Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 17 of 130
Found at i:4735927 original size:34 final size:33
Alignment explanation
Indices: 4735849--4735928 Score: 78
Period size: 34 Copynumber: 2.5 Consensus size: 33
4735839 AATGAAGATC
*
4735849 TATT-TATA-TTAATATAAATATTAAGTATAAA
1 TATTATATATTTAATATAAATATTAAATATAAA
**
4735880 TATTA-ACCCTTTAATCA-AAATAATTAAATATAAA
1 TATTATA-TATTTAAT-ATAAAT-ATTAAATATAAA
4735914 TATTATATATTTAAT
1 TATTATATATTTAAT
4735929 TTTAATTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
31 5 0.13
33 9 0.24
34 23 0.61
35 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (33 bp):
TATTATATATTTAATATAAATATTAAATATAAA
Found at i:4737961 original size:28 final size:30
Alignment explanation
Indices: 4737896--4737978 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
4737886 AATAATTAAA
*
4737896 ATATTTAAA-AACTTTTAACTTTTATCATT
1 ATATTTAAATAAATTTTAACTTTTATCATT
*
4737925 TTATTTAAATAAATTTTATAC-TTT-T-ATT
1 ATATTTAAATAAATTTTA-ACTTTTATCATT
* *
4737953 ATATTTAAATAATTTTTTAATTTTTA
1 ATATTTAAATAA-ATTTTAACTTTTA
4737979 ATTTATAACA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
28 15 0.34
29 17 0.39
30 10 0.23
31 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (30 bp):
ATATTTAAATAAATTTTAACTTTTATCATT
Found at i:4738052 original size:23 final size:23
Alignment explanation
Indices: 4738032--4738076 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4738022 TATGTTAATT
*
4738032 ATTTATTTAAGTATAAATTAAAA
1 ATTTATTTAAATATAAATTAAAA
4738055 ATTTATTTAAATATAAATTAAA
1 ATTTATTTAAATATAAATTAAA
4738077 GTATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTATTTAAATATAAATTAAAA
Found at i:4738100 original size:30 final size:30
Alignment explanation
Indices: 4738046--4738118 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
4738036 ATTTAAGTAT
* *
4738046 AAAT-TAAAAATTTATTTAAATATAAATTA
1 AAATATAAAAATTAATTTAAATATAAAATA
* * *
4738075 AAGTATAAATATTAATTTGAATATAAAATA
1 AAATATAAAAATTAATTTAAATATAAAATA
4738105 AAATATAAAAATTA
1 AAATATAAAAATTA
4738119 GTTAAGTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATATAAAAATTAATTTAAATATAAAATA
Found at i:4738154 original size:16 final size:17
Alignment explanation
Indices: 4738111--4738157 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
4738101 AATAAAATAT
4738111 AAAAATTAGTTAAGTAAA
1 AAAAATTA-TTAAGTAAA
*
4738129 AAAATTATTATTTAG-AAA
1 AAAA--ATTATTAAGTAAA
4738147 AAAAATTATTA
1 AAAAATTATTA
4738158 TTTTAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 6 0.24
18 11 0.44
19 4 0.16
20 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
AAAAATTATTAAGTAAA
Found at i:4749917 original size:2 final size:2
Alignment explanation
Indices: 4749912--4749938 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4749902 GAGAACACAC
4749912 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4749939 AGAACAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4774045 original size:5 final size:5
Alignment explanation
Indices: 4774035--4774063 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4774025 AAAGCATAAT
4774035 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
4774064 TATAGTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:4777663 original size:25 final size:25
Alignment explanation
Indices: 4777635--4777684 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4777625 AATTGCGCCT
*
4777635 AATGCTTCAAAGATTACAAGACCAC
1 AATGCTTCAAAGATTACAAAACCAC
4777660 AATGCTTCAAAGATTACAAAACCAC
1 AATGCTTCAAAGATTACAAAACCAC
4777685 CAGTTATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (25 bp):
AATGCTTCAAAGATTACAAAACCAC
Found at i:4790850 original size:16 final size:16
Alignment explanation
Indices: 4790807--4790852 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4790797 TTTTATTTAA
*
4790807 TATATTTA-AATA-GT
1 TATATTTATAATATAT
*
4790821 TATATATATAAATATAT
1 TATATTTAT-AATATAT
4790838 TATATTTATAATATA
1 TATATTTATAATATA
4790853 ACATAGAGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 7 0.27
16 10 0.38
17 9 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TATATTTATAATATAT
Found at i:4808373 original size:14 final size:14
Alignment explanation
Indices: 4808354--4808380 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4808344 ACAAACAAAC
4808354 TAACTTTAATAAAG
1 TAACTTTAATAAAG
4808368 TAACTTTAATAAA
1 TAACTTTAATAAA
4808381 AAGGATGGAA
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:0.07, G:0.04, T:0.37
Consensus pattern (14 bp):
TAACTTTAATAAAG
Found at i:4808627 original size:14 final size:14
Alignment explanation
Indices: 4808593--4808627 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4808583 AAAATAAACA
*
4808593 AATAAACTAACTTT
1 AATAAAGTAACTTT
4808607 AATAAAGTAACTTT
1 AATAAAGTAACTTT
4808621 AATAAAG
1 AATAAAG
4808628 AGAAGGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (14 bp):
AATAAAGTAACTTT
Found at i:4808653 original size:246 final size:245
Alignment explanation
Indices: 4808214--4808689 Score: 704
Period size: 246 Copynumber: 1.9 Consensus size: 245
4808204 GAGAGTTTAT
* *
4808214 GAGATTTGGATCTTATGCTTTCTTTATGAAGGAATTAAAACTTATATGATATGGAAAAATTAAAG
1 GAGATCTGGATCTTATGCTTTCTTTATGAAGGAATTAAAACTTATATAATATGGAAAAATTAAAG
* * * * * *
4808279 AATAGGACCAAACATGACGAGGGGGTTTCTGATAAAGATATAAAGTAAAGCACCTTTGAAAATAA
66 AATAGGACCAAACATGACGAGAGGCTCTATGATAAAGACATAAAGTAAAACACCTTTGAAAATAA
* *
4808344 ACAAACAAACTAACTTTAATAAAGTAACTTTAATAAAAAGGATGGAATATTCTTTATCAAAGTTG
131 ACAAACAAACTAACTTTAATAAAGTAACTTTAATAAAAAGAAGGGAATATTCTTTATCAAAGTTG
* *
4808409 ATTTAATAAAGCTGATATAAAGTTGACATAGAATTAATGAGCTTGAAGTG
196 ATTTAATAAAGCTGATATAAAGCTGACATAAAATTAATGAGCTTGAAGTG
* * *
4808459 GAGATCTGGATCTTATGCCTTTC-TTATGAAGGAATTACAAGTTATGTAAATATGGAAAAA-TAA
1 GAGATCTGGATCTTATG-CTTTCTTTATGAAGGAATTAAAACTTATAT-AATATGGAAAAATTAA
* * * *
4808522 AGGTATAGGACCAAACATGACTAGAGGCTCTATGATAAAGACGTAAAGTAAAACACTTTTGAAAA
64 A-GAATAGGACCAAACATGACGAGAGGCTCTATGATAAAGACATAAAGTAAAACACCTTTGAAAA
* * *
4808587 TAAACAAATAAACTAACTTTAATAAAGTAACTTTAATAAAGAGAAGGGAATCTTCTTTATCAAAG
128 TAAACAAACAAACTAACTTTAATAAAGTAACTTTAATAAAAAGAAGGGAATATTCTTTATCAAAG
*
4808652 TTGTTTTAATAAAGCTGATATAAAGCTGACATAAAATT
193 TTGATTTAATAAAGCTGATATAAAGCTGACATAAAATT
4808690 GACAAGCTTG
Statistics
Matches: 205, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
245 41 0.20
246 164 0.80
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (245 bp):
GAGATCTGGATCTTATGCTTTCTTTATGAAGGAATTAAAACTTATATAATATGGAAAAATTAAAG
AATAGGACCAAACATGACGAGAGGCTCTATGATAAAGACATAAAGTAAAACACCTTTGAAAATAA
ACAAACAAACTAACTTTAATAAAGTAACTTTAATAAAAAGAAGGGAATATTCTTTATCAAAGTTG
ATTTAATAAAGCTGATATAAAGCTGACATAAAATTAATGAGCTTGAAGTG
Found at i:4818239 original size:19 final size:19
Alignment explanation
Indices: 4818197--4818236 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
4818187 ATTTATTAAC
*
4818197 AATTTTTATATAATAAATA
1 AATTTTTAAATAATAAATA
*
4818216 AATTTTATAAATATTAAATA
1 AATTTT-TAAATAATAAATA
4818236 A
1 A
4818237 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTTTAAATAATAAATA
Found at i:4829301 original size:15 final size:15
Alignment explanation
Indices: 4829281--4829312 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4829271 AAGAACTTAG
4829281 ATTCTTATTAACTGT
1 ATTCTTATTAACTGT
4829296 ATTCTTATTAACTGT
1 ATTCTTATTAACTGT
4829311 AT
1 AT
4829313 GCACCCGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTCTTATTAACTGT
Found at i:4837970 original size:30 final size:28
Alignment explanation
Indices: 4837926--4837995 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
4837916 ATAAAGTCAA
*
4837926 TAAATA-AAT-TTTAAATTATAATAATATG
1 TAAATATAATATTTAAATT-TAA-AAAATG
*
4837954 TAAATATAATATTTAAATTTAAAAAATT
1 TAAATATAATATTTAAATTTAAAAAATG
*
4837982 TTAATATAATATTT
1 TAAATATAATATTT
4837996 GACTTATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 23 0.62
29 6 0.16
30 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
TAAATATAATATTTAAATTTAAAAAATG
Found at i:4838632 original size:28 final size:28
Alignment explanation
Indices: 4838587--4838643 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4838577 AGTAATAAAA
* *
4838587 TTATTATAATAATAATTAATAAAATTTT
1 TTATTATAATAATAATTAAAAAAAATTT
* *
4838615 TTATTATAATTATGATTAAAAAAAATTT
1 TTATTATAATAATAATTAAAAAAAATTT
4838643 T
1 T
4838644 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
TTATTATAATAATAATTAAAAAAAATTT
Found at i:4838645 original size:12 final size:13
Alignment explanation
Indices: 4838630--4838672 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
4838620 ATAATTATGA
4838630 TTAA-AAAAAATT
1 TTAATAAAAAATT
4838642 TTAATAAAAAATT
1 TTAATAAAAAATT
*
4838655 TATATTAAATAAATT
1 T-TAATAAA-AAATT
4838670 TTA
1 TTA
4838673 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 4 0.15
13 9 0.33
14 8 0.30
15 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TTAATAAAAAATT
Found at i:4838674 original size:14 final size:14
Alignment explanation
Indices: 4838637--4838679 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
4838627 TGATTAAAAA
*
4838637 AAATTTTAATAAA-
1 AAATTTTATTAAAT
4838650 AAATTTATATTAAAT
1 AAATTT-TATTAAAT
4838665 AAATTTTATTTAAAT
1 AAATTTTA-TTAAAT
4838680 TTAATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.23
14 8 0.31
15 12 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTTTATTAAAT
Found at i:4839081 original size:26 final size:23
Alignment explanation
Indices: 4839033--4839087 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
4839023 AACTCAAACT
*
4839033 TATTT-TATTATATAAATTTAAA
1 TATTTATATCATATAAATTTAAA
4839055 TATTTATATCATATAAAATATTAAA
1 TATTTATATCATAT-AAAT-TTAAA
4839080 -ATTTATAT
1 TATTTATAT
4839088 ATTTATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 5 0.17
23 7 0.24
24 12 0.41
25 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTTATATCATATAAATTTAAA
Found at i:4839113 original size:32 final size:32
Alignment explanation
Indices: 4839032--4839144 Score: 108
Period size: 32 Copynumber: 3.6 Consensus size: 32
4839022 TAACTCAAAC
* * *
4839032 TTAT-TTTATTATATAAATTTAAATATTTATA
1 TTATATTTAATATAAAAATTTATATATTTATA
* ** *
4839063 TCATATAAAATATTAAAATTTATATATTTATA
1 TTATATTTAATATAAAAATTTATATATTTATA
*
4839095 TTATATTTTATATAAAAA-TTATATA-TTATAA
1 TTATATTTAATATAAAAATTTATATATTTAT-A
4839126 TT-TATATTAATATAAAAAT
1 TTATAT-TTAATATAAAAAT
4839145 ATAAAATATT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
30 7 0.11
31 24 0.37
32 34 0.52
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
TTATATTTAATATAAAAATTTATATATTTATA
Found at i:4839139 original size:20 final size:19
Alignment explanation
Indices: 4839082--4839138 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
4839072 ATATTAAAAT
*
4839082 TTATATATTTATATTATATT
1 TTATA-ATTTATATTATATA
** *
4839102 TTAT-ATAAAAATTATATA
1 TTATAATTTATATTATATA
4839120 TTATAATTTATATTA-ATA
1 TTATAATTTATATTATATA
4839138 T
1 T
4839139 AAAAATATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 18 0.62
19 7 0.24
20 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATAATTTATATTATATA
Found at i:4842849 original size:31 final size:31
Alignment explanation
Indices: 4842811--4842880 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
4842801 TCCTTACAAC
4842811 CTGAAGAAGGTTTGAGAAATTGTTTGGTGAT
1 CTGAAGAAGGTTTGAGAAATTGTTTGGTGAT
4842842 CTGAAGAAGGTTTGAGAAATTGTTTGGTGAT
1 CTGAAGAAGGTTTGAGAAATTGTTTGGTGAT
4842873 CTGAAGAA
1 CTGAAGAA
4842881 TGTTCCTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.33
Consensus pattern (31 bp):
CTGAAGAAGGTTTGAGAAATTGTTTGGTGAT
Found at i:4851702 original size:40 final size:40
