Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002519.1 Hibiscus syriacus cultivar Beakdansim tig00005130_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: 101221
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:351 original size:19 final size:20
Alignment explanation
Indices: 327--374 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
317 AACAATTTTC
*
327 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
346 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
366 TTTTGAAAA
1 TTTTGAAAA
375 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:11448 original size:30 final size:27
Alignment explanation
Indices: 11393--11448 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
11383 CAAAAGATTT
**
11393 TTATTTTATATATTTAATATTAATATA
1 TTATTTTATATATTTAATAAAAATATA
11420 TTATTTTAGTATTATTTTAATAAAAATAT
1 TTATTTTA-TA-TA-TTTAATAAAAATAT
11449 TAATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 2 0.08
30 12 0.50
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TTATTTTATATATTTAATAAAAATATA
Found at i:11676 original size:14 final size:13
Alignment explanation
Indices: 11657--11716 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 13
11647 AAATATACTA
11657 TAATATTGATATTT
1 TAATATT-ATATTT
11671 TAATATTATATTT
1 TAATATTATATTT
** *
11684 TTTTAATAT-TTT
1 TAATATTATATTT
11696 AATAATATTATTATTT
1 --TAATATTA-TATTT
11712 TAATA
1 TAATA
11717 AGTAATTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
12 3 0.08
13 12 0.33
14 17 0.47
15 1 0.03
16 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TAATATTATATTT
Found at i:11692 original size:24 final size:25
Alignment explanation
Indices: 11665--11716 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
11655 TATAATATTG
* *
11665 ATATTTTAATATTA-TATTTTTTTA
1 ATATTTTAATAATATTATTATTTTA
11689 ATATTTTAATAATATTATTATTTTA
1 ATATTTTAATAATATTATTATTTTA
11714 ATA
1 ATA
11717 AGTAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
ATATTTTAATAATATTATTATTTTA
Found at i:11695 original size:8 final size:8
Alignment explanation
Indices: 11665--11716 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
11655 TATAATATTG
11665 ATATTTTA
1 ATATTTTA
*
11673 ATATTATA
1 ATATTTTA
* *
11681 TTTTTTTA
1 ATATTTTA
11689 ATATTTTA
1 ATATTTTA
*
11697 ATAATATTA
1 AT-ATTTTA
*
11706 TTATTTTA
1 ATATTTTA
11714 ATA
1 ATA
11717 AGTAATTAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
8 27 0.82
9 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATATTTTA
Found at i:11712 original size:17 final size:17
Alignment explanation
Indices: 11690--11748 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
11680 ATTTTTTTAA
11690 TATTTTAATAATATTAT
1 TATTTTAATAATATTAT
*
11707 TATTTTAATAAGTAATTAA
1 TATTTTAATAA-T-ATTAT
* *
11726 TATAGTTGATAATA-TAT
1 TAT-TTTAATAATATTAT
11743 TATTTT
1 TATTTT
11749 TATTTTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.06
17 16 0.47
18 2 0.06
19 8 0.24
20 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
TATTTTAATAATATTAT
Found at i:11792 original size:42 final size:41
Alignment explanation
Indices: 11701--11797 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
11691 ATTTTAATAA
* *
11701 TATTATTATTTTAATAAGTAATTAATATAGTTGATAATATAT
1 TATT-TTATTTTAATAAATAATTAATATAATTGATAATATAT
*
11743 TATTTTTATTTTAATAAATAATTAATCTAATT--T-ATAT-T
1 TA-TTTTATTTTAATAAATAATTAATATAATTGATAATATAT
*
11781 AATTTTATTTTAATAAA
1 TATTTTATTTTAATAAA
11798 ATATGATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
37 15 0.30
38 2 0.04
39 4 0.08
40 1 0.02
42 26 0.52
43 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (41 bp):
TATTTTATTTTAATAAATAATTAATATAATTGATAATATAT
Found at i:12085 original size:13 final size:13
Alignment explanation
Indices: 12067--12091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12057 TCATTTTACG
12067 AAATTTATTTTCA
1 AAATTTATTTTCA
12080 AAATTTATTTTC
1 AAATTTATTTTC
12092 GTTAAATAAA
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATTTATTTTCA
Found at i:18766 original size:21 final size:21
Alignment explanation
Indices: 18741--18780 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18731 AAGACTCTAT
18741 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
18762 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
18781 AAATAGACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:33284 original size:150 final size:146
