Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009017.1 Hibiscus syriacus cultivar Beakdansim tig00112407_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1192163
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:10843 original size:17 final size:17
Alignment explanation
Indices: 10821--10861 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
10811 GGGTAAGTAC
10821 AAGATAATATATGTTCA
1 AAGATAATATATGTTCA
10838 AAGATAATATATGTTCA
1 AAGATAATATATGTTCA
10855 AAGATAA
1 AAGATAA
10862 CTCTCAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (17 bp):
AAGATAATATATGTTCA
Found at i:11374 original size:2 final size:2
Alignment explanation
Indices: 11361--11547 Score: 176
Period size: 2 Copynumber: 93.5 Consensus size: 2
11351 ACTACTTATA
* *
11361 TG TG TT TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * ** * * *
11403 TT TG TG TG CG CG TG CA TG TG TG TC TG CG TG TG TG TG CG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
** * * * * * *
11445 TG TG TG TG TG TG TG TG CA TA CG TG TG TA TG TA TA TG TG TG TT
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* * * *
11487 TG TG TT TG TG TT TG TG TG TG TG TG TG TG TG TG TG TT TG TG TT
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
11529 TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG T
11548 TATCCTCAGC
Statistics
Matches: 147, Mismatches: 38, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
2 147 1.00
ACGTcount: A:0.03, C:0.05, G:0.42, T:0.50
Consensus pattern (2 bp):
TG
Found at i:15512 original size:2 final size:2
Alignment explanation
Indices: 15505--15542 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15495 ATTTAGGGTC
15505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15543 GCATTTAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23266 original size:19 final size:18
Alignment explanation
Indices: 23232--23279 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
23222 TATACATGAA
23232 GAAAAAAAAGAGAAAAAT
1 GAAAAAAAAGAGAAAAAT
23250 GAAAAATAAATGA-AAAAAT
1 GAAAAA-AAA-GAGAAAAAT
23269 GAAGAAAAAAG
1 GAA-AAAAAAG
23280 GGTAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.26
19 15 0.56
20 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (18 bp):
GAAAAAAAAGAGAAAAAT
Found at i:25371 original size:25 final size:25
Alignment explanation
Indices: 25339--25448 Score: 105
Period size: 25 Copynumber: 4.2 Consensus size: 25
25329 TTATTAATTG
*
25339 TTAA-TGTGGTAGTAATTGTTAATA
1 TTAATTGTGTTAGTAATTGTTAATA
*
25363 TTAATTGTGTTAGTAATTGTCAATA
1 TTAATTGTGTTAGTAATTGTTAATA
*
25388 CTAATTACGTGTTAGTAATTGTTAAATA
1 TTAATT--GTGTTAGTAATTGTT-AATA
* * **
25416 TTGATAATGTGTTAGAAATTGTTGGTA
1 TT-A-ATTGTGTTAGTAATTGTTAATA
25443 TTAATT
1 TTAATT
25449 TATGTTTTAG
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
24 4 0.06
25 25 0.36
26 1 0.01
27 18 0.26
28 19 0.27
29 1 0.01
30 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (25 bp):
TTAATTGTGTTAGTAATTGTTAATA
Found at i:25428 original size:28 final size:27
Alignment explanation
Indices: 25335--25438 Score: 104
Period size: 28 Copynumber: 3.9 Consensus size: 27
25325 GGTGTTATTA
* *
25335 ATTGTTAATGTGGTAGTAATTGTTAAT
1 ATTGATAATGTGTTAGTAATTGTTAAT
* *
25362 ATT-A-ATTGTGTTAGTAATTGTCAAT
1 ATTGATAATGTGTTAGTAATTGTTAAT
* * * *
25387 ACTAATTACGTGTTAGTAATTGTTAAAT
1 ATTGATAATGTGTTAGTAATTGTT-AAT
*
25415 ATTGATAATGTGTTAGAAATTGTT
1 ATTGATAATGTGTTAGTAATTGTT
25439 GGTATTAATT
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
25 20 0.33
26 1 0.02
27 17 0.28
28 22 0.37
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTGATAATGTGTTAGTAATTGTTAAT
Found at i:25513 original size:21 final size:21
Alignment explanation
Indices: 25448--25513 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
25438 TGGTATTAAT
*
25448 TTATGTTTTAGAAATTGTTGA
1 TTATGTTTTAGTAATTGTTGA
* * * *
25469 TTTTGTTCTAGTCATTGTTAA
1 TTATGTTTTAGTAATTGTTGA
*
25490 TTATGTTTTAGTAATTGTGGA
1 TTATGTTTTAGTAATTGTTGA
25511 TTA
1 TTA
25514 GGGTTTATTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (21 bp):
TTATGTTTTAGTAATTGTTGA
Found at i:27503 original size:20 final size:20
Alignment explanation
Indices: 27487--27541 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
27477 ATTTTATATT
27487 TTTATTT-TTATTATTATAA
1 TTTATTTATTATTATTATAA
27506 TTTATTTATTATTATTAATAA
1 TTTATTTATTATTATT-ATAA
27527 GTTT-TTTATT-TTATT
1 -TTTATTTATTATTATT
27542 TTTTATAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.21
20 13 0.39
21 10 0.30
22 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATTTATTATTATTATAA
Found at i:27520 original size:23 final size:20
Alignment explanation
Indices: 27485--27541 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 20
27475 AGATTTTATA
27485 TTTTTATTTTTATTATTATAA-T
1 TTTTTA-TTTTATTA--ATAAGT
27507 TTATTTATTATTATTAATAAGT
1 TT-TTTATT-TTATTAATAAGT
27529 TTTTTATTTTATT
1 TTTTTATTTTATT
27542 TTTTATAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.16
21 10 0.31
22 7 0.22
23 10 0.31
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTATTTTATTAATAAGT
Found at i:27780 original size:39 final size:38
Alignment explanation
Indices: 27698--27780 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 38
27688 CAAGCCATGG
* ** *
27698 AGGGGGGATTTTTTTGATTGGTTTTGATCCTATGAGAA
1 AGGGGGGATTTTATTGATTGGTTCAGATCCCATGAGAA
27736 AGGGGGGATTTTATTGATTGGTTCAGATCCCATGAGAA
1 AGGGGGGATTTTATTGATTGGTTCAGATCCCATGAGAA
27774 AGGGGGG
1 AGGGGGG
27781 GCACCATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.23, C:0.07, G:0.36, T:0.34
Consensus pattern (38 bp):
AGGGGGGATTTTATTGATTGGTTCAGATCCCATGAGAA
Found at i:28874 original size:22 final size:22
Alignment explanation
Indices: 28860--28908 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
28850 TTGTACTAAC
28860 TTTTATTTATCTTTGTTATCTA
1 TTTTATTTATCTTTGTTATCTA
*
28882 TTTTATTTAT-TTTATTAT-TA
1 TTTTATTTATCTTTGTTATCTA
28902 TTATTAT
1 TT-TTAT
28909 ATTAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 11 0.44
22 10 0.40
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATTTATCTTTGTTATCTA
Found at i:33131 original size:106 final size:105
Alignment explanation
Indices: 32912--33767 Score: 789
Period size: 106 Copynumber: 8.2 Consensus size: 105
32902 TCTAATTTCA
* * * *
32912 TTCAGAGTCTATTTCAACTTCGCAGCGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTCA
* *
32977 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTCCAC
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAC
* * * *
33017 TTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
1 TTC-AGAGCCAATTTCAACTTCACAACGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTC
* *
33082 ACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC-AC
** * ** * * ** ** *
33124 TTCAGAGCCAA--T-AA--GGATATTG--G--ACTCCAGACAAC-G-CATATTCAACTTC-A--T
1 TTCAGAGCCAATTTCAACTTCACAACGAAGAAAAT-TAGACTCCAGACA-ACGCAAGTTCAACTT
* * ** * * *** ** * *
33175 GACGA--AGGGACCGCTGGTTGTCAACAA-ATAACTTC-T-CAAT
64 CACGACGAAGGGAC-C-GCTGGTTGTCAATA-AACAACTTCCCAC
* * * * * *
33215 TTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTCA
* * * *
33280 CGACGAAGGGACC-CATGGTTGTCAACAGACAACTTCTCAAT
66 CGACGAAGGGACCGC-TGGTTGTCAATAAACAACTTC-CCAC
* * * *
33321 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTCA
* ** *
33386 CGACGAAGGGACTGCTGGTTGTCAATAAACATTTTCCCAA
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAC
* * * * *
33426 TATCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTC
1 T-TCAGAGCCAATTTCAACTTCACAACGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTC
* * *
33491 ACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
65 ACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTC-CCAC
* * *
33533 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTCA
* *
33598 CGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAAT
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC-AC
* * *
33639 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTCA
* * *
33704 CGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAG
66 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAC
33744 TTCCAGAGCCAATTTCAACTTCAC
1 TT-CAGAGCCAATTTCAACTTCAC
33768 GGCGGAGGAT
Statistics
Matches: 627, Mismatches: 91, Indels: 65
0.80 0.12 0.08
Matches are distributed among these distances:
91 12 0.02
92 5 0.01
93 4 0.01
94 17 0.03
96 6 0.01
97 10 0.02
98 5 0.01
99 5 0.01
100 8 0.01
101 6 0.01
103 16 0.03
104 4 0.01
105 14 0.02
106 507 0.81
107 8 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGAAAATTAGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAC
Found at i:33204 original size:91 final size:91
Alignment explanation
Indices: 33045--33226 Score: 303
Period size: 91 Copynumber: 2.0 Consensus size: 91
33035 CTTCACAACG
* *
33045 AAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
33110 AATAACTTCCCAATTTCAGAGCCAAT
66 AATAACTTCCCAATTTCAGAGCCAAT
*
33136 AAGGATATTGGACTCCAGACAACGCATA-TTCAACTTCATGACGAAGGGACCGCTGGTTGTCAAC
1 AAGGATATTGGACTCCAGACAACGCA-AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
* *
33200 AAATAACTTCTCAATTTTAGAGCCAAT
65 AAATAACTTCCCAATTTCAGAGCCAAT
33227 TTCAACTTCA
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
91 84 0.99
92 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (91 bp):
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
AATAACTTCCCAATTTCAGAGCCAAT