Alignment explanation
Indices: 4851647--4851727 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
4851637 CTATCTCGGG
*
4851647 ACACCCCGGAGGCATCAGGATATTCCAGATTCTTAAGCCT
1 ACACCCCGGAGGCATCAGGATATTCCAGATTCTTAAACCT
*
4851687 ACACCCTGGAGGCATCAGGATATTCCAGATTCTTAAACCT
1 ACACCCCGGAGGCATCAGGATATTCCAGATTCTTAAACCT
4851727 A
1 A
4851728 TACGAGTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
ACACCCCGGAGGCATCAGGATATTCCAGATTCTTAAACCT
Found at i:4858279 original size:3 final size:3
Alignment explanation
Indices: 4858271--4858298 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4858261 CAAAAAGTCC
4858271 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4858299 GAAGAAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4858303 original size:3 final size:3
Alignment explanation
Indices: 4858297--4858328 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4858287 TAATAATAAT
4858297 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
4858329 AACATACCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:4858853 original size:43 final size:43
Alignment explanation
Indices: 4858805--4858889 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
4858795 AATGATGTAT
4858805 TATAATTTATACTAATATAAAAATATAAAATATAATTTTTTAA
1 TATAATTTATACTAATATAAAAATATAAAATATAATTTTTTAA
4858848 TATAATTTATACTAATATAAAAATATAAAATATAATTTTTTA
1 TATAATTTATACTAATATAAAAATATAAAATATAATTTTTTA
4858890 TCTTATTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (43 bp):
TATAATTTATACTAATATAAAAATATAAAATATAATTTTTTAA
Found at i:4858865 original size:15 final size:15
Alignment explanation
Indices: 4858805--4858867 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
4858795 AATGATGTAT
4858805 TATAATTTATACTAA
1 TATAATTTATACTAA
** *
4858820 TATAAAAATATA-AAA
1 TAT-AATTTATACTAA
*
4858835 TATAATTT-T-TTAA
1 TATAATTTATACTAA
4858848 TATAATTTATACTAA
1 TATAATTTATACTAA
4858863 TATAA
1 TATAA
4858868 AAATATAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
13 11 0.30
14 4 0.11
15 16 0.43
16 6 0.16
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATTTATACTAA
Found at i:4858964 original size:20 final size:21
Alignment explanation
Indices: 4858936--4858990 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
4858926 TAAATTATAT
*
4858936 TATTTTTATATTTTTA-TTTA
1 TATTATTATATTTTTAGTTTA
*
4858956 TATTATTATA-TTATAGTTTA
1 TATTATTATATTTTTAGTTTA
* *
4858976 AATTATTAAATTTTT
1 TATTATTATATTTTT
4858991 TGCTGTTTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.14
20 21 0.75
21 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTATTATATTTTTAGTTTA
Found at i:4859663 original size:25 final size:27
Alignment explanation
Indices: 4859626--4859695 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 27
4859616 TATAATAATT
*
4859626 ATATAAAAATTTATATATATTT-TA-AA
1 ATAT-AAATTTTATATATATTTGTATAA
* * *
4859652 ATATATATTTTATATTTATTTGTATTA
1 ATATAAATTTTATATATATTTGTATAA
4859679 ATATAAATTTTA-ATATA
1 ATATAAATTTTATATATA
4859696 ACATAATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 14 0.39
26 10 0.28
27 12 0.33
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (27 bp):
ATATAAATTTTATATATATTTGTATAA
Found at i:4860313 original size:15 final size:15
Alignment explanation
Indices: 4860293--4860330 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4860283 GGTATCAATA
4860293 TATATTTATATTAT-T
1 TATATTTAT-TTATAT
4860308 TATATTTATTTATAT
1 TATATTTATTTATAT
*
4860323 CATATTTA
1 TATATTTA
4860331 AATAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTTATTTATAT
Found at i:4860316 original size:10 final size:10
Alignment explanation
Indices: 4860290--4860322 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4860280 ATAGGTATCA
*
4860290 ATATATATTT
1 ATATTTATTT
4860300 ATA-TTATTT
1 ATATTTATTT
4860309 ATATTTATTT
1 ATATTTATTT
4860319 ATAT
1 ATAT
4860323 CATATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATATTTATTT
Found at i:4860432 original size:18 final size:17
Alignment explanation
Indices: 4860396--4860452 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
4860386 AATCATATCA
* *
4860396 TAATCATACTTAAAATT
1 TAATCATATTTATAATT
4860413 TAATCATATTTTATAATT
1 TAATCATA-TTTATAATT
* *
4860431 TATATTATATTTATATTT
1 TA-ATCATATTTATAATT
4860449 TAAT
1 TAAT
4860453 AATTCGTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.29
18 19 0.56
19 5 0.15
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATCATATTTATAATT
Found at i:4860561 original size:15 final size:15
Alignment explanation
Indices: 4860541--4860573 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4860531 CACGTGGGAC
4860541 CAACTTGGAGTGCCG
1 CAACTTGGAGTGCCG
4860556 CAACTTGGAGTGCCG
1 CAACTTGGAGTGCCG
4860571 CAA
1 CAA
4860574 GGAGGGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.18
Consensus pattern (15 bp):
CAACTTGGAGTGCCG
Found at i:4868469 original size:20 final size:17
Alignment explanation
Indices: 4868434--4868489 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 17
4868424 ATATTTTACT
4868434 TAAAAAAATAAAAAAAA
1 TAAAAAAATAAAAAAAA
4868451 TAAAAAAATAACAACAAAAA
1 TAAAAAAAT-A-AA-AAAAA
4868471 TACAAAAAA-AAAAAGAAA
1 TA-AAAAAATAAAAA-AAA
4868489 T
1 T
4868490 GATTCAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.32
18 7 0.21
19 3 0.09
20 7 0.21
21 6 0.18
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.11
Consensus pattern (17 bp):
TAAAAAAATAAAAAAAA
Found at i:4869938 original size:110 final size:108
Alignment explanation
Indices: 4869562--4870703 Score: 986
Period size: 110 Copynumber: 10.4 Consensus size: 108
4869552 GTTATTTCTA
* * * *
4869562 TTAGTTACCCGACTTACGGTTTAATCTCAGTCACTTTTATTTTTCTAACTTGCGGTTCAGTTCCA
1 TTAGTT-CCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTCAATCCCA
* *
4869627 GTCGTCATTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
65 GTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
* * ** * * *
4869671 AT-GTTCAC-AACTTGA-GGTTTAATCTTAGTCACTTTTATTTTTTTTGACTTGCAGTTCAATCC
1 TTAGTTC-CTGACTT-ACGGTTTAATCCCAGTCACTTTTA-TTTTTCTAACTTGCGGTTCAATCC
* * * * * ** * *
4869733 CAATTATTGTTAATCTCTAACTTATGGTTTAAACCCAATCATTCCT
63 CAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
* * ** * * * *
4869779 ATAGTTTCTTGACTTAC-AATTAATCCCAGTCACTTTTATTTTTTTAACTTGCGATTCAGTCCTA
1 TTAG-TTCCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTCAATCCCA
* * *
4869843 GTCGTCGTTAATCTTTGACTCGTGGTTCAATCCCGATCATTTCT
65 GTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
*
4869887 GTTAGTTACCTGACTTACGGTTTAATCCCAGTCATTTTTATTTTTCTAACTTGCGGTTCAATCCC
1 -TTAGTT-CCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTCAATCCC
* *
4869952 AGTCATCGTTAATCTTTGACTCGTGATTTAATCTCGATCATTCCT
64 AGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
* * ** * * *
4869997 AT-GTTCCCGACTTTACAATTTAATCCTAGTCACTTTTATTTTTTTCTGACTTGCTGTTCAAT-C
1 TTAGTTCCTGAC-TTACGGTTTAATCCCAGTCACTTTTA--TTTTTCTAACTTGCGGTTCAATCC
* * * * * *
4870060 CAATCATTGTTAATCTCTGACTCATGGTTTAA-ACCTAGTCATTCCT
63 CAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTCCT
* * * * * *
4870106 ATAACTT-TTCGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTGACTTGCGGTTCATTCCT
1 -TTAGTTCCT-GACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTCAATCCC
* * *
4870170 AGTCATCGTTAATCTTTGACTCGTGGTTTAATCCTGGTCATTTCT
64 AGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
* * ** *
4870215 GTTAGTTACCTGACTTACGGTTTAATCTCAGTCACTTTTATTTTTATAACTTGCAATTCAGTCCC
1 -TTAGTT-CCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTCAATCCC
* *
4870280 AGTCGTAGTTAATCTTTGACTCGTGGTTTAATCCC-AGTCATTCCT
64 AGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTCCT
* * * *
4870325 AT-GTT-CTCGACTTGCGGTTTAATCCTAGTCACTTTTATTTTTTTTCCTGACTTGCGGTTCAAT
1 TTAGTTCCT-GACTTACGGTTTAATCCCAGTCACTTTTA---TTTTT-CTAACTTGCGGTTCAAT
* * * *
4870388 CCCAATCATTGTTAATCTTTGACTCGTGGTTTAAACCCGGTCATT-CT
61 CCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
* * * * *
4870435 TATAGCTTCCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTTTGATTTACGGTTCATTCCC
1 T-TAG-TTCCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTCAATCCC
* * * * *
4870500 AGTCATCGTTAATATTTGACTCATGATTTAATCTCGATCATTTCT
64 AGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
* ** * * * * *
4870545 ATTAGTTACTTGACTTGTGGTTTAGT-CCGGATCA-TTCTTATTTTTTTCTAACCTACGGTTCAG
1 -TTAGTT-CCTGACTTACGGTTTAATCCCAG-TCACTT-TTA--TTTTTCTAACTTGCGGTTCAA
* * * *
4870608 TCTCAGTCATCGTTAATCTCTCACTTGTGGTTTAATCCCGATCATTCCT
60 TCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
* *
4870657 ATAGTTTTCTGAC-T-CGTGATTTAATCCC-GATCACTTTTATTCTTTCT
1 TTAG-TTCCTGACTTACG-G-TTTAATCCCAG-TCACTTTTATT-TTTCT
4870704 GATTTATGGT
Statistics
Matches: 827, Mismatches: 161, Indels: 89
0.77 0.15 0.08
Matches are distributed among these distances:
106 2 0.00
107 57 0.07
108 166 0.20
109 169 0.20
110 260 0.31
111 79 0.10
112 63 0.08
113 29 0.04
114 2 0.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (108 bp):
TTAGTTCCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTCAATCCCAG
TCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCT
Found at i:4870037 original size:218 final size:216
Alignment explanation
Indices: 4869572--4870670 Score: 970
Period size: 218 Copynumber: 5.0 Consensus size: 216
4869562 TTAGTTACCC
** * * *
4869572 GACTTACGGTTTAAT-CTCAGTCACTTTTATTTTTCTAACTTGCGGTTCAGTTCCAGTCGTCATT
1 GACTTACAATTTAATCCT-AGTCACTTTTATTTTTTTAACTTGCGATTCAG-TCCAGTCGTCGTT
* * **
4869636 AATCTTTGACTCGTGGTTTAATCCCGATCATTCCTAT-GTTCAC-AACTTGA-GGTTTAATCTTA
64 AATCTTTGACTCGTGGTTTAATCCCGATCATTCCTTTAGTTC-CTGACTT-ACGGTTTAATCCCA
* * * * * * * * **
4869698 GTCACTTTTATTTTTTTTGACTTGCAGTTCAATCCCAATTATTGTTAATCTCTAACTTATGGTTT
127 GTCATTTTTA-TTTTTCTGACTTGCGGTTCAATCCCAGTCATCGTTAATCTTTGACTCGTGGTTT
* * * *
4869763 AAACCCAATCATTCCTATAGTTTCTT
191 AATCCCGATCATTCCTATAGCTTCCT
*
4869789 GACTTACAA-TTAATCCCAGTCACTTTTATTTTTTTAACTTGCGATTCAGTCCTAGTCGTCGTTA
1 GACTTACAATTTAATCCTAGTCACTTTTATTTTTTTAACTTGCGATTCAGTCC-AGTCGTCGTTA
* *
4869853 ATCTTTGACTCGTGGTTCAATCCCGATCATTTCTGTTAGTTACCTGACTTACGGTTTAATCCCAG
65 ATCTTTGACTCGTGGTTTAATCCCGATCATTCCT-TTAGTT-CCTGACTTACGGTTTAATCCCAG
* *
4869918 TCATTTTTATTTTTCTAACTTGCGGTTCAATCCCAGTCATCGTTAATCTTTGACTCGTGATTTAA
128 TCATTTTTATTTTTCTGACTTGCGGTTCAATCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAA
* *
4869983 TCTCGATCATTCCTAT-G-TTCCC
193 TCCCGATCATTCCTATAGCTTCCT
* * * * *
4870005 GACTTTACAATTTAATCCTAGTCACTTTTATTTTTTTCTGACTTGCTG-TTCAATCCAATCATTG
1 GAC-TTACAATTTAATCCTAGTCACTTTTA-TTTTTT-TAACTTGC-GATTCAGTCCAGTCGTCG
* * * * * * *
4870069 TTAATCTCTGACTCATGGTTTAA-ACCTAGTCATTCCTATAACTT-TTCGACTTACGGTTTAATC
62 TTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTCCT-TTAGTTCCT-GACTTACGGTTTAATC
* * *
4870132 CCAGTCACTTTTATTTTTCTGACTTGCGGTTCATTCCTAGTCATCGTTAATCTTTGACTCGTGGT
124 CCAGTCATTTTTATTTTTCTGACTTGCGGTTCAATCCCAGTCATCGTTAATCTTTGACTCGTGGT
* * * *
4870197 TTAATCCTGGTCATTTCTGTTAG-TTACCT
189 TTAATCCCGATCATTCCT-ATAGCTT-CCT
** * * *
4870226 GACTTACGGTTTAAT-CTCAGTCACTTTTATTTTTATAACTTGCAATTCAGTCCCAGTCGTAGTT
1 GACTTACAATTTAATCCT-AGTCACTTTTATTTTTTTAACTTGCGATTCAGT-CCAGTCGTCGTT
* * *
4870290 AATCTTTGACTCGTGGTTTAATCCC-AGTCATTCCTAT-GTT-CTCGACTTGCGGTTTAATCCTA
64 AATCTTTGACTCGTGGTTTAATCCCGA-TCATTCCTTTAGTTCCT-GACTTACGGTTTAATCCCA
* * *
4870352 GTCACTTTTATTTTTTTTCCTGACTTGCGGTTCAATCCCAATCATTGTTAATCTTTGACTCGTGG
127 GTCA--TTT-TTATTTTT-CTGACTTGCGGTTCAATCCCAGTCATCGTTAATCTTTGACTCGTGG
* * *
4870417 TTTAAACCCGGTCATTCTTATAGCTTCCT
188 TTTAATCCCGATCATTCCTATAGCTTCCT
** * * * * * * *
4870446 GACTTACGGTTTAATCCCAGTCACTTTTATTTTTTTGATTTACGGTTCATTCCCAGTCATCGTTA