Alignment explanation
Indices: 33080--33349 Score: 427
Period size: 150 Copynumber: 1.8 Consensus size: 146
33070 AAAATAATCA
* *
33080 TATTTTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCTTAAAGCACCTAGAAGCCCT
1 TATTTTAATATTTATTTATTTTTTAATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCCT
*
33145 TTTCTGATA-TTCTTAAATAAATAAATATCATATT-TTTATAAATTATATATATATTAATTTATT
66 TTTCTGATATTTC-TAAATAAATAAATAT--T-TTATTTATAAA-TATATATAAATTAATTTATT
33208 TAATTATTTTTAGAAAGATGT
126 TAATTATTTTTAGAAAGATGT
* *
33229 TATTTTAATATTTATTTATTTTTTTAATATTAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCC
1 TATTTTAATATTTATTTA-TTTTTTAATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCC
33294 TTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATTAAT
65 TTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATTAAT
33350 AGATTTTCTT
Statistics
Matches: 113, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
147 16 0.14
148 9 0.08
149 18 0.16
150 67 0.59
151 3 0.03
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (146 bp):
TATTTTAATATTTATTTATTTTTTAATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCCCT
TTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATTAATTTATTTAATT
ATTTTTAGAAAGATGT
Found at i:35542 original size:15 final size:14
Alignment explanation
Indices: 35491--35544 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
35481 ATTTTAAATA
35491 ATTTACATTTGCAT
1 ATTTACATTTGCAT
*
35505 TTTTACATTTGCAT
1 ATTTACATTTGCAT
35519 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
35534 CTTTGCATTTG
1 ATTTACATTTG
35545 TATTGCACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 23 0.66
15 12 0.34
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:43657 original size:54 final size:54
Alignment explanation
Indices: 43575--43740 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
43565 CAATGATTGA
43575 GAACATCTGAGCAG-AAATCACAGGAAATGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAAAT-ACAGGAAATGATGAATGTGTTGTCAAATGTTTTAC
43629 GAACATCTGAGCAGAAAATACAGGAAATGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAAATACAGGAAATGATGAATGTGTTGTCAAATGTTTTAC
*** * * **
43683 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAAATACAGGAAATGATGAATGTGTTGTCAAATGTTTTAC
43737 GAAC
1 GAAC
43741 CTGCTATTCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 100 0.96
55 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24
Consensus pattern (54 bp):
GAACATCTGAGCAGAAAATACAGGAAATGATGAATGTGTTGTCAAATGTTTTAC
Found at i:44124 original size:22 final size:22
Alignment explanation
Indices: 44098--44176 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
44088 ACATCTACAT
44098 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
44120 TCTTCAAACATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* * *
44142 TTTTTAAAGATGACAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
44164 TTTTCAAAGATGA
1 TCTTCAAAGATGA
44177 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:44782 original size:113 final size:113
Alignment explanation
Indices: 44615--45271 Score: 795
Period size: 113 Copynumber: 5.6 Consensus size: 113
44605 TGCCAGGTCG
**
44615 AGTTCATAATGAGAAGAACTCATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
44680 AA-CTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
66 AACCTTTT-GCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
*
44728 AGTTCATAATGAGATGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
44793 AA-CTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
66 AACCTTTT-GCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
44841 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
44906 AACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTGCCAG-GTAG
66 AACCTTTTGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAG-AA
* * * *
44954 AGTTCATAATGAGAAGAACTCGTCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *** ** *
45019 AACCTTTTGCTCG-ACTCTATCCCAGAAGGAGATAAATCAACATCAACATTTTCAGAGAA
66 AACCTTTTGCTTGAATTC-AT--C---ATTCGATGGATCAAC-T-----TTTCCAGAGAA
*
45078 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *** * *
45142 AACCTTTTGCTCG-ACTCTATCGCAGAAGGAGATAGATCAGCATCAATTTTTCAGAGAA
66 AACCTTTTGCTTGAATTC-AT--C---ATTCGATGGATCA--A-C--TTTTCCAGAGAA
*
45200 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
45265 AACCTTT
66 AACCTTT
45272 GTTTGATTCT
Statistics
