Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 48 of 318
Found at i:17840175 original size:18 final size:18
Alignment explanation
Indices: 17840154--17840338 Score: 144
Period size: 18 Copynumber: 10.3 Consensus size: 18
17840144 TTGGTTATCT
17840154 AGTAACAGTCAATTATTC
1 AGTAACAGTCAATTATTC
* *
17840172 AGTAA-AATCAGA-TATTT
1 AGTAACAGTCA-ATTATTC
* *
17840189 AGTAACAATTAAGTTATTC
1 AGTAACAGTCAA-TTATTC
***
17840208 AGTAGTTGTC-ATTCATTC
1 AGTAACAGTCAATT-ATTC
* * *
17840226 AGTGACAATCAGTTATTC
1 AGTAACAGTCAATTATTC
* *
17840244 AGTAATAATCAATTATTC
1 AGTAACAGTCAATTATTC
* * *
17840262 AGTAATATTCAGTTATTC
1 AGTAACAGTCAATTATTC
*
17840280 AGTAACAGTCTAA-TATCC
1 AGTAACAGTC-AATTATTC
*
17840298 AGTAACAGTCAATTATCC
1 AGTAACAGTCAATTATTC
*
17840316 GGTAACAGTCAATTATTC
1 AGTAACAGTCAATTATTC
17840334 AGTAA
1 AGTAA
17840339 TAATCAGTTA
Statistics
Matches: 132, Mismatches: 27, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
17 18 0.14
18 102 0.77
19 12 0.09
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
AGTAACAGTCAATTATTC
Found at i:17840283 original size:72 final size:71
Alignment explanation
Indices: 17840149--17840350 Score: 192
Period size: 72 Copynumber: 2.8 Consensus size: 71
17840139 ATTAATTGGT
* * * * * *
17840149 TATCTAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTTAGTAACAATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
** *
17840213 TTGTC-AT
64 CAGTCTAA
* * *
17840220 TCATTCAGTGACAATCAGTTATTCAGTAATAATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
17840285 CAGTCTAA
64 CAGTCTAA
* * * * *
17840293 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
17840351 TTATACCTTT
Statistics
Matches: 106, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
71 1 0.01
72 89 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:17840349 original size:18 final size:18
Alignment explanation
Indices: 17840068--17840350 Score: 133
Period size: 18 Copynumber: 15.3 Consensus size: 18
17840058 ACTCTCAAAA
* *
17840068 TTATTCAATAACAGTCAG
1 TTATTCAGTAACAATCAG
* *
17840086 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
* * *
17840104 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAG
* *
17840122 TTATTCAATATCGATCAATTAATTGG
1 TTATTCAGTA---A-CAA-TCA---G
* *
17840148 TTA-TCTAGTAACAGTCAA
1 TTATTC-AGTAACAATCAG
17840166 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAATCAG
* * *
17840183 ATATTTAGTAACAATTAAG
1 TTATTCAGTAACAA-TCAG
****
17840202 TTATTCAGTAGTTGTCA-
1 TTATTCAGTAACAATCAG
*
17840219 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAG
* *
17840238 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAATCAG
* *
17840256 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAG
*
17840274 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAATC-AG
* * * *
17840292 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAG
* * * *
17840310 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAG
*
17840328 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAG
17840346 TTATT
1 TTATT
17840351 TTATACCTTT
Statistics
Matches: 200, Mismatches: 49, Indels: 32
0.71 0.17 0.11
Matches are distributed among these distances:
17 16 0.08
18 150 0.75
19 16 0.08
21 3 0.01
22 4 0.02
23 2 0.01
25 2 0.01
26 7 0.04
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:17840531 original size:47 final size:47
Alignment explanation
Indices: 17840461--17840577 Score: 155
Period size: 47 Copynumber: 2.5 Consensus size: 47
17840451 CCGGAACAGT
* * *
17840461 AACAGTAGCAGTATGGTACACAGAATACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACGGTACACAGAATACCTCATCGGAACAAATCCGA
* * * *
17840508 GACAGTAATAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTACGGTACACAGAATACCTCATCGGAACAAATCCGA
17840555 AACAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAGT-ACGGTACACAG
17840578 TATTCAACAC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
47 54 0.90
48 6 0.10
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAATACCTCATCGGAACAAATCCGA
Found at i:17840664 original size:12 final size:12
Alignment explanation
Indices: 17840647--17840671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17840637 AGTGCCGAAT
17840647 CGGTAACAGTAA
1 CGGTAACAGTAA
17840659 CGGTAACAGTAA
1 CGGTAACAGTAA
17840671 C
1 C
17840672 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:17840665 original size:45 final size:45
Alignment explanation
Indices: 17840559--17840669 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
17840549 ATCTGAAACA
*
17840559 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTAAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCCAAATCG
* ** ** * *
17840604 ATAATGGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCCAAATCG
17840649 GTAACAGTAACGGTAACAGTA
1 GTAACAGTAACGGTAACAGTA
17840670 ACAGTAGTCG
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCCAAATCG
Found at i:17842211 original size:20 final size:18
Alignment explanation
Indices: 17842177--17842221 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
17842167 AAACTTTCAA
17842177 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
17842195 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
17842215 -TTTCCCT
1 TTTTCCCT
17842222 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:17850795 original size:88 final size:86
Alignment explanation
Indices: 17850639--17850861 Score: 250
Period size: 88 Copynumber: 2.6 Consensus size: 86
17850629 CTTAATGGTG
* *** * * *
17850639 TAAAAAACCCTTAAATTTTTTCAAAAACTTCAATTAAGCCCCTACTTTTTTTGCAGTCACTTGAG
1 TAAAAAACCCTCAAATTTTTTCAAAAAAAACAATTAAGCCCCTGCTTTTTTTGCACTCAATTGAG
17850704 TACTTAAACTTGCACAA-TACA
66 TACTTAAACTTGCA-AATTACA
* * **
17850725 TCAAAAAGACCGTCAATTTTTTTCAAAAAAAACAATTAAGCCCCTGCTTTTTTTTTACTCAATTG
1 T-AAAAA-ACCCTCAAATTTTTTCAAAAAAAACAATTAAGCCCCTGCTTTTTTTGCACTCAATTG
* * *
17850790 GGTACTTAAACTTTCAAATTGCA
64 AGTACTTAAACTTGCAAATTACA
* * * *
17850813 TAAAAAACCCTCAAACTTTTTCAAAAAAAGCAACTAAGTCCCTGCTTTT
1 TAAAAAACCCTCAAATTTTTTCAAAAAAAACAATTAAGCCCCTGCTTTT
17850862 CCTTCTTTTT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
86 38 0.33
87 12 0.11
88 64 0.56
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (86 bp):
TAAAAAACCCTCAAATTTTTTCAAAAAAAACAATTAAGCCCCTGCTTTTTTTGCACTCAATTGAG
TACTTAAACTTGCAAATTACA
Found at i:17851010 original size:19 final size:18
Alignment explanation
Indices: 17850988--17851046 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
17850978 AAATCAATAA
*
17850988 AAAATATTAAATTTTAAT
1 AAAATATTAAATATTAAT
*
17851006 GAAAATATAAAAATATTAAT
1 -AAAATAT-TAAATATTAAT
* *
17851026 AAATTATTAAAAATT-AT
1 AAAATATTAAATATTAAT
17851043 AAAA
1 AAAA
17851047 ATTCAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
19 13 0.39
20 9 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATATTAAATATTAAT
Found at i:17851019 original size:20 final size:20
Alignment explanation
Indices: 17850988--17851040 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
17850978 AAATCAATAA
17850988 AAAATATT--AAATTTTAAT
1 AAAATATTAAAAATTTTAAT
*
17851006 GAAAATA-TAAAAATATTAAT
1 -AAAATATTAAAAATTTTAAT
*
17851026 AAATTATTAAAAATT
1 AAAATATTAAAAATT
17851041 ATAAAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.04
19 11 0.39
20 16 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAATATTAAAAATTTTAAT
Found at i:17851039 original size:10 final size:10
Alignment explanation
Indices: 17851013--17851049 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
17851003 AATGAAAATA
17851013 TAAAAA-TAT
1 TAAAAATTAT
17851022 TAATAAATTAT
1 TAA-AAATTAT
17851033 TAAAAATTA-
1 TAAAAATTAT
17851042 TAAAAATT
1 TAAAAATT
17851050 CAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 11 0.42
10 9 0.35
11 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:17851047 original size:9 final size:9
Alignment explanation
Indices: 17851007--17851205 Score: 59
Period size: 10 Copynumber: 20.6 Consensus size: 9
17850997 AATTTTAATG
17851007 AAAA-TATA
1 AAAATTATA
17851015 AAAA-TATTA
1 AAAATTA-TA
17851024 ATAAATTATTA
1 A-AAATTA-TA
17851035 AAAATTATA
1 AAAATTATA
*
17851044 AAAATTCAAAAA
1 AAAATT---ATA
17851056 AAAATTCATA
1 AAAATT-ATA
*
17851066 AAATTTTATA
1 AAA-ATTATA
*
17851076 AAAATCGTAAAA
1 AAAAT--T-ATA
17851088 AAAATCTAT-
1 AAAAT-TATA
17851097 AAAATATATA
1 AAAAT-TATA
*
17851107 GAAA-TATA