1 GACTTACAATTTAATCCTAGTCACTTTTATTTTTTTAACTTGCGATTCAGT-CCAGTCGTCGTTA
* * * * * * ** * *
4870511 ATATTTGACTCATGATTTAATCTCGATCATTTCTATTAGTTACTTGACTTGTGGTTTAGT-CCGG
65 ATCTTTGACTCGTGGTTTAATCCCGATCATTCCT-TTAGTT-CCTGACTTACGGTTTAATCCCAG
* * * * * * * * *
4870575 ATCATTCTTATTTTTTTCTAACCTACGGTTCAGTCTCAGTCATCGTTAATCTCTCACTTGTGGTT
128 -TCATT-TT-TATTTTTCTGACTTGCGGTTCAATCCCAGTCATCGTTAATCTTTGACTCGTGGTT
* *
4870640 TAATCCCGATCATTCCTATAGTTTTCT
190 TAATCCCGATCATTCCTATAGCTTCCT
4870667 GACT
1 GACT
4870671 CGTGATTTAA
Statistics
Matches: 726, Mismatches: 121, Indels: 66
0.80 0.13 0.07
Matches are distributed among these distances:
215 3 0.00
216 83 0.11
217 42 0.06
218 186 0.26
219 114 0.16
220 133 0.18
221 135 0.19
222 13 0.02
223 16 0.02
224 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (216 bp):
GACTTACAATTTAATCCTAGTCACTTTTATTTTTTTAACTTGCGATTCAGTCCAGTCGTCGTTAA
TCTTTGACTCGTGGTTTAATCCCGATCATTCCTTTAGTTCCTGACTTACGGTTTAATCCCAGTCA
TTTTTATTTTTCTGACTTGCGGTTCAATCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCC
CGATCATTCCTATAGCTTCCT
Found at i:4870222 original size:328 final size:329
Alignment explanation
Indices: 4869555--4870658 Score: 1438
Period size: 328 Copynumber: 3.4 Consensus size: 329
4869545 AATCTCGGTT
* *
4869555 ATTTCTATTAGTTACCCGACTTACGGTTTAATCTCAGTCACTTTTATTTTTCTAACTTGCGGTTC
1 ATTTCTATTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTC
* * * * *
4869620 AGTTCCAGTCGTCATTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCTATGTTCACAACTTG
66 AGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCTATGTTCACGACTTT
* *
4869685 A-GGTTTAATCTTAGTCACTTTTATTTTTTT-TGACTTGCAGTTCAATCCCAATTATTGTTAATC
131 ACGGTTTAATCCTAGTCACTTTTATTTTTTTCTGACTTGCAGTTCAATCCCAATCATTGTTAATC
* * * * * **
4869748 TCTAACTTATGGTTTAAACCCAATCATTCCTAT-AGTTTCTTGACTTAC-AATTAATCCCAGTCA
196 TCTGACTCATGGTTTAAACCCAGTCATTCCTATAACTTT-TCGACTTACGGTTTAATCCCAGTCA
* * * * *
4869811 CTTTTATTTTTTTAACTTGCGATTCAGTCCTAGTCGTCGTTAATCTTTGACTCGTGGTTCAATCC
260 CTTTTATTTTTTTGACTTGCGGTTCATTCCTAGTCATCGTTAATCTTTGACTCGTGGTTTAATCC
*
4869876 CGATC
325 TGATC
* *
4869881 ATTTCTGTTAGTTACCTGACTTACGGTTTAATCCCAGTCATTTTTATTTTTCTAACTTGCGGTTC
1 ATTTCTATTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTC
* * * *
4869946 AATCCCAGTCATCGTTAATCTTTGACTCGTGATTTAATCTCGATCATTCCTATGTTCCCGACTTT
66 AGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCTATGTTCACGACTTT
** *
4870011 ACAATTTAATCCTAGTCACTTTTATTTTTTTCTGACTTGCTGTTCAAT-CCAATCATTGTTAATC
131 ACGGTTTAATCCTAGTCACTTTTATTTTTTTCTGACTTGCAGTTCAATCCCAATCATTGTTAATC
*
4870075 TCTGACTCATGGTTTAAACCTAGTCATTCCTATAACTTTTCGACTTACGGTTTAATCCCAGTCAC
196 TCTGACTCATGGTTTAAACCCAGTCATTCCTATAACTTTTCGACTTACGGTTTAATCCCAGTCAC
*
4870140 TTTTATTTTTCTGACTTGCGGTTCATTCCTAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCT
261 TTTTATTTTTTTGACTTGCGGTTCATTCCTAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCT
*
4870205 GGTC
326 GATC
* * * **
4870209 ATTTCTGTTAGTTACCTGACTTACGGTTTAATCTCAGTCACTTTTATTTTTATAACTTGCAATTC
1 ATTTCTATTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTC
* * *
4870274 AGTCCCAGTCGTAGTTAATCTTTGACTCGTGGTTTAATCCC-AGTCATTCCTATGTTCTCGAC-T
66 AGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTCCTATGTTCACGACTT
* *
4870337 TGCGGTTTAATCCTAGTCACTTTTATTTTTTTTCCTGACTTGCGGTTCAATCCCAATCATTGTTA
130 TACGGTTTAATCCTAGTCACTTTTA-TTTTTTT-CTGACTTGCAGTTCAATCCCAATCATTGTTA
* * * * * *
4870402 ATCTTTGACTCGTGGTTTAAACCCGGTCATTCTTATAGC-TTCCTGACTTACGGTTTAATCCCAG
193 ATCTCTGACTCATGGTTTAAACCCAGTCATTCCTATAACTTTTC-GACTTACGGTTTAATCCCAG
* * * * * *
4870466 TCACTTTTATTTTTTTGATTTACGGTTCATTCCCAGTCATCGTTAATATTTGACTCATGATTTAA
257 TCACTTTTATTTTTTTGACTTGCGGTTCATTCCTAGTCATCGTTAATCTTTGACTCGTGGTTTAA
4870531 T-CTCGATC
322 TCCT-GATC
* ** * * * *
4870539 ATTTCTATTAGTTACTTGACTTGTGGTTTAGT-CCGGATCA-TTCTTATTTTTTTCTAACCTACG
1 ATTTCTATTAGTTACCTGACTTACGGTTTAATCCCAG-TCACTT-TTA--TTTTTCTAACTTGCG
* * * *
4870602 GTTCAGTCTCAGTCATCGTTAATCTCTCACTTGTGGTTTAATCCCGATCATTCCTAT
62 GTTCAGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCTAT
4870659 AGTTTTCTGA
Statistics
Matches: 681, Mismatches: 82, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
326 118 0.17
327 102 0.15
328 215 0.32
329 25 0.04
330 161 0.24
332 59 0.09
333 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (329 bp):
ATTTCTATTAGTTACCTGACTTACGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTGCGGTTC
AGTCCCAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTCCTATGTTCACGACTTT
ACGGTTTAATCCTAGTCACTTTTATTTTTTTCTGACTTGCAGTTCAATCCCAATCATTGTTAATC
TCTGACTCATGGTTTAAACCCAGTCATTCCTATAACTTTTCGACTTACGGTTTAATCCCAGTCAC
TTTTATTTTTTTGACTTGCGGTTCATTCCTAGTCATCGTTAATCTTTGACTCGTGGTTTAATCCT
GATC
Found at i:4870882 original size:36 final size:36
Alignment explanation
Indices: 4870779--4870883 Score: 104
Period size: 36 Copynumber: 2.9 Consensus size: 36
4870769 AGTTTCCTAG
* * * * *
4870779 CTTGTGATTTAATCTCAGTCGTTTTTATTTTCCTAA
1 CTTGTGGTTTAATCCCAGTTGTCTTTATTTTTCTAA
* * ** *
4870815 CTTGTAGTTTAATCCTAG-TCACTTTTATTTTTCTCA
1 CTTGTGGTTTAATCCCAGTTGTC-TTTATTTTTCTAA
4870851 CTTGTGGTTTAATCCCAGTTGTCTTTATTTTTC
1 CTTGTGGTTTAATCCCAGTTGTCTTTATTTTTC
4870884 GACTCACATT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
36 51 0.96
37 2 0.04
ACGTcount: A:0.17, C:0.18, G:0.11, T:0.53
Consensus pattern (36 bp):
CTTGTGGTTTAATCCCAGTTGTCTTTATTTTTCTAA
Found at i:4871649 original size:13 final size:13
Alignment explanation
Indices: 4871631--4871661 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
4871621 CGGTTTACAA
4871631 AAAAAAAAGAAAC
1 AAAAAAAAGAAAC
4871644 AAAAAAAAGAAAC
1 AAAAAAAAGAAAC
4871657 AAAAA
1 AAAAA
4871662 TCTTCAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAC
Found at i:4872363 original size:3 final size:3
Alignment explanation
Indices: 4872355--4872399 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
4872345 AAATGCTTAA
* *
4872355 AAT AAT AAT AAT AAT AAT AAT -AT AA- AA- AAT TAT AAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4872400 TTTTCTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4877677 original size:29 final size:29
Alignment explanation
Indices: 4877635--4877692 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
4877625 GATCCACAGT
4877635 AGCAAAAAGTAAAAGTACGACAAAGTTAA
1 AGCAAAAAGTAAAAGTACGACAAAGTTAA
* *
4877664 AGCAAAAAGTAAAAGTATGATAAAGTTAA
1 AGCAAAAAGTAAAAGTACGACAAAGTTAA
4877693 TGCGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.17
Consensus pattern (29 bp):
AGCAAAAAGTAAAAGTACGACAAAGTTAA
Found at i:4877739 original size:27 final size:26
Alignment explanation
Indices: 4877709--4877805 Score: 72
Period size: 28 Copynumber: 3.5 Consensus size: 26
4877699 AAATGATATT
4877709 TTAATTTTAAAATTTTTATTATAATAA
1 TTAA-TTTAAAATTTTTATTATAATAA
* *
4877736 TTAAATTATAAATTTATTAATTATTATAA
1 TTAATTTA-AAATTT-TT-ATTATAATAA
*
4877765 -T-ATTTAAAAAATTATTTATTCATAAAAA
1 TTAATTT--AAAATT-TTTATT-ATAATAA
*
4877793 ATAATTTAAAATT
1 TTAATTTAAAATT
4877806 AATTATTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
26 3 0.05
27 16 0.29
28 21 0.38
29 12 0.21
30 4 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAATTTAAAATTTTTATTATAATAA
Found at i:4877907 original size:20 final size:19
Alignment explanation
Indices: 4877858--4877931 Score: 80
Period size: 20 Copynumber: 3.9 Consensus size: 19
4877848 AATTCACTTC
* *
4877858 TTATATTAAAAATTTTAAAA
1 TTATATT-ATAATATTAAAA
* *
4877878 CTATAATATAATATTAAATA
1 TTATATTATAATATTAAA-A
4877898 TTATATTATAAT-TTAAAA
1 TTATATTATAATATTAAAA
4877916 TTAT-TTATAATATTAA
1 TTATATTATAATATTAA
4877932 TTGTTAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
17 7 0.15
18 9 0.20
19 14 0.30
20 16 0.35
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATATTATAATATTAAAA
Found at i:4884551 original size:40 final size:40
Alignment explanation
Indices: 4884493--4884572 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
4884483 TCCTACCGAG
* *
4884493 GCTGCCAGCAAGATTTATCAGGTAACGTTTTTATTTATTT
1 GCTGCCAGCAAGACTTATCAGGTAACCTTTTTATTTATTT
*
4884533 GCTGCCAGCAAGACTTATCAGTTAACCTTTTTATTTATTT
1 GCTGCCAGCAAGACTTATCAGGTAACCTTTTTATTTATTT
4884573 TTTCAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (40 bp):
GCTGCCAGCAAGACTTATCAGGTAACCTTTTTATTTATTT
Found at i:4904382 original size:2 final size:2
Alignment explanation
Indices: 4904375--4904412 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
4904365 ATATGGTAAT
4904375 TA TA TA TA T- TA TA -A TA -A 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 TA T
4904413 GTTTATAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4904382 original size:15 final size:15
Alignment explanation
Indices: 4904364--4904413 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
4904354 CAGTAATTGT
* *
4904364 TATATGGTAATTATA
1 TATATGATAATAATA
*
4904379 TATATTATAATAATA
1 TATATGATAATAATA
4904394 TATAT-AT-ATATATA
1 TATATGATAATA-ATA
4904408 TATATG
1 TATATG
4904414 TTTATAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TATATGATAATAATA
Found at i:4906333 original size:15 final size:15
Alignment explanation
Indices: 4906313--4906349 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
4906303 CCCACCAAAG
*
4906313 CCATATTAAATGCAC
1 CCATATCAAATGCAC
*
4906328 CCATATCAAATGCAT
1 CCATATCAAATGCAC
4906343 CCATATC
1 CCATATC
4906350 CCTGAAGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.27
Consensus pattern (15 bp):
CCATATCAAATGCAC
Found at i:4907566 original size:2 final size:2
Alignment explanation
Indices: 4907559--4907587 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4907549 TTATTTGTAT
4907559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4907588 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4909295 original size:24 final size:25
Alignment explanation
Indices: 4909265--4909313 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4909255 AATTGGTATC
4909265 TAATTTAT-TT-GAAATTATTAAATA
1 TAATTTATGTTAG-AATTATTAAATA
*
4909289 TAATTTATGTTAGGATTATTAAATA
1 TAATTTATGTTAGAATTATTAAATA
4909314 CAACTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 13 0.59
26 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (25 bp):
TAATTTATGTTAGAATTATTAAATA
Found at i:4909724 original size:2 final size:2
Alignment explanation
Indices: 4909717--4909743 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4909707 TGAAAGCATT
4909717 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 T
4909744 CATTTTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4912877 original size:77 final size:82
Alignment explanation
Indices: 4912743--4912948 Score: 273
Period size: 77 Copynumber: 2.5 Consensus size: 82
4912733 GAGTTACCTG
*
4912743 ATTTATTGATAAAATATTAAAAATTTAATTTTAATGATAAAAATATAAAGCAACAAA-TTGGACT
1 ATTTATTGATAAAATATTAAAAATTTAATTTTAATGATAAAAATAAAAAGCAACAAATTTGG-CT
*
4912807 TTT-A-ATTG-TA-T-A-
65 TTTAATATTGACAGTCAC
* * *
4912819 ATTTATTAATAAAATATTAAAATTTTTAATTTTAATGATAAAAATAAAAAGTAACAAATTTGGCT
1 ATTTATTGATAAAATATTAAAA-ATTTAATTTTAATGATAAAAATAAAAAGCAACAAATTTGGCT
4912884 TTTAATATTGACAGTTGCAC
65 TTTAATATTGACAG-T-CAC
4912904 GATTTATTGATAAAATATTAAAAATTTAATTTTAATGATAAAAAT
1 -ATTTATTGATAAAATATTAAAAATTTAATTTTAATGATAAAAAT
4912949 TGATAATTGT
Statistics
Matches: 112, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
76 21 0.19
77 37 0.33
78 5 0.04
79 4 0.04
80 1 0.01
82 1 0.01
84 1 0.01
85 21 0.19
86 21 0.19
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (82 bp):
ATTTATTGATAAAATATTAAAAATTTAATTTTAATGATAAAAATAAAAAGCAACAAATTTGGCTT
TTAATATTGACAGTCAC
Found at i:4913553 original size:26 final size:27