Matches: 495, Mismatches: 29, Indels: 30
0.89 0.05 0.05
Matches are distributed among these distances:
112 4 0.01
113 286 0.58
114 5 0.01
115 1 0.00
118 10 0.02
122 40 0.08
123 110 0.22
124 34 0.07
125 2 0.00
126 1 0.00
127 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAA
Found at i:44982 original size:226 final size:229
Alignment explanation
Indices: 44615--45359 Score: 815
Period size: 226 Copynumber: 3.2 Consensus size: 229
44605 TGCCAGGTCG
**
44615 AGTTCATAATGAGAAGAACTCATCTGAAGAATAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
44680 AA-CTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGATG
66 AACCTTTT-GCTTGAATTCATCATTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAG
* *
44744 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAAT
130 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTT-GCTCGACT
*** **
44809 -TCAT-C-ATTCGATGGATCAAC-T-TTTCCAGAGAA
194 CT-ATCCAAGGAGATAAATCAACATATTTCCAGAGAA
44841 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
44906 AACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAG
66 AACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAG
* * * *
44970 AACTCGTCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTTGCTCGACT
130 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGCTCGACT
*
45035 CTATCCCAGAAGGAGATAAATCAACATCAACATTTTCAGAGAA
194 CTAT-CC--AAGGAGATAAATCAACAT----ATTTCCAGAGAA
*
45078 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *** * *
45142 AACCTTTTGCTCG-ACTCTATCGCAGAAGGAGATAGATCAGCATCAATTTTTCAGAGAAAGTTCA
66 AACCTTTTGCTTGAATTC-AT--C---ATTCGATGGATCA--A-C-A-TTTCCAGAGAAAGTTCA
* *
45206 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTT
120 TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTT
* * * * * * * *
45271 TGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCATTTCCATAAAA
185 TGCTCGACTCTATC-C--AAGGAGATAAATCA--A-CA-TATTTCCAGAGAA
* *
45323 AGTTCATAATAAGAAGAACTCATTTGAAGAAGGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
45360 GAATTTGTTC
Statistics
Matches: 441, Mismatches: 45, Indels: 46
0.83 0.08 0.09
Matches are distributed among these distances:
225 1 0.00
226 170 0.39
227 11 0.02
228 1 0.00
231 10 0.02
232 1 0.00
235 3 0.01
236 48 0.11
237 39 0.09
238 1 0.00
241 9 0.02
243 1 0.00
244 2 0.00
245 65 0.15
246 75 0.17
247 2 0.00
248 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (229 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTGAATTCATCATTCGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGCTCGACTCT
ATCCAAGGAGATAAATCAACATATTTCCAGAGAA
Found at i:45156 original size:123 final size:124
Alignment explanation
Indices: 44954--45359 Score: 602
Period size: 123 Copynumber: 3.3 Consensus size: 124
44944 TGCCAGGTAG
* * * * *
44954 AGTTCATAATGAGAAGAACTCGTCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * *
45019 AACCTTTTGCTCGACTCTATCCCAGAAGGAGATAAATCAACATCAACATTTTCAGAGAA
66 AACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTTCAGAGAA
45078 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* *
45142 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAGCATCAA-TTTTTCAGAGAA
66 AACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTTCAGAGAA
45200 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * * * * * * *
45265 AACC-TTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCATTTCCATAAAA
66 AACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTTCAGAGAA
* *
45323 AGTTCATAATAAGAAGAACTCATTTGAAGAAGGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
45360 GAATTTGTTC
Statistics
Matches: 258, Mismatches: 22, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
122 74 0.29
123 156 0.60
124 28 0.11
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (124 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
AACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCATCAACATTTTCAGAGAA
Found at i:50409 original size:34 final size:35
Alignment explanation
Indices: 50366--50467 Score: 170
Period size: 34 Copynumber: 2.9 Consensus size: 35
50356 TTTCGTCCTA
50366 TTAGGATTCAAACTCCTAAAAATAGGATAGAA-TT
1 TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
*
50400 TTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
50435 TGCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 T--TAGGATTCAAACTCCTAAAAATAGGATAGA
50468 GTTATACTAT
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