1 AAAATTATA
* * *
17851115 GAAATACAGA
1 AAAAT-TATA
*
17851125 AAAAATAT-
1 AAAATTATA
*
17851133 AAAATTTTA
1 AAAATTATA
* *
17851142 TAAATTTGTAA
1 -AAAATTAT-A
17851153 GAAAATTATA
1 -AAAATTATA
*
17851163 AAAAATATA
1 AAAATTATA
17851172 AAGAATTAT-
1 AA-AATTATA
*
17851181 AAAATTCGTA
1 AAAATT-ATA
17851191 AAGAATTATA
1 AA-AATTATA
17851201 AAAAT
1 AAAAT
17851206 GATCGTACTA
Statistics
Matches: 144, Mismatches: 27, Indels: 39
0.69 0.13 0.19
Matches are distributed among these distances:
8 24 0.17
9 37 0.26
10 47 0.33
11 21 0.15
12 15 0.10
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:17851080 original size:32 final size:32
Alignment explanation
Indices: 17851039--17851145 Score: 85
Period size: 32 Copynumber: 3.2 Consensus size: 32
17851029 TTATTAAAAA
17851039 TTATAAAAATTC-AAAAAAAAAT-TCATAAAATT
1 TTATAAAAA-TCGAAAAAAAAATCT-ATAAAATT
*
17851071 TTATAAAAATCGTAAAAAAAATCTATAAAA-T
1 TTATAAAAATCGAAAAAAAAATCTATAAAATT
* * **
17851102 ATATAGAAATATAGAAATACAGAAAAAATATAAAATT
1 TTATA-AAA-ATCGAAA-A-A-AAAATCTATAAAATT
17851139 TTATAAA
1 TTATAAA
17851146 TTTGTAAGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
31 7 0.12
32 27 0.45
33 6 0.10
34 1 0.02
35 1 0.02
36 13 0.22
37 5 0.08
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.29
Consensus pattern (32 bp):
TTATAAAAATCGAAAAAAAAATCTATAAAATT
Found at i:17851178 original size:19 final size:20
Alignment explanation
Indices: 17851156--17851204 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
17851146 TTTGTAAGAA
17851156 AATTATAAAAAAT-ATAAAG
1 AATTATAAAAAATCATAAAG
* *
17851175 AATTAT-AAAATTCGTAAAG
1 AATTATAAAAAATCATAAAG
17851194 AATTATAAAAA
1 AATTATAAAAA
17851205 TGATCGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 5 0.19
19 17 0.65
20 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (20 bp):
AATTATAAAAAATCATAAAG
Found at i:17851181 original size:10 final size:9
Alignment explanation
Indices: 17851154--17851205 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
17851144 AATTTGTAAG
17851154 AAAATTATA
1 AAAATTATA
*
17851163 AAAAATATA
1 AAAATTATA
17851172 AAGAATTAT-
1 AA-AATTATA
*
17851181 AAAATTCGTA
1 AAAATT-ATA
17851191 AAGAATTATA
1 AA-AATTATA
17851201 AAAAT
1 AAAAT
17851206 GATCGTACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 4 0.11
9 16 0.46
10 11 0.31
11 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:17851181 original size:38 final size:38
Alignment explanation
Indices: 17851124--17851204 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
17851114 AGAAATACAG
* *
17851124 AAAAAATATAAAATTTTAT-AAATTTGTAAGAAAATTAT
1 AAAAAATATAAAATATTATAAAATTCGTAA-AAAATTAT
*
17851162 AAAAAATATAAAGA-ATTATAAAATTCGTAAAGAATTAT
1 AAAAAATATAAA-ATATTATAAAATTCGTAAAAAATTAT
17851200 AAAAA
1 AAAAA
17851205 TGATCGTACT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 28 0.74
39 10 0.26
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (38 bp):
AAAAAATATAAAATATTATAAAATTCGTAAAAAATTAT
Found at i:17851203 original size:67 final size:68
Alignment explanation
Indices: 17851055--17851203 Score: 160
Period size: 67 Copynumber: 2.2 Consensus size: 68
17851045 AAATTCAAAA
* * *
17851055 AAAAATTCATAAAATTTTATAAAAATCGTAAAAAAAATCTATAAAATATATAGAAATATAGAAAT
1 AAAAATT-ATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGAAATATAGAAAT
17851120 ACAG
65 ACAG
* * * * * * *
17851124 AAAAAATATAAAATTTTAT-AAATTTGTAAGAAAATTATAAAAAATATAAAGAATTATA-AAATT
1 AAAAATTATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGAAATATAGAAATA
17851187 C-G
66 CAG
17851189 TAAAGAATTATAAAA
1 -AAA-AATTATAAAA
17851204 ATGATCGTAC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
65 1 0.01
66 8 0.12
67 40 0.60
68 12 0.18
69 6 0.09
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (68 bp):
AAAAATTATAAAATTTTATAAAAATCGTAAAAAAAATATAAAAAATATAAAGAAATATAGAAATA
CAG
Found at i:17851454 original size:19 final size:19
Alignment explanation
Indices: 17851387--17851455 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
17851377 TTTTGATACA
* *
17851387 TTTTATAATTTTTTATGAT
1 TTTTATAAATTTTTACGAT
* * *
17851406 TTGTATAAAATTTTACAAT
1 TTTTATAAATTTTTACGAT
*
17851425 ACTTTAT-AATTTTTACGAT
1 -TTTTATAAATTTTTACGAT
17851444 TTTTATAAATTT
1 TTTTATAAATTT
17851456 GTTTCTAATT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
18 5 0.13
19 29 0.76
20 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTATAAATTTTTACGAT
Found at i:17851483 original size:30 final size:30
Alignment explanation
Indices: 17851449--17851510 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
17851439 ACGATTTTTA
17851449 TAAATTTGTTTCTA-ATTTTTTAAT-AAATTT
1 TAAATTT-TTT-TATATTTTTTAATAAAATTT
* *
17851479 TAAATTTTTTTATCTTTTTTATTAAAATTT
1 TAAATTTTTTTATATTTTTTAATAAAATTT
17851509 TA
1 TA
17851511 TTTTTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 11 0.39
30 15 0.54
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (30 bp):
TAAATTTTTTTATATTTTTTAATAAAATTT
Found at i:17851515 original size:29 final size:30
Alignment explanation
Indices: 17851464--17851521 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
17851454 TTGTTTCTAA
17851464 TTTTTTAATAAATTTTAAATTTT-TTTATC
1 TTTTTTAATAAATTTTAAATTTTATTTATC
* *
17851493 TTTTTTATTAAAATTTT-ATTTTTATTTAT
1 TTTTTTAAT-AAATTTTAAATTTTATTTAT
17851522 TATATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTTTTAATAAATTTTAAATTTTATTTATC
Found at i:17851530 original size:21 final size:20
Alignment explanation
Indices: 17851485--17851530 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
17851475 ATTTTAAATT
17851485 TTTTTATCTTTTTTATTAAA
1 TTTTTATCTTTTTTATTAAA
* * *
17851505 ATTTTATTTTTATTTATTATA
1 TTTTTATCTTT-TTTATTAAA
17851526 TTTTT
1 TTTTT
17851531 TGCCACATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATCTTTTTTATTAAA
Found at i:17851787 original size:90 final size:87
Alignment explanation
Indices: 17851634--17851903 Score: 314
Period size: 87 Copynumber: 3.1 Consensus size: 87
17851624 GTCAAATAGC
* * *
17851634 CTTTTTAATGCA-TTTTACAA-TTCAAGTACCTAATTGAGTGTTAAAAAAAATCAAGGGCTTAAT
1 CTTTTTAATGCATTTTTA-AAGTTCAAGTACCCAATTGAGTG-AAAAAAAAAACAAGGGCTTAAT
17851697 TGCTTTATTTGAAAAAGTTTGAGGG
64 TGCTTT-TTTGAAAAAGTTTGAGGG
* * * *
17851722 CCTTTTAATGTATTTTTTAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAAGCAGGGGCCTAAT
1 CTTTTTAATGCA-TTTTTAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAA-CAAGGGCTTAAT
****
17851787 T--TTTTTTTTTTAAGTTTGAGGG
64 TGCTTTTTTGAAAAAGTTTGAGGG
* * *
17851809 CATTTTTTATGCATTTTGAAAGTTCAAATACCCAATTGAGTGAAAAAAAAAACAAGGGCTTAATT
1 C-TTTTTAATGCATTTTTAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAACAAGGGCTTAATT
*
17851874 GCTTTTTTTGAAAAAGCTTGAGGG
65 GC-TTTTTTGAAAAAGTTTGAGGG
17851898 CTTTTT
1 CTTTTT
17851904 TACACCCTTA
Statistics
Matches: 151, Mismatches: 23, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
86 11 0.07
87 52 0.34
88 26 0.17
89 27 0.18
90 35 0.23
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (87 bp):
CTTTTTAATGCATTTTTAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAACAAGGGCTTAATTG
CTTTTTTGAAAAAGTTTGAGGG
Found at i:17857963 original size:58 final size:58
Alignment explanation
Indices: 17857868--17857980 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 58
17857858 CTTGGCTTCA
** * * *
17857868 ATAGATACCTTGTTCCTTTCTGAAAGGTTAGCCTTGACAAGTGAAATGGTAAGGCTGG
1 ATAGATACCTTGTTCCTTTCCAAAAGGCTAGCATTGACAAATGAAATGGTAAGGCTGG
*
17857926 ATAGATCCCTTGTTCCTTTCCAAAAGGCTAGCATTGACAAATGAAATGGTAAGGC
1 ATAGATACCTTGTTCCTTTCCAAAAGGCTAGCATTGACAAATGAAATGGTAAGGC
17857981 AGAAATTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (58 bp):
ATAGATACCTTGTTCCTTTCCAAAAGGCTAGCATTGACAAATGAAATGGTAAGGCTGG
Found at i:17866068 original size:16 final size:18
Alignment explanation
Indices: 17866047--17866083 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17866037 TCAATATCAG
17866047 TCAAT-ATTTT-TCAATA
1 TCAATAATTTTATCAATA
17866063 TCAATAATTTTATCAATA
1 TCAATAATTTTATCAATA
17866081 TCA
1 TCA
17866084 TTCAGTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 5 0.26
18 9 0.47
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (18 bp):
TCAATAATTTTATCAATA
Found at i:17866106 original size:18 final size:18
Alignment explanation
Indices: 17866083--17866161 Score: 113
Period size: 18 Copynumber: 4.4 Consensus size: 18