Alignment explanation
Indices: 4913509--4913562 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4913499 TGTAATAAAT
*
4913509 AAAATATTATTTTATTTAAAATTTATA
1 AAAATATTACTTTATTTAAAATTTATA
* *
4913536 AAAATTTTACTTTA-TTAAAGTTTATA
1 AAAATATTACTTTATTTAAAATTTATA
4913562 A
1 A
4913563 TTGTTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (27 bp):
AAAATATTACTTTATTTAAAATTTATA
Found at i:4921377 original size:15 final size:15
Alignment explanation
Indices: 4921353--4921383 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4921343 TGGCTTAAGC
*
4921353 ATATATAATTAAAAA
1 ATATAAAATTAAAAA
4921368 ATATAAAATTAAAAA
1 ATATAAAATTAAAAA
4921383 A
1 A
4921384 AATCCTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATAAAATTAAAAA
Found at i:4925537 original size:438 final size:438
Alignment explanation
Indices: 4924722--4925602 Score: 1762
Period size: 438 Copynumber: 2.0 Consensus size: 438
4924712 TTGAATCTTA
4924722 GGAAGGAAGAGGAGGAGATGATGAAACTTCAAAAACAAGAAGCTCTTCAATTGCTTAAGAAGAAA
1 GGAAGGAAGAGGAGGAGATGATGAAACTTCAAAAACAAGAAGCTCTTCAATTGCTTAAGAAGAAA
4924787 GAGAAGACAGAGAATATTATTAAGAAGACCAAGGAGAAGCGCCAGAAGAAGAAGAAGCAGCAGCA
66 GAGAAGACAGAGAATATTATTAAGAAGACCAAGGAGAAGCGCCAGAAGAAGAAGAAGCAGCAGCA
4924852 GAACTCTGACCCTAACAAGCCCAAGAAGCCTGCTTCTTCATTCCTTCTGTTCAGTAAAGAAACAA
131 GAACTCTGACCCTAACAAGCCCAAGAAGCCTGCTTCTTCATTCCTTCTGTTCAGTAAAGAAACAA
4924917 GAAAAACTCTGATCCAAGAGCGACAAGGAATCAACAATTCTACAATTAATGCCCTGATTTCAGTG
196 GAAAAACTCTGATCCAAGAGCGACAAGGAATCAACAATTCTACAATTAATGCCCTGATTTCAGTG
4924982 AAATGGAAAGTATGGTATTATCTTAAACACCATTTTTGGTTTTTTAACCTTAACTATGGTTCACT
261 AAATGGAAAGTATGGTATTATCTTAAACACCATTTTTGGTTTTTTAACCTTAACTATGGTTCACT
4925047 CTTGGGTTTGTTTTTTTGTTTTAATTTTTTGGGTTATAGGAACTTAGTGAGGAAGAGAAGAATAG
326 CTTGGGTTTGTTTTTTTGTTTTAATTTTTTGGGTTATAGGAACTTAGTGAGGAAGAGAAGAATAG
4925112 TTGGAATGCCAAAGCAGCTGAAGCCATGGAAGCATACAAGAAAGAATT
391 TTGGAATGCCAAAGCAGCTGAAGCCATGGAAGCATACAAGAAAGAATT
4925160 GGAAGGAAGAGGAGGAGATGATGAAACTTCAAAAACAAGAAGCTCTTCAATTGCTTAAGAAGAAA
1 GGAAGGAAGAGGAGGAGATGATGAAACTTCAAAAACAAGAAGCTCTTCAATTGCTTAAGAAGAAA
4925225 GAGAAGACAGAGAATATTATTAAGAAGACCAAGGAGAAGCGCCAGAAGAAGAAGAAGCAGCAGCA
66 GAGAAGACAGAGAATATTATTAAGAAGACCAAGGAGAAGCGCCAGAAGAAGAAGAAGCAGCAGCA
4925290 GAACTCTGACCCTAACAAGCCCAAGAAGCCTGCTTCTTCATTCCTTCTGTTCAGTAAAGAAACAA
131 GAACTCTGACCCTAACAAGCCCAAGAAGCCTGCTTCTTCATTCCTTCTGTTCAGTAAAGAAACAA
4925355 GAAAAACTCTGATCCAAGAGCGACAAGGAATCAACAATTCTACAATTAATGCCCTGATTTCAGTG
196 GAAAAACTCTGATCCAAGAGCGACAAGGAATCAACAATTCTACAATTAATGCCCTGATTTCAGTG
4925420 AAATGGAAAGTATGGTATTATCTTAAACACCATTTTTGGTTTTTTAACCTTAACTATGGTTCACT
261 AAATGGAAAGTATGGTATTATCTTAAACACCATTTTTGGTTTTTTAACCTTAACTATGGTTCACT
4925485 CTTGGGTTTGTTTTTTTGTTTTAATTTTTTGGGTTATAGGAACTTAGTGAGGAAGAGAAGAATAG
326 CTTGGGTTTGTTTTTTTGTTTTAATTTTTTGGGTTATAGGAACTTAGTGAGGAAGAGAAGAATAG
4925550 TTGGAATGCCAAAGCAGCTGAAGCCATGGAAGCATACAAGAAAGAATT
391 TTGGAATGCCAAAGCAGCTGAAGCCATGGAAGCATACAAGAAAGAATT
4925598 GGAAG
1 GGAAG
4925603 AATACAAATC
Statistics
Matches: 443, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
438 443 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (438 bp):
GGAAGGAAGAGGAGGAGATGATGAAACTTCAAAAACAAGAAGCTCTTCAATTGCTTAAGAAGAAA
GAGAAGACAGAGAATATTATTAAGAAGACCAAGGAGAAGCGCCAGAAGAAGAAGAAGCAGCAGCA
GAACTCTGACCCTAACAAGCCCAAGAAGCCTGCTTCTTCATTCCTTCTGTTCAGTAAAGAAACAA
GAAAAACTCTGATCCAAGAGCGACAAGGAATCAACAATTCTACAATTAATGCCCTGATTTCAGTG
AAATGGAAAGTATGGTATTATCTTAAACACCATTTTTGGTTTTTTAACCTTAACTATGGTTCACT
CTTGGGTTTGTTTTTTTGTTTTAATTTTTTGGGTTATAGGAACTTAGTGAGGAAGAGAAGAATAG
TTGGAATGCCAAAGCAGCTGAAGCCATGGAAGCATACAAGAAAGAATT
Found at i:4933458 original size:16 final size:16
Alignment explanation
Indices: 4933437--4933468 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4933427 ATGGATCCTT
4933437 GAAGCTGTATGAGTTC
1 GAAGCTGTATGAGTTC
4933453 GAAGCTGTATGAGTTC
1 GAAGCTGTATGAGTTC
4933469 ATAGCAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.31
Consensus pattern (16 bp):
GAAGCTGTATGAGTTC
Found at i:4941203 original size:2 final size:2
Alignment explanation
Indices: 4941196--4941228 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
4941186 AATGTGATCT
4941196 TA TA TA TA TA TA TA TA TA TA TA T- TA TCA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
4941229 GGAAGCTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4941891 original size:20 final size:21
Alignment explanation
Indices: 4941855--4941906 Score: 79
Period size: 20 Copynumber: 2.4 Consensus size: 21
4941845 TCTGAAATTA
4941855 ATAAAATATTTATTTTTTAAAT
1 ATAAAATA-TTATTTTTTAAAT
4941877 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
4941897 ATAAATATAT
1 ATAAA-ATAT
4941907 ATAAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 14 0.48
21 7 0.24
22 8 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:4943022 original size:22 final size:22
Alignment explanation
Indices: 4942991--4943032 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4942981 CATAAGCTTA
4942991 TTCACCTTTAATATCTCTTCATC
1 TTCACCTTTAAT-TCTCTTCATC
*
4943014 TTCA-CTTTAATTTTCTTCA
1 TTCACCTTTAATTCTCTTCA
4943033 AAGTCATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.52
Consensus pattern (22 bp):
TTCACCTTTAATTCTCTTCATC
Found at i:4947092 original size:2 final size:2
Alignment explanation
Indices: 4947087--4947123 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
4947077 TACCTTACTT
4947087 TA TA 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 TA TA T
4947124 TACAGCTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4950346 original size:13 final size:13
Alignment explanation
Indices: 4950309--4950355 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
4950299 ATCAATTTAG
4950309 ATATTTTATTAAA
1 ATATTTTATTAAA
4950322 AT-TTTTATTAAA
1 ATATTTTATTAAA
* *
4950334 TTATTTTAGTAAA
1 ATATTTTATTAAA
*
4950347 ATACTTTAT
1 ATATTTTAT
4950356 AAATTTCACC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
ATATTTTATTAAA
Found at i:4950358 original size:25 final size:25
Alignment explanation
Indices: 4950310--4950360 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
4950300 TCAATTTAGA
* *
4950310 TATTTTATTAAAATTTTTATTAAAT
1 TATTTTAGTAAAATCTTTATTAAAT
4950335 TATTTTAGTAAAATACTTTA-TAAAT
1 TATTTTAGTAAAAT-CTTTATTAAAT
4950360 T
1 T
4950361 TCACCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
TATTTTAGTAAAATCTTTATTAAAT
Found at i:4952049 original size:17 final size:17
Alignment explanation
Indices: 4952029--4952086 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
4952019 TAAAATCATC
*
4952029 AATAATTAAATCACTTT
1 AATAATTAAATCACTAT
** *
4952046 AATAATTTTATCAGTAT
1 AATAATTAAATCACTAT
4952063 AATAATTAAATCACTAT
1 AATAATTAAATCACTAT
4952080 AATAATT
1 AATAATT
4952087 TTAAAAATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (17 bp):
AATAATTAAATCACTAT
Found at i:4952049 original size:34 final size:36
Alignment explanation
Indices: 4952009--4952092 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 36
4951999 TTATATCAAA
4952009 TATAATAATTTAAAATCA-T-CAATAATTAAATCAC
1 TATAATAATTTAAAATCAGTACAATAATTAAATCAC
* * *
4952043 TTTAATAATTT--TATCAGTATAATAATTAAATCAC
1 TATAATAATTTAAAATCAGTACAATAATTAAATCAC
4952077 TATAATAATTTTAAAA
1 TATAATAA-TTTAAAA
4952093 ATGATATCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
32 4 0.10
33 1 0.03
34 31 0.77
35 3 0.08
37 1 0.03
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.40
Consensus pattern (36 bp):
TATAATAATTTAAAATCAGTACAATAATTAAATCAC
Found at i:4953086 original size:10 final size:11
Alignment explanation
Indices: 4953049--4953086 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4953039 AATTTCATAA
4953049 GAGATTTGTTT
1 GAGATTTGTTT
* *
4953060 GGGATTTGTTA
1 GAGATTTGTTT
4953071 GAGATTT-TTT
1 GAGATTTGTTT
4953081 GAGATT
1 GAGATT
4953087 GACTAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:4954637 original size:13 final size:13
Alignment explanation
Indices: 4954607--4954639 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4954597 AATTATTGTC
4954607 TTTTATGTATTTGA
1 TTTTAT-TATTTGA
4954621 -TTTATTATTTGA
1 TTTTATTATTTGA
4954633 TTTTATT
1 TTTTATT
4954640 TTCGTTGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (13 bp):
TTTTATTATTTGA
Found at i:4962073 original size:2 final size:2
Alignment explanation
Indices: 4962066--4962090 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4962056 GGTATTGTTA
4962066 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
4962091 TTTAATACTA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4962395 original size:15 final size:16
Alignment explanation
Indices: 4962369--4962399 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4962359 CGTTCACCTG
4962369 TTTTCTTCTTCTTTTT
1 TTTTCTTCTTCTTTTT
4962385 TTTTCTT-TTCTTTTT
1 TTTTCTTCTTCTTTTT
4962400 CCCCTCTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTCTTCTTCTTTTT
Found at i:4963359 original size:15 final size:15
Alignment explanation
Indices: 4963339--4963372 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4963329 TATTTTCAAG
4963339 ATAACAACAACAACA
1 ATAACAACAACAACA
*
4963354 ATAACAACAACAATA
1 ATAACAACAACAACA
4963369 ATAA
1 ATAA
4963373 TAATAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.68, C:0.21, G:0.00, T:0.12
Consensus pattern (15 bp):
ATAACAACAACAACA
Found at i:4963361 original size:12 final size:12
Alignment explanation
Indices: 4963344--4963369 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4963334 TCAAGATAAC
4963344 AACAACAACAAT
1 AACAACAACAAT
4963356 AACAACAACAAT
1 AACAACAACAAT
4963368 AA
1 AA
4963370 TAATAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.08
Consensus pattern (12 bp):
AACAACAACAAT
Found at i:4967038 original size:25 final size:25
Alignment explanation
Indices: 4967004--4967057 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
4966994 TCCCCACAAT
* *
4967004 ATTCATAAGGGTATTTAATTTAGGG
1 ATTCATAAGGGTATTTAATTAAGGC
4967029 ATTCATAAGGGTATTTAATTAAGGC
1 ATTCATAAGGGTATTTAATTAAGGC
4967054 ATTC
1 ATTC
4967058 TTATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.39
Consensus pattern (25 bp):
ATTCATAAGGGTATTTAATTAAGGC
Found at i:4967270 original size:17 final size:17
Alignment explanation
Indices: 4967248--4967282 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4967238 TACGTTGAGG
4967248 GATCGGGTTCTGTTCAA
1 GATCGGGTTCTGTTCAA
4967265 GATCGGGTTCTGTTCAA
1 GATCGGGTTCTGTTCAA
4967282 G
1 G
4967283 CTACTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (17 bp):
GATCGGGTTCTGTTCAA
Found at i:4967366 original size:64 final size:64
Alignment explanation
Indices: 4967265--4967433 Score: 284
Period size: 64 Copynumber: 2.6 Consensus size: 64
4967255 TTCTGTTCAA
* * *
4967265 GATCGGGTTCTGTTCAAGCTACTGTAAATGTTGAATGGGTGGAACGAGCAGGGCTACATTGAGG
1 GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTACATTGAGG
* *
4967329 GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGG
1 GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTACATTGAGG
*
4967393 GAACGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTG
1 GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTG
4967434 CTACTGCAAA
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 99 1.00
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (64 bp):
GATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTACATTGAGG
Found at i:4967436 original size:23 final size:23
Alignment explanation
Indices: 4967410--4967456 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4967400 TTCTGTTCAA
4967410 GCTACTGCAAACGTCGAATGGGT
1 GCTACTGCAAACGTCGAATGGGT