34 31 0.49
35 3 0.05
37 29 0.46
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (35 bp):
TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:50898 original size:18 final size:17
Alignment explanation
Indices: 50859--50901 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
50849 ATTATATGGA
50859 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
50875 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
50893 TATTATTAT
1 TATTATTAT
50902 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:50912 original size:2 final size:2
Alignment explanation
Indices: 50899--50931 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
50889 TTATTATTAT
*
50899 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50932 TAAATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55196 original size:22 final size:21
Alignment explanation
Indices: 55157--55215 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
55147 AACAAAAAGG
55157 GCAAAAAA-AAAAAA-AAGAA
1 GCAAAAAAGAAAAAACAAGAA
55176 GCAAAAAAGGAAAAAACAAGAA
1 GCAAAAAA-GAAAAAACAAGAA
*
55198 -CAAAAAAAGAAAGAACAA
1 GC-AAAAAAGAAAAAACAA
55216 AAATAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 8 0.23
21 16 0.46
22 11 0.31
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (21 bp):
GCAAAAAAGAAAAAACAAGAA
Found at i:55207 original size:11 final size:11
Alignment explanation
Indices: 55166--55208 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
55156 GGCAAAAAAA
55166 AAAAAAAGAAGC
1 AAAAAAAGAA-C
*
55178 AAAAAAGGAA-
1 AAAAAAAGAAC
*
55188 AAAACAAGAAC
1 AAAAAAAGAAC
55199 AAAAAAAGAA
1 AAAAAAAGAA
55209 AGAACAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 8 0.31
11 9 0.35
12 9 0.35
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAC
Found at i:55223 original size:21 final size:21
Alignment explanation
Indices: 55158--55225 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
55148 ACAAAAAGGG
* *
55158 CAAAAAAA-AAAAAA-AGAAG
1 CAAAAAAAGAAAAAACAAAAA
* *
55177 CAAAAAAGGAAAAAACAAGAA
1 CAAAAAAAGAAAAAACAAAAA
*
55198 CAAAAAAAGAAAGAACAAAAA
1 CAAAAAAAGAAAAAACAAAAA
*
55219 TAAAAAA
1 CAAAAAA
55226 GGGAACAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 7 0.18
20 6 0.15
21 26 0.67
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.01
Consensus pattern (21 bp):
CAAAAAAAGAAAAAACAAAAA
Found at i:56747 original size:36 final size:36
Alignment explanation
Indices: 56707--56828 Score: 106
Period size: 36 Copynumber: 3.4 Consensus size: 36
56697 ACTCATGATT
* * *
56707 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTCTCTTAAAACAAGATTTGTCTCCCTTGAGACA
* * * * *
56743 GTTT-TCACTAGAA-GAGTTTTGTCTCTCTTGAGACA
1 GTTTCTC-TTAAAACAAGATTTGTCTCCCTTGAGACA
* *
56778 GTTTCCCTTGAAACAA-ATTTTGTCTCCCTTGAGACA
1 GTTTCTCTTAAAACAAGA-TTTGTCTCCCTTGAGACA
*
56814 GTTTCTCTTGAAACA
1 GTTTCTCTTAAAACA
56829 TAAACATTGA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
35 27 0.40
36 41 0.60
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (36 bp):
GTTTCTCTTAAAACAAGATTTGTCTCCCTTGAGACA
Found at i:56891 original size:36 final size:36
Alignment explanation
Indices: 56844--57105 Score: 272
Period size: 36 Copynumber: 7.4 Consensus size: 36
56834 ATTGAAAACA
* *
56844 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
56880 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
56917 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* *
56953 TTTCCCTTGAAACAAA-------TAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * *
56981 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
57017 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* * *
57054 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAA
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
57090 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
57106 ATCTTTGAAT
Statistics
Matches: 189, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
27 2 0.01
28 19 0.10
29 2 0.01
35 1 0.01
36 99 0.52
37 66 0.35
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:57063 original size:101 final size:101
Alignment explanation
Indices: 56886--57070 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
56876 ATAGTTTCCC
* *
56886 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGAC
1 TTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGAC
56951 AGTTTCCCTTGAAACAAATATTTGAATATGTTTTCT