17866073 TATCAATATC
17866083 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* *
17866101 ATTCAGTAGCAATCAGTT
1 ATTCAGTAACAATCAATT
17866119 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
* * *
17866137 ATTCAGTAACAGTCAGTC
1 ATTCAGTAACAATCAATT
17866155 ATTCAGT
1 ATTCAGT
17866162 GCCTTTATTC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:17866124 original size:36 final size:36
Alignment explanation
Indices: 17866081--17866161 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
17866071 TTTATCAATA
*
17866081 TCATTCAGTAACAATCAATTATTCAGTAGCAATCAG
1 TCATTCAGTAACAATCAATTATTCAGTAACAATCAG
* *
17866117 TTATTCAGTAACAATCAATTATTCAGTAACAGTCAG
1 TCATTCAGTAACAATCAATTATTCAGTAACAATCAG
17866153 TCATTCAGT
1 TCATTCAGT
17866162 GCCTTTATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (36 bp):
TCATTCAGTAACAATCAATTATTCAGTAACAATCAG
Found at i:17866405 original size:44 final size:44
Alignment explanation
Indices: 17866315--17866406 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
17866305 CCGAAGTAAC
* * *
17866315 AGTAACAGTACGACACACATGGTGCCTCATCGACTCGAAGTTGA
1 AGTAACAATACGACACACATAGTGCCTCATCGACTCGAAGTCGA
**
17866359 AGTAACAATACGACACTTATAGTGCCTCATCGACTC-AAGGTCGA
1 AGTAACAATACGACACACATAGTGCCTCATCGACTCGAA-GTCGA
17866403 AGTA
1 AGTA
17866407 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTAACAATACGACACACATAGTGCCTCATCGACTCGAAGTCGA
Found at i:17867064 original size:13 final size:12
Alignment explanation
Indices: 17867038--17867078 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
17867028 AATCCCTAGT
*
17867038 TTTTCCTTTTTC
1 TTTTCTTTTTTC
17867050 TTTTCTTTTTCTC
1 TTTTCTTTTT-TC
17867063 TTTTCTTTCTTTC
1 TTTTCTTT-TTTC
17867076 TTT
1 TTT
17867079 CCCGTTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.35
13 15 0.58
14 2 0.08
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:17867171 original size:2 final size:2
Alignment explanation
Indices: 17867127--17867153 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17867117 TTCTTTTCTT
17867127 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
17867154 TAGTTAATAA
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:17867186 original size:12 final size:13
Alignment explanation
Indices: 17867160--17867195 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
17867150 ATATTAGTTA
17867160 ATAATAATATATT
1 ATAATAATATATT
17867173 ATAATAAT-TATT
1 ATAATAATATATT
17867185 ATAATAA-ATAT
1 ATAATAATATAT
17867196 CTATTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAATAATATATT
Found at i:17867754 original size:9 final size:9
Alignment explanation
Indices: 17867737--17867800 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
17867727 TTAGTTTATT
17867737 TATAA-TAA
1 TATAATTAA
17867745 TATAATTAA
1 TATAATTAA
17867754 TATAATTAA
1 TATAATTAA
*
17867763 TATAATTCA
1 TATAATTAA
*
17867772 -A-AATATGA
1 TATAAT-TAA
17867780 TATAA-TAA
1 TATAATTAA
17867788 TATAATTTAA
1 TATAA-TTAA
17867798 TAT
1 TAT
17867801 TTAACCAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 3 0.06
8 15 0.32
9 21 0.45
10 8 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (9 bp):
TATAATTAA
Found at i:17871220 original size:19 final size:19
Alignment explanation
Indices: 17871188--17871242 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
17871178 ATGCGTCAAG
* * *
17871188 ATGCACTTTGTGTGCTAGT
1 ATGCACTATATGTGCCAGT
*
17871207 ATGCATTATATGTGCCAGT
1 ATGCACTATATGTGCCAGT
17871226 ATGCACTATATGTGCCA
1 ATGCACTATATGTGCCA
17871243 ATTTTCCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (19 bp):
ATGCACTATATGTGCCAGT
Found at i:17877688 original size:174 final size:172
Alignment explanation
Indices: 17877350--17877692 Score: 526
Period size: 174 Copynumber: 2.0 Consensus size: 172
17877340 CAAATGGGCT
* * * * *
17877350 ATTTGCCCATTAGCCCTCTAACTCTAACTTATTTTCTAATTTTACTAAAATTCCTTATTTATTAT
1 ATTTGCCCATTAGCCCTCAAACTCTAACTCATTTCCTAATTCTACTAAAATTCCCTATTTATTAT
*
17877415 TTTATCAAATTGAAACCCTAACTTTCTCTATTTATACCCTAGTTTTCTATCAAAATTCTCTATTT
66 TTTATCAAATTGAAACCCTAACTCTCTCTATTTATACCCTAGTTTTCTATCAAAATTCTCTATTT
17877480 CAAAACTCTTTTAATCCCTTAAGTTCTACTGAAAAATAACTC
131 CAAAACTCTTTTAATCCCTTAAGTTCTACTGAAAAATAACTC
* * * *
17877522 ATTTGGCCATTAGTCCTCAAATTCTCTAAGTCATTTCCTAATTCTACTAAAATTCCCTATTTGTT
1 ATTTGCCCATTAGCCCTCAAA--CTCTAACTCATTTCCTAATTCTACTAAAATTCCCTATTTATT
* *
17877587 ATTTTATCAAATTGAAACCCTAACTCTCTCTATTTATAACCC-AGTTTTCTCTTAAAATTCTCTA
64 ATTTTATCAAATTGAAACCCTAACTCTCTCTATTTAT-ACCCTAGTTTTCTATCAAAATTCTCTA
* *
17877651 TTTCAAAACTCTTTTAATCCCTTAAGTTTTGCTGAAAAATAA
128 TTTCAAAACTCTTTTAATCCCTTAAGTTCTACTGAAAAATAA
17877693 TCTTTAAAGT
Statistics
Matches: 154, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
172 18 0.12
174 132 0.86
175 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.43
Consensus pattern (172 bp):
ATTTGCCCATTAGCCCTCAAACTCTAACTCATTTCCTAATTCTACTAAAATTCCCTATTTATTAT
TTTATCAAATTGAAACCCTAACTCTCTCTATTTATACCCTAGTTTTCTATCAAAATTCTCTATTT
CAAAACTCTTTTAATCCCTTAAGTTCTACTGAAAAATAACTC
Found at i:17879820 original size:8 final size:8
Alignment explanation
Indices: 17879809--17879842 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
17879799 TATATAGATG
*
17879809 TACATATA
1 TACAAATA
17879817 TACAAATA
1 TACAAATA
17879825 TACAAATA
1 TACAAATA
*
17879833 TACAGATA
1 TACAAATA
17879841 TA
1 TA
17879843 ATATATGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (8 bp):
TACAAATA
Found at i:17879828 original size:16 final size:16
Alignment explanation
Indices: 17879809--17879848 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
17879799 TATATAGATG
17879809 TACATATATACAAATA
1 TACATATATACAAATA
* *
17879825 TACAAATATACAGATA
1 TACATATATACAAATA
17879841 TA-ATATAT
1 TACATATAT
17879849 GCTTATACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (16 bp):
TACATATATACAAATA
Found at i:17883440 original size:18 final size:19
Alignment explanation
Indices: 17883397--17883438 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
17883387 AATGGCTTCC
17883397 AAAAAA-TTATTTTT-TAA
1 AAAAAATTTATTTTTCTAA
17883414 AAAATAATTTATTTTTCTAGA
1 AAAA-AATTTATTTTTCTA-A
17883435 AAAA
1 AAAA
17883439 TTAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.19
18 2 0.10
19 8 0.38
20 2 0.10
21 5 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAAAATTTATTTTTCTAA
Found at i:17884008 original size:13 final size:14
Alignment explanation
Indices: 17883970--17884011 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
17883960 TATGTGAATA
17883970 ATATTATTTAAAATT
1 ATATTA-TTAAAATT
*
17883985 ATAATTTTTAAAATT
1 AT-ATTATTAAAATT
17884000 -TATTATTAAAAT
1 ATATTATTAAAAT
17884012 AAAATTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATATTATTAAAATT
Found at i:17884046 original size:16 final size:19
Alignment explanation
Indices: 17884027--17884076 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
17884017 TGAACTATTA
17884027 AATAATTTATTAA-A-AT-
1 AATAATTTATTAATATATC
17884043 AATAAATTATATTAATTATATC
1 AAT-AATT-TATTAA-TATATC
17884065 AATAATTTATTA
1 AATAATTTATTA
17884077 TATGAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.11
17 4 0.14
18 6 0.21
20 6 0.21
21 6 0.21
22 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATTTATTAATATATC
Found at i:17885072 original size:16 final size:18
Alignment explanation
Indices: 17885045--17885079 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17885035 TCCTCTTCAT
17885045 CCTCTATTTC-TTTTCTC
1 CCTCTATTTCTTTTTCTC
17885062 CCTCT-TTTCTTTTTCTC
1 CCTCTATTTCTTTTTCTC
17885079 C
1 C
17885080 TATTTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (18 bp):
CCTCTATTTCTTTTTCTC
Found at i:17885085 original size:16 final size:17
Alignment explanation
Indices: 17885051--17885087 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17885041 TCATCCTCTA
*
17885051 TTTC-TTTTCTCCCTCT
1 TTTCTTTTTCTCCCTAT
17885067 TTTCTTTTTCT-CCTAT
1 TTTCTTTTTCTCCCTAT
17885083 TTTCT
1 TTTCT
17885088 CTCATAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCTTTTTCTCCCTAT
Found at i:17886134 original size:43 final size:43
Alignment explanation
Indices: 17886072--17886318 Score: 220
Period size: 43 Copynumber: 5.8 Consensus size: 43
17886062 GAAAAGTGAC
** *
17886072 ATTTTATCTGTAAATATGTTGTGCATCCACAGCCTAGTGGCAG
1 ATTTTATCTACAAATATGTTGTGCATCCACAGCCCAGTGGCAG
* * *