4967433 GCTACTGCAAACGTCGAATGGGT
1 GCTACTGCAAACGTCGAATGGGT
4967456 G
1 G
4967457 GAACGAGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (23 bp):
GCTACTGCAAACGTCGAATGGGT
Found at i:4967451 original size:87 final size:87
Alignment explanation
Indices: 4967346--4967580 Score: 407
Period size: 87 Copynumber: 2.7 Consensus size: 87
4967336 TTCTGTTCAA
* *
4967346 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGAACGGGTTCTGTTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTATTCAAG
4967411 CTACTGCAAACGTCGAATGGGT
66 CTACTGCAAACGTCGAATGGGT
* *
4967433 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGTTTCGTTGAGAGATCGGGTTCTATTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTATTCAAG
4967498 CTACTGCAAACGTCGAATGGGT
66 CTACTGCAAACGTCGAATGGGT
* * *
4967520 GCTATTGCAAACGTCGAATAGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGAGTTCTATT
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTATT
4967581 AAAGATCGGG
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 139 1.00
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (87 bp):
GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTATTCAAG
CTACTGCAAACGTCGAATGGGT
Found at i:4967528 original size:23 final size:23
Alignment explanation
Indices: 4967497--4967543 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4967487 TTCTATTCAA
*
4967497 GCTACTGCAAACGTCGAATGGGT
1 GCTACTGCAAACGTCGAATAGGT
*
4967520 GCTATTGCAAACGTCGAATAGGT
1 GCTACTGCAAACGTCGAATAGGT
4967543 G
1 G
4967544 GAACGAGCAG
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:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (23 bp):
GCTACTGCAAACGTCGAATAGGT
Found at i:4967612 original size:104 final size:104
Alignment explanation
Indices: 4967479--4967728 Score: 419
Period size: 104 Copynumber: 2.4 Consensus size: 104
4967469 TTTCGTTGAG
*
4967479 AGATCGGGTTCTATTCAAGCTACTGCAAACGTCGAATGGGTGCTATTGCAAACGTCGAATAGGTG
1 AGATCGGGTTCTATTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATAGGTG
4967544 GAACGAGCAGGGCTTCGTTGAGGGATCGAGTTCTATTAA
66 GAACGAGCAGGGCTTCGTTGAGGGATCGAGTTCTATTAA
* * *
4967583 AGATCGGGTTTTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATTGGTG
1 AGATCGGGTTCTATTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATAGGTG
* * *
4967648 GAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCA
66 GAACGAGCAGGGCTTCGTTGAGGGATCGAGTTCTATTAA
* *
4967687 AGATCGGGTTCTATTCAAGCTACTACAAATGTCGAATGGGTG
1 AGATCGGGTTCTATTCAAGCTACTGCAAACGTCGAATGGGTG
4967729 GAACGAGCAG
Statistics
Matches: 135, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
104 135 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (104 bp):
AGATCGGGTTCTATTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATAGGTG
GAACGAGCAGGGCTTCGTTGAGGGATCGAGTTCTATTAA
Found at i:4967631 original size:23 final size:23
Alignment explanation
Indices: 4967601--4967647 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4967591 TTTTGTTCAA
4967601 GCTACTGCAAACGTCGAATGGGT
1 GCTACTGCAAACGTCGAATGGGT
*
4967624 GCTACTGCAAACGTCGAATTGGT
1 GCTACTGCAAACGTCGAATGGGT
4967647 G
1 G
4967648 GAACGAGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (23 bp):
GCTACTGCAAACGTCGAATGGGT
Found at i:4967693 original size:17 final size:17
Alignment explanation
Indices: 4967671--4967705 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4967661 TTCGTTGAGG
*
4967671 GATCGGGTTCTGTTCAA
1 GATCGGGTTCTATTCAA
4967688 GATCGGGTTCTATTCAA
1 GATCGGGTTCTATTCAA
4967705 G
1 G
4967706 CTACTACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (17 bp):
GATCGGGTTCTATTCAA
Found at i:4967729 original size:81 final size:81
Alignment explanation
Indices: 4967624--4967807 Score: 287
Period size: 81 Copynumber: 2.3 Consensus size: 81
4967614 TCGAATGGGT
* **
4967624 GCTACTGCAAACGTCGAATTGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTCTGTTCAAG
4967689 ATCGGGTTCTATTCAA
66 ATCGGGTTCTATTCAA
* * *
4967705 GCTACTACAAATGTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTTTGTTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTCTGTTCAAG
* *
4967770 ATCGGGTTCTGTTGAA
66 ATCGGGTTCTATTCAA
*
4967786 GCTGCTGCAAACGTCGAATGGG
1 GCTACTGCAAACGTCGAATGGG
4967808 GCTACTGCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 92 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (81 bp):
GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTCTGTTCAAG
ATCGGGTTCTATTCAA
Found at i:4967827 original size:103 final size:103
Alignment explanation
Indices: 4967705--4967910 Score: 349
Period size: 103 Copynumber: 2.0 Consensus size: 103
4967695 TTCTATTCAA
* *
4967705 GCTACTACAAATGTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTTTGTTCAAG
1 GCTACTACAAACGTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTCTGTTCAAG
4967770 ATCGGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGG
66 ATCGGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGG
* * **
4967808 GCTACTGCAAACGTCGAATGGGTGGAACGAGTAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
1 GCTACTACAAACGTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTCTGTTCAAG
*
4967873 ATCGGGTTCTGTTGAAGCTGCTGCAAATGTCGAATGGG
66 ATCGGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGG
4967911 TGGAACGAGC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (103 bp):
GCTACTACAAACGTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTCTGTTCAAG
ATCGGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGG
Found at i:4967875 original size:184 final size:184
Alignment explanation
Indices: 4967396--4967972 Score: 798
Period size: 184 Copynumber: 3.1 Consensus size: 184
4967386 GTTGAGGGAA
4967396 CGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAAC
1 CGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAAC
* * * ** * * ** *
4967461 GAGCAGGGTTTCGTTGAGAGATCGGGTTCTATTCAAGCTACTGCAAACG-TCGAATGGGTGCTAT
66 GAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG--A-T-C--GGGTTC-TATTGAAGCTAC
* * * * * *
4967525 TGCAAACGTCGAATAGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGAGTTCTATTAAAGAT
124 TGCAAATGTCGAATGGGTGGAACGAGCAGGG-ATCGTTGAGGGATCGGGTTCTGTTCAAGAT
* *
4967587 CGGGTTTTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATTGGTGGAAC
1 CGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAAC
* *
4967652 GAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCGGGTTCTATTCAAGCTACTACAAAT
66 GAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCGGGTTCTATTGAAGCTACTGCAAAT
*
4967717 GTCGAATGGGTGGAACGAGCAGGGAATCGTTGAGGGATCGGGTTTTGTTCAAGAT
131 GTCGAATGGGTGGAACGAGCAGGG-ATCGTTGAGGGATCGGGTTCTGTTCAAGAT
* *
4967772 CGGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGG-GCTACTGCAAACGTCGAATGGGTGGAAC
1 CGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAAC
* * *
4967836 GAGTAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCGGGTTCTGTTGAAGCTGCTGCAAAT
66 GAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCGGGTTCTATTGAAGCTACTGCAAAT
* *
4967901 GTCGAATGGGTGGAACGAGCAAGGCTACGTTGAGGGATCGGGTTCTGTTCAAGAT
131 GTCGAATGGGTGGAACGAGCAGGGAT-CGTTGAGGGATCGGGTTCTGTTCAAGAT
4967956 CGGGTTCTGTTCAAGCT
1 CGGGTTCTGTTCAAGCT
4967973 TTTTAAAGAG
Statistics
Matches: 349, Mismatches: 35, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
183 1 0.00
184 153 0.44
185 93 0.27
186 2 0.01
187 1 0.00
188 1 0.00
189 1 0.00
191 97 0.28
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.26
Consensus pattern (184 bp):
CGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAAC
GAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCGGGTTCTATTGAAGCTACTGCAAAT
GTCGAATGGGTGGAACGAGCAGGGATCGTTGAGGGATCGGGTTCTGTTCAAGAT
Found at i:4967909 original size:81 final size:81
Alignment explanation
Indices: 4967812--4967972 Score: 277
Period size: 81 Copynumber: 2.0 Consensus size: 81
4967802 AATGGGGCTA
* * *
4967812 CTGCAAACGTCGAATGGGTGGAACGAGTAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAGATCG
1 CTGCAAACGTCGAATGGGTGGAACGAGCAAGGCTACGTTGAGGGATCGGGTTCTGTTCAAGATCG
*
4967877 GGTTCTGTTGAAGCTG
66 GGTTCTGTTCAAGCTG
*
4967893 CTGCAAATGTCGAATGGGTGGAACGAGCAAGGCTACGTTGAGGGATCGGGTTCTGTTCAAGATCG
1 CTGCAAACGTCGAATGGGTGGAACGAGCAAGGCTACGTTGAGGGATCGGGTTCTGTTCAAGATCG
4967958 GGTTCTGTTCAAGCT
66 GGTTCTGTTCAAGCT
4967973 TTTTAAAGAG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.27
Consensus pattern (81 bp):
CTGCAAACGTCGAATGGGTGGAACGAGCAAGGCTACGTTGAGGGATCGGGTTCTGTTCAAGATCG
GGTTCTGTTCAAGCTG
Found at i:4967958 original size:17 final size:17
Alignment explanation
Indices: 4967936--4967970 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4967926 TACGTTGAGG
4967936 GATCGGGTTCTGTTCAA
1 GATCGGGTTCTGTTCAA
4967953 GATCGGGTTCTGTTCAA
1 GATCGGGTTCTGTTCAA
4967970 G
1 G
4967971 CTTTTTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (17 bp):
GATCGGGTTCTGTTCAA
Found at i:4979527 original size:13 final size:14
Alignment explanation
Indices: 4979500--4979531 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
4979490 AGTTTTTAAA
4979500 ATCATAAATTCATC
1 ATCATAAATTCATC
4979514 ATCATAAA-TCATC
1 ATCATAAATTCATC
4979527 ATCAT
1 ATCAT
4979532 TATTATTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (14 bp):
ATCATAAATTCATC
Found at i:4982122 original size:23 final size:24
Alignment explanation
Indices: 4982096--4982153 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
4982086 TCACTCGATT
4982096 AAGCTCGATTAATATA-TAAAAAA
1 AAGCTCGATTAATATACTAAAAAA
**
4982119 AAGCTCGATTTTTATACTAAAAAA
1 AAGCTCGATTAATATACTAAAAAA
*
4982143 AAACTCGATTA
1 AAGCTCGATTA
4982154 TTCGAGCTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (24 bp):
AAGCTCGATTAATATACTAAAAAA
Found at i:4982254 original size:15 final size:15
Alignment explanation
Indices: 4982234--4982267 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4982224 TATTTTCAAG
4982234 ATAACAACAACAACA
1 ATAACAACAACAACA
*
4982249 ATAACAACAACAATA
1 ATAACAACAACAACA
4982264 ATAA
1 ATAA
4982268 TAATAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.68, C:0.21, G:0.00, T:0.12
Consensus pattern (15 bp):
ATAACAACAACAACA
Found at i:4982256 original size:12 final size:12
Alignment explanation
Indices: 4982239--4982264 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4982229 TCAAGATAAC
4982239 AACAACAACAAT
1 AACAACAACAAT
4982251 AACAACAACAAT
1 AACAACAACAAT
4982263 AA
1 AA
4982265 TAATAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.08
Consensus pattern (12 bp):
AACAACAACAAT
Found at i:4985950 original size:25 final size:25
Alignment explanation
Indices: 4985913--4985966 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
4985903 TCCCCACAAT
* *
4985913 ATTCATAAGGGTATTTAATTTAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
4985938 ATTCATAAAGGTATTTAATTAAGGC
1 ATTCATAAAGGTATTTAATTAAGGC
4985963 ATTC
1 ATTC
4985967 TTATTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (25 bp):
ATTCATAAAGGTATTTAATTAAGGC
Found at i:4986258 original size:17 final size:17
Alignment explanation
Indices: 4986233--4986267 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4986223 TTCGTTGAGG
4986233 GATCAGGTTCTGTTCAA
1 GATCAGGTTCTGTTCAA
*
4986250 GATCGGGTTCTGTTCAA
1 GATCAGGTTCTGTTCAA
4986267 G
1 G
4986268 CTACTGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (17 bp):
GATCAGGTTCTGTTCAA
Found at i:4986299 original size:23 final size:23
Alignment explanation
Indices: 4986269--4986313 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
4986259 CTGTTCAAGC
4986269 TACTGCAAACGTCGAATGGGTGT
1 TACTGCAAACGTCGAATGGGTGT
*
4986292 TACTGCAAACGTTGAATGGGTG
1 TACTGCAAACGTCGAATGGGTG
