0.05
18 10 0.04
19 168 0.69
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4561193 original size:33 final size:34
Alignment explanation
Indices: 4561147--4561419 Score: 267
Period size: 33 Copynumber: 7.8 Consensus size: 34
4561137 CGGAAAATAC
* *
4561147 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
* *
4561180 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACAATGAA
4561213 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
* *
4561251 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
4561284 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
4561322 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C--AATGAA
*
4561360 AATCGCAATGCGAAATGAAAATCGCAACGAA--AG
1 AATCGCAATGCGAAATGAAAATCGCAAC-AATGAA
4561393 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
4561420 TGCGAAATGA
Statistics
Matches: 218, Mismatches: 11, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
33 109 0.50
34 1 0.00
35 8 0.04
36 6 0.03
37 1 0.00
38 93 0.43
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACAATGAA
Found at i:4561207 original size:52 final size:51
Alignment explanation
Indices: 4561147--4561457 Score: 301
Period size: 52 Copynumber: 5.9 Consensus size: 51
4561137 CGGAAAATAC
4561147 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATG-AAATCCCAACATGAAAATCGCAATGCGAAATGAA
* * * *
4561199 AATCGCAACGAGAGAATCGCAATGCGAA-ATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGA-AAT-GAAATCCCAACATGAAAATCGCAATGCGAAATGAA
* * * *
4561251 AATCGCAACGAC-AGAATCGCAATGCGAA-ATTAAAATCGCAATGCGAAATGAA
1 AATCGCAACG-CGA-AAT-GAAATCCCAACATGAAAATCGCAATGCGAAATGAA
* *
4561303 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATG-AAATCCCAA--C---ATGAAAATCGCAATGCGAAATGAA
* *
4561360 AATCGCAATGCGAAATGAAAATCGCAAC--GAAAGAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATG-AAATCCCAACATG-AA-AATCGCAATGCGAAATGAA
* * *
4561412 AATCGCAATGCGAAATGAAATCGCAACGA-GATAATCGCAATGCGAA
1 AATCGCAACGCGAAATGAAATCCCAAC-ATGAAAATCGCAATGCGAA
4561458 TTATAAACGC
Statistics
Matches: 231, Mismatches: 13, Indels: 31
0.84 0.05 0.11
Matches are distributed among these distances:
50 2 0.01
51 35 0.15
52 132 0.57
53 10 0.04
54 1 0.00
55 1 0.00
57 50 0.22
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (51 bp):
AATCGCAACGCGAAATGAAATCCCAACATGAAAATCGCAATGCGAAATGAA
Found at i:4561574 original size:19 final size:19
Alignment explanation
Indices: 4561465--4561566 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
4561455 GAATTATAAA
4561465 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4561484 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
4561504 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
4561520 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4561537 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4561556 CGCATTGCGAT
1 CGCATTGCGAT
4561567 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:4561691 original size:14 final size:14
Alignment explanation
Indices: 4561672--4561708 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4561662 CATCAATTAC
4561672 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4561686 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4561700 ACAAATCAA
1 ACAAATCAA
4561709 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4563616 original size:20 final size:19
Alignment explanation
Indices: 4563591--4563655 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
4563581 TAGTTTACTT
*
4563591 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-TAAAA
*
4563611 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTAAAA
4563629 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
4563648 TCGCAACG
1 TCGCAACG
4563656 ACAGAATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 16 0.40
19 11 0.28
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:4563650 original size:19 final size:19
Alignment explanation
Indices: 4563591--4563724 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
4563581 TAGTTTACTT
* *
4563591 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
4563611 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATGAAAA
4563629 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4563648 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4563662 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
4563681 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
4563695 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4563714 TCGCAATGCGA
1 TCGCAACGCGA
4563725 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
18 16 0.17
19 29 0.31
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4563665 original size:14 final size:14
Alignment explanation
Indices: 4563646--4563702 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4563636 GCGAAATGAA
*
4563646 AATCGCAACGACAG
1 AATCGCAACGAAAG
4563660 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
4563677 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
4563693 AATCGCAACG
1 AATCGCAACG
4563703 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4563673 original size:33 final size:33
Alignment explanation
Indices: 4563591--4563719 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
4563581 TAGTTTACTT
* * *
4563591 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAA
1 TCGCAACGCGAAA-TGAAAATCGCAA--CGAAA--GAA
*
4563629 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
*
4563662 TCGCAATGCGAAATGAAAATCGCAACGAAAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
4563695 TCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAATGAAAATCGCAA
4563720 TGCGATTTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 57 0.68
35 4 0.05
37 11 0.13
38 12 0.14
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAAAGAA
Found at i:4563742 original size:19 final size:19
Alignment explanation
Indices: 4563720--4563849 Score: 109
Period size: 19 Copynumber: 7.3 Consensus size: 19
4563710 AAAATCGCAA
4563720 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4563739 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4563753 TGCGATTTTGGTTTTCGCGT
1 TGCGATTTTGG-TTTCGCGT
**
4563773 TGCGATCCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4563787 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4563806 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4563825 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4563845 TGCGA
1 TGCGA
4563850 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
14 21 0.24
15 1 0.01
16 2 0.02
17 1 0.01
18 2 0.02
19 38 0.43
20 23 0.26
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4563774 original size:34 final size:33
Alignment explanation
Indices: 4563720--4563811 Score: 148
Period size: 34 Copynumber: 2.8 Consensus size: 33
4563710 AAAATCGCAA
*
4563720 TGCGATTTTGGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATCCTGTCGT
4563753 TGCGATTTTGGTTTTCGCGTTGCGATCCTGTCGT
1 TGCGATTTTGG-TTTCGCGTTGCGATCCTGTCGT
**
4563787 TGCGATTTTCATTTCGCGTTGCGAT
1 TGCGATTTTGGTTTCGCGTTGCGAT
4563812 TTTGGTTTCG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 25 0.45
34 30 0.55
ACGTcount: A:0.08, C:0.20, G:0.28, T:0.45
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATCCTGTCGT
Found at i:4564049 original size:90 final size:93
Alignment explanation
Indices: 4563892--4564172 Score: 495
Period size: 89 Copynumber: 3.1 Consensus size: 93
4563882 TTGAATGGAT
4563892 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4563957 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
4563985 AAATTTACTTTCAACC-AAA-ACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4564047 AGTTTAGCAGAATTGGCAGCAA-CGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4564074 -AA-TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4564136 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4564164 AAATTTACT
1 AAATTTACT
4564173 AGCAATCTAA
Statistics
Matches: 179, Mismatches: 3, Indels: 13
0.92 0.02 0.07
Matches are distributed among these distances:
87 12 0.07
88 9 0.05
89 64 0.36
90 50 0.28
91 20 0.11
92 8 0.04
93 16 0.09
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Done.