Found at i:33284 original size:197 final size:197
Alignment explanation
Indices: 32949--33756 Score: 995
Period size: 212 Copynumber: 3.9 Consensus size: 197
32939 AAGAAAATTA
* *
32949 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTTC
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCTC
* *
33014 CACTTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAAC
66 CAATTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
* *
33079 TTCACGACGAAGGGACCGC-TGGTTGTCAATAAATAACTTCCCAATTTCAGAGCCAATAAGGATA
131 TTCACGACGAAGGGACC-CATGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATAAGGATA
33143 TTG
195 TTG
* *
33146 GACTCCAGACAACGCATA-TTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAATAACTTC
1 GACTCCAGACAACGCA-AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTC
* * *
33210 T-CAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCA
64 TCCAATTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCA
* *
33274 ACTTCACGACGAAGGGACCCATGGTTGTCAACAGACAACTTCTCAATTTCAGAGCCAATTTCAAC
129 ACTTCACGACGAAGGGACCCATGGTTGTCAACAAACAACTTCCCAATTTCAGAG-C-----CAA-
33339 TTCACAACGAAGGATATTG
187 -T-------AAGGATATTG
* * * *
33358 GACTCCAGACAACGCAAGTTCAACTTTACGACGAAGGGACTGCTGGTTGTCAATAAAC-ATTTTC
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCT-
* *
33422 CCAATATC-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTTCA
65 CCAAT-TCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCA
*
33486 ACTTCACGACGAAGGGACCGC-TGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAA
129 ACTTCACGACGAAGGGACC-CATGGTTGTCAACAAACAACTTCCCAATTTCAGAG-C-----CAA
33550 CTTCACAACGAAGGATATTG
187 --T-------AAGGATATTG
33570 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC-
1 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCT
33634 CCAATT-TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCA
65 CCAATTCT-AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCA
* * *
33698 ACTTCACGACGAAGGGACCGC-TGGTTGTCAACAAACAATTTCCCAGTTCCAGAGCCAAT
129 ACTTCACGACGAAGGGACC-CATGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAAT
33757 TTCAACTTCA
Statistics
Matches: 553, Mismatches: 31, Indels: 47
0.88 0.05 0.07
Matches are distributed among these distances:
196 1 0.00
197 161 0.29
198 5 0.01
203 3 0.01
204 1 0.00
205 1 0.00
206 3 0.01
210 3 0.01
211 4 0.01
212 366 0.66
213 3 0.01
214 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (197 bp):
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCTC
CAATTCTAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
TTCACGACGAAGGGACCCATGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATAAGGATAT
TG
Found at i:33777 original size:106 final size:106
Alignment explanation
Indices: 33136--33785 Score: 1061
Period size: 106 Copynumber: 6.1 Consensus size: 106
33126 CAGAGCCAAT
*
33136 AAGGATATTGGACTCCAGACAACGCATA-TTCAACTTCATGACGAAGGGACCGCTGGTTGTCAAC
1 AAGGATATTGGACTCCAGACAACGCA-AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
* * * *
33200 AAATAACTTCTCAATTTTAGAGCCAATTTCAACTTCACAGCG
65 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
*
33242 AAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACC-CATGGTTGTCAAC
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGC-TGGTTGTCAAC
* *
33306 AGACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
65 AAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
* * *
33348 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTTACGACGAAGGGACTGCTGGTTGTCAATA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
** * *
33413 AACATTTTCCCAATATCAGAGCCAATTTCAACTTCACAGCG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
*
33454 AAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
*
33519 AACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
33560 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
33625 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
33666 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
1 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
* * * **
33731 AACAATTTCCCAGTTCCAGAGCCAATTTCAACTTCACGGCG
66 AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
*
33772 GAGGATATTGGACT
1 AAGGATATTGGACT
33786 TGGAACAATA
Statistics
Matches: 508, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
105 1 0.00
106 506 1.00
107 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
AACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
Found at i:34329 original size:20 final size:20
Alignment explanation
Indices: 34313--34367 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
34303 ATTTTATATT
34313 TTTATTT-TTATTATTATAA
1 TTTATTTATTATTATTATAA
34332 TTTATTTATTATTATTAATAAA
1 TTTATTTATTATTATT-AT-AA
34354 TTT-TTTATT-TTATT
1 TTTATTTATTATTATT
34368 TTTATAGGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.21
20 13 0.39
21 8 0.24
22 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATTTATTATTATTATAA
Found at i:34346 original size:23 final size:21
Alignment explanation
Indices: 34311--34373 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 21
34301 GGATTTTATA
34311 TTTTTATTTTTATTATTATAAT
1 TTTTTA-TTTTATTATTATAAT
*
34333 TTATTTATTATTATTAATA-AAT
1 TT-TTTATT-TTATTATTATAAT
*
34355 TTTTTATTTTATTTTTATA
1 TTTTTATTTTATTATTATA
34374 GGACCATATG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 7 0.20
21 7 0.20
22 9 0.26
23 12 0.34
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTATTTTATTATTATAAT
Found at i:34581 original size:38 final size:38
Alignment explanation
Indices: 34525--34605 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
34515 AGCCATGGAG
* * * *
34525 GGGGGATTTTTTTTATTGGTTTTGATCATATGAGAAAA
1 GGGGGATTTTATTGATTGGTTCTGATCACATGAGAAAA
* *
34563 GGGGGATTTTATTGATTGGTTCTGATCCCATGAGAAAG
1 GGGGGATTTTATTGATTGGTTCTGATCACATGAGAAAA
34601 GGGGG
1 GGGGG
34606 TACCATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.23, C:0.06, G:0.33, T:0.37
Consensus pattern (38 bp):
GGGGGATTTTATTGATTGGTTCTGATCACATGAGAAAA
Found at i:35730 original size:22 final size:22
Alignment explanation
Indices: 35685--35730 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
35675 TTGTACTAAC
* *
35685 TTTTATTTATCTTTGTTATCTA
1 TTTTATTTATCTTTATTATATA
35707 TTTTATTTAT-TTTATTATTATA
1 TTTTATTTATCTTTATTA-TATA
35729 TT
1 TT
35731 AATTTTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTATTTATCTTTATTATATA
Found at i:36410 original size:2 final size:2
Alignment explanation
Indices: 36403--36432 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36393 TTGTTGAATA
36403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36433 TCAATTGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38305 original size:92 final size:92
Alignment explanation
Indices: 38159--38382 Score: 342
Period size: 95 Copynumber: 2.4 Consensus size: 92
38149 AAACGAATCA
* * *
38159 AATTAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAATCG-ATTTTTTCTTTAACAT
1 AATTAACCGAAATTTATTTGAAAATTATTAACCGAATCAAATTAACCGAATTTTTTCTTTAACAT
38223 TAATCGAACCGAAATTATTTGACCGTT
66 TAATCGAACCGAAATTATTTGACCGTT
*
38250 AATTGAACCGAAATATATTTGAAAATTATTAACCGAATCAAATTAACCGAATTTTTTTTCTTTAA
1 AATT-AACCGAAATTTATTTGAAAATTATTAACCGAATCAAATTAACCGAA--TTTTTTCTTTAA
*
38315 CATTAATCTAACCGAAATTATTTGACCGTT
63 CATTAATCGAACCGAAATTATTTGACCGTT
* *
38345 AATCAAACCGAAATTTGTTTGAAAATTATTAACCGAAT
1 AAT-TAACCGAAATTTATTTGAAAATTATTAACCGAAT
38383 TTTTTTATTT
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
91 4 0.03
92 40 0.33
93 1 0.01
95 75 0.62
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (92 bp):
AATTAACCGAAATTTATTTGAAAATTATTAACCGAATCAAATTAACCGAATTTTTTCTTTAACAT
TAATCGAACCGAAATTATTTGACCGTT
Found at i:38414 original size:81 final size:80
Alignment explanation
Indices: 38291--38463 Score: 265
Period size: 81 Copynumber: 2.1 Consensus size: 80
38281 ACCGAATCAA
* * *
38291 ATTAACCGAATTTTTTTTCTTTAACATTAATCTAACCGAAATTATTTGACCGTTAATCAAACCGA
1 ATTAACCGAA-TTTTTTTATTTAACATTAATCGAACCCAAATTATTTGACCGTTAATCAAACCGA
*
38356 AATTTGTTTGAAAATT
65 AATTTATTTGAAAATT
* * *
38372 ATTAACCGAATTTTTTTATTTAACCATTAATCGAACCCAAATTATTTTACCGTTAATCGAACCTA
1 ATTAACCGAATTTTTTTATTTAA-CATTAATCGAACCCAAATTATTTGACCGTTAATCAAACCGA
38437 AATTTATTTGAAAATT
65 AATTTATTTGAAAATT
38453 ATTAACCGAAT
1 ATTAACCGAAT
38464 AAAATAAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 12 0.14
81 72 0.86
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.40
Consensus pattern (80 bp):
ATTAACCGAATTTTTTTATTTAACATTAATCGAACCCAAATTATTTGACCGTTAATCAAACCGAA
ATTTATTTGAAAATT
Found at i:38443 original size:27 final size:27
Alignment explanation
Indices: 38386--38445 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
38376 ACCGAATTTT
38386 TTTATTTAACCATTAATCGAACCCAAA
1 TTTATTTAACCATTAATCGAACCCAAA
* * *
38413 -TTATTTTACCGTTAATCGAACCTAAA
1 TTTATTTAACCATTAATCGAACCCAAA
38439 TTTATTT
1 TTTATTT
38446 GAAAATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (27 bp):
TTTATTTAACCATTAATCGAACCCAAA
Found at i:38609 original size:160 final size:163
Alignment explanation
Indices: 38385--38693 Score: 390
Period size: 160 Copynumber: 1.9 Consensus size: 163
38375 AACCGAATTT
* * *
38385 TTTTATTTAACCATTAATCGAACCCAAATTATTTTACCGTTAATCGAACCTAAATTTATTTGAAA
1 TTTTATTTAACCATTAATCGAACCCAAATTATTTGACCATTAATCGAACCGAAATTTATTTGAAA
* * *
38450 ATTATTAA-C-C-GAATAAAATAAATTATTTTTTCCTTAACCGTTAATCTAACCAAAATTTATTT