4986314 GAACGAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (23 bp):
TACTGCAAACGTCGAATGGGTGT
Found at i:4986403 original size:87 final size:87
Alignment explanation
Indices: 4986257--4986441 Score: 298
Period size: 87 Copynumber: 2.1 Consensus size: 87
4986247 CAAGATCGGG
* *
4986257 TTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGTTACTGCAAACGTTGAATGGGTGGAACGAGC
1 TTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAACGAGC
4986322 AGGGCTTCGTTGAGGGATCCGA
66 AGGGCTTCGTTGAGGGATCCGA
* * *
4986344 TTCTGTTGAAGCTGCTGTAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAACGAGC
1 TTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAACGAGC
* *
4986409 AGGGCTTCGTTGAGGGATCGGG
66 AGGGCTTCGTTGAGGGATCCGA
*
4986431 TTCTATTCAAG
1 TTCTGTTCAAG
4986442 ATCGGGTTCT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (87 bp):
TTCTGTTCAAGCTACTGCAAACGTCGAATGGGTGCTACTGCAAACGTCGAATGGGTGGAACGAGC
AGGGCTTCGTTGAGGGATCCGA
Found at i:4986481 original size:32 final size:32
Alignment explanation
Indices: 4986445--4986512 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
4986435 ATTCAAGATC
4986445 GGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
1 GGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
4986477 GGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
1 GGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
4986509 GGGT
1 GGGT
4986513 GGAACGAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.28
Consensus pattern (32 bp):
GGGTTCTGTTGAAGCTGCTGCAAACGTCGAAT
Found at i:4986595 original size:200 final size:200
Alignment explanation
Indices: 4986186--4986700 Score: 814
Period size: 200 Copynumber: 2.6 Consensus size: 200
4986176 TTCTGTTCAA
* * *
4986186 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGAGTTTCGTTGAGGGATCAGGTTCTGTTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
* *
4986251 ATCGGGTTCTGTTCAAGCTACTGCAAACGTCGAATGGG---TGTT--A----CTGCAAACGTTGA
66 ATCGGGTTCTGTTGAAGCTACTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAACGTCGA
**
4986307 ATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCCGATTCTGTTGAAGCTGCTGTAAACGTCGAA
131 ATGGGTGGAACGAGCAGGGCTTCGTTGAAAGATCCGATTCTGTTGAAGCTGCTGTAAACGTCGAA
4986372 TGGGT
196 TGGGT
*
4986377 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTATTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
*
4986442 ATCGGGTTCTGTTGAAGCTGCTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAACGTCGA
66 ATCGGGTTCTGTTGAAGCTACTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAACGTCGA
* * *
4986507 ATGGGTGGAACGAGTAGGGCTTCGTTGAAAGATCGGGTTCTGTTGAAGCTGCTGTAAACGTCGAA
131 ATGGGTGGAACGAGCAGGGCTTCGTTGAAAGATCCGATTCTGTTGAAGCTGCTGTAAACGTCGAA
4986572 TGGGT
196 TGGGT
* *
4986577 GCTACTGCAAATGTCGAATGGGTGGAACGAGCAGGGCTTCATTGAGGGATCGGGTTCTGTTCAAG
1 GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
** *
4986642 ATCAAGTTCTGTTGAAGCTACTGTAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAA
66 ATCGGGTTCTGTTGAAGCTACTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAA
4986701 TGTCTGTTGA
Statistics
Matches: 296, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
191 97 0.33
194 4 0.01
196 1 0.00
200 194 0.66
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.26
Consensus pattern (200 bp):
GCTACTGCAAACGTCGAATGGGTGGAACGAGCAGGGCTTCGTTGAGGGATCGGGTTCTGTTCAAG
ATCGGGTTCTGTTGAAGCTACTGCAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAACGTCGA
ATGGGTGGAACGAGCAGGGCTTCGTTGAAAGATCCGATTCTGTTGAAGCTGCTGTAAACGTCGAA
TGGGT
Found at i:4986683 original size:32 final size:32
Alignment explanation
Indices: 4986647--4986769 Score: 131
Period size: 32 Copynumber: 4.2 Consensus size: 32
4986637 TCAAGATCAA
* *
4986647 GTTCTGTTGAAGCTACTGTAAACGTCGAATGG
1 GTTCTGTTGAAGCTGCTGCAAACGTCGAATGG
4986679 GTTCTGTTGAAGCTGCTGC--A-----AAT--
1 GTTCTGTTGAAGCTGCTGCAAACGTCGAATGG
* *
4986702 G-TCTGTTGAAGCTGCTACAAACGTTGAATGG
1 GTTCTGTTGAAGCTGCTGCAAACGTCGAATGG
*
4986733 GTTTTGTTGAAGCTGCTGCAAACGTCGAATGG
1 GTTCTGTTGAAGCTGCTGCAAACGTCGAATGG
4986765 GTTCT
1 GTTCT
4986770 ATTCAAAATC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
22 16 0.22
23 1 0.01
24 1 0.01
25 3 0.04
29 3 0.04
30 1 0.01
31 1 0.01
32 48 0.65
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (32 bp):
GTTCTGTTGAAGCTGCTGCAAACGTCGAATGG
Found at i:4986706 original size:22 final size:22
Alignment explanation
Indices: 4986681--4986722 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4986671 TCGAATGGGT
*
4986681 TCTGTTGAAGCTGCTGCAAATG
1 TCTGTTGAAGCTGCTACAAATG
4986703 TCTGTTGAAGCTGCTACAAA
1 TCTGTTGAAGCTGCTACAAA
4986723 CGTTGAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (22 bp):
TCTGTTGAAGCTGCTACAAATG
Found at i:4986712 original size:54 final size:54
Alignment explanation
Indices: 4986649--4986754 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
4986639 AAGATCAAGT
**
4986649 TCTGTTGAAGCTACTGTAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAATG
1 TCTGTTGAAGCTACTACAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAATG
* * *
4986703 TCTGTTGAAGCTGCTACAAACGTTGAATGGGTTTTGTTGAAGCTGCTGCAAA
1 TCTGTTGAAGCTACTACAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAA
4986755 CGTCGAATGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (54 bp):
TCTGTTGAAGCTACTACAAACGTCGAATGGGTTCTGTTGAAGCTGCTGCAAATG
Found at i:4991737 original size:123 final size:122
Alignment explanation
Indices: 4991576--4991951 Score: 377
Period size: 124 Copynumber: 3.1 Consensus size: 122
4991566 ATTAAGAGAT
* *
4991576 GATTATTGAAGGCATTTTTAGCT--AGAAACTCCTTAAATAACCCCATTCAATTTTTTATAAGGG
1 GATTATTGAAGGCATTTTTAGATAAAAAAACT-CTTAAATAACCCCATTCAATTTTTTATAAGGG
*
4991639 ATTATTCAAGGTATTTTCTAGCTAAAAATGCCTTAAATAATCCAAAAAAAATGGGAAGA
65 ATTATTCAAGGTATTTT-TAGCTAAAAATGCCTTGAATAATCCAAAAAAAATGGGAAGA
* *
4991698 GATTATTGAAGGCATTTTT-GATAAAAAAACGTCTCAAATAATCCCATTCAATTTTTTTATAAGG
1 GATTATTGAAGGCATTTTTAGATAAAAAAAC-TCTTAAATAACCCCATTCAA-TTTTTTATAAGG
** * ***
4991762 GATTATTCAAGGCGCTTTTTGGCTAAAAA-GACCTTGAATAATCTTTCAAAAAAT-GGAAGGA
64 GATTATTCAAGG-TATTTTTAGCTAAAAATG-CCTTGAATAATC-CAAAAAAAATGGGAA-GA
* * * * * * * * * *
4991823 GATTATTAAAGACGTTTTTAGCTAAAAATAC-CTTTAATAACCCTATTCAATTTCTTGTAAAGGA
1 GATTATTGAAGGCATTTTTAGATAAAAAAACTCTTAAATAACCCCATTCAATTTTTTATAAGGGA
* * *** * *
4991887 TTATTCAAGATATTTTTCAGCAAAAAATATTTTGAATAATCCAAAAAAAATGGGAGGG
66 TTATTCAAGGTATTTTT-AGCTAAAAATGCCTTGAATAATCCAAAAAAAATGGGAAGA
4991945 GATTATT
1 GATTATT
4991952 TAAGTTGTTT
Statistics
Matches: 206, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
121 2 0.01
122 39 0.19
123 63 0.31
124 64 0.31
125 29 0.14
126 9 0.04
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (122 bp):
GATTATTGAAGGCATTTTTAGATAAAAAAACTCTTAAATAACCCCATTCAATTTTTTATAAGGGA
TTATTCAAGGTATTTTTAGCTAAAAATGCCTTGAATAATCCAAAAAAAATGGGAAGA
Found at i:4991951 original size:247 final size:247
Alignment explanation
Indices: 4991505--4991972 Score: 588
Period size: 247 Copynumber: 1.9 Consensus size: 247
4991495 AGTCATAGAA
* * * * *
4991505 TTTTCTAAGGGATTAGTCAATGCGTTTTCTGGTAAAAAAGGCTTTGAATAATCCTCAAAAAATTA
1 TTTTATAAGGGATTAGTCAAGGCGTTTTCTGGTAAAAAAGACCTTGAATAATCCTCAAAAAATGA
* * * *
4991570 AGAGATGATTATTGAAGGCATTTTTAGCTAGAAACTCCTTAAATAACCCCATTCAATTTTTTATA
66 AGAGATGATTATTAAAGACATTTTTAGCTAGAAAATCCTTAAATAACCCCATTCAATTTCTTATA
* * * *
4991635 AGGGATTATTCAAGGTATTTTCTAGCTAAAAATGCCTTAAATAATCCAAAAAAAATGGGAAGAGA
131 AAGGATTATTCAAGATATTTTCTAGCAAAAAATACCTTAAATAATCCAAAAAAAATGGGAAGAGA
4991700 TTATTGAAGGCATTTTTGATAAAAAAACGTCTCAAATAATCCCATTCAATTT
196 TTATTGAAGGCATTTTTGATAAAAAAACGTCTCAAATAATCCCATTCAATTT
* *
4991752 TTTTATAAGGGATTATTCAAGGCGCTTTT-TGGCT-AAAAAGACCTTGAATAATCTTTCAAAAAA
1 TTTTATAAGGGATTAGTCAAGGCG-TTTTCTGG-TAAAAAAGACCTTGAATAATC-CTCAAAAAA
* * *
4991815 TGGAAG-GA-GATTATTAAAGACGTTTTTAGCTA-AAAATACCTTTAATAACCCTATTCAATTTC
63 T-GAAGAGATGATTATTAAAGACATTTTTAGCTAGAAAAT-CCTTAAATAACCCCATTCAATTTC
* ** *
4991877 TTGTAAAGGATTATTCAAGATATTTT-TCAGCAAAAAATATTTTGAATAATCCAAAAAAAATGGG
126 TTATAAAGGATTATTCAAGATATTTTCT-AGCAAAAAATACCTTAAATAATCCAAAAAAAATGGG
* * * ***
4991941 AGGGGATTATTTAAGTTGTTTTTGATAAAAAA
190 AAGAGATTATTGAAGGCATTTTTGATAAAAAA
4991973 TATCTTGAAA
Statistics
Matches: 187, Mismatches: 28, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
246 5 0.03
247 163 0.87
248 16 0.09
249 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (247 bp):
TTTTATAAGGGATTAGTCAAGGCGTTTTCTGGTAAAAAAGACCTTGAATAATCCTCAAAAAATGA
AGAGATGATTATTAAAGACATTTTTAGCTAGAAAATCCTTAAATAACCCCATTCAATTTCTTATA
AAGGATTATTCAAGATATTTTCTAGCAAAAAATACCTTAAATAATCCAAAAAAAATGGGAAGAGA
TTATTGAAGGCATTTTTGATAAAAAAACGTCTCAAATAATCCCATTCAATTT
Found at i:4993646 original size:160 final size:160
Alignment explanation
Indices: 4993368--4994479 Score: 1150
Period size: 161 Copynumber: 6.9 Consensus size: 160
4993358 ATAACGTCTA
* * * ** * *
4993368 TTTATGACTTTTTATGCTGGTAAAA-GATAAAATGCAAATTTGTTATTATTATTTTATTTTAACA
1 TTTAGGACTTTTTATGCTGTTAAAAGGAAAAAATATAAATTTGCTATTATTATTCTATTTTAACA
* * *** * * * *
4993432 GTTTGGATAGCTTCAATACATGATATTAAATTTGACCAAATAATTGAGCTTGGTTTTTACAGTTG
66 GTTTGGATAGCTTCAATATATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCATAGTTG
* * * *
4993497 GTATTTGTGAAAAAGCTAACGTTTATGTTTG
131 ATATATGTGAAAAAG-TAACGTTTATATCTG
*
4993528 TTTAGGACTTTTTATGCTGTT-AAAGGAAAAAATATAAATTTGCTATTATTACTCTATTTTAACA
1 TTTAGGACTTTTTATGCTGTTAAAAGGAAAAAATATAAATTTGCTATTATTATTCTATTTTAACA
* * *
4993592 GTTTGGATAGCTTCAATATATAATAATAAACTTGTTTGAATGATTGAACTTGG-TTTCTATAGTT
66 GTTTGGATAGCTTCAATATATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTC-ATAGTT
* * *
4993656 GATATATGTG-AAAAGTTATCGTTTACATCTA
130 GATATATGTGAAAAAG-TAACGTTTATATCTG
* * *
4993687 TTTAGGACTATTTTTAT-C-GTTAAAAGGCAAAAATGTAAATTTGCTATTATTATTATATTTTAA
1 TTTAGGAC--TTTTTATGCTGTTAAAAGGAAAAAATATAAATTTGCTATTATTATTCTATTTTAA
* * * *
4993750 CAGTTTGGATGGCTTCAATACATGATATTAAA-TTTTTTCAAATGATTGAACTTGGTTTTCATAA
64 CAGTTTGGATAGCTTCAATATATGATATTAAACTTGTTT-AAATGATTGAACTTGGTTTTCATAG
* *
4993814 TTGATATATGTGAAAAAGCTAACGTTTTTGTCTG
128 TTGATATATGTGAAAAAG-TAACGTTTATATCTG
* * *
4993848 CTTAGGACTTTTTATGCTGTTAAAAGGTAAAAATATAAATTTGCTATTATTATTTTATTTTAACA
1 TTTAGGACTTTTTATGCTGTTAAAAGGAAAAAATATAAATTTGCTATTATTATTCTATTTTAACA
* * * * *
4993913 GTTTGGATAGCTTCAATATATGATAATAAACTTGTCTGAATGATTGAACTTAGTTTTTATAGTTG
66 GTTTGGATAGCTTCAATATATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCATAGTTG
* ** * * *
4993978 ATATGTGTGAAATTGTTATCGTTAATATCTA
131 ATATATGTGAAAAAG-TAACGTTTATATCTG
* * * *
4994009 TTTAGGACTATTTT-TGCTGTTAAAAGGAAAAAATACAAATTTACTGTTATTATTCTATTTTAAG
1 TTTAGGACT-TTTTATGCTGTTAAAAGGAAAAAATATAAATTTGCTATTATTATTCTATTTTAAC
* * * * *
4994073 AGTTTAGATGGTTTCAATATATGATATTAAACTTTTTTGAATGATTGAACTTGGTTTTCATAGTT
65 AGTTTGGATAGCTTCAATATATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCATAGTT
* ** *
4994138 GATATATGTGAAAAA-TTACTGTTTACCTTTG
130 GATATATGTGAAAAAGTAAC-GTTTATATCTG
* * * * *
4994169 TTTATGATTTTTTTTATGCCGTTAAAAGGCAAAAATATAAATTTGCTATTATTGTTCTATTTTAA
1 TTTAGGA--CTTTTTATGCTGTTAAAAGGAAAAAATATAAATTTGCTATTATTATTCTATTTTAA
* * * * * *
4994234 TAGTTTGGATGGCTTCAATATGTGATATTAAACTT-TTTCAAATAATTGAACTTAGTTTTCACAG
64 CAGTTTGGATAGCTTCAATATATGATATTAAACTTGTTT-AAATGATTGAACTTGGTTTTCATAG
** * *
4994298 TTGATATATGTGAAAAAGTTGCTATTTACT-TTTG
128 TTGATATATGTGAAAAAGTAAC-GTTTA-TATCTG
* ** * * *
4994332 TTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATATAAATTTACTGTTATTATTCTATTTTAACA
1 TTTAGGACTTTTTATGCTGTTAAAAGGAAAAAATATAAATTTGCTATTATTATTCTATTTTAACA
* * * * * * * * *
4994397 GTTTGGGTAGTTTTAATACATGATATTAAACTTGTCTAAATAATTGAATTTAGTTTCCAT-GATT
66 GTTTGGATAGCTTCAATATATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCATAG-TT
*
4994461 GATATATGTGAAAAGGTAA
130 GATATATGTGAAAAAGTAA
4994480 AATGCTGTTA
Statistics
Matches: 799, Mismatches: 132, Indels: 41
0.82 0.14 0.04
Matches are distributed among these distances:
159 46 0.06
160 218 0.27
161 394 0.49
162 123 0.15
163 18 0.02
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (160 bp):
TTTAGGACTTTTTATGCTGTTAAAAGGAAAAAATATAAATTTGCTATTATTATTCTATTTTAACA
GTTTGGATAGCTTCAATATATGATATTAAACTTGTTTAAATGATTGAACTTGGTTTTCATAGTTG
ATATATGTGAAAAAGTAACGTTTATATCTG
Found at i:4994308 original size:484 final size:480
Alignment explanation
Indices: 4993373--4994452 Score: 1407
Period size: 484 Copynumber: 2.2 Consensus size: 480
4993363 GTCTATTTAT
* * ** *
4993373 GACTTTTTATGCTGGTAAAAGAT-AAAATGCAAATTTGTTATTATTATTTTATTTTAACAGTTTG
1 GACTTTTTATGCTGTTAAAAGGTAAAAATATAAATTTGCTATTATTATTTTATTTTAACAGTTTG
* * * * * * *
4993437 GATAGCTTCAATACATGATATTAAATTTGACCAAATAATTGAGCTTGGTTTTTACAGTTGGTATT
66 GATAGCTTCAATACATGATATTAAACTTGTCTAAATAATTGAACTTAGTTTTTACAGTTGATATG
* * * * *
4993502 TGTGAAAAAGCTAACGTTTATGTTTGTTTAGGACTTTTTATGCTGTTAAAGGAAAAAATATAAAT
131 TGTGAAAAAGCTAACGTTAATATCTATTTAGGACTTTTTATGCTGTTAAAGGAAAAAATACAAAT
* *
4993567 TTGCTATTATTACTCTATTTTAACAGTTTGGATAGCTTCAATATATAATAATAAACTTGTTTGAA
196 TTACTATTATTACTCTATTTTAACAGTTTAGATAGCTTCAATATATAATAATAAACTTGTTTGAA
*
4993632 TGATTGAACTTGGTTTCTATAGTTGATATATGTGAAAAGTTATCGTTTACATCTATTTAGGACTA
261 TGATTGAACTTGGTTTCTATAGTTGATATATGTGAAAAATTATCGTTTACATCTATTTAGGACTA
*
4993697 TTTTTATCGTTAAAAGGCAAAAATGTAAATTTGCTATTATTATTATATTTTAACAGTTTGGATGG
326 TTTTTATCGTTAAAAGGCAAAAATATAAATTTGCTATTATTATTATATTTTAACAGTTTGGATGG
* * * *
4993762 CTTCAATACATGATATTAAATTTTTTCAAATGATTGAACTTGGTTTTCATAATTGATATATGTGA
391 CTTCAATACATGATATTAAACTTTTTCAAATAATTGAACTTAGTTTTCACAATTGATATATGTGA
4993827 AAAAGCTAACGT-TTT-TGTCTGCTTAG
456 AAAAG-TAAC-TATTTAT-TCTGCTTAG
4993853 GACTTTTTATGCTGTTAAAAGGTAAAAATATAAATTTGCTATTATTATTTTATTTTAACAGTTTG
1 GACTTTTTATGCTGTTAAAAGGTAAAAATATAAATTTGCTATTATTATTTTATTTTAACAGTTTG
* * * * *
4993918 GATAGCTTCAATATATGATAATAAACTTGTCTGAATGATTGAACTTAGTTTTTATAGTTGATATG
66 GATAGCTTCAATACATGATATTAAACTTGTCTAAATAATTGAACTTAGTTTTTACAGTTGATATG
** * *
4993983 TGTGAAATTGTTATCGTTAATATCTATTTAGGACTATTTT-TGCTGTTAAAAGGAAAAAATACAA
131 TGTGAAAAAGCTAACGTTAATATCTATTTAGGACT-TTTTATGCTGTT-AAAGGAAAAAATACAA
* * * * * * * *
4994047 ATTTACTGTTATTATTCTATTTTAAGAGTTTAGATGGTTTCAATATATGATATTAAACTTTTTTG
194 ATTTACTATTATTACTCTATTTTAACAGTTTAGATAGCTTCAATATATAATAATAAACTTGTTTG
* * * *
4994112 AATGATTGAACTTGGTTT-TCATAGTTGATATATGTGAAAAATTA-CTGTTTACCTTTGTTTATG
259 AATGATTGAACTTGGTTTCT-ATAGTTGATATATGTGAAAAATTATC-GTTTACATCTATTTAGG
* * * * *
4994175 ATTTTTTTTATGCCGTTAAAAGGCAAAAATATAAATTTGCTATTATTGTTCTATTTTAATAGTTT
322 ACTATTTTTAT--CGTTAAAAGGCAAAAATATAAATTTGCTATTATTATTATATTTTAACAGTTT
** *
4994240 GGATGGCTTCAATATGTGATATTAAACTTTTTCAAATAATTGAACTTAGTTTTCACAGTTGATAT
385 GGATGGCTTCAATACATGATATTAAACTTTTTCAAATAATTGAACTTAGTTTTCACAATTGATAT
** * *
4994305 ATGTGAAAAAGTTGCTATTTACTTTTGTTTAG
450 ATGTGAAAAAGTAACTATTTA-TTCTGCTTAG
* ** * * * *
4994337 GACTTTTTGTGCCATTAAAAGGCAAAAATATAAATTTACTGTTATTATTCTATTTTAACAGTTTG
1 GACTTTTTATGCTGTTAAAAGGTAAAAATATAAATTTGCTATTATTATTTTATTTTAACAGTTTG
* * * *
4994402 GGTAGTTTTAATACATGATATTAAACTTGTCTAAATAATTGAATTTAGTTT
66 GATAGCTTCAATACATGATATTAAACTTGTCTAAATAATTGAACTTAGTTT
4994453 CCATGATTGA
Statistics
Matches: 517, Mismatches: 73, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
480 21 0.04
481 127 0.25
482 138 0.27
483 5 0.01
484 225 0.44
485 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (480 bp):
GACTTTTTATGCTGTTAAAAGGTAAAAATATAAATTTGCTATTATTATTTTATTTTAACAGTTTG
GATAGCTTCAATACATGATATTAAACTTGTCTAAATAATTGAACTTAGTTTTTACAGTTGATATG
TGTGAAAAAGCTAACGTTAATATCTATTTAGGACTTTTTATGCTGTTAAAGGAAAAAATACAAAT
TTACTATTATTACTCTATTTTAACAGTTTAGATAGCTTCAATATATAATAATAAACTTGTTTGAA
TGATTGAACTTGGTTTCTATAGTTGATATATGTGAAAAATTATCGTTTACATCTATTTAGGACTA
TTTTTATCGTTAAAAGGCAAAAATATAAATTTGCTATTATTATTATATTTTAACAGTTTGGATGG
CTTCAATACATGATATTAAACTTTTTCAAATAATTGAACTTAGTTTTCACAATTGATATATGTGA
AAAAGTAACTATTTATTCTGCTTAG
Found at i:4994338 original size:323 final size:319
Alignment explanation
Indices: 4993364--4994474 Score: 1240
Period size: 323 Copynumber: 3.5 Consensus size: 319
4993354 ACTTATAACG
* * * * ** *
4993364 TCTATTTATGACTTTTTATGCTGGTAAAA-GATAAAATGCAAATTTGTTATTATTATTTTATTTT
1 TCTATTTAGGACTTTTTATGCTGTTAAAAGGAAAAAATACAAATTTACTATTATTATTCTATTTT
* * * * *
4993428 AACAGTTTGGATAGCTTCAATACATGATATTAAATTTGACCAAATAATTGAGCTTGGTTTTTACA
66 AACAGTTTGGATAGCTTCAATACATGATATTAAATTT-TCTAAATAATTGAACTTGGTTTTCATA
* *
4993493 GTTGGTATTTGTGAAAAAGCTAACGTTTATGTTTGTTTAGGACTTTTTATGCTGTT-AAAGGAAA
130 GTTGATATATGTGAAAAA-CTAACGTTTATGTTTGTTTAGGACTTTTTATGCTGTTAAAAGGAAA
* *
4993557 AAATATAAATTTGCTATTATTACTCTATTTTAACAGTTTGGATAGCTTCAATATATAATAATAAA
194 AAATATAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATATATGATAATAAA
* * *
4993622 CTTGTTT-GAATGATTGAACTT-GGTTTCTATAGTTGATATATGTGAAAAGTT-ATCGTTTACA
259 CTT-TTTCGAATGATTGAACTTAGTTTTC-ATAGTTGATATATGTGAAAAGTTGAT-ATTTACT
* ** * *
4993683 TCTATTTAGGACTATTTTTAT-C-GTTAAAAGGCAAAAATGTAAATTTGCTATTATTATTATATT
1 TCTATTTAGGAC--TTTTTATGCTGTTAAAAGGAAAAAATACAAATTTACTATTATTATTCTATT
* * *
4993746 TTAACAGTTTGGATGGCTTCAATACATGATATTAAATTTTTTCAAATGATTGAACTTGGTTTTCA
64 TTAACAGTTTGGATAGCTTCAATACATGATATTAAATTTTCT-AAATAATTGAACTTGGTTTTCA
* * * * *
4993811 TAATTGATATATGTGAAAAAGCTAACGTTTTTGTCTGCTTAGGACTTTTTATGCTGTTAAAAGGT
128 TAGTTGATATATGTGAAAAA-CTAACGTTTATGTTTGTTTAGGACTTTTTATGCTGTTAAAAGGA
*
4993876 AAAAATATAAATTTGCTATTATTATTTTATTTTAACAGTTTGGATAGCTTCAATATATGATAATA
192 AAAAATATAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATATATGATAATA
* * * * *
4993941 AAC-TTGTCTGAATGATTGAACTTAGTTTTTATAGTTGATATGTGTG-AAA-TTGTTATCGTTAA
257 AACTTTTTC-GAATGATTGAACTTAGTTTTCATAGTTGATATATGTGAAAAGTTGATAT--TTAC
4994003 T
319 T
*
4994004 ATCTATTTAGGACTATTTT-TGCTGTTAAAAGGAAAAAATACAAATTTACTGTTATTATTCTATT
1 -TCTATTTAGGACT-TTTTATGCTGTTAAAAGGAAAAAATACAAATTTACTATTATTATTCTATT
* * * * * * * *
4994068 TTAAGAGTTTAGATGGTTTCAATATATGATATTAAACTTTTTTGAATGATTGAACTTGGTTTTCA
64 TTAACAGTTTGGATAGCTTCAATACATGATATTAAA-TTTTCTAAATAATTGAACTTGGTTTTCA
* ** * * *
4994133 TAGTTGATATATGTGAAAAA-TTACTGTTTACCTTTGTTTATGATTTTTTTTATGCCGTTAAAAG
128 TAGTTGATATATGTGAAAAACTAAC-GTTTATGTTTGTTTAGGA--CTTTTTATGCTGTTAAAAG
* * * * * *
4994197 GCAAAAATATAAATTTGCTATTATTGTTCTATTTTAATAGTTTGGATGGCTTCAATATGTGATAT
190 GAAAAAATATAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATATATGATAA
* * * *
4994262 TAAACTTTTTCAAATAATTGAACTTAGTTTTCACAGTTGATATATGTGAAAAAGTTGCTATTTAC
255 TAAACTTTTTCGAATGATTGAACTTAGTTTTCATAGTTGATATATGTG-AAAAGTTGATATTTAC
4994327 T
319 T
* * * ** * * *
4994328 TTTGTTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATATAAATTTACTGTTATTATTCTATTTT
1 TCTATTTAGGACTTTTTATGCTGTTAAAAGGAAAAAATACAAATTTACTATTATTATTCTATTTT
* * * * * * *
4994393 AACAGTTTGGGTAGTTTTAATACATGATATTAAACTTGTCTAAATAATTGAATTTAGTTTCCAT-
66 AACAGTTTGGATAGCTTCAATACATGATATTAAA-TTTTCTAAATAATTGAACTTGGTTTTCATA
4994457 GATTGATATATGTGAAAA
130 G-TTGATATATGTGAAAA
4994475 GGTAAAATGC
Statistics
Matches: 679, Mismatches: 88, Indels: 46
0.84 0.11 0.06
Matches are distributed among these distances:
319 22 0.03
320 147 0.22
321 126 0.19
322 128 0.19
323 239 0.35
324 8 0.01
325 3 0.00
326 6 0.01
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (319 bp):
TCTATTTAGGACTTTTTATGCTGTTAAAAGGAAAAAATACAAATTTACTATTATTATTCTATTTT
AACAGTTTGGATAGCTTCAATACATGATATTAAATTTTCTAAATAATTGAACTTGGTTTTCATAG
TTGATATATGTGAAAAACTAACGTTTATGTTTGTTTAGGACTTTTTATGCTGTTAAAAGGAAAAA
ATATAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATAGCTTCAATATATGATAATAAACT
TTTTCGAATGATTGAACTTAGTTTTCATAGTTGATATATGTGAAAAGTTGATATTTACT
Found at i:4994635 original size:170 final size:171
Alignment explanation
Indices: 4994328--4994636 Score: 365
Period size: 170 Copynumber: 1.8 Consensus size: 171
4994318 GCTATTTACT
* *
4994328 TTTGTTTAGGACTTTTTGTGCCATTAAAAGGCAAAAATATAAATTTACTGTTATTATTCTATTTT
1 TTTGTTTAAGACTTTTTGTGCCATTAAAAGGCAAAAATATAAATTTACAGTTATTATTCTATTTT
* * * ** * * * * **
4994393 AACAGTTTGGGTAGTTTTAATACATGATATTAAACTTGTCTAAATAATTGAATTTAGTTTCCATG
66 AACAATTTAGATAAATTAAATACATGATATTAAACTTGTCAAAATAATTAAATTGAGTTGACATG
4994458 ATTGATATATGTGAAAAGGTAAAATGCTGTTATTGTTTATG
131 ATTGATATATGTGAAAAGGTAAAATGCTGTTATTGTTTATG
** * * *
4994499 TTTGTTTAAGAC-TTTTGTGCTGTTAAAGGGTAAAAATATAATTTTACAGTTA-TATTTCTATTT
1 TTTGTTTAAGACTTTTTGTGCCATTAAAAGGCAAAAATATAAATTTACAGTTATTA-TTCTATTT
* * *
4994562 TAACAATTTAGATAAATTAAATACATGATATTAAATTTATTCAAAAT-TTTAAACTTGA-TTGAC
65 TAACAATTTAGATAAATTAAATACATGATATTAAACTT-GTCAAAATAATTAAA-TTGAGTTGAC
*
4994625 ATGCTTGATATA
128 ATGATTGATATA
4994637 CATGAATAAG
Statistics
Matches: 113, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
169 2 0.02
170 91 0.81
171 20 0.18
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (171 bp):
TTTGTTTAAGACTTTTTGTGCCATTAAAAGGCAAAAATATAAATTTACAGTTATTATTCTATTTT
AACAATTTAGATAAATTAAATACATGATATTAAACTTGTCAAAATAATTAAATTGAGTTGACATG
ATTGATATATGTGAAAAGGTAAAATGCTGTTATTGTTTATG
Found at i:5007090 original size:52 final size:52
Alignment explanation
Indices: 5006988--5007092 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
5006978 AAATAGAAGA
* * * *
5006988 TAAAATCTAATCTGCTAGTTTAAATGGCATATATATGTCATCTTTTCCTTTT
1 TAAAATCTAATCTACTAGATTAAATGGCATATATATGCCATCTTTCCCTTTT
5007040 TAAAATCTAATCTACTAGATTAAATGGCATATATATGCCAT-TTTCCCCTTTT
1 TAAAATCTAATCTACTAGATTAAATGGCATATATATGCCATCTTT-CCCTTTT
5007092 T
1 T
5007093 CTGTGTTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 3 0.06
52 45 0.94
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (52 bp):
TAAAATCTAATCTACTAGATTAAATGGCATATATATGCCATCTTTCCCTTTT
Found at i:5008992 original size:36 final size:36
Alignment explanation
Indices: 5008952--5009023 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
5008942 GATTGTCTGG
5008952 GAGATAGTCTTAAATACAAGAAAATCATGGAAAAAA
1 GAGATAGTCTTAAATACAAGAAAATCATGGAAAAAA
5008988 GAGATAGTCTTAAATACAAGAAAATCATGGAAAAAA
1 GAGATAGTCTTAAATACAAGAAAATCATGGAAAAAA
5009024 AGCGACTGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.56, C:0.08, G:0.17, T:0.19
Consensus pattern (36 bp):
GAGATAGTCTTAAATACAAGAAAATCATGGAAAAAA
Found at i:5014250 original size:17 final size:17
Alignment explanation
Indices: 5014228--5014262 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5014218 ATTATATTAC
* *
5014228 TGCATGGTATATTATAT
1 TGCATGATATAATATAT
5014245 TGCATGATATAATATAT
1 TGCATGATATAATATAT
5014262 T
1 T
5014263 ATTATTGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (17 bp):
TGCATGATATAATATAT
Found at i:5019276 original size:46 final size:46
Alignment explanation
Indices: 5019224--5019434 Score: 153
Period size: 46 Copynumber: 4.6 Consensus size: 46
5019214 TTAAAAGGGC
* *
5019224 TTTTTGAATGAGAAACTTTAAAATTTTGGATGTGAATCACCAAAAT
1 TTTTTGAATGAGAATCTTTAAAATTTTGGATGTGAATCATCAAAAT
* * ** * * ** *
5019270 TTTTTGAATGTGAATCTTTGAAATTTTAAAAGTGAAACAAAAAAAA
1 TTTTTGAATGAGAATCTTTAAAATTTTGGATGTGAATCATCAAAAT
** ** * *
5019316 AATTCAAATGAGAATCTTTGAAATTTTGGTTATG-GAAT-ATTAAAAT
1 TTTTTGAATGAGAATCTTTAAAATTTTGG--ATGTGAATCATCAAAAT
* * **
5019362 TTTTTGAAT-ATGAATCTTTAGAACTTTGGACATGAATC-TCAAAAT
1 TTTTTGAATGA-GAATCTTTAAAATTTTGGATGTGAATCATCAAAAT
* *
5019407 TTTTTGAATGAAAATCTTT-GAATTTTGG
1 TTTTTGAATGAGAATCTTTAAAATTTTGG
5019435 CTATAAACCT
Statistics
Matches: 125, Mismatches: 34, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
44 9 0.07
45 27 0.22
46 84 0.67
47 3 0.02
48 2 0.02