17886115 ATTTTATCTACAACA-ATGTTGTGCACCCACAGCCCACTGACAG
1 ATTTTATCTACAA-ATATGTTGTGCATCCACAGCCCAGTGGCAG
* * * * * ** *
17886158 TTTTTATCTTCAAATATGTTGTGTATCCACAACTCAACGACA-
1 ATTTTATCTACAAATATGTTGTGCATCCACAGCCCAGTGGCAG
* * *
17886200 ATTTTTATTTGCAAATATGTTGTGCATCCACAACCCAGTGGCA-
1 A-TTTTATCTACAAATATGTTGTGCATCCACAGCCCAGTGGCAG
*** *
17886243 A-TTTATCTACAAATATAACGTGCATCCACAACCCAGTGGTC-G
1 ATTTTATCTACAAATATGTTGTGCATCCACAGCCCAGTGG-CAG
*
17886285 --TTTATCTATAAATATGTTGTGCATCCACAGCCCA
1 ATTTTATCTACAAATATGTTGTGCATCCACAGCCCA
17886319 ATGGTGGTTT
Statistics
Matches: 167, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
41 62 0.37
42 2 0.01
43 102 0.61
44 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (43 bp):
ATTTTATCTACAAATATGTTGTGCATCCACAGCCCAGTGGCAG
Found at i:17886266 original size:41 final size:41
Alignment explanation
Indices: 17886221--17886323 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
17886211 CAAATATGTT
17886221 GTGCATCCACAACCCAGTGG-CAATTTATCTACAAATATAAC
1 GTGCATCCACAACCCAGTGGTC-ATTTATCTACAAATATAAC
* * ***
17886262 GTGCATCCACAACCCAGTGGTCGTTTATCTATAAATATGTT
1 GTGCATCCACAACCCAGTGGTCATTTATCTACAAATATAAC
* *
17886303 GTGCATCCACAGCCCAATGGT
1 GTGCATCCACAACCCAGTGGT
17886324 GGTTTTTATC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 53 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (41 bp):
GTGCATCCACAACCCAGTGGTCATTTATCTACAAATATAAC
Found at i:17889303 original size:65 final size:65
Alignment explanation
Indices: 17889198--17889328 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
17889188 TTCCCATATG
*
17889198 TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCGTGAGGTTTAATTCAAAATTGAGTTGTTGC
1 TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCATGAGGTTTAATTCAAAATTGAGTTGTTGC
*
17889263 TATTCTCGATGAGCTACCAGGGTTACCTCCAAACTATGAGGTTTAATTCAAAATTGAGTTGTTGC
1 TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCATGAGGTTTAATTCAAAATTGAGTTGTTGC
17889328 T
1 T
17889329 GGAAACTACT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (65 bp):
TATTCTCGATGAGCTACCAGGGTTACCTCCAAACCATGAGGTTTAATTCAAAATTGAGTTGTTGC
Found at i:17894344 original size:17 final size:17
Alignment explanation
Indices: 17894322--17894369 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
17894312 ACTAAAATTC
17894322 CTTTTCATCCTCTATTT
1 CTTTTCATCCTCTATTT
* * *
17894339 CTTTTCTTCCTTTTTTTT
1 CTTTTCATCC-TCTATTT
*
17894357 CTTTTCCTCCTCT
1 CTTTTCATCCTCT
17894370 TTTATCACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (17 bp):
CTTTTCATCCTCTATTT
Found at i:17894359 original size:18 final size:19
Alignment explanation
Indices: 17894336--17894372 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
17894326 TCATCCTCTA
*
17894336 TTTCTTTTCTTCCT-TTTT
1 TTTCTTTTCCTCCTCTTTT
17894354 TTTCTTTTCCTCCTCTTTT
1 TTTCTTTTCCTCCTCTTTT
17894373 ATCACATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCTTTTCCTCCTCTTTT
Found at i:17897167 original size:18 final size:18
Alignment explanation
Indices: 17897144--17897181 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
17897134 TTCATACAAA
17897144 TTCCAGTTTAAACTAAAT
1 TTCCAGTTTAAACTAAAT
17897162 TTCCAGTTTAAACTAAAT
1 TTCCAGTTTAAACTAAAT
17897180 TT
1 TT
17897182 AACTCCCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (18 bp):
TTCCAGTTTAAACTAAAT
Found at i:17904761 original size:25 final size:23
Alignment explanation
Indices: 17904733--17904778 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
17904723 ACTTTAATTA
17904733 ATATAATATATAAAATAAATTTAAC
1 ATATAATATAT-AAAT-AATTTAAC
*
17904758 ATATAATTTATAAATAATTTA
1 ATATAATATATAAATAATTTA
17904779 CTAATGCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 4 0.20
25 10 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATAATATATAAATAATTTAAC
Found at i:17905519 original size:12 final size:13
Alignment explanation
Indices: 17905497--17905525 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17905487 GATATTATTA
17905497 TATAGAGAGATAT
1 TATAGAGAGATAT
17905510 TATA-AGAGATAT
1 TATAGAGAGATAT
17905522 TATA
1 TATA
17905526 CCAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (13 bp):
TATAGAGAGATAT
Found at i:17906741 original size:16 final size:16
Alignment explanation
Indices: 17906722--17906763 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
17906712 AATTTGATCG
17906722 AATTAATAATAAATTT
1 AATTAATAATAAATTT
*
17906738 AATTTAATTA-AAATTT
1 AA-TTAATAATAAATTT
17906754 AATTAATAAT
1 AATTAATAAT
17906764 TTTTTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 6 0.27
16 10 0.45
17 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAATAATAAATTT
Found at i:17906752 original size:11 final size:11
Alignment explanation
Indices: 17906738--17906775 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17906728 TAATAAATTT
17906738 AATTTAATTAA
1 AATTTAATTAA
17906749 AATTTAATTAA
1 AATTTAATTAA
*
17906760 TAATTT-TTTAA
1 -AATTTAATTAA
17906771 AATTT
1 AATTT
17906776 CGATTATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 5 0.20
11 15 0.60
12 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTTAATTAA
Found at i:17907848 original size:33 final size:31
Alignment explanation
Indices: 17907809--17907917 Score: 100
Period size: 33 Copynumber: 3.4 Consensus size: 31
17907799 AGAAAGTGGT
17907809 AAGAGAACAAGTTGATTGAGAGATATAGAAAG
1 AAGAGAACAAGTTGA-TGAGAGATATAGAAAG
* *
17907841 AGAGAGAACAAGTTTAGATGCG-GA-A-AG-GAG
1 A-AGAGAACAAG-TT-GATGAGAGATATAGAAAG
17907871 CAAGAGAACAAGTTGACTGAGAGATATAGAAAG
1 -AAGAGAACAAGTTGA-TGAGAGATATAGAAAG
*
17907904 AACGAGCACAAGTT
1 AA-GAGAACAAGTT
17907918 TGCTTAGAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
28 2 0.03
29 5 0.08
30 14 0.23
31 4 0.06
32 6 0.10
33 24 0.39
34 5 0.08
35 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.29, T:0.16
Consensus pattern (31 bp):
AAGAGAACAAGTTGATGAGAGATATAGAAAG
Found at i:17910644 original size:18 final size:17
Alignment explanation
Indices: 17910623--17910665 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
17910613 TCATATACAT
17910623 TATAAAAA-AAGTATATAA
1 TATAAAAACAA-TA-ATAA
*
17910641 TATAAAAACAATACTAA
1 TATAAAAACAATAATAA
17910658 TATAAAAA
1 TATAAAAA
17910666 TGATATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 10 0.43
19 2 0.09
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (17 bp):
TATAAAAACAATAATAA
Found at i:17912198 original size:28 final size:28
Alignment explanation
Indices: 17912167--17912278 Score: 70
Period size: 28 Copynumber: 3.9 Consensus size: 28
17912157 TAATATAATT
17912167 ATATTTATAAAAATATTTAAATAATTTA
1 ATATTTATAAAAATATTTAAATAATTTA
* * *
17912195 ATATAATGATAGATAAA-ATATGAATTAATTTA
1 ATAT--TTATA-A-AAATAT-TTAAATAATTTA
*
17912227 A-ATTTTTAAATACAT-TTTAAATAA-TTA
1 ATATTTATAAA-A-ATATTTAAATAATTTA
** *
17912254 ATATAAATAAAAATATTTTAATAAT
1 ATATTTATAAAAATATTTAAATAAT
17912279 CTATACTTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 22
0.65 0.12 0.23
Matches are distributed among these distances:
26 2 0.03
27 14 0.23
28 18 0.29
29 5 0.08
30 4 0.06
31 5 0.08
32 14 0.23
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.43
Consensus pattern (28 bp):
ATATTTATAAAAATATTTAAATAATTTA
Found at i:17914389 original size:30 final size:30
Alignment explanation
Indices: 17914338--17914394 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
17914328 AAATAGATAA
* *
17914338 ATATAAATAAATATTTATATATATAATGAC
1 ATATAAATAAAAAATTATATATATAATGAC
*
17914368 ATATAAATAGAAAAATT-TATATTTAAT
1 ATATAAATA-AAAAATTATATATATAAT
17914395 TTTCGAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (30 bp):
ATATAAATAAAAAATTATATATATAATGAC
Found at i:17916315 original size:36 final size:36
Alignment explanation
Indices: 17916261--17916332 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
17916251 GTGTAGGAGT
*
17916261 TTGAGAAGACTCGATATCTCATTCAAGATCTTGGGA
1 TTGAGAAGACTCGATATCTCATTCAAGAGCTTGGGA
* * *
17916297 TTGAGAAGAC-CTGGTATCTCGTTGAAGAGCTTGGGA
1 TTGAGAAGACTC-GATATCTCATTCAAGAGCTTGGGA
17916333 ATATATGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.03
36 30 0.97
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (36 bp):
TTGAGAAGACTCGATATCTCATTCAAGAGCTTGGGA
Found at i:17917963 original size:3 final size:3
Alignment explanation
Indices: 17917955--17918003 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
17917945 AAGTTTTCTT