66 ATTATTAATCACTGAATAAAATAAATGATTTTTTCCTTAACCATTAATCGAACCAAAATTTATTT
38512 GAAAATTATTAACGGAACCAAATCAACTTATTA
131 GAAAATTATTAACGGAACCAAATCAACTTATTA
* * * ** * * * *
38545 TTTTCTTTAACTATTAATTGAACTGAAATTATTTGACCATTAATCTAATCGAATTTTTTTTGAAA
1 TTTTATTTAACCATTAATCGAACCCAAATTATTTGACCATTAATCGAACCGAAATTTATTTGAAA
* *
38610 ATTATTAATCGAATTAACTGAATAAAATAAATGATTTTTTTCTTAATCATTAATCGAACCAAAAT
66 ATTATTAATC------ACTGAATAAAATAAATGATTTTTTCCTTAACCATTAATCGAACCAAAAT
38675 TTATTTGAAAATTATTAAC
125 TTATTTGAAAATTATTAAC
38694 CGAATCGAAT
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
160 61 0.50
161 1 0.01
168 1 0.01
169 60 0.49
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (163 bp):
TTTTATTTAACCATTAATCGAACCCAAATTATTTGACCATTAATCGAACCGAAATTTATTTGAAA
ATTATTAATCACTGAATAAAATAAATGATTTTTTCCTTAACCATTAATCGAACCAAAATTTATTT
GAAAATTATTAACGGAACCAAATCAACTTATTA
Found at i:38959 original size:55 final size:55
Alignment explanation
Indices: 38875--38984 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
38865 AAGTTCGAAT
*
38875 CTGTTGGAGCGCAAATTTGTTCTTCAATTTTTCATTTCAATTGGGTGGTGACACG
1 CTGTTGGAGCACAAATTTGTTCTTCAATTTTTCATTTCAATTGGGTGGTGACACG
38930 CTGTTGGAGCACAAATTTGTTCTTCAATTTTTCATTTCAATTGGGTGGTGACACG
1 CTGTTGGAGCACAAATTTGTTCTTCAATTTTTCATTTCAATTGGGTGGTGACACG
38985 TGTCACCACC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (55 bp):
CTGTTGGAGCACAAATTTGTTCTTCAATTTTTCATTTCAATTGGGTGGTGACACG
Found at i:44872 original size:6 final size:6
Alignment explanation
Indices: 44864--44942 Score: 103
Period size: 6 Copynumber: 13.5 Consensus size: 6
44854 GACACGTACT
*
44864 ACCACT ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
44912 ACCACACG ACC-CG ACC-CG ACC-CG ACC-CG ACC
1 A-C-CACG ACCACG ACCACG ACCACG ACCACG ACC
44943 CGAGACGAGA
Statistics
Matches: 70, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
5 20 0.29
6 43 0.61
7 2 0.03
8 5 0.07
ACGTcount: A:0.30, C:0.53, G:0.15, T:0.01
Consensus pattern (6 bp):
ACCACG
Found at i:45851 original size:7 final size:7
Alignment explanation
Indices: 45839--45881 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
45829 GACCATTTAA
45839 ATTATTT
1 ATTATTT
45846 ATTATTT
1 ATTATTT
45853 ATTATTT
1 ATTATTT
45860 ATTTATTT
1 A-TTATTT
45868 ATTCATTT
1 ATT-ATTT
45876 -TTATTT
1 ATTATTT
45882 CTTTTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 4 0.12
7 19 0.56
8 11 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTATTT
Found at i:45866 original size:22 final size:22
Alignment explanation
Indices: 45840--45881 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
45830 ACCATTTAAA
45840 TTATTTATT-ATTTATTATTTAT
1 TTATTTATTCATTT-TTATTTAT
45862 TTATTTATTCATTTTTATTT
1 TTATTTATTCATTTTTATTT
45882 CTTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTATTTATTCATTTTTATTTAT
Found at i:45887 original size:19 final size:19
Alignment explanation
Indices: 45840--45881 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
45830 ACCATTTAAA
*
45840 TTATTTA-TTATTTATTAT
1 TTATTTATTTATTCATTAT
45858 TTATTTATTTATTCATT-T
1 TTATTTATTTATTCATTAT
45876 TTATTT
1 TTATTT
45882 CTTTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTATTTATTTATTCATTAT
Found at i:52173 original size:7 final size:7
Alignment explanation
Indices: 52163--52208 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
52153 AAGAGATAAA
52163 ATATGTG
1 ATATGTG
52170 ATATGAT-
1 ATATG-TG
52177 ATATGTG
1 ATATGTG
52184 ATATGAT-
1 ATATG-TG
52191 ATATGTG
1 ATATGTG
52198 ATAATGTG
1 AT-ATGTG
52206 ATA
1 ATA
52209 CAAGACTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
6 2 0.06
7 23 0.68
8 9 0.26
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (7 bp):
ATATGTG
Found at i:52182 original size:14 final size:14
Alignment explanation
Indices: 52163--52200 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
52153 AAGAGATAAA
52163 ATATGTGATATGAT
1 ATATGTGATATGAT
52177 ATATGTGATATGAT
1 ATATGTGATATGAT
52191 ATATGTGATA
1 ATATGTGATA
52201 ATGTGATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (14 bp):
ATATGTGATATGAT
Found at i:57606 original size:16 final size:16
Alignment explanation
Indices: 57573--57618 Score: 78
Period size: 15 Copynumber: 3.0 Consensus size: 16
57563 TTTAACGAAA
57573 TGCTTTTGTTCA-TTT
1 TGCTTTTGTTCATTTT
57588 TGCTTTTGTTCATTTT
1 TGCTTTTGTTCATTTT
57604 TGCTTTTG-TCATTTT
1 TGCTTTTGTTCATTTT
57619 AACAAAATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.07, C:0.13, G:0.13, T:0.67
Consensus pattern (16 bp):
TGCTTTTGTTCATTTT
Found at i:59057 original size:13 final size:13
Alignment explanation
Indices: 59036--59087 Score: 86
Period size: 13 Copynumber: 4.0 Consensus size: 13
59026 AATGACGCGC
*
59036 AATGAGCGTCATA
1 AATGTGCGTCATA
59049 AATGTGCGTCATA
1 AATGTGCGTCATA
*
59062 AATGTGTGTCATA
1 AATGTGCGTCATA
59075 AATGTGCGTCATA
1 AATGTGCGTCATA
59088 GATTAATGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (13 bp):
AATGTGCGTCATA
Found at i:59064 original size:85 final size:85
Alignment explanation
Indices: 58842--59039 Score: 294
Period size: 85 Copynumber: 2.3 Consensus size: 85
58832 TCGTTTTTTA
*
58842 ATGAC-GTGTGCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACAC
1 ATGACGGTG-GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACAC
58906 AAATGTGAGTCAAGCAGATTT
65 AAATGTGAGTCAAGCAGATTT
* **
58927 ATGACGGGGGCTTCAATGACGCTAAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
1 ATGACGGTGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
* *
58992 AATGTGTGTC-ATCTTA-ATTT
66 AATGTGAGTCAAGC--AGATTT
59012 ATGACGGTGGCTTCAATGACGCGCAATG
1 ATGACGGTGGCTTCAATGACGCGCAATG
59040 AGCGTCATAA
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
84 2 0.02
85 96 0.95
86 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (85 bp):
ATGACGGTGGCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACA
AATGTGAGTCAAGCAGATTT
Found at i:60337 original size:323 final size:324
Alignment explanation
Indices: 59710--60353 Score: 1233
Period size: 325 Copynumber: 2.0 Consensus size: 324
59700 AATTTGATTC
59710 TGTGTCTTACTAAGTTAATTGATTCAGTTGTTTGAAGAATATAACCAACAAATTTTTAAAAAAAA
1 TGTGTCTTACTAAGTTAATTGATTCAGTTGTTTGAAGAATATAACCAACAAATTTTTAAAAAAAA
59775 ATTCACCCTCCTAATGTTAGGTCAAGAATTTTACTGTAATACAAACTTTTGATGCTATCACAGGC
66 ATTCACCCTCCTAATGTTAGGTCAAGAATTTTACTGTAATACAAACTTTTGATGCTATCACAGGC
59840 AAATTAAGAACGAAATTGTGTATCAATACCCCATGTTTCCATCCTTCCAAATAAGAGAAAGAAAA
131 AAATTAAGAACGAAATTGTGTATCAATACCCCATGTTTCCATCCTTCCAAATAAGAGAAAGAAAA
59905 ATTTAGGGAAAATTGAGTTCAGCAACAAACATTACAATTTATTCTAATAACAACTTTGTAAGACA
196 ATTTAGGGAAAATTGAGTTCAGCAACAAACATTACAATTTATTCTAATAACAACTTTGTAAGACA
59970 TAATATTTCCTGCAAAAGTGAACCTAAAAAAATTAGAATTCTTTCTTCGAGTAC-ATACTATCT
261 TAATATTTCCTGCAAAAGTGAACCTAAAAAAATTAGAATTCTTTCTTCGAGTACAATACTATCT
60033 TGTGTCTTACTAAGTTAATTGATTCAGTTGTTTGAAGAATATAACCAACAAATTTTT-AAAAAAA
1 TGTGTCTTACTAAGTTAATTGATTCAGTTGTTTGAAGAATATAACCAACAAATTTTTAAAAAAAA
60097 ATTCACCCTCCTAATATGTTAGGTCAAGAATTTTACTGTAATACAAACTTTTGATGCCTATCACA
66 ATTCACCCTCCT-A-ATGTTAGGTCAAGAATTTTACTGTAATACAAACTTTTGATG-CTATCACA
60162 GGCAAATTAAGAACGAAATTGTGTATCAATACCCCATGTTTCCATCCTTCCAAATAAGAGAAAGA
128 GGCAAATTAAGAACGAAATTGTGTATCAATACCCCATGTTTCCATCCTTCCAAATAAGAGAAAGA
60227 AAAATTTAGGGAAAATTGAGTTCAGCAACAAACATTACAA-TTATTCTAATAACAACTTTGTAAG
193 AAAATTTAGGGAAAATTGAGTTCAGCAACAAACATTACAATTTATTCTAATAACAACTTTGTAAG
60291 ACATAAT-TTTCCTGCAAAAGTGAACCTAAAAAAATTAGAATTCTTTCTTCGAGTACAATACTA
258 ACATAATATTTCCTGCAAAAGTGAACCTAAAAAAATTAGAATTCTTTCTTCGAGTACAATACTA
60354 AAACACTCCA
Statistics
Matches: 317, Mismatches: 0, Indels: 7
0.98 0.00 0.02
Matches are distributed among these distances:
322 19 0.06
323 107 0.34
324 78 0.25
325 113 0.36
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (324 bp):
TGTGTCTTACTAAGTTAATTGATTCAGTTGTTTGAAGAATATAACCAACAAATTTTTAAAAAAAA
ATTCACCCTCCTAATGTTAGGTCAAGAATTTTACTGTAATACAAACTTTTGATGCTATCACAGGC
AAATTAAGAACGAAATTGTGTATCAATACCCCATGTTTCCATCCTTCCAAATAAGAGAAAGAAAA
ATTTAGGGAAAATTGAGTTCAGCAACAAACATTACAATTTATTCTAATAACAACTTTGTAAGACA
TAATATTTCCTGCAAAAGTGAACCTAAAAAAATTAGAATTCTTTCTTCGAGTACAATACTATCT
Found at i:64127 original size:19 final size:20
Alignment explanation
Indices: 64103--64171 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
64093 AAAATGTTTT
64103 TATGAATAGTACTG-CACTG
1 TATGAATAGTACTGACACTG
* * *
64122 TATGAA-AATA-TCGATATTG
1 TATGAATAGTACT-GACACTG
64141 TATGAATAGTACTGACACTG
1 TATGAATAGTACTGACACTG
* *
64161 TGTGAACAGTA
1 TATGAATAGTA
64172 ATGAACAGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 15 0.39
20 17 0.45
21 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
TATGAATAGTACTGACACTG
Found at i:64257 original size:20 final size:20
Alignment explanation
Indices: 64217--64257 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
64207 AAATGAGTAC
** *
64217 CGATACTGCTACGGTAGTAT
1 CGATACTGCTACAATAATAT
64237 CGATACTGCTACAATAATAT
1 CGATACTGCTACAATAATAT
64257 C
1 C
64258 AAGCCCAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (20 bp):
CGATACTGCTACAATAATAT
Found at i:66355 original size:18 final size:18
Alignment explanation
Indices: 66328--66378 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
66318 AATAAAAAAG
*
66328 AGGTACCGATACCCTACA
1 AGGTATCGATACCCTACA
66346 AGGTATCGATACCCTACA
1 AGGTATCGATACCCTACA
66364 AGGTATCGATACCCT
1 AGGTATCGATACCCT