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (46 bp):
TTTTTGAATGAGAATCTTTAAAATTTTGGATGTGAATCATCAAAAT
Found at i:5019946 original size:68 final size:68
Alignment explanation
Indices: 5019844--5019974 Score: 156
Period size: 68 Copynumber: 1.9 Consensus size: 68
5019834 TGAAACTGGA
* * * * * *
5019844 AATCTTGCGAAATTGAAACCTCTACGAAAGTTGGAACCTTGCAAAACTTGA-AATTTTGCAAAAT
1 AATCTTGAGAAAATGAAACCTCTACAAAACTTGGAACCTTACAAAAC-TGAGAATCTTGCAAAAT
5019908 TGGG
65 TGGG
* * * *
5019912 AATCTTGAGAAAATGGAACCTTTACAAAACTTGGAATCTTACGAAACTGAGAATCTTGCAAAA
1 AATCTTGAGAAAATGAAACCTCTACAAAACTTGGAACCTTACAAAACTGAGAATCTTGCAAAA
5019975 CTAAAACCTT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
67 3 0.06
68 49 0.94
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (68 bp):
AATCTTGAGAAAATGAAACCTCTACAAAACTTGGAACCTTACAAAACTGAGAATCTTGCAAAATT
GGG
Found at i:5019958 original size:17 final size:17
Alignment explanation
Indices: 5019933--5019976 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
5019923 AATGGAACCT
5019933 TTACAAAACTTG-GAATC
1 TTACAAAAC-TGAGAATC
*
5019950 TTACGAAACTGAGAATC
1 TTACAAAACTGAGAATC
*
5019967 TTGCAAAACT
1 TTACAAAACT
5019977 AAAACCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (17 bp):
TTACAAAACTGAGAATC
Found at i:5019983 original size:51 final size:52
Alignment explanation
Indices: 5019928--5020028 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 52
5019918 GAGAAAATGG
* *
5019928 AACCTTTACAAAACTTGGAATC-TTACGAAACTGAGAATC-TTGCAAAACTAA
1 AACCTTTACAAAACTTAGAATCTTTACGAAACTG-GAACCTTTGCAAAACTAA
* * * *
5019979 AACCTTTGCGAAACTTAGAATCTTTATGAATCTGGAACCTTTGCAAAACT
1 AACCTTTACAAAACTTAGAATCTTTACGAAACTGGAACCTTTGCAAAACT
5020029 TGAAATTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 23 0.55
52 19 0.45
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (52 bp):
AACCTTTACAAAACTTAGAATCTTTACGAAACTGGAACCTTTGCAAAACTAA
Found at i:5020045 original size:35 final size:36
Alignment explanation
Indices: 5019979--5020052 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
5019969 GCAAAACTAA
* *
5019979 AACCTTTGCGAAACTTAGAATCTTTATGAATCTG-G
1 AACCTTTGCAAAACTTAGAATCTTTACGAATCTGAG
5020014 AACCTTTGCAAAACTT-GAAAT-TCTTACGAATCTGAG
1 AACCTTTGCAAAACTTAG-AATCT-TTACGAATCTGAG
5020050 AAC
1 AAC
5020053 TTTTACGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 2 0.06
35 28 0.82
36 4 0.12
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (36 bp):
AACCTTTGCAAAACTTAGAATCTTTACGAATCTGAG
Found at i:5024739 original size:14 final size:14
Alignment explanation
Indices: 5024720--5024749 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
5024710 TAGGCATTTT
5024720 TTTGTTATTGATTA
1 TTTGTTATTGATTA
5024734 TTTGTTATTGATTA
1 TTTGTTATTGATTA
5024748 TT
1 TT
5024750 CTAGGCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (14 bp):
TTTGTTATTGATTA
Found at i:5030076 original size:357 final size:355
Alignment explanation
Indices: 5029421--5030389 Score: 1293
Period size: 357 Copynumber: 2.7 Consensus size: 355
5029411 TTTAATAATA
* * * *
5029421 GATTACTAAGTTTAATGGTATATTAAAGATGCTTTTTCTAATAAATGCCTTCCATTACCATTGTG
1 GATTACTAAGTTTAAAGGTATATTGAAGGTGCTTTTT-TAATAAATGCCTTCCATTACCATCGTG
* * *
5029486 GTATATTGAAGGCCTGTCATAATAAAAGATACGTTTAATAATCCA-GA-AAAATTTTTTTAGAAA
65 ATATATTGAAGGCGTGTCATAATAAAAGATACCTTTAATAAT--ATGAGAAAA-TTTTTTAGAAA
* * * *
5029549 AATTATTGAAAGCATTGTTATCTGCAACCGCCTTTAGTAATTATCTACGAACTGTGATAAAAATT
127 AATTATTGAAAGCGTTGTTATTTGCAACCGCCTTGAGTAATTATCTACAAACTGTGATAAAAATT
* * * * * * *
5029614 ATTAAAGGCATTTTTCTTGGATATATGCCTTCAATAACAGTGTTAGAATTTATGTGGCAATATAT
192 ATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAATAATGTTAAAATTTATGTGACGATATAT
* * *
5029679 ATAAGGTATTTTACAATAAAAGATGCCTTTAATAATTTCTAAAAACTTTAGT-GAAAAAATTTTG
257 AAAAGGTATTTTACAATAAAAGACGCCTTCAATAATTTCTAAAAACTTTAGTAG-AAAAATTTTG
* * *
5029743 AAGGCGTTTGTTATTAACAAACACCTTCAGTAACG
321 AAGGCATCTATTATTAACAAACACCTTCAGTAACG
* *
5029778 GATTACTAAGTTTAAAAGTATATTGAAGGCGTCTTTTTTAATAAATGCCTTCCATTACCATCGTG
1 GATTACTAAGTTTAAAGGTATATTGAAGGTG-CTTTTTTAATAAATGCCTTCCATTACCATCGTG
5029843 ATATATTGAAGGCGTGTCATAATAAAAGATACCTTTAATAATATGAGAAAATATTTTTAGAAAAA
65 ATATATTGAAGGCGTGTCATAATAAAAGATACCTTTAATAATATGAGAAAAT-TTTTTAGAAAAA
*
5029908 TTATTGAAGGCGTTGTTATTTGCAACCGCCTTGAGTAATTATCTACAAACTGTGATAAAAATTAT
129 TTATTGAAAGCGTTGTTATTTGCAACCGCCTTGAGTAATTATCTACAAACTGTGATAAAAATTAT
* * *
5029973 TAAAGGCATCTTTCTTGGATCTACGCCTTCAATAATAATGTTAAAATTTTTGTGACGGTATATAA
194 TAAAGGCATCTTTCTTGGATATACGCCTTCAATAATAATGTTAAAATTTATGTGACGATATATAA
* * * **
5030038 AAGTTATTTTACAGTAGAAGACGCCTTCAATAATTTCTAAAATTTTTAGTAGAAAAATTTTGAAG
259 AAGGTATTTTACAATAAAAGACGCCTTCAATAATTTCTAAAAACTTTAGTAGAAAAATTTTGAAG
** *
5030103 GCATCTATTATTAACAAATGCCTTCAGTAATG
324 GCATCTATTATTAACAAACACCTTCAGTAACG
* * *
5030135 GATTACTAAGTTTAAAGGTATGTTGAAGGTGCTTTTTTGAATAAACGCCTTCCATAACCATCGTG
1 GATTACTAAGTTTAAAGGTATATTGAAGGTGCTTTTTT-AATAAATGCCTTCCATTACCATCGTG
* * * *
5030200 TTATACTGAAGGCGTGTCATAATAAAAGATACCTTTACTAATTTGAGAAAATTTTTTAGAAAAAT
65 ATATATTGAAGGCGTGTCATAATAAAAGATACCTTTAATAATATGAGAAAATTTTTTAGAAAAAT
* * * * * *
5030265 TATTGAATGTGTTGTT-TTCTGCAATCGCCTTCG-TTAATTATATACAAACTATGATAAAAATTA
130 TATTGAAAGCGTTGTTATT-TGCAACCGCCTT-GAGTAATTATCTACAAACTGTGATAAAAATTA
* * * * *
5030328 TTAGAA-ACGTCTTTCTTAGATATACGCCTTCAATAATCATGTTAAAATTTGTGTGACGATAT
193 TTA-AAGGCATCTTTCTTGGATATACGCCTTCAATAATAATGTTAAAATTTATGTGACGATAT
5030390 GTTCAAGGCG
Statistics
Matches: 543, Mismatches: 60, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
355 3 0.01
356 127 0.23
357 406 0.75
358 7 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (355 bp):
GATTACTAAGTTTAAAGGTATATTGAAGGTGCTTTTTTAATAAATGCCTTCCATTACCATCGTGA
TATATTGAAGGCGTGTCATAATAAAAGATACCTTTAATAATATGAGAAAATTTTTTAGAAAAATT
ATTGAAAGCGTTGTTATTTGCAACCGCCTTGAGTAATTATCTACAAACTGTGATAAAAATTATTA
AAGGCATCTTTCTTGGATATACGCCTTCAATAATAATGTTAAAATTTATGTGACGATATATAAAA
GGTATTTTACAATAAAAGACGCCTTCAATAATTTCTAAAAACTTTAGTAGAAAAATTTTGAAGGC
ATCTATTATTAACAAACACCTTCAGTAACG
Found at i:5036945 original size:433 final size:433
Alignment explanation
Indices: 5036136--5037003 Score: 1601
Period size: 433 Copynumber: 2.0 Consensus size: 433
5036126 AAATTAACAT
*
5036136 TTATTGTTATGTTTTAATAGATTTGATTATTTCAATACATGATATTAAACTTATTGAAAGTTTTG
1 TTATTGTTATGTTTTAATAGATTTGATTATTTCAATACATGATATTAAACTTATCGAAAGTTTTG
* *
5036201 AACTTAGTTACACATATGATATGTATGAAAAGTTACTGTTTACGTATATTTATGCCTTTATTATA
66 AACTTAGTTACACAGATGATATGTATGAAAAGTTACTGTTTACATATATTTATGCCTTTATTATA
5036266 TGGTTATTGTTATTGTTGTATTTTAACAGTTTCGATAGCTTCAATACTTGATATTAAGCTTGTCC
131 TGGTTATTGTTATTGTTGTATTTTAACAGTTTCGATAGCTTCAATACTTGATATTAAGCTTGTCC
5036331 GATTGATTGAACTTGGTTTCTATGGTTGATATGGGAGAAAAAATTGTCAGTTATGTCTGTTTGGG
196 GATTGATTGAACTTGGTTTCTATGGTTGATATGGGAGAAAAAATTGTCAGTTATGTCTGTTTGGG
*
5036396 AATATTTTTTCATATGAAAGGCAAATATACAAATAAATTTTGGATGCCTTTCAACATATTGAATG
261 AATATTTTTGCATATGAAAGGCAAATATACAAATAAATTTTGGATGCCTTTCAACATATTGAATG
* * *
5036461 GCTTCAATCCTTTATATTAAACTGAAATAAAATAATTGAATTTGATTTCCATGATCGATATGTGT
326 GCTTCAATCCTTCATATTAAACCGAAAGAAAATAATTGAATTTGATTTCCATGATCGATATGTGT
5036526 GAAAGCCCAAAATGCTTTTATTCTTTGCATATGTTTAAAACTA
391 GAAAGCCCAAAATGCTTTTATTCTTTGCATATGTTTAAAACTA
*
5036569 TTATTGTTATGTTTTAATAGATTTGATTGTTTCAATACATGATATTAAACTTATCGAAAGTTTTG
1 TTATTGTTATGTTTTAATAGATTTGATTATTTCAATACATGATATTAAACTTATCGAAAGTTTTG
*
5036634 AACTTAGTTACACAGATGATATGTATGAAAAGTTACTGTTTACATATATTTATGCCTTTATTATC
66 AACTTAGTTACACAGATGATATGTATGAAAAGTTACTGTTTACATATATTTATGCCTTTATTATA
*
5036699 TGGTTGTTGTTATTGTTGTATTTTAACAGTTTCGATAGCTTCAATACTTGATATTAAGCTTGTCC
131 TGGTTATTGTTATTGTTGTATTTTAACAGTTTCGATAGCTTCAATACTTGATATTAAGCTTGTCC
*
5036764 GATTGATTGAACTTGGTTTCTATGGTTGATATGGGAGAAAATATTGTCAGTTATGTCTGTTTGGG
196 GATTGATTGAACTTGGTTTCTATGGTTGATATGGGAGAAAAAATTGTCAGTTATGTCTGTTTGGG
5036829 AATATTTTTGCATATGAAAGGCAAATATACAAATAAATTTTGGATGCCTTTCAACATATTGAATG
261 AATATTTTTGCATATGAAAGGCAAATATACAAATAAATTTTGGATGCCTTTCAACATATTGAATG
** *
5036894 GCTTCAATCCTTCATATTAAACCGGGAGAAAATAATTGAATTTGGTTTCCATGATCGATATGTGT
326 GCTTCAATCCTTCATATTAAACCGAAAGAAAATAATTGAATTTGATTTCCATGATCGATATGTGT
*
5036959 GAAAGCCCAAAATGCTTTTATTCTTTGCATATGTTTAAGACTA
391 GAAAGCCCAAAATGCTTTTATTCTTTGCATATGTTTAAAACTA
5037002 TT
1 TT
5037004 GTGTTGTTAT
Statistics
Matches: 420, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
433 420 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (433 bp):
TTATTGTTATGTTTTAATAGATTTGATTATTTCAATACATGATATTAAACTTATCGAAAGTTTTG
AACTTAGTTACACAGATGATATGTATGAAAAGTTACTGTTTACATATATTTATGCCTTTATTATA
TGGTTATTGTTATTGTTGTATTTTAACAGTTTCGATAGCTTCAATACTTGATATTAAGCTTGTCC
GATTGATTGAACTTGGTTTCTATGGTTGATATGGGAGAAAAAATTGTCAGTTATGTCTGTTTGGG
AATATTTTTGCATATGAAAGGCAAATATACAAATAAATTTTGGATGCCTTTCAACATATTGAATG
GCTTCAATCCTTCATATTAAACCGAAAGAAAATAATTGAATTTGATTTCCATGATCGATATGTGT
GAAAGCCCAAAATGCTTTTATTCTTTGCATATGTTTAAAACTA
Found at i:5040543 original size:2 final size:2
Alignment explanation
Indices: 5040536--5040576 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
5040526 GGTGGAAGTT
* * *
5040536 TA TA TA TA CA TA CA TA TA TC 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 TA T
5040577 TTACAGATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:5042521 original size:13 final size:13
Alignment explanation
Indices: 5042492--5042529 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
5042482 TTAATCAAAC
5042492 ATTTTAATTTATCA
1 ATTTTAATTT-TCA
*
5042506 ATTTTAGTTTTCA
1 ATTTTAATTTTCA
5042519 ATTTTAATTTT
1 ATTTTAATTTT
5042530 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (13 bp):
ATTTTAATTTTCA
Found at i:5042699 original size:8 final size:8
Alignment explanation
Indices: 5042668--5042699 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
5042658 TATTACCTTA
*
5042668 TATTTTAA
1 TATTTTAT
5042676 TATTTTAT
1 TATTTTAT
5042684 TATTTTAT
1 TATTTTAT
5042692 TATTTTAT
1 TATTTTAT
5042700 ACATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
TATTTTAT
Found at i:5045575 original size:10 final size:10
Alignment explanation
Indices: 5045560--5045595 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
5045550 TTTTTAATAA
5045560 AATTTTAATT
1 AATTTTAATT
5045570 AATTTTAA--
1 AATTTTAATT
5045578 AATTTTAATT
1 AATTTTAATT
5045588 AATTTTAA
1 AATTTTAA
5045596 ATTTTACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
AATTTTAATT
Found at i:5045599 original size:17 final size:18
Alignment explanation
Indices: 5045557--5045601 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
5045547 ATTTTTTTAA
5045557 TAAAATTTTAATTAATTT
1 TAAAATTTTAATTAATTT
5045575 TAAAATTTTAATTAATTT
1 TAAAATTTTAATTAATTT
5045593 T-AAATTTTA
1 TAAAATTTTA
5045602 CTAAACAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAAAATTTTAATTAATTT
Found at i:5051893 original size:18 final size:16
Alignment explanation
Indices: 5051851--5051886 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
5051841 ATTTTAGTTT
5051851 TTATTAATTTTATATA
1 TTATTAATTTTATATA
5051867 TTATTAATTTTATA-A
1 TTATTAATTTTATATA
5051882 TTATT
1 TTATT
5051887 TTTAATTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTAATTTTATATA
Found at i:5052886 original size:19 final size:17
Alignment explanation
Indices: 5052852--5052892 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
5052842 TGGAAGCATC
5052852 TAAAAAAAAAAAAAAGA
1 TAAAAAAAAAAAAAAGA
*
5052869 TAAAAAACAAAGATAAAGA
1 TAAAAAA-AAA-AAAAAGA
5052888 TAAAA
1 TAAAA
5052893 TAAAGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 3 0.14
19 11 0.52
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.10
Consensus pattern (17 bp):
TAAAAAAAAAAAAAAGA
Done.