*
17917955 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17918003 T
1 T
17918004 CATCTGTGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17922735 original size:23 final size:22
Alignment explanation
Indices: 17922683--17922735 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
17922673 TCCACGTCTT
*
17922683 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
17922705 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
17922728 TTTCTTTT
1 TTTCTTTT
17922736 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:17931447 original size:21 final size:20
Alignment explanation
Indices: 17931413--17931451 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17931403 AAACATAAAC
17931413 AACTTCACATTTTTTAAAGT
1 AACTTCACATTTTTTAAAGT
*
17931433 AACTTTACAATTTTTTAAA
1 AACTTCAC-ATTTTTTAAA
17931452 ATTTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (20 bp):
AACTTCACATTTTTTAAAGT
Found at i:17935714 original size:31 final size:30
Alignment explanation
Indices: 17935679--17935739 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
17935669 GAAACAGAAT
*
17935679 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
17935710 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
17935740 AATAAGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:17937301 original size:39 final size:39
Alignment explanation
Indices: 17937194--17937328 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
17937184 GACCTCGAGT
* * *
17937194 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
17937235 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
17937273 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
17937312 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
17937329 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:17943383 original size:5 final size:5
Alignment explanation
Indices: 17943373--17943403 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
17943363 AATAATTAAG
17943373 TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT
17943404 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:17943473 original size:31 final size:30
Alignment explanation
Indices: 17943438--17943498 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
17943428 GAAACAGAAT
*
17943438 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
17943469 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
17943499 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:17952828 original size:5 final size:5
Alignment explanation
Indices: 17952780--17952818 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
17952770 TTTAATGATA
17952780 ATAAT AT-AT -TAAT AATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT
17952819 GATATAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.13
5 22 0.71
6 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:17960192 original size:18 final size:18
Alignment explanation
Indices: 17960169--17960232 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
17960159 TTCTTTCTTT
17960169 TATATT-TAATGATAATAA
1 TATATTATAAT-ATAATAA
*
17960187 TATATTATAATATAGTAA
1 TATATTATAATATAATAA
*
17960205 TAATAATATAATATAATATAA
1 T-ATATTATAATAT-A-ATAA
17960226 TATATTA
1 TATATTA
17960233 GTTATGCCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 13 0.34
19 15 0.39
20 6 0.16
21 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TATATTATAATATAATAA
Found at i:17960198 original size:10 final size:10
Alignment explanation
Indices: 17960183--17960232 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
17960173 TTTAATGATA
17960183 ATAATATATT
1 ATAATATATT
*
17960193 ATAATATAGTA
1 ATAATATA-TT
17960204 ATAATA-A-T
1 ATAATATATT
*
17960212 ATAATATAAT
1 ATAATATATT
17960222 ATAATATATT
1 ATAATATATT
17960232 A
1 A
17960233 GTTATGCCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 6 0.18
9 1 0.03
10 20 0.59
11 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
ATAATATATT
Found at i:17960200 original size:5 final size:5
Alignment explanation
Indices: 17960183--17960229 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
17960173 TTTAATGATA
* *
17960183 ATAAT ATATT ATAAT AT-A- GTAAT AATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT ATA
17960230 TTAGTTATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 1 0.03
4 2 0.06
5 28 0.80
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:17971525 original size:40 final size:40
Alignment explanation
Indices: 17971472--17971663 Score: 255
Period size: 40 Copynumber: 4.8 Consensus size: 40
17971462 GGATATAGCT
* * *
17971472 ACTCGCTCGAATGCCTTTGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
** *
17971512 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-GTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
17971552 ACTCGCACAAATACCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
17971592 ACTCGCA-ACAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACA-AATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
17971632 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
17971664 TTATCATCCG
Statistics
Matches: 136, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 133 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:17971578 original size:80 final size:79
Alignment explanation
Indices: 17971446--17971663 Score: 255
Period size: 80 Copynumber: 2.7 Consensus size: 79
17971436 AGACCAAGTA
* * * * * *
17971446 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATGCCTTTGGGACTTAGCCCGG-ATATA
1 CCTTCGGGACTTAGCCCGGGTATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TA
**
17971509 GTAGTTCGC-ACAAATG
64 GTAACTCGCAAC-AATG
*
17971525 CCTTCGGGACTTAGCCCGGGTATAGTAACTCGCACAAATACCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGGTATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
17971590 TAACTCGCAACAATG
65 TAACTCGCAACAATG
* *
17971605 CCTTCGGGACTTAGCCC-GGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGGTA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
17971664 TTATCATCCG
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.13
80 101 0.83
81 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGGTATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTCGCAACAATG
Found at i:17995299 original size:17 final size:17
Alignment explanation
Indices: 17995279--17995324 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
17995269 ATTGTTTTTT
17995279 AAAAAAATATTTTTTAG
1 AAAAAAATATTTTTTAG
* * *
17995296 AAAATAATAATTTTTAT
1 AAAAAAATATTTTTTAG
*
17995313 AAAAAAAAATTT
1 AAAAAAATATTT
17995325 AACTTTTACT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAAAAATATTTTTTAG
Found at i:17996100 original size:21 final size:19
Alignment explanation
Indices: 17996052--17996102 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
17996042 TTAATAAAAA
17996052 AAAAT-ATAAA-ATTTTTT
1 AAAATAATAAATATTTTTT
*
17996069 ATAATAA-AAATATTGTTTT
1 AAAATAATAAATATT-TTTT
17996088 AAAATTAATAAATAT
1 AAAA-TAATAAATAT
17996103 ATTATTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 7 0.26
18 4 0.15
19 7 0.26
20 3 0.11
21 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATAATAAATATTTTTT
Found at i:17997600 original size:29 final size:28
Alignment explanation
Indices: 17997553--17997616 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
17997543 AAGTAAAAGT
17997553 TAAATTTTTTTATAAAAAAATATTATTA
1 TAAATTTTTTTATAAAAAAATATTATTA
* *
17997581 TAAATTTTTTTTTAATAAAAATATTTTTA
1 TAAATTTTTTTATAA-AAAAATATTATTA
*
17997610 AAAATTT
1 TAAATTT
17997617 AAAATATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAATTTTTTTATAAAAAAATATTATTA
Found at i:18011652 original size:18 final size:18
Alignment explanation
Indices: 18011631--18011787 Score: 73
Period size: 18 Copynumber: 8.3 Consensus size: 18
18011621 GAACAATTAT
18011631 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
18011649 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
18011667 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
18011685 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
18011711 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
18011729 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
18011746 ATATTCAGTAGCAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
18011765 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