66379 TATATAGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (18 bp):
AGGTATCGATACCCTACA
Found at i:72508 original size:26 final size:26
Alignment explanation
Indices: 72478--72529 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
72468 AGAGCAGACA
72478 AAGAAACAAAATCAATATATGAACTG
1 AAGAAACAAAATCAATATATGAACTG
* *
72504 AAGAAACAGAATCAATATATGCACTG
1 AAGAAACAAAATCAATATATGAACTG
72530 TTTTGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (26 bp):
AAGAAACAAAATCAATATATGAACTG
Found at i:84065 original size:18 final size:18
Alignment explanation
Indices: 84014--84065 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 18
84004 AGTTGTACTA
* *
84014 ATTTTTTGAGTTTCTTTG
1 ATTTTTTGAATTTCTTTT
* *
84032 A-TTTTAG-ATTTATTTT
1 ATTTTTTGAATTTCTTTT
84048 ATTTTTTGAATTTCTTTT
1 ATTTTTTGAATTTCTTTT
84066 CAAACAAAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 7 0.27
17 10 0.38
18 9 0.35
ACGTcount: A:0.17, C:0.04, G:0.10, T:0.69
Consensus pattern (18 bp):
ATTTTTTGAATTTCTTTT
Found at i:86593 original size:18 final size:18
Alignment explanation
Indices: 86555--86593 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
86545 TGAAGTTAAG
* *
86555 GAATTGAATAAAAAAATA
1 GAATTGAAGAAAAAAAGA
*
86573 GAATTGAAGAAAGAAAGA
1 GAATTGAAGAAAAAAAGA
86591 GAA
1 GAA
86594 GATAACTTGA
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:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (18 bp):
GAATTGAAGAAAAAAAGA
Found at i:89793 original size:2 final size:2
Alignment explanation
Indices: 89781--89836 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
89771 AATAGGTGAG
*
89781 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
89823 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
89837 CCTAGAAGTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:90091 original size:16 final size:16
Alignment explanation
Indices: 90072--90110 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
90062 AGATATGAAC
90072 TATATGTGATACATGA
1 TATATGTGATACATGA
* **
90088 TATATGTGTTAGGTGA
1 TATATGTGATACATGA
90104 TATATGT
1 TATATGT
90111 AACCACATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.03, G:0.23, T:0.44
Consensus pattern (16 bp):
TATATGTGATACATGA
Found at i:90479 original size:32 final size:31
Alignment explanation
Indices: 90431--90520 Score: 108
Period size: 32 Copynumber: 2.9 Consensus size: 31
90421 GAGTCAAGAG
*
90431 TTACCTATGTCCTTCGGGACATATGGACATGA
1 TTACCTATGTCTTTCGGGACATATGGACA-GA
** * *
90463 TTATTTATGTCTTTCGGGACATATGGATAGT
1 TTACCTATGTCTTTCGGGACATATGGACAGA
* *
90494 TTACCTATGTCTTTTGAGACATATGGA
1 TTACCTATGTCTTTCGGGACATATGGA
90521 TAGTGGTCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.49
32 25 0.51
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGGACATATGGACAGA
Found at i:90506 original size:31 final size:31
Alignment explanation
Indices: 90431--90524 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
90421 GAGTCAAGAG
* * *
90431 TTACCTATGTCCTTCGGGACATATGGACATGA
1 TTACCTATGTCTTTCGGGACATATGGATA-GT
**
90463 TTATTTATGTCTTTCGGGACATATGGATAGT
1 TTACCTATGTCTTTCGGGACATATGGATAGT
* *
90494 TTACCTATGTCTTTTGAGACATATGGATAGT
1 TTACCTATGTCTTTCGGGACATATGGATAGT
90525 GGTCATTTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 28 0.53
32 25 0.47
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGGACATATGGATAGT
Found at i:113236 original size:23 final size:23
Alignment explanation
Indices: 113182--113237 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
113172 CAACTCATAT
*
113182 AAATGCACCGAAGTGCCATGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * * *
113205 AATTACACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
113228 AAATGCACCG
1 AAATGCACCG
113238 GAGTTCTATG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:114814 original size:24 final size:20
Alignment explanation
Indices: 114760--114817 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
114750 TTCCCCTTTA
114760 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
114780 AATGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
114803 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
114818 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.50
22 1 0.03
23 3 0.09
24 12 0.38
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:118690 original size:23 final size:23
Alignment explanation
Indices: 118653--118716 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
118643 CAACTCATAT
*
118653 AAATGCACCAAAGTGCCACGTAG
1 AAATGCACCAGAGTGCCACGTAG
* *
118676 AATTGCACC-GTAGTGCCGCGTAG
1 AAATGCACCAG-AGTGCCACGTAG
118699 AAATGCACCAGAGTGCCA
1 AAATGCACCAGAGTGCCA
118717 TATAAGATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.16
Consensus pattern (23 bp):
AAATGCACCAGAGTGCCACGTAG
Found at i:120461 original size:21 final size:21
Alignment explanation
Indices: 120421--120476 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
120411 TTACCCTTAA
*
120421 TGCATCAGTGCACA-TGAATG
1 TGCATCGGTGCACATTGAATG
120441 TGCATCGGTGCACATTGAATG
1 TGCATCGGTGCACATTGAATG
*
120462 TGCATCGATGCACAT
1 TGCATCGGTGCACAT
120477 AACCCAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (21 bp):
TGCATCGGTGCACATTGAATG
Found at i:125523 original size:3 final size:3
Alignment explanation
Indices: 125515--125555 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
125505 GTTTTGTCGT
*
125515 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
125556 GGAAAACAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:128664 original size:23 final size:23
Alignment explanation
Indices: 128635--128694 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
128625 CAGATGGACA
*
128635 ACATAGATATGTCCTAAAGAACC
1 ACATAGAAATGTCCTAAAGAACC
* * *
128658 ACGTAGAAATGTCCTGAAGGACC
1 ACATAGAAATGTCCTAAAGAACC
*
128681 ACATAGAATTGTCC
1 ACATAGAAATGTCC
128695 CAAATGACCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (23 bp):
ACATAGAAATGTCCTAAAGAACC
Found at i:128694 original size:46 final size:46
Alignment explanation
Indices: 128610--128711 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 46
128600 TATCGAAGTG
* *
128610 CCACGTAGAAATATCCAGATGGACAACATAGATATGTCCTAAA-GAA
1 CCACGTAGAAATATCCAGAAGGACAACATAGATATGTCCCAAATG-A
* * *
128656 CCACGTAGAAATGTCCTGAAGGACCACATAGA-ATTGTCCCAAATGA
1 CCACGTAGAAATATCCAGAAGGACAACATAGATA-TGTCCCAAATGA
*
128702 CCGCGTAGAA
1 CCACGTAGAA
128712 CCTCAACTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.02
46 46 0.96
47 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (46 bp):
CCACGTAGAAATATCCAGAAGGACAACATAGATATGTCCCAAATGA
Found at i:134719 original size:24 final size:24
Alignment explanation
Indices: 134690--134745 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
134680 TAAAACATTT
134690 AATCATATTCATAACATTTTATAA
1 AATCATATTCATAACATTTTATAA
*
134714 AATCATATTCTTAACATTTTATAA
1 AATCATATTCATAACATTTTATAA
134738 AATCATAT
1 AATCATAT
134746 AATAAAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (24 bp):
AATCATATTCATAACATTTTATAA
Found at i:134953 original size:23 final size:24
Alignment explanation
Indices: 134908--134961 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
134898 CACCACTGCT
* * *
134908 CATATAATTTGCACTGAAATGCCG
1 CATAGAATATGCACTGAAATGCCA
*
134932 CATAGAATATGCA-TGAAGTGCCA
1 CATAGAATATGCACTGAAATGCCA
134955 CATAGAA
1 CATAGAA
134962 ATGTCCCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (24 bp):
CATAGAATATGCACTGAAATGCCA
Found at i:135081 original size:23 final size:23
Alignment explanation
Indices: 135001--135073 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
134991 TATACCGATT
* **
135001 GACCACGTAGAATTGTCCCAAAG
1 GACCACATAGAATTGTCCTGAAG
* * *
135024 AACCGCATAGAAATGTCCTGAAG
1 GACCACATAGAATTGTCCTGAAG
*
135047 GACCACATAGAATTGTTCTGAAG
1 GACCACATAGAATTGTCCTGAAG
135070 GACC
1 GACC
135074 GCGTAGAACC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (23 bp):
GACCACATAGAATTGTCCTGAAG
Found at i:135192 original size:16 final size:14
Alignment explanation
Indices: 135158--135214 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
135148 TTATACCATT
*
135158 TCACATAGCTTATA
1 TCACATAGCATATA
135172 TCACATAGTCATATGA
1 TCACATAG-CATAT-A
135188 TCACATAGACCA-ATA
1 TCACATAG--CATATA
*
135203 TCACATATCATA
1 TCACATAGCATA
135215 AAATATAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 2 0.06
14 9 0.25
15 12 0.33
16 11 0.31
17 2 0.06
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (14 bp):
TCACATAGCATATA
Found at i:136909 original size:2 final size:2
Alignment explanation
Indices: 136904--136942 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
136894 AACAAAACTA
136904 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
136943 AATACTAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:139122 original size:36 final size:35
Alignment explanation
Indices: 139082--139152 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
139072 CTATGAGATT
139082 CAAACCAAAGTTCTCCATGAACCAAATGCTAAACAC
1 CAAACCAAAGTTCTCCATGAACC-AATGCTAAACAC
* * *
139118 CAAACCAAAGTTCTCCATTAAGCAGTGCTAAACAC
1 CAAACCAAAGTTCTCCATGAACCAATGCTAAACAC
139153 TCATCAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.42, C:0.30, G:0.10, T:0.18
Consensus pattern (35 bp):
CAAACCAAAGTTCTCCATGAACCAATGCTAAACAC
Found at i:140288 original size:12 final size:12
Alignment explanation
Indices: 140271--140303 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