66 AGTTTCCCTTGAAACAAATATTTGAATATGTTTTCT
** * *
56987 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGA
1 TTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCTTGAGA
*
57051 CAGTTTCTCTTGAAACAAAT
65 CAGTTTCCCTTGAAACAAAT
57071 TTCGTCTATC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 27 0.36
101 49 0.64
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (101 bp):
TTGAAACAAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAATATTTGAATATGTTTTCT
Found at i:57065 original size:137 final size:137
Alignment explanation
Indices: 56757--57168 Score: 547
Period size: 138 Copynumber: 3.0 Consensus size: 137
56747 TCACTAGAAG
* *
56757 AGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 AGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCT
* * * * * * *
56822 TGAAACATAA-ACATTGAAAACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCC
66 TGAAACA-AATA-TTTGAATATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTC
56886 TTGAAACAA
129 TTGAAACAA
* *
56895 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 AGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCT
* * * *
56960 TGAAACAAATATTTGAATATGTTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTT
66 TGAAACAAATATTTGAATATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTT
* *
57025 GGAACTA
131 GAAACAA
* * * *
57032 AGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAATTTCCCT
1 AGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCT
* * * * * *
57097 TGAAACAAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTTCTCT
66 TGAAAC-AAATATTTGAATATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCT
57162 TGAAACA
130 TGAAACA
57169 CAAAATCTTC
Statistics
Matches: 237, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
137 115 0.49
138 122 0.51
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
AGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCT
TGAAACAAATATTTGAATATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTCTT
GAAACAA
Found at i:57167 original size:65 final size:67
Alignment explanation
Indices: 57063--57220 Score: 221
Period size: 65 Copynumber: 2.4 Consensus size: 67
57053 GTTTCTCTTG
* ** **
57063 AAACAAATTTCGTCTATCTTGAGACAATTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
57126 TA
66 TA
* *
57128 AAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
57193 TA
66 TA
*
57195 AAACATAATTTTGTTTCCCTTGAGAC
1 AAACA-AATTTTGTCTCCCTTGAGAC
57221 CGTTCTCATG
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
65 32 0.39
66 2 0.02
67 29 0.35
68 19 0.23
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:57227 original size:67 final size:67
Alignment explanation
Indices: 57063--57235 Score: 199
Period size: 67 Copynumber: 2.6 Consensus size: 67
57053 GTTTCTCTTG
* ** * * * **
57063 AAACAAATTTCGTCTATCTTGAGACAATTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAAGTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
57126 TA
66 TA
* * *
57128 AAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAAGTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
57193 TA
66 TA
* *
57195 AAACATAATTTTGTTTCCCTTGAGAC-CGTTCTCATGAAACA
1 AAACA-AATTTTGTCTCCCTTGAGACAAGTTCTCATGAAACA
57236 ACAGATATCT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 32 0.34
66 2 0.02
67 41 0.44
68 19 0.20
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAAGTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:58067 original size:105 final size:105
Alignment explanation
Indices: 57838--58602 Score: 1087
Period size: 105 Copynumber: 7.3 Consensus size: 105
57828 GCCATCTGCG
* * * * * *
57838 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
57903 GGGA-CGACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCG-CTGCTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
* *
57947 ATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
58012 ACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
58052 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
58117 ACCGCTGCTTGTCAACAACAACTTCCCAATCCCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
58157 ATTTCAAATTCACAACGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
58222 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
*
58262 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
58327 ACCGCTGCTTGTCAACAACAACTTCCCAATCCCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
58367 ATTTCAAATTCACAACGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
58432 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* * *
58467 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTC-ACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * ** *
58531 A-CGACTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCG-CTGCTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
* * *
58572 ATTTCAACTTCACGACGGAGGATATTAGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
58603 TGGAACAATG
Statistics
Matches: 603, Mismatches: 45, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
98 2 0.00
99 27 0.04
100 52 0.09
101 3 0.00
102 3 0.00
103 3 0.00
104 2 0.00
105 441 0.73
106 44 0.07
107 5 0.01
109 21 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
Found at i:59180 original size:34 final size:35
Alignment explanation
Indices: 59137--59238 Score: 170
Period size: 34 Copynumber: 2.9 Consensus size: 35
59127 TTTCGTCCTA
59137 TTAGGATTCAAACTCCTAAAAATAGGATAGAA-TT
1 TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
*
59171 TTAGGATTCAAACTCCTAAAAATAGGATAAAATTT
1 TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
59206 TGCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 T--TAGGATTCAAACTCCTAAAAATAGGATAGA
59239 GTTATACTAT
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
34 31 0.49
35 3 0.05
37 29 0.46
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (35 bp):
TTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:59667 original size:18 final size:17
Alignment explanation
Indices: 59628--59670 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
59618 ATTATATGGA
59628 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
59644 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
59662 TATTATTAT
1 TATTATTAT
59671 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:59681 original size:2 final size:2
Alignment explanation
Indices: 59668--59698 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
59658 TTATTATTAT
*
59668 TA TA TG 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
59699 TAAATTATTT
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60811 original size:16 final size:16
Alignment explanation
Indices: 60786--60872 Score: 102
Period size: 16 Copynumber: 5.4 Consensus size: 16
60776 GGTATTACCC
60786 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* *
60802 GACTTGTTTTCAACTT
1 GACCTGTTTTCAACCT
* *
60818 GACCTGTTTTTAACTT
1 GACCTGTTTTCAACCT
* *
60834 GACTTGTTTTTAACCT
1 GACCTGTTTTCAACCT
* *
60850 GACCTGTTTTTAACAT
1 GACCTGTTTTCAACCT
60866 GACCTGT
1 GACCTGT
60873 AAATAATCCG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 63 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:60827 original size:32 final size:32
Alignment explanation
Indices: 60786--60868 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
60776 GGTATTACCC
* * *
60786 GACCTGTTTTCAACCTGACTTGTTTTCAACTT
1 GACCTGTTTTTAACATGACTTGTTTTCAACCT
* *
60818 GACCTGTTTTTAACTTGACTTGTTTTTAACCT
1 GACCTGTTTTTAACATGACTTGTTTTCAACCT
60850 GACCTGTTTTTAACATGAC
1 GACCTGTTTTTAACATGAC
60869 CTGTAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (32 bp):
GACCTGTTTTTAACATGACTTGTTTTCAACCT
Found at i:60886 original size:48 final size:47
Alignment explanation
Indices: 60784--60889 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 47
60774 CTGGTATTAC
* * * ***
60784 CCGACCTGTTTTCAACCTGACTTGTTTTCAACTTGACCTGTTTTTAA
1 CCGACTTGTTTTCAACCTGACCTGTTTTCAACATGACCTGTAAATAA
* * *
60831 CTTGACTTGTTTTTAACCTGACCTGTTTTTAACATGACCTGTAAATAA
1 C-CGACTTGTTTTCAACCTGACCTGTTTTCAACATGACCTGTAAATAA
60879 TCCGACTTGTT
1 -CCGACTTGTT
60890 AATGATCTGA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
47 1 0.02
48 45 0.96
49 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (47 bp):
CCGACTTGTTTTCAACCTGACCTGTTTTCAACATGACCTGTAAATAA
Found at i:61117 original size:25 final size:22
Alignment explanation
Indices: 61049--61106 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
61039 AAATAGACCT
61049 ATTATATAAAATTATTTAATAAA
1 ATTA-ATAAAATTATTTAATAAA
61072 ATTAATAAAATTATTTAAATATAA
1 ATTAATAAAATTATTT-AATA-AA
61096 ATTAGATAAAA
1 ATTA-ATAAAA
61107 CATTATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 12 0.38
23 8 0.25
24 6 0.19
25 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTAATAAAATTATTTAATAAA
Found at i:61167 original size:23 final size:24
Alignment explanation
Indices: 61129--61178 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
61119 TGCAAAAGGA
61129 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
*
61153 AAATT-ATATATTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
61176 AAA
1 AAA
61179 GAAAAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:61287 original size:15 final size:15
Alignment explanation
Indices: 61267--61332 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
61257 TGGCAATAAA
61267 ATAATAATTAAATTG
1 ATAATAATTAAATTG
*
61282 ATAATAACTAAA-TG
1 ATAATAATTAAATTG
* *
61296 TTAAT-ATTAAACATG
1 ATAATAATTAAA-TTG
61311 ATTAATAATTAAATTG
1 A-TAATAATTAAATTG
61327 ATAATA
1 ATAATA
61333 GCTGAATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 5 0.12
14 6 0.14
15 18 0.43
16 7 0.17
17 6 0.14
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (15 bp):
ATAATAATTAAATTG
Found at i:62052 original size:20 final size:20
Alignment explanation
Indices: 62019--62063 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
62009 AACCCTTACA
**
62019 AATATCAAGTAGAAACAAAC
1 AATATCAAACAGAAACAAAC
* *
62039 AATATCAAACAGAAGCAAAT
1 AATATCAAACAGAAACAAAC
62059 AATAT
1 AATAT
62064 AAAATAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.13, G:0.09, T:0.18
Consensus pattern (20 bp):
AATATCAAACAGAAACAAAC
Found at i:62072 original size:20 final size:20
Alignment explanation
Indices: 62028--62072 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
62018 AAATATCAAG
*
62028 TAGAAACAAACAATATCAAA
1 TAGAAACAAACAATATAAAA
* * *
62048 CAGAAGCAAATAATATAAAA
1 TAGAAACAAACAATATAAAA
62068 TAGAA
1 TAGAA
62073 TAATGCAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.16
Consensus pattern (20 bp):
TAGAAACAAACAATATAAAA
Found at i:62182 original size:33 final size:33
Alignment explanation
Indices: 62140--62208 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
62130 ATTAATGAAC
62140 TATTTGAAACTTTTATTAAATAAACATAATAAA
1 TATTTGAAACTTTTATTAAATAAACATAATAAA
62173 TATTTGAAACTTTTATTAAATAAACATAATAAA
1 TATTTGAAACTTTTATTAAATAAACATAATAAA
62206 TAT
1 TAT
62209 AAATATTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (33 bp):
TATTTGAAACTTTTATTAAATAAACATAATAAA
Found at i:63671 original size:12 final size:12
Alignment explanation
Indices: 63629--63671 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 12
63619 AAAATGATAT
63629 TTATAATTAATA
1 TTATAATTAATA
63641 TTAAAATAATTATATA
1 TT---ATAATTA-ATA
63657 TTATAATTAATA
1 TTATAATTAATA
63669 TTA
1 TTA
63672 ACTTATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
15 7 0.26
16 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTATAATTAATA
Found at i:63685 original size:44 final size:45
Alignment explanation
Indices: 63629--63716 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 45
63619 AAAATGATAT
63629 TTATAATTAATATTAAAATAA-TTAT-ATATTATAATTAATATTAAC
1 TTATAATTAATA-TAAAATAATTTATAAT-TTATAATTAATATTAAC
* * *
63674 TTAT-ATTAATATAATATAGTTTATAATTTGTAATTAATATTAA
1 TTATAATTAATATAAAATAATTTATAATTTATAATTAATATTAA
63717 TATAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
43 6 0.16
44 26 0.68
45 6 0.16
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (45 bp):
TTATAATTAATATAAAATAATTTATAATTTATAATTAATATTAAC
Found at i:63743 original size:31 final size:30
Alignment explanation
Indices: 63705--63774 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 30
63695 TATAATTTGT
63705 AATTAATATTAATATAAAATATA-GTCTATAA
1 AATTAATATTAATATAAAATATATGT-TAT-A
*
63736 AATTAATATTAATATAAACTATATGTTATA
1 AATTAATATTAATATAAAATATATGTTATA
63766 AATT-ATATT
1 AATTAATATT
63775 GTATAGTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 5 0.14
30 5 0.14
31 25 0.68
32 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATATGTTATA
Found at i:63757 original size:24 final size:25
Alignment explanation
Indices: 63712--63758 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
63702 TGTAATTAAT
**
63712 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
63737 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
63759 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:63786 original size:88 final size:88
Alignment explanation
Indices: 63710--63889 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 88
63700 TTTGTAATTA
*
63710 ATATTAATATAAAATATAGTCTATA-A-AATTAATATTAATATAAACTATA-