18011783 TTATT
1 TTATT
18011788 TGGTAACGAT
Statistics
Matches: 99, Mismatches: 30, Indels: 20
0.66 0.20 0.13
Matches are distributed among these distances:
17 12 0.12
18 56 0.57
19 15 0.15
21 2 0.02
22 1 0.01
23 2 0.02
26 11 0.11
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:18011823 original size:54 final size:54
Alignment explanation
Indices: 18011710--18011823 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
18011700 CAATTGATCG
* * * *
18011710 GTTATCCAGTAACAGTCAATTATTTAGTAAAATCAGATATTCAGTAGCAATTAA
1 GTTATTCAGTAACAGTCAATTATTTAGTAAAATCAGATATTCAGAAACAATCAA
* * *
18011764 GTTATTCAGTAACAGTCAATTATTTGGTAACGATCA-ATTATTCAGAAATAATCAA
1 GTTATTCAGTAACAGTCAATTATTTAGTAA-AATCAGA-TATTCAGAAACAATCAA
18011819 -TTATT
1 GTTATT
18011824 TTATACCTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (54 bp):
GTTATTCAGTAACAGTCAATTATTTAGTAAAATCAGATATTCAGAAACAATCAA
Found at i:18011997 original size:6 final size:6
Alignment explanation
Indices: 18011986--18012010 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18011976 ACAAATTCGG
18011986 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
18012011 TTCAACATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:18012039 original size:39 final size:39
Alignment explanation
Indices: 18011994--18012088 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
18011984 GGAACAGTAA
* *
18011994 CAGTAACAGTAACAGTATTCAACATACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
*
18012033 CGGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
18012072 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
18012089 ACAGTAACAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
Found at i:18012083 original size:6 final size:6
Alignment explanation
Indices: 18012072--18012106 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
18012062 AGTGCCGAAT
18012072 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
18012107 GTCGGCACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:18015842 original size:13 final size:14
Alignment explanation
Indices: 18015824--18015852 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18015814 AAACCCTAAA
18015824 TTTTCTTT-TTTCT
1 TTTTCTTTCTTTCT
18015837 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
18015851 TT
1 TT
18015853 CTCCCCTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:18015922 original size:5 final size:5
Alignment explanation
Indices: 18015912--18015958 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
18015902 TTTCTTTACT
18015912 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
18015959 ACAATTTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:18016090 original size:21 final size:22
Alignment explanation
Indices: 18016051--18016091 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18016041 CATACAATTG
*
18016051 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
18016073 TTAATATAA-ATTACAATAT
1 TTAAAATAATATTACAATAT
18016092 AACAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:18030164 original size:21 final size:21
Alignment explanation
Indices: 18030138--18030178 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18030128 ACCTGCTCAA
* *
18030138 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18030159 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18030179 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:18035669 original size:2 final size:2
Alignment explanation
Indices: 18035662--18035687 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18035652 AAAGAGGAAA
18035662 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18035688 TTGCTAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18048738 original size:11 final size:11
Alignment explanation
Indices: 18048724--18048750 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18048714 TTTGTTTTTT
18048724 ATATTAAAAAA
1 ATATTAAAAAA
18048735 ATATTAAAAAA
1 ATATTAAAAAA
18048746 ATATT
1 ATATT
18048751 TTCGGGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATTAAAAAA
Found at i:18049106 original size:36 final size:30
Alignment explanation
Indices: 18049033--18049095 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
18049023 GCTCCTATAA
18049033 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
18049063 TTGGTGAATACAATATCAATATTCTAAATT
1 TTGGTGAATACAATATCAATATTCTAAATT
18049093 TTG
1 TTG
18049096 TAGCAGGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (30 bp):
TTGGTGAATACAATATCAATATTCTAAATT
Found at i:18049785 original size:24 final size:26
Alignment explanation
Indices: 18049739--18049794 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
18049729 AATATTTTTA
*
18049739 ATAAAAATAAAAAAATAATATTTTAT
1 ATAAAAATAAAAAAATAATATTTAAT
*
18049765 TTAAAAA-ACAAAAAA-AA-ATTTAAT
1 ATAAAAATA-AAAAAATAATATTTAAT
18049789 ATAAAA
1 ATAAAA
18049795 TAATTATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 11 0.42
25 3 0.12
26 12 0.46
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
ATAAAAATAAAAAAATAATATTTAAT
Found at i:18053181 original size:15 final size:15
Alignment explanation
Indices: 18053154--18053195 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18053144 ATCATTTATT
18053154 ATATATTATTTTTAA
1 ATATATTATTTTTAA
18053169 ATAT-TTATATTTTAA
1 ATATATTAT-TTTTAA
* *
18053184 ATTTGTTATTTT
1 ATATATTATTTT
18053196 CTTGTTCGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
ATATATTATTTTTAA
Found at i:18060348 original size:30 final size:30
Alignment explanation
Indices: 18060312--18060373 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
18060302 AATATTTAGT
18060312 TGTATGATCTTCATCAAGCAATGATGAATC
1 TGTATGATCTTCATCAAGCAATGATGAATC
*
18060342 TGTATGATCTTCATCAGGCAATGATGAATC
1 TGTATGATCTTCATCAAGCAATGATGAATC
18060372 TG
1 TG
18060374 CTTTGAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (30 bp):
TGTATGATCTTCATCAAGCAATGATGAATC
Found at i:18063634 original size:25 final size:26
Alignment explanation
Indices: 18063594--18063657 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
18063584 ATAGTGATAA
* *
18063594 ATTTTTTTAATATAATCAACATTTTAC-
1 ATTTTTTTAGTA-ATTCAA-ATTTTACT
* *
18063621 ATTTTTTTAGTAATTTAATTTTTACT
1 ATTTTTTTAGTAATTCAAATTTTACT
18063647 ATTTTTTTAGT
1 ATTTTTTTAGT
18063658 TAAATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 6 0.19
26 15 0.47
27 11 0.34
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (26 bp):
ATTTTTTTAGTAATTCAAATTTTACT
Found at i:18063650 original size:26 final size:27
Alignment explanation
Indices: 18063615--18063667 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
18063605 ATAATCAACA
18063615 TTTTACATTTTTTTAG-T-AATTTAAT
1 TTTTACATTTTTTTAGTTAAATTTAAT
18063640 TTTTACTATTTTTTTAGTTAAATTTAAT
1 TTTTAC-ATTTTTTTAGTTAAATTTAAT
18063668 CATTAATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
26 10 0.40
27 1 0.04
28 8 0.32
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTACATTTTTTTAGTTAAATTTAAT
Found at i:18064534 original size:14 final size:14
Alignment explanation
Indices: 18064517--18064558 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18064507 TAAATACAAT
*
18064517 ACTCTAAACCCTAA
1 ACTCTAAACCTTAA
18064531 ACTCT-AACCTTAA
1 ACTCTAAACCTTAA
18064544 A-TACTAAACCTTAA
1 ACT-CTAAACCTTAA
18064558 A
1 A
18064559 TTCTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 10 0.40
14 14 0.56
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (14 bp):
ACTCTAAACCTTAA
Found at i:18071881 original size:6 final size:6
Alignment explanation
Indices: 18071870--18071913 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
18071860 GGGTACTGGA
* * *
18071870 TTGGGG TTGGGG TTAGGG TTAGGG TTGGGG TTGGAG TTGGGG TT
1 TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TT
18071914 TGAAAGGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.07, C:0.00, G:0.57, T:0.36
Consensus pattern (6 bp):
TTGGGG
Found at i:18072498 original size:19 final size:18
Alignment explanation
Indices: 18072459--18072500 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
18072449 TATATTTTTT
*
18072459 AAAATATTAATTATTATA
1 AAAATATTAATTATGATA
*
18072477 AAAATTATTAA-TATGATG
1 AAAA-TATTAATTATGATA
18072495 AAAATA
1 AAAATA
18072501 ATTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 13 0.62