140261 TGTGCTGAAT
140271 CATTCAGCAAAA
1 CATTCAGCAAAA
140283 CATTCAGCAAAA
1 CATTCAGCAAAA
140295 CATTCAGCA
1 CATTCAGCA
140304 TTGTTTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.18
Consensus pattern (12 bp):
CATTCAGCAAAA
Found at i:140822 original size:46 final size:43
Alignment explanation
Indices: 140772--140864 Score: 102
Period size: 46 Copynumber: 2.1 Consensus size: 43
140762 TATTATTTTT
*
140772 AAATAAATC-GAATTT-AGATTAACTCAAACTTAAAATAGTATGAAAA
1 AAATAAATCTGAATTTAAAATT-ACTCAAAC-TAAAA-A-TAT-AAAA
*
140818 AAAT-AATCTGAATTTAAAATTATTCAAACTAAAAATATAAAA
1 AAATAAATCTGAATTTAAAATTACTCAAACTAAAAATATAAAA
140860 AAATA
1 AAATA
140865 TAAAAAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
42 8 0.19
43 3 0.07
44 1 0.02
45 9 0.21
46 17 0.40
47 4 0.10
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (43 bp):
AAATAAATCTGAATTTAAAATTACTCAAACTAAAAATATAAAA
Found at i:140863 original size:10 final size:10
Alignment explanation
Indices: 140848--140874 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
140838 TATTCAAACT
140848 AAAAATATAA
1 AAAAATATAA
140858 AAAAATATAA
1 AAAAATATAA
140868 AAAAATA
1 AAAAATA
140875 ATTTGACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATATAA
Found at i:148825 original size:13 final size:15
Alignment explanation
Indices: 148807--148840 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
148797 ATAACTAGAA
148807 AAATAAAT-AAGA-T
1 AAATAAATAAAGACT
148820 AAATAAATAAAGACT
1 AAATAAATAAAGACT
148835 AAATAA
1 AAATAA
148841 TATTATTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 4 0.21
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (15 bp):
AAATAAATAAAGACT
Found at i:162107 original size:18 final size:18
Alignment explanation
Indices: 162086--162128 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
162076 TTTAAATTTA
*
162086 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
162104 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
162122 TTTATTT
1 TTTATTT
162129 TAAAAACAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:166247 original size:67 final size:68
Alignment explanation
Indices: 166139--166274 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 68
166129 CTTCATGCCC
166139 TAGAGAGACTCAAAGTGAGTTTATTTAGTTTAATACTTC-TTTTTTTAATATTTATGTACTTAAT
1 TAGAGAGACTCAAAGTGAGTTTATTTAGTTTAATACTTCTTTTTTTTAATATTTATGTACTTAAT
166203 TTA
66 TTA
166206 TAGAGAGACTCAAAGTGAGTTTATTTAGTTTAATACTTCTTTTTTTTAATATTTATGTACTTAAT
1 TAGAGAGACTCAAAGTGAGTTTATTTAGTTTAATACTTCTTTTTTTTAATATTTATGTACTTAAT
166271 TTA
66 TTA
166274 T
1 T
166275 CTAATTATAT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 39 0.57
68 29 0.43
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (68 bp):
TAGAGAGACTCAAAGTGAGTTTATTTAGTTTAATACTTCTTTTTTTTAATATTTATGTACTTAAT
TTA
Found at i:169331 original size:18 final size:18
Alignment explanation
Indices: 169310--169350 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
169300 TGACCTGTTT
169310 ACCCGACCCGTTGAACCG
1 ACCCGACCCGTTGAACCG
* * *
169328 ACCCAACCTGTTGACCCG
1 ACCCGACCCGTTGAACCG
169346 ACCCG
1 ACCCG
169351 TTGACCCGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.46, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGTTGAACCG
Found at i:169358 original size:8 final size:8
Alignment explanation
Indices: 169345--169391 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
169335 CTGTTGACCC
169345 GACCCGTT
1 GACCCGTT
169353 GACCCGTT
1 GACCCGTT
169361 GA-CCGTT
1 GACCCGTT
169368 GACCGGCGTT
1 GACC--CGTT
169378 GACCACTGTT
1 GACC-C-GTT
169388 GACC
1 GACC
169392 AAAACTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:169368 original size:15 final size:16
Alignment explanation
Indices: 169348--169381 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
169338 TTGACCCGAC
169348 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
169363 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
169380 CC
1 CC
169382 ACTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:171201 original size:19 final size:19
Alignment explanation
Indices: 171177--171216 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
171167 AGTACAACAT
171177 GTATCTGAAATTCAGGAAC
1 GTATCTGAAATTCAGGAAC
171196 GTATCTGAAATTCAGGAAC
1 GTATCTGAAATTCAGGAAC
171215 GT
1 GT
171217 TTGAATTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (19 bp):
GTATCTGAAATTCAGGAAC
Found at i:173152 original size:44 final size:44
Alignment explanation
Indices: 173015--173154 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 44
173005 ACAACATTCT
** * * * **
173015 TTTTGTGCTCGATTATATCACATAAGGAGTTTGACCATTATCAA-
1 TTTT-TGCTCGATTCCATCACATAAGAAGTTGGATCAACATCAAC
* * *
173059 TTTTTCCTCGATTCCATCACATATGAAGTTGGATCAGCATCAAC
1 TTTTTGCTCGATTCCATCACATAAGAAGTTGGATCAACATCAAC
* * * **
173103 ATTTTGCTCGATTCCATCACTTAAGGAGTTGGATCAACATCGTC
1 TTTTTGCTCGATTCCATCACATAAGAAGTTGGATCAACATCAAC
173147 TTTTTGCT
1 TTTTTGCT
173155 TAAAATAGTT
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
43 30 0.39
44 47 0.61
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (44 bp):
TTTTTGCTCGATTCCATCACATAAGAAGTTGGATCAACATCAAC
Found at i:173238 original size:36 final size:35
Alignment explanation
Indices: 173196--173392 Score: 225
Period size: 36 Copynumber: 5.5 Consensus size: 35
173186 TTTCACTCAG
*
173196 ATTTTATGTCACTTGAAATTGTTTTCTTAAAACAA
1 ATTTTATCTCACTTGAAATTGTTTTCTTAAAACAA
* * *
173231 ATTTTTATCTCACTTGAGATTTTTTTCTTAAAACAG
1 A-TTTTATCTCACTTGAAATTGTTTTCTTAAAACAA
* * *
173267 ATTTTATTTCACTTGAAATTGTTTTTCTTGAAACAT
1 ATTTTATCTCACTTGAAATTG-TTTTCTTAAAACAA
* * *
173303 GTTTTATCTCACTT-AATATTATTTTTCTTAAAACAT
1 ATTTTATCTCACTTGAA-ATT-GTTTTCTTAAAACAA
* **
173339 ATTTTATCTCACTTGAAACTGTTTTCCTTATTACAA
1 ATTTTATCTCACTTGAAATTGTTTT-CTTAAAACAA
173375 ATTTTATCTCACTTGAAA
1 ATTTTATCTCACTTGAAA
173393 GTATTTCCCT
Statistics
Matches: 137, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
35 24 0.18
36 111 0.81
37 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (35 bp):
ATTTTATCTCACTTGAAATTGTTTTCTTAAAACAA
Found at i:173281 original size:71 final size:72
Alignment explanation
Indices: 173193--173390 Score: 260
Period size: 72 Copynumber: 2.8 Consensus size: 72
173183 TCATTTCACT
*
173193 CAGATTTTATGTCACTTGAAATTGTTTTCTTAAAACAAATTTTTATCTCACTTGAGATT-TTTTT
1 CAGATTTTATCTCACTTGAAATTGTTTTCTTAAAACAAATTTTTATCTCACTTGAGATTATTTTT
173257 CTTAAAA
66 CTTAAAA
* * * *
173264 CAGATTTTATTTCACTTGAAATTGTTTTTCTTGAAAC--ATGTTTTATCTCACTTAATATTATTT
1 CAGATTTTATCTCACTTGAAATTG-TTTTCTTAAAACAAAT-TTTTATCTCACTTGAGATTATTT
173327 TTCTTAAAA
64 TTCTTAAAA
* * **
173336 CATATTTTATCTCACTTGAAACTGTTTTCCTTATTACAAA-TTTTATCTCACTTGA
1 CAGATTTTATCTCACTTGAAATTGTTTT-CTTAAAACAAATTTTTATCTCACTTGA
173391 AAGTATTTCC
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
70 2 0.02
71 44 0.40
72 63 0.57
74 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (72 bp):
CAGATTTTATCTCACTTGAAATTGTTTTCTTAAAACAAATTTTTATCTCACTTGAGATTATTTTT
CTTAAAA
Found at i:173409 original size:72 final size:68
Alignment explanation
Indices: 173196--173414 Score: 233
Period size: 72 Copynumber: 3.1 Consensus size: 68
173186 TTTCACTCAG
* * *
173196 ATTTTATGTCACTTGAAATTGTTTTCTTAAAACAAATTTTTATCTCACTTGAGATTTTTTTCTTA
1 ATTTTATCTCACTTGAAATTGTTTTCTT-AAACAAA-TTTTATCTCACTTGAAATATTTTTCTTA
173261 AAACA
64 AAACA
* **
173266 GATTTTATTTCACTTGAAATTGTTTTTCTTGAAACATGTTTTATCTCACTT-AATATTATTTTTC
1 -ATTTTATCTCACTTGAAATTG-TTTTCTT-AAACAAATTTTATCTCACTTGAA-A-TATTTTTC
173330 TTAAAACA
61 TTAAAACA
* * **
173338 TATTTTATCTCACTTGAAACTGTTTTCCTTATTACAAATTTTATCTCACTTGAAAGTATTTCCCT
1 -ATTTTATCTCACTTGAAATTGTTTT-CTTA-AACAAATTTTATCTCACTTGAAA-TATTTTTCT
*
173403 TGAAACA
62 TAAAACA
173410 ATTTT
1 ATTTT
173415 TTTCTTTACT
Statistics
Matches: 126, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
70 1 0.01
71 44 0.35
72 79 0.63
73 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.49
Consensus pattern (68 bp):
ATTTTATCTCACTTGAAATTGTTTTCTTAAACAAATTTTATCTCACTTGAAATATTTTTCTTAAA
ACA
Found at i:179660 original size:170 final size:173
Alignment explanation
Indices: 179373--179721 Score: 659
Period size: 170 Copynumber: 2.0 Consensus size: 173
179363 CGAGCGAGTT
179373 TTTCTAGTTCAACCTCACCCTCTACGTAGGATTCATCATCTGATTCAACTGAGGGTATTTTATTA
1 TTTCTAGTTCAACCTCACCCTCTACGTAGGATTCATCA-CTGATTCAACTGAGGGTATTTTATTA
179438 CGGTGGTGTTTGCATTGAGTAGAAAAATGATGAAAGAAAGCAGTATTATTGTCCCCATGTTTTAG
65 -GGTGGTGTTTGCATTGAGTAGAAAAATGATGAAAGAAAGCAGTATTATTGTCCCCATGTTTTAG
179503 TCAATTAACTCTAGCCCGCTGCTCCAATAAAGTTCAGAATTTCAA
129 TCAATTAACTCTAGCCCGCTGCTCCAATAAAGTTCAGAATTTCAA
179548 TTTCTAGTTCAACCTCACCCTCTACGTAGGATTCATCA-TGATTCAACTGAGGGTATTTTA-T-G
1 TTTCTAGTTCAACCTCACCCTCTACGTAGGATTCATCACTGATTCAACTGAGGGTATTTTATTAG
179610 GTGGTGTTTGCATTGAGTAGAAAAATGATGAAAGAAAGCAGTATTATTGTCCCCATGTTTTAGTC
66 GTGGTGTTTGCATTGAGTAGAAAAATGATGAAAGAAAGCAGTATTATTGTCCCCATGTTTTAGTC
179675 AATTAACTCTAGCCCGCTGCTCCAATAAAGTTCAGAATTTCAA
131 AATTAACTCTAGCCCGCTGCTCCAATAAAGTTCAGAATTTCAA
179718 TTTC
1 TTTC
179722 AATATTCAAT
Statistics
Matches: 174, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
170 113 0.65
172 1 0.01
173 22 0.13
175 38 0.22
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (173 bp):
TTTCTAGTTCAACCTCACCCTCTACGTAGGATTCATCACTGATTCAACTGAGGGTATTTTATTAG
GTGGTGTTTGCATTGAGTAGAAAAATGATGAAAGAAAGCAGTATTATTGTCCCCATGTTTTAGTC