19 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATATTAATTATGATA
Found at i:18073163 original size:16 final size:16
Alignment explanation
Indices: 18073139--18073186 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
18073129 ATTAAGTAAA
* *
18073139 AATAAATAAATTTTAT
1 AATATATAACTTTTAT
18073155 AATATATAACTTTTAT
1 AATATATAACTTTTAT
18073171 AA-ATA-AACTTTTAT
1 AATATATAACTTTTAT
18073185 AA
1 AA
18073187 ATTGTCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 11 0.37
15 3 0.10
16 16 0.53
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATATAACTTTTAT
Found at i:18073181 original size:14 final size:14
Alignment explanation
Indices: 18073140--18073188 Score: 73
Period size: 14 Copynumber: 3.4 Consensus size: 14
18073130 TTAAGTAAAA
18073140 ATAAATAAA-TTTT
1 ATAAATAAACTTTT
18073153 ATAATATATAACTTTT
1 ATAA-ATA-AACTTTT
18073169 ATAAATAAACTTTT
1 ATAAATAAACTTTT
18073183 ATAAAT
1 ATAAAT
18073189 TGTCCAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.12
14 16 0.48
15 5 0.15
16 8 0.24
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAATAAACTTTT
Found at i:18073230 original size:11 final size:12
Alignment explanation
Indices: 18073214--18073261 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
18073204 ATAACATTTC
18073214 TTATAAAT-ATT
1 TTATAAATAATT
18073225 TTATAAATAATT
1 TTATAAATAATT
*
18073237 TTAAAAAGTTATATT
1 TTATAAA--TA-ATT
18073252 TTATAAATAA
1 TTATAAATAA
18073262 ATTATGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 8 0.26
12 10 0.32
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
TTATAAATAATT
Found at i:18075839 original size:148 final size:148
Alignment explanation
Indices: 18075571--18075866 Score: 556
Period size: 148 Copynumber: 2.0 Consensus size: 148
18075561 CCATCAATCT
* *
18075571 CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCCAAGTTAATTATAAACCTAGAGTCAA
1 CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAA
*
18075636 TAACACCAAACTGCCGATAGCTGTAAATATCCTTCCATCCATTCCACATAGTTAATCTTTATTCC
66 TAACACCAAACTGCCGATAGCTGTAAATATCCTTCCATACATTCCACATAGTTAATCTTTATTCC
18075701 CAGCAACTAAAATTTGTG
131 CAGCAACTAAAATTTGTG
18075719 CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAA
1 CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAA
*
18075784 TAACATCAAACTGCCGATAGCTGTAAATATCCTTCCATACATTCCACATAGTTAATCTTTATTCC
66 TAACACCAAACTGCCGATAGCTGTAAATATCCTTCCATACATTCCACATAGTTAATCTTTATTCC
18075849 CAGCAACTAAAATTTGTG
131 CAGCAACTAAAATTTGTG
18075867 AAAGATATAA
Statistics
Matches: 144, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
148 144 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (148 bp):
CAACAACAACCATGAATTAACAAAGTGCTGACTTCATTCAAAATTAATTATAAACCTAGAGTCAA
TAACACCAAACTGCCGATAGCTGTAAATATCCTTCCATACATTCCACATAGTTAATCTTTATTCC
CAGCAACTAAAATTTGTG
Found at i:18080240 original size:27 final size:26
Alignment explanation
Indices: 18080209--18080260 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
18080199 GTAATTTTTA
18080209 AAATTTAAAATATTTATAAAAAATATT
1 AAATTTAAAAT-TTTATAAAAAATATT
** *
18080236 AAATTTTGAATTTTTTAAAAAATAT
1 AAATTTAAAATTTTATAAAAAATAT
18080261 AAAAATTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AAATTTAAAATTTTATAAAAAATATT
Found at i:18085378 original size:90 final size:90
Alignment explanation
Indices: 18085215--18085575 Score: 697
Period size: 90 Copynumber: 4.0 Consensus size: 90
18085205 ATTATATAAC
18085215 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTTGTGTGT
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTA-TTTGTGTGT
18085280 CATG-TTTTTGAGAATGTGAATAAGT
65 CATGTTTTTTGAGAATGTGAATAAGT
18085305 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
18085370 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
18085395 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
18085460 ATGTTTTTTGAGAATGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
18085485 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
1 TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
*
18085550 ATGTTTTTTGAGAGTGTGAATAAGT
66 ATGTTTTTTGAGAATGTGAATAAGT
18085575 T
1 T
18085576 ATCAACTTAT
Statistics
Matches: 269, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
89 13 0.05
90 256 0.95
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (90 bp):
TTCTATTACTCTGTTTCCAGATCCATATTCAATTATTTCTTTCCTCTCTTGCTTATTTGTGTGTC
ATGTTTTTTGAGAATGTGAATAAGT
Found at i:18093773 original size:7 final size:7
Alignment explanation
Indices: 18093761--18093790 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
18093751 CCTAAATATG
18093761 CCATTAT
1 CCATTAT
18093768 CCATTAT
1 CCATTAT
18093775 CCATTAT
1 CCATTAT
18093782 CCATTAT
1 CCATTAT
18093789 CC
1 CC
18093791 CATTGCTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (7 bp):
CCATTAT
Found at i:18100764 original size:11 final size:11
Alignment explanation
Indices: 18100748--18100796 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
18100738 TTTCATTACT
*
18100748 TTATGTTATTA
1 TTATATTATTA
*
18100759 TTATGTTATTA
1 TTATATTATTA
18100770 TTATTATTA-TA
1 TTA-TATTATTA
18100781 TTATTATTATTA
1 TTA-TATTATTA
18100793 TTAT
1 TTAT
18100797 TACTAGTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
11 26 0.74
12 9 0.26
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (11 bp):
TTATATTATTA
Found at i:18100770 original size:14 final size:14
Alignment explanation
Indices: 18100753--18100821 Score: 63
Period size: 14 Copynumber: 4.9 Consensus size: 14
18100743 TTACTTTATG
18100753 TTATTATTATGTTA
1 TTATTATTATGTTA
18100767 TTATTATTAT-TATA
1 TTATTATTATGT-TA
*
18100781 TTATTATTATTATTA
1 TTATTATTA-TGTTA
*
18100796 TTACTAGTATATGTT-
1 TTATTA-T-TATGTTA
18100811 TTATTA-TATGT
1 TTATTATTATGT
18100822 GTATATATCT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
12 5 0.11
13 1 0.02
14 21 0.45
15 13 0.28
16 5 0.11
17 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.62
Consensus pattern (14 bp):
TTATTATTATGTTA
Found at i:18100775 original size:17 final size:17
Alignment explanation
Indices: 18100753--18100796 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
18100743 TTACTTTATG
*
18100753 TTATTATTATGTTATTA
1 TTATTATTATATTATTA
18100770 TTATTATTATATTATTA
1 TTATTATTATATTATTA
18100787 TTATTATTAT
1 TTATTATTAT
18100797 TACTAGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TTATTATTATATTATTA
Found at i:18100817 original size:3 final size:3
Alignment explanation
Indices: 18100753--18100798 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
18100743 TTACTTTATG
*
18100753 TTA TTA TTA -TG TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18100799 CTAGTATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18101680 original size:17 final size:17
Alignment explanation
Indices: 18101658--18101692 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18101648 TATATATATA
18101658 TATGTATA-TGTATATTT
1 TATGTATATTGT-TATTT
18101675 TATGTATATTGTTATTT
1 TATGTATATTGTTATTT
18101692 T
1 T
18101693 CTATCGTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (17 bp):
TATGTATATTGTTATTT
Found at i:18113916 original size:75 final size:75
Alignment explanation
Indices: 18113679--18113909 Score: 403
Period size: 75 Copynumber: 3.1 Consensus size: 75
18113669 CAAATTCTAC
*
18113679 TTTCAATTACTGTTTGTC--AAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTCAATTATTGTTTGTCAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
18113742 GCTGAGGTAT
66 GCTGAGGTAT
*
18113752 TTTCAATTATTGTTTGTAAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTCAATTATTGTTTGTCAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
18113817 GCTGAGGTAT
66 GCTGAGGTAT
* * *
18113827 TTTCAATTATTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTATTGTTTGTCAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
18113892 GCTGAGGTAT
66 GCTGAGGTAT
18113902 TTTCAATT
1 TTTCAATT
18113910 GATGTTTTTT
Statistics
Matches: 150, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
73 16 0.11
75 134 0.89
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (75 bp):
TTTCAATTATTGTTTGTCAAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCAC
GCTGAGGTAT
Found at i:18113982 original size:88 final size:88
Alignment explanation
Indices: 18113847--18114025 Score: 272
Period size: 88 Copynumber: 2.0 Consensus size: 88
18113837 TGTTTGTCAA
*