AATTAACTCTAGCCCGCTGCTCCAATAAAGTTCAGAATTTCAA
Found at i:182543 original size:29 final size:29
Alignment explanation
Indices: 182501--182559 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
182491 ATTTTCACCT
182501 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
182530 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
182559 A
1 A
182560 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:187220 original size:29 final size:29
Alignment explanation
Indices: 187178--187236 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
187168 ATTTTCACCT
187178 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
187207 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
187236 A
1 A
187237 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:189064 original size:3 final size:3
Alignment explanation
Indices: 189053--189165 Score: 196
Period size: 3 Copynumber: 38.7 Consensus size: 3
189043 TTTTTCATCA
189053 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
189099 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
189147 TA- TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
189166 AATAAGATAT
Statistics
Matches: 105, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
2 6 0.06
3 99 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:190686 original size:150 final size:148
Alignment explanation
Indices: 190395--190670 Score: 319
Period size: 150 Copynumber: 1.8 Consensus size: 148
190385 GATTAAATGA
* * * * * *
190395 TAATGTTTATTTATTTTTAAATATTAAGAAAGGGCGGTCTTAAAATAACTAGACGTCCTATTCTG
1 TAATATTTATTTATTTTTAAATATAAAGAAAGAGCGGTCTTAAAACAACTAGAAGTCCTATTCCG
* * *
190460 GTATTTTAAAAAACAAATAAATATCTTATTTATAAAAATATATATATTTACTTTATTTTATTAAT
66 ATATTTTAAAAAACAAATAAATATCTTATTTATAAAAATATATATATATACGTTATTTTATT-AT
190525 TTTAATTATTATATTCTACT
130 TTTAA-TATTATATTCTACT
* *
190545 TAATATTTATTTATTTTT-AATATCAAAGAAATGAGCTGTCTTAAAGCAACTAGAAGTCCTATTC
1 TAATATTTATTTATTTTTAAATAT-AAAGAAA-GAGCGGTCTTAAAACAACTAGAAGTCCTATTC
** *
190609 CGATATTTT-TTAAATAAATAAATAT-TGTATTTA-AACAAATATATAAATATATA-GTTATTTT
64 CGATATTTTAAAAAACAAATAAATATCT-TATTTATAA-AAATATAT--ATATATACGTTATTTT
190670 A
125 A
190671 GTTTTATTCA
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
149 8 0.08
150 50 0.47
151 42 0.40
152 6 0.06
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (148 bp):
TAATATTTATTTATTTTTAAATATAAAGAAAGAGCGGTCTTAAAACAACTAGAAGTCCTATTCCG
ATATTTTAAAAAACAAATAAATATCTTATTTATAAAAATATATATATATACGTTATTTTATTATT
TTAATATTATATTCTACT
Found at i:190890 original size:2 final size:2
Alignment explanation
Indices: 190878--190908 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
190868 ATATTCTGCT
*
190878 TA TA AA 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 T
190909 TTACTTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:196230 original size:17 final size:17
Alignment explanation
Indices: 196208--196257 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
196198 AAATTCTTCT
196208 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
*
196225 AACA-T--T-GATACTCA
1 AACATTCATAGAAAC-CA
196239 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
196256 AA
1 AA
196258 ACATGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
15 1 0.04
16 1 0.04
17 9 0.35
18 4 0.15
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (17 bp):
AACATTCATAGAAACCA
Found at i:196567 original size:5 final size:5
Alignment explanation
Indices: 196557--196721 Score: 254
Period size: 5 Copynumber: 33.8 Consensus size: 5
196547 TTTTTTTAAT
196557 ATATA ATATA ATAT- ATAATA TATATA ATATA ATATA ATAATA A-ATA
1 ATATA ATATA ATATA AT-ATA -ATATA ATATA ATATA AT-ATA ATATA
196603 ATATA ATATA ATATA ATATA ATATA ATATA A-AT- ATATA ATAT- A-ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
196649 ATATA ATATA ATATA A-ATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
196698 ATATA ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATAT
196722 GGATGGATGG
Statistics
Matches: 150, Mismatches: 0, Indels: 20
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.02
4 16 0.11
5 122 0.81
6 7 0.05
7 2 0.01
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:200183 original size:160 final size:160
Alignment explanation
Indices: 199919--200238 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
199909 TTGATCTACT
199919 AGTTCCAATATCCTTTTAATTGGATCTCTTAACTTTGTAATTATCCAATTCAATCCTTAATTAAT
1 AGTTCCAATATCCTTTTAATTGGATCTCTTAACTTTGTAATTATCCAATTCAATCCTTAATTAAT
199984 ATTATGCATATACATTTGAGTCCTAAAACTTTTAGTTTATAATAATTAAGCCTTGTAAAGTATTA
66 ATTATGCATATACATTTGAGTCCTAAAACTTTTAGTTTATAATAATTAAGCCTTGTAAAGTATTA
200049 TTTCAATTTGGCCCTTCAAACTTCACATAC
131 TTTCAATTTGGCCCTTCAAACTTCACATAC
200079 AGTTCCAATATCCTTTTAATTGGATCTCTTAACTTTGTAATTATCCAATTCAATCCTTAATTAAT
1 AGTTCCAATATCCTTTTAATTGGATCTCTTAACTTTGTAATTATCCAATTCAATCCTTAATTAAT
200144 ATTATGCATATACATTTGAGTCCTAAAACTTTTAGTTTATAATAATTAAGCCTTGTAAAGTATTA
66 ATTATGCATATACATTTGAGTCCTAAAACTTTTAGTTTATAATAATTAAGCCTTGTAAAGTATTA
200209 TTTCAATTTGGCCCTTCAAACTTCACATAC
131 TTTCAATTTGGCCCTTCAAACTTCACATAC
200239 TTCAATTAAG
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (160 bp):
AGTTCCAATATCCTTTTAATTGGATCTCTTAACTTTGTAATTATCCAATTCAATCCTTAATTAAT
ATTATGCATATACATTTGAGTCCTAAAACTTTTAGTTTATAATAATTAAGCCTTGTAAAGTATTA
TTTCAATTTGGCCCTTCAAACTTCACATAC
Found at i:201691 original size:24 final size:24
Alignment explanation
Indices: 201659--201706 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
201649 AGTGTTGCCT
201659 TAGTTTAGGTTTTAACCCATTTGA
1 TAGTTTAGGTTTTAACCCATTTGA
201683 TAGTTTAGGTTTTAACCCATTTGA
1 TAGTTTAGGTTTTAACCCATTTGA
201707 CTACATTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (24 bp):
TAGTTTAGGTTTTAACCCATTTGA
Found at i:201880 original size:13 final size:13
Alignment explanation
Indices: 201862--201886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
201852 ATTACAGACG
201862 TGCATATGAAGAA
1 TGCATATGAAGAA
201875 TGCATATGAAGA
1 TGCATATGAAGA
201887 CTGTTCAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (13 bp):
TGCATATGAAGAA
Found at i:207287 original size:7 final size:7
Alignment explanation
Indices: 207275--207302 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
207265 AACCGTCCCG
207275 ATTTGCT
1 ATTTGCT
207282 ATTTGCT
1 ATTTGCT
207289 ATTTGCT
1 ATTTGCT
207296 ATTTGCT
1 ATTTGCT
207303 TCCACTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.57
Consensus pattern (7 bp):
ATTTGCT
Found at i:215259 original size:12 final size:12
Alignment explanation
Indices: 215241--215270 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
215231 ACATGGTAGA
215241 CATATTTTATTT
1 CATATTTTATTT
*
215253 TATATTTTATTT
1 CATATTTTATTT
215265 CATATT
1 CATATT
215271 ATGTTTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
CATATTTTATTT
Found at i:230670 original size:18 final size:18
Alignment explanation
Indices: 230649--230702 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
230639 AGAAATGAAA
230649 TTCACGCATATAATGCGT
1 TTCACGCATATAATGCGT
230667 TTCACGC--ATAATGCGT
1 TTCACGCATATAATGCGT
230683 TTCACGCATATAATGCGT
1 TTCACGCATATAATGCGT
230701 TT
1 TT
230703 ATGCCTACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 16 0.47
18 18 0.53
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (18 bp):
TTCACGCATATAATGCGT
Found at i:240712 original size:24 final size:24
Alignment explanation
Indices: 240675--240769 Score: 145
Period size: 24 Copynumber: 4.0 Consensus size: 24
240665 AAAATTAAAA
*
240675 CATAATTCAGGTCAAGTATCATAT
1 CATAATCCAGGTCAAGTATCATAT
*
240699 CATAATCCATGTCAAGTATCATAT
1 CATAATCCAGGTCAAGTATCATAT
* *
240723 CACAATCCAGGTCAAGTATCAAAT
1 CATAATCCAGGTCAAGTATCATAT
*
240747 CAGAATCCAGGTCAAGTATCATA
1 CATAATCCAGGTCAAGTATCATA
240770 ACAGAATTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (24 bp):
CATAATCCAGGTCAAGTATCATAT
Found at i:247615 original size:23 final size:21
Alignment explanation
Indices: 247566--247705 Score: 110
Period size: 21 Copynumber: 6.6 Consensus size: 21
247556 TTGTGCATAA
247566 GTATCGATACCCC-TTAGACT-G
1 GTATCGATACCCCTTTA-A-TAG
* *
247587 GTATCGATGCCCCCTTTGAATAT
1 GTATCGAT-ACCCCTTT-AATAG
247610 GTATCGATACCCCTTTAATAG
1 GTATCGATACCCCTTTAATAG
*
247631 GTATCAATA-CCCTTTCAATA-
1 GTATCGATACCCCTTT-AATAG
* *
247651 GTATCGATACCATCCTTGAATGG
1 GTATCGATACC--CCTTTAATAG
* *
247674 GTATCGATACCCCTATGAT-G
1 GTATCGATACCCCTTTAATAG
*
247694 GTACCGATACCC
1 GTATCGATACCC
247706 TCCACGGGGT
Statistics
Matches: 98, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
20 26 0.27
21 30 0.31
22 15 0.15
23 26 0.27
24 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (21 bp):
GTATCGATACCCCTTTAATAG
Found at i:247645 original size:20 final size:20
Alignment explanation
Indices: 247598--247661 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
247588 TATCGATGCC
*
247598 CCCTTTGAATATGTATCGATA
1 CCCTTTCAATA-GTATCGATA
*
247619 CCCCTTT-AATAGGTATCAATA
1 -CCCTTTCAATA-GTATCGATA
247640 CCCTTTCAATAGTATCGATA
1 CCCTTTCAATAGTATCGATA
247660 CC
1 CC
247662 ATCCTTGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 16 0.42
21 16 0.42
22 6 0.16
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (20 bp):
CCCTTTCAATAGTATCGATA
Found at i:253894 original size:28 final size:28
Alignment explanation
Indices: 253862--253924 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
253852 TTAATGTTAT
* *
253862 TTTTTATTTTTATAATT-GAGATTTTTAA
1 TTTTTATTTTTATAATTAAAG-CTTTTAA
*
253890 TTTTTAATTTTATAATTAAAGCTTTTAA
1 TTTTTATTTTTATAATTAAAGCTTTTAA
253918 TTTTTAT
1 TTTTTAT
253925 AATCTCCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (28 bp):
TTTTTATTTTTATAATTAAAGCTTTTAA
Found at i:254025 original size:36 final size:37
Alignment explanation
Indices: 253984--254056 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
253974 TTACTTATAT
253984 AATTGAAGTC-CTAAATTTTT-AATCTAACTTTTTATC
1 AATTGAAGTCTCTAAATTTTTCAATCTAA-TTTTTATC
* * * *
254020 AATTGAGGTCTTTAATTTTTTCAATCTTATTTTTATC
1 AATTGAAGTCTCTAAATTTTTCAATCTAATTTTTATC
254057 TTTATGATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 9 0.29
37 16 0.52
38 6 0.19
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (37 bp):
AATTGAAGTCTCTAAATTTTTCAATCTAATTTTTATC
Found at i:254068 original size:42 final size:42
Alignment explanation
Indices: 254013--254108 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
254003 TAATCTAACT
* *
254013 TTTTATCAATTGAGGTCT-TTAATTTTTTCAATCTTA-TTTTTA
1 TTTTAT-AATTGAGGT-TAATAATTTTTTCAACCTTACTTTTTA
*
254055 TCTTTATGATTGAGGTTAATAATTTTTTCAACCTTACTTTTTA
1 T-TTTATAATTGAGGTTAATAATTTTTTCAACCTTACTTTTTA
254098 TTTTATAATTG
1 TTTTATAATTG
254109 GTACCCTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.02
42 34 0.72
43 12 0.26
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.57
Consensus pattern (42 bp):
TTTTATAATTGAGGTTAATAATTTTTTCAACCTTACTTTTTA
Found at i:254278 original size:2 final size:2
Alignment explanation
Indices: 254271--254316 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
254261 CAATAGATTC
254271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
254313 AT AT
1 AT AT
254317 TATCAGATAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:261051 original size:16 final size:16
Alignment explanation
Indices: 261032--261064 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
261022 AAATTTTCTA
261032 AAAATAAAGA-GAAATG
1 AAAATAAA-ACGAAATG
261048 AAAATAAAACGAAATG
1 AAAATAAAACGAAATG
261064 A
1 A
261065 GTTGCCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.70, C:0.03, G:0.15, T:0.12
Consensus pattern (16 bp):
AAAATAAAACGAAATG
Found at i:263617 original size:19 final size:19
Alignment explanation
Indices: 263593--263639 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
263583 TGGGAGGAAG
263593 ATTCGACTTATAGAAAGCA
1 ATTCGACTTATAGAAAGCA
263612 ATTCGACTTATAGAAAGCA
1 ATTCGACTTATAGAAAGCA
263631 ATTCGACTT
1 ATTCGACTT
263640 CCTGGGAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (19 bp):
ATTCGACTTATAGAAAGCA
Found at i:272024 original size:20 final size:21
Alignment explanation
Indices: 271978--272029 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
271968 GCTTTGGAAT
271978 TTTTCCTGGGATGCAATCAAC
1 TTTTCCTGGGATGCAATCAAC
271999 TTTTCCTGGGATGCAATCAA-
1 TTTTCCTGGGATGCAATCAAC
272019 TTTTCCTGGGA
1 TTTTCCTGGGA
272030 CATTACCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (21 bp):
TTTTCCTGGGATGCAATCAAC
Found at i:273417 original size:18 final size:18
Alignment explanation
Indices: 273396--273438 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
273386 GTTGTTTTTA
*
273396 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
* *
273414 AAATAAAATAAAATAATT
1 AAATAAAAGAAAAGAATT
273432 AAATAAA
1 AAATAAA
273439 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:273952 original size:12 final size:12
Alignment explanation
Indices: 273931--273960 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
273921 GGAAGTATAC
273931 GAAAAATAGAGA
1 GAAAAATAGAGA
*
273943 GAAAACTAGAGA
1 GAAAAATAGAGA
273955 GAAAAA
1 GAAAAA
273961 GAAGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:277764 original size:65 final size:65
Alignment explanation
Indices: 277695--277845 Score: 250
Period size: 65 Copynumber: 2.3 Consensus size: 65
277685 AAGAGACAGA
*
277695 GCGAG-ATAGAGAGAGATGGGGTAGAGAAAAAGAGAGTGTGAAGAAGAGAGAGTAAAATAAAGTA
1 GCGAGAAT-GAGAGAGATGGGGTAGAGAAAAAGAGAGTGTGAAAAAGAGAGAGTAAAATAAAGTA
277759 G
65 G
* *
277760 GCGAGAATGAGAGAGAAGGGGTAGAGAAAAAGAGAGTGTGAAAAAGAGAGAGTAAGATAAAGTAG
1 GCGAGAATGAGAGAGATGGGGTAGAGAAAAAGAGAGTGTGAAAAAGAGAGAGTAAAATAAAGTAG
277825 GCGAGAATGAGAGAGAGTGGG
1 GCGAGAATGAGAGAGA-TGGG
277846 AGAAAGAGAG
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
65 75 0.94
66 5 0.06
ACGTcount: A:0.46, C:0.02, G:0.40, T:0.11
Consensus pattern (65 bp):
GCGAGAATGAGAGAGATGGGGTAGAGAAAAAGAGAGTGTGAAAAAGAGAGAGTAAAATAAAGTAG
Found at i:277775 original size:30 final size:30
Alignment explanation
Indices: 277739--277842 Score: 86
Period size: 30 Copynumber: 3.3 Consensus size: 30
277729 AGTGTGAAGA
277739 AGAGAGAGTAAAATAAAGTAGGCGAGAATG
1 AGAGAGAGTAAAATAAAGTAGGCGAGAATG
* * **
277769 AGAGAGAAGGGGTAGAGAA-AAAG-AGAGTGTGAAAA
1 AGAGAG-A---GTA-A-AATAAAGTAG-GCGAGAATG
*
277804 AGAGAGAGTAAGATAAAGTAGGCGAGAATG
1 AGAGAGAGTAAAATAAAGTAGGCGAGAATG
277834 AGAGAGAGT
1 AGAGAGAGT
277843 GGGAGAAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
29 1 0.02
30 25 0.45
31 6 0.11
34 6 0.11
35 16 0.29
36 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.38, T:0.12
Consensus pattern (30 bp):
AGAGAGAGTAAAATAAAGTAGGCGAGAATG
Found at i:277852 original size:46 final size:46
Alignment explanation
Indices: 277790--277897 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
277780 GTAGAGAAAA
* * *
277790 AGAGAGTGTGAAAAAGAGAGAGTAAGATAAAGTAGGCGAGAATGAG
1 AGAGAGTGGGAGAAAGAGAGAGTAAGAGAAAGTAGGCGAGAATGAG
*
277836 AGAGAGTGGGAGAAAGAGAGAGTAAGAGAAAGTGGGCGAGAATGAG
1 AGAGAGTGGGAGAAAGAGAGAGTAAGAGAAAGTAGGCGAGAATGAG
* *
277882 AGAGAGTAGAAGAAAG
1 AGAGAGTGGGAGAAAG
277898 TGAGTGAGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.47, C:0.02, G:0.41, T:0.10
Consensus pattern (46 bp):
AGAGAGTGGGAGAAAGAGAGAGTAAGAGAAAGTAGGCGAGAATGAG
Found at i:277864 original size:16 final size:16
Alignment explanation
Indices: 277834--277867 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
277824 GGCGAGAATG
**
277834 AGAGAGAGTGGGAGAA
1 AGAGAGAGTAAGAGAA
277850 AGAGAGAGTAAGAGAA
1 AGAGAGAGTAAGAGAA
277866 AG
1 AG
277868 TGGGCGAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (16 bp):
AGAGAGAGTAAGAGAA
Found at i:277997 original size:4 final size:4
Alignment explanation
Indices: 277990--278133 Score: 57
Period size: 4 Copynumber: 36.8 Consensus size: 4
277980 TGTGTGTGTA
* * *
277990 AGAG AGAG AGATG -GAG AGAG AGAG AGGG ATG-G A-ATG AGGG AGGG A-AG
1 AGAG AGAG AGA-G AGAG AGAG AGAG AGAG A-GAG AGA-G AGAG AGAG AGAG
* * * * * * * * *
278037 -GAG GGAG GGAG GGAG AGAG TGAT AGAA AGAG AGAG CGGG AGAG AGGG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
* * * * * *
278084 AGAT AGAG AGAG AGA- AGTG AGTG AGTG AGAA AGTG AGAG AGAG AGAG
1 AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG AGAG
278131 AGA
1 AGA
278134 AGGAGACAAA
Statistics
Matches: 108, Mismatches: 23, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
3 6 0.06
4 100 0.93
5 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.51, T:0.07
Consensus pattern (4 bp):
AGAG
Found at i:278508 original size:34 final size:34
Alignment explanation
Indices: 278457--278535 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
278447 GGAGGAGTGA
278457 GGGGG-GAGAGAACGCGAGAGTGTGGAAGAGATT
1 GGGGGAGAGAGAACGCGAGAGTGTGGAAGAGATT
*
278490 GGGGGAGAGAGAATGCGAGAGTGTGGAAGAGATT
1 GGGGGAGAGAGAACGCGAGAGTGTGGAAGAGATT
278524 GGGGGAGAGAGA
1 GGGGGAGAGAGA
278536 GTTAGAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 5 0.11
34 39 0.89
ACGTcount: A:0.32, C:0.04, G:0.53, T:0.11
Consensus pattern (34 bp):
GGGGGAGAGAGAACGCGAGAGTGTGGAAGAGATT
Found at i:278722 original size:16 final size:16
Alignment explanation
Indices: 278682--278724 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
278672 GGAAAGTGAG
278682 GGAGGGAGAGAGAGAA
1 GGAGGGAGAGAGAGAA
** * *
278698 GGACAGAGAGAGGGAT
1 GGAGGGAGAGAGAGAA
278714 GGAGGGAGAGA
1 GGAGGGAGAGA
278725 AAGAGAGAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.56, T:0.02
Consensus pattern (16 bp):
GGAGGGAGAGAGAGAA
Found at i:278737 original size:28 final size:28
Alignment explanation
Indices: 278679--278737 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
278669 GAGGGAAAGT
* *
278679 GAGGGAGGGAGAGAGAGAAGGACAGAGA
1 GAGGGAGGGAGAGAGAGAAAGACAGAAA
* * *
278707 GAGGGATGGAGGGAGAGAAAGAGAGAAA
1 GAGGGAGGGAGAGAGAGAAAGACAGAAA
278735 GAG
1 GAG
278738 TGAGTAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.53, T:0.02
Consensus pattern (28 bp):
GAGGGAGGGAGAGAGAGAAAGACAGAAA
Found at i:281297 original size:150 final size:150
Alignment explanation
Indices: 281026--281316 Score: 573
Period size: 150 Copynumber: 1.9 Consensus size: 150
281016 TATGGTTTAG
281026 AATTTATGCTTTAGAGGTTATGAGGTTGTTATTTAGGGTTTTAAGATAGAGTAGGGTATATGATG
1 AATTTATGCTTTAGAGGTTATGAGGTTGTTATTTAGGGTTTTAAGATAGAGTAGGGTATATGATG
281091 ATGCAATCGAGCAACTTAGAGGGTAAAATTGATGCGAAAACACAATAGGGGCGAAAGTGATAAAT
66 ATGCAATCGAGCAACTTAGAGGGTAAAATTGATGCGAAAACACAATAGGGGCGAAAGTGATAAAT
281156 TGAATCTACTATAGGGGCAA
131 TGAATCTACTATAGGGGCAA
*
281176 AATTTATGCTTTAGATGTTATGAGGTTGTTATTTAGGGTTTTAAGATAGAGTAGGGTATATGATG
1 AATTTATGCTTTAGAGGTTATGAGGTTGTTATTTAGGGTTTTAAGATAGAGTAGGGTATATGATG
281241 ATGCAATCGAGCAACTTAGAGGGTAAAATTGATGCGAAAACACAATAGGGGCGAAAGTGATAAAT