18113847 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGA
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT-A
*
18113912 T-GTTTTTTCAATTTACGCTTTTC
65 TCATTTTTTCAATTTACGCTTTTC
* * *
18113935 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGA-ACGCTGATGTATTTTCAATTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTA
*
18113999 TCATTTTTTCAATTTATGCTTTTC
65 TCATTTTTTCAATTTACGCTTTTC
18114023 AAA
1 AAA
18114026 TTCTGCTTTC
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
87 1 0.01
88 79 0.95
89 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTAT
CATTTTTTCAATTTACGCTTTTC
Found at i:18114185 original size:89 final size:90
Alignment explanation
Indices: 18114015--18114185 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 90
18114005 TTTCAATTTA
** * * * *
18114015 TGCTTTTCAAATTCTGCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TGCTTTTCAAATTAAGCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCT
*
18114080 CACATGTCGAGGTATTTTCAAAATC
66 CACATGTCGAGCTATTTTCAAAATC
*
18114105 TGCTTTTCAAATTAAG-TTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTAGCT
1 TGCTTTTCAAATTAAGCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCT
*
18114169 CACGTG-CTGAGCTATTT
66 CACATGTC-GAGCTATTT
18114186 CTGTTATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
88 1 0.01
89 56 0.79
90 14 0.20
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (90 bp):
TGCTTTTCAAATTAAGCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGCT
CACATGTCGAGCTATTTTCAAAATC
Found at i:18115203 original size:18 final size:19
Alignment explanation
Indices: 18115180--18115215 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18115170 CATTAAGGTG
*
18115180 ATTTTTTATTTT-TTTTCT
1 ATTTTTAATTTTGTTTTCT
18115198 ATTTTTAATTTTGTTTTC
1 ATTTTTAATTTTGTTTTC
18115216 AGACCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.78
Consensus pattern (19 bp):
ATTTTTAATTTTGTTTTCT
Found at i:18115818 original size:11 final size:11
Alignment explanation
Indices: 18115802--18115861 Score: 84
Period size: 11 Copynumber: 5.3 Consensus size: 11
18115792 TTTCATTACT
*
18115802 TTATGTTATTA
1 TTATATTATTA
*
18115813 TTATGTTATTA
1 TTATATTATTA
18115824 TTATATTATTA
1 TTATATTATTA
18115835 TTATTATTATTA
1 TTA-TATTATTA
18115847 TTATTATTATTA
1 TTA-TATTATTA
18115859 TTA
1 TTA
18115862 CTAGTATATG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
11 24 0.51
12 23 0.49
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TTATATTATTA
Found at i:18115880 original size:3 final size:3
Alignment explanation
Indices: 18115807--18115861 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
18115797 TTACTTTATG
*
18115807 TTA TTA TTA -TG TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18115853 TTA TTA TTA
1 TTA TTA TTA
18115862 CTAGTATATG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 3 0.06
3 45 0.94
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18116487 original size:49 final size:48
Alignment explanation
Indices: 18116434--18116529 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
18116424 TGTACCTAAA
* * * *
18116434 TACTATGTTATATGTATATATTCCAATACCATATTAAGTATGTTTTTTG
1 TACTATCTTATATGTACATATT-AAATACCATATTAAGTATGTATTTTG
* * * *
18116483 TACTATCTTATGTGTACATCTTAAATACTATATTATGTATGTATTTT
1 TACTATCTTATATGTACATATTAAATACCATATTAAGTATGTATTTT
18116530 AAACACCTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 21 0.54
49 18 0.46
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.50
Consensus pattern (48 bp):
TACTATCTTATATGTACATATTAAATACCATATTAAGTATGTATTTTG
Found at i:18116733 original size:17 final size:17
Alignment explanation
Indices: 18116702--18116747 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
18116692 TATGTATGCC
*
18116702 ATGTATATATATATGTAT
1 ATGTATAT-TTTATGTAT
18116720 ATGTATATTTTATGTAT
1 ATGTATATTTTATGTAT
18116737 ATTGT-TATTTT
1 A-TGTATATTTT
18116748 CTATCGTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (17 bp):
ATGTATATTTTATGTAT
Found at i:18120950 original size:18 final size:18
Alignment explanation
Indices: 18120927--18120965 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18120917 ATTTTATAAT
* * *
18120927 ATTTTTACTTATTTTTTA
1 ATTTTTAATAATTTTTCA
18120945 ATTTTTAATAATTTTTCA
1 ATTTTTAATAATTTTTCA
18120963 ATT
1 ATT
18120966 GAATTGGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTAATAATTTTTCA
Found at i:18121857 original size:9 final size:9
Alignment explanation
Indices: 18121843--18121867 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18121833 GTTCTTATTT
18121843 TTTTTTTAC
1 TTTTTTTAC
18121852 TTTTTTTAC
1 TTTTTTTAC
18121861 TTTTTTT
1 TTTTTTT
18121868 CTTATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:18121955 original size:36 final size:37
Alignment explanation
Indices: 18121883--18121956 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
18121873 ATTTTGTCTC
*
18121883 TTTCTTAGATTTTTTTCTTTTTTAAGTTTCATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAGTTTCATATTAT
18121920 TTTCTTA-ATTTATTTTGCTTATTTAA-TTT-ATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTCATATTAT
18121956 T
1 T
18121957 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.68
Consensus pattern (37 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTCATATTAT
Found at i:18121994 original size:23 final size:21
Alignment explanation
Indices: 18121946--18122034 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 21
18121936 GCTTATTTAA
*
18121946 TTTATATTATTAATTTTAAAAAT
1 TTTATAATATT-A-TTTAAAAAT
* *
18121969 TTTGTAATATATATTTAAAATGT
1 TTTATAATAT-TATTTAAAA-AT
*
18121992 TTTATAATATTTTTTAAAAAT
1 TTTATAATATTATTTAAAAAT
*
18122013 TTTAATTATCATT-TTTAAAAAT
1 TTT-ATAAT-ATTATTTAAAAAT
18122035 ATTTTTTAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.07
22 28 0.51
23 22 0.40
24 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTATAATATTATTTAAAAAT
Found at i:18122015 original size:21 final size:22
Alignment explanation
Indices: 18121959--18122034 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
18121949 ATATTATTAA
*
18121959 TTTTAAAAATTTTGTAATATAT
1 TTTTAAAAATTTTATAATATAT
* *
18121981 ATTTAAAATGTTTTATAATAT-T
1 TTTTAAAA-ATTTTATAATATAT
*
18122003 TTTTAAAAATTTTA-ATTATCAT
1 TTTTAAAAATTTTATAATAT-AT
18122025 TTTTAAAAAT
1 TTTTAAAAAT
18122035 ATTTTTTAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.09
21 5 0.11
22 26 0.58
23 10 0.22
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (22 bp):
TTTTAAAAATTTTATAATATAT
Found at i:18122319 original size:18 final size:18
Alignment explanation
Indices: 18122296--18122342 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
18122286 GTGACTATTA
18122296 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
18122314 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
18122330 ATATA-TTAAATAT
1 ATAAATTTAAATAT
18122343 TATTTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 4 0.17
16 9 0.38
17 1 0.04
18 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:18122577 original size:27 final size:28
Alignment explanation
Indices: 18122514--18122582 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
18122504 TTAATTTTAA
* * *
18122514 ATAAAATTTTTAAATACATTTAAAAATT
1 ATAATATTTTTAAATACATATAAAAATC
18122542 ATAAT-TTTTT-AATA-ATATAAGAAATC
1 ATAATATTTTTAAATACATATAA-AAATC
*
18122568 ATAATATTTTAAAAT
1 ATAATATTTTTAAAT
18122583 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 5 0.15
26 13 0.38
27 9 0.26
28 7 0.21
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (28 bp):
ATAATATTTTTAAATACATATAAAAATC
Found at i:18122747 original size:21 final size:21
Alignment explanation
Indices: 18122708--18122751 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18122698 ATTTAAAATG
18122708 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
18122730 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
18122750 TT
1 TT
18122752 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:18122876 original size:18 final size:18
Alignment explanation
Indices: 18122853--18122895 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18122843 GTGACTATTA
*
18122853 ATAAATTTAAATATACAT
1 ATAAATTTAAAAATACAT
*
18122871 ATAAATTTAAAAATATAT
1 ATAAATTTAAAAATACAT
18122889 ATTAAAT
1 A-TAAAT
18122896 ATATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAAAATACAT
Done.