66 ATGCAATCGAGCAACTTAGAGGGTAAAATTGATGCGAAAACACAATAGGGGCGAAAGTGATAAAT
281306 TGAATCTACTA
131 TGAATCTACTA
281317 CAAAAAAATT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 140 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.30
Consensus pattern (150 bp):
AATTTATGCTTTAGAGGTTATGAGGTTGTTATTTAGGGTTTTAAGATAGAGTAGGGTATATGATG
ATGCAATCGAGCAACTTAGAGGGTAAAATTGATGCGAAAACACAATAGGGGCGAAAGTGATAAAT
TGAATCTACTATAGGGGCAA
Found at i:285055 original size:36 final size:36
Alignment explanation
Indices: 285015--285107 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
285005 GTTGTTGAAC
* *
285015 TTGATCTGCAGTAGTTACAACTGTATGTTGCTGCAT
1 TTGATCTGCAGCAGTTTCAACTGTATGTTGCTGCAT
* * *
285051 TTGATCTGCAGCAGTTTCAACTGTGTGTTGTTGTAT
1 TTGATCTGCAGCAGTTTCAACTGTATGTTGCTGCAT
*
285087 TTGATTTGCAGCAGTTTCAAC
1 TTGATCTGCAGCAGTTTCAAC
285108 CTCCTCCTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (36 bp):
TTGATCTGCAGCAGTTTCAACTGTATGTTGCTGCAT
Found at i:288797 original size:183 final size:185
Alignment explanation
Indices: 288481--288855 Score: 587
Period size: 183 Copynumber: 2.0 Consensus size: 185
288471 ATTAAATTTT
* * *
288481 AAATTTTAAATATATTATATATAACATATGGGCTTAACCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAAAATATGGGCTTAACCCAAACCATTTAAAACCCAATTAATAA
* **
288546 TTTAAGATCCAATAACTTTTAAACTTAAATTAATATTAATTAATTAAAAAATTATATAATTTTTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAATAATTT
*
288611 TATTTTATAATTATATATTATTTAAATTAATTGTAAA-TTGTTTTCT-AATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTTGTTTTCTGAATTAAA
* *
288664 AAGTATTAAATATATTATATATAAAATATGGGC-TAAGCCCAAACCATTTAAAACTCAATTAATA
1 AAATATTAAATATATTATATATAAAATATGGGCTTAA-CCCAAACCATTTAAAACCCAATTAATA
* *
288728 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAATATTTATCTAA-AAT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAA-AATTATATAATAAT
* *
288792 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTTGAATTAAA
129 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTGTTTTCTGAATTAAA
288849 AAATATT
1 AAATATT
288856 TAACTTTTAT
Statistics
Matches: 174, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
182 3 0.02
183 143 0.82
184 15 0.09
185 13 0.07
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.43
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAAAATATGGGCTTAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAATAATTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTTGTTTTCTGAATTAAA
Found at i:291123 original size:21 final size:21
Alignment explanation
Indices: 291099--291156 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
291089 GCTGATATGT
291099 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
291120 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
291141 TGCTTCTCTCTGTGCT
1 TGCTTCTCTCTGTGCT
291157 ATCGTTGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.00, C:0.36, G:0.22, T:0.41
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTGCCGC
Found at i:291165 original size:21 final size:21
Alignment explanation
Indices: 291099--291186 Score: 104
Period size: 21 Copynumber: 4.2 Consensus size: 21
291089 GCTGATATGT
*
291099 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTACCGC
*
291120 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTACCGC
* *
291141 TGCTTCTCTCTGTGCTATCGT
1 TGCTTCTCTCTGTGCTACCGC
* * * *
291162 TGCTTCTTTCTCTGCTTCTGC
1 TGCTTCTCTCTGTGCTACCGC
291183 TGCT
1 TGCT
291187 GTTGTGGCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.01, C:0.34, G:0.20, T:0.44
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTACCGC
Found at i:291197 original size:21 final size:21
Alignment explanation
Indices: 291173--291250 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
291163 GCTTCTTTCT
291173 CTGCTTCTGCTGCTGTTGTGG
1 CTGCTTCTGCTGCTGTTGTGG
* *
291194 CTGCTTCTACTGCTGCTGTGG
1 CTGCTTCTGCTGCTGTTGTGG
* *
291215 CTACTTCTGCTGCTGCTT-TGC
1 CTGCTTCTGCTGCTG-TTGTGG
*
291236 CTGCTTCTGATGCTG
1 CTGCTTCTGCTGCTG
291251 CTCTCTCTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 47 0.98
22 1 0.02
ACGTcount: A:0.04, C:0.28, G:0.27, T:0.41
Consensus pattern (21 bp):
CTGCTTCTGCTGCTGTTGTGG
Found at i:291260 original size:21 final size:21
Alignment explanation
Indices: 291173--291263 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 21
291163 GCTTCTTTCT
* * * *
291173 CTGCTTCTGCTGCTGTTGTGG
1 CTGCTTCTGATGCTGCTCTGC
* *
291194 CTGCTTCT-ACTGCTGCTGTGG
1 CTGCTTCTGA-TGCTGCTCTGC
* * *
291215 CTACTTCTGCTGCTGCTTTGC
1 CTGCTTCTGATGCTGCTCTGC
291236 CTGCTTCTGATGCTGCTCT-C
1 CTGCTTCTGATGCTGCTCTGC
291256 TCTGCTTC
1 -CTGCTTC
291264 CCTTGCTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 57 0.98
ACGTcount: A:0.03, C:0.31, G:0.24, T:0.42
Consensus pattern (21 bp):
CTGCTTCTGATGCTGCTCTGC
Found at i:291872 original size:101 final size:95
Alignment explanation
Indices: 291744--291938 Score: 304
Period size: 93 Copynumber: 2.0 Consensus size: 95
291734 TTACCTTAAC
291744 AAAATCCAACGCTTGATTTTTGTTACTATTAGGCATTTCATGCCATGACTCGTAATTGATCGGTA
1 AAAATCCAACGCTTGATTTTTGTTACTATTAGGCA-TT--T-CCATGACTCG---TTGATC-GTA
291809 ACAGATTCGCATTACATCCAACTATGCCTAAG-AACCA
58 ACAGATTCGCATTACATCCAACTATGCCTAAGTAACCA
291846 AAAATCCAACGCTTGA-TTTTGTTACTATTAGGCATTTCCATGACTCGTTGATCGTAACAGATTC
1 AAAATCCAACGCTTGATTTTTGTTACTATTAGGCATTTCCATGACTCGTTGATCGTAACAGATTC
291910 GCATTACATCCAACTATGCCTAAGTAACC
66 GCATTACATCCAACTATGCCTAAGTAACC
291939 TGCTAGAAGA
Statistics
Matches: 92, Mismatches: 0, Indels: 10
0.90 0.00 0.10
Matches are distributed among these distances:
93 35 0.38
94 10 0.11
97 10 0.11
98 1 0.01
100 2 0.02
101 18 0.20
102 16 0.17
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (95 bp):
AAAATCCAACGCTTGATTTTTGTTACTATTAGGCATTTCCATGACTCGTTGATCGTAACAGATTC
GCATTACATCCAACTATGCCTAAGTAACCA
Found at i:292410 original size:9 final size:9
Alignment explanation
Indices: 292396--292485 Score: 55
Period size: 9 Copynumber: 9.8 Consensus size: 9
292386 TATTTGGTTT
292396 TTTATTATA
1 TTTATTATA
292405 TTTATTATA
1 TTTATTATA
292414 TTTA-T-T-
1 TTTATTATA
292420 TTTATTACTAA
1 TTTATTA-T-A
*
292431 TATTATTATT
1 T-TTATTATA
292441 TTTATTAT-
1 TTTATTATA
* *
292449 TAATATTATT
1 T-TTATTATA
292459 TTTATTATTAA
1 TTTATTA-T-A
292470 TATTATTAT-
1 T-TTATTATA
292479 TTTATTA
1 TTTATTA
292486 CAGATACAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
8 8 0.12
9 33 0.50
10 3 0.05
11 4 0.06
12 12 0.18
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTATTATA
Found at i:292417 original size:18 final size:20
Alignment explanation
Indices: 292397--292486 Score: 95
Period size: 18 Copynumber: 4.8 Consensus size: 20
292387 ATTTGGTTTT
292397 TTATTATATTTATTA-T-AT-
1 TTATTAT-TTTATTACTAATA
292415 TTATT--TTTATTACTAATA
1 TTATTATTTTATTACTAATA
*
292433 TTATTATTTTTATTATTAATA
1 TTATTA-TTTTATTACTAATA
*
292454 TTA-T-TTTTATTATTAATA
1 TTATTATTTTATTACTAATA
292472 TTATTATTTTATTAC
1 TTATTATTTTATTAC
292487 AGATACAACC
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
15 7 0.11
16 1 0.02
17 2 0.03
18 27 0.44
19 1 0.02
20 9 0.15
21 15 0.24
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTATTTTATTACTAATA
Found at i:292424 original size:21 final size:21
Alignment explanation
Indices: 292378--292484 Score: 71
Period size: 21 Copynumber: 5.1 Consensus size: 21
292368 ACACTAGTTT
**
292378 TTTTTATATATT-TGGTTTT-
1 TTTTTATATATTATTATTTTA
*
292397 TTATTATAT-TTATTATATTTA
1 TTTTTATATATTATTAT-TTTA
* *
292418 TTTTTAT-TACTAATATTATTA
1 TTTTTATATATTATTATT-TTA
*
292439 TTTTTATTATTAATATTATTTTTA
1 TTTTTA-TA-TATTATTA-TTTTA
*
292463 TTATTA-ATATTATTATTTTA
1 TTTTTATATATTATTATTTTA
292483 TT
1 TT
292485 ACAGATACAA
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
18 2 0.03
19 10 0.14
20 12 0.17
21 27 0.39
22 2 0.03
24 14 0.20
25 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTTATATATTATTATTTTA
Found at i:292473 original size:6 final size:6
Alignment explanation
Indices: 292397--292485 Score: 76
Period size: 6 Copynumber: 15.0 Consensus size: 6
292387 ATTTGGTTTT
* * * *
292397 TTATTA -TATTTA TTA-TA TTTATTT TTATTA CTAATA TTATTA TTTTTA
1 TTATTA TTA-TTA TTATTA -TTATTA TTATTA TTATTA TTATTA TTATTA
* * *
292445 TTATTA ATATTA TTTTTA TTATTA ATATTA TTATT- TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
292486 CAGATACAAC
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
5 9 0.14
6 52 0.81
7 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATTA
Found at i:304401 original size:19 final size:19
Alignment explanation
Indices: 304377--304416 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
304367 TTGGGTTACC
304377 ATGCACACAAATTGCATTG
1 ATGCACACAAATTGCATTG
304396 ATGCACACAAATTGCATTG
1 ATGCACACAAATTGCATTG
304415 AT
1 AT
304417 TATGCAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (19 bp):
ATGCACACAAATTGCATTG
Found at i:305399 original size:22 final size:21
Alignment explanation
Indices: 305374--305449 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 21
305364 AGAAAAAATG
*
305374 AAAAATAAAAGAAAGAAAAGA
1 AAAAAAAAAAGAAAGAAAAGA
305395 AAAAAAAGAAAGAAAGAAAAGA
1 AAAAAAA-AAAGAAAGAAAAGA
*
305417 AAAAAAGAAAAAAAAGAAAA-A
1 AAAAAA-AAAAGAAAGAAAAGA
*
305438 AAGAGAAAAAAG
1 AA-AAAAAAAAG
305450 GGGGTCAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.27
22 34 0.71
23 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (21 bp):
AAAAAAAAAAGAAAGAAAAGA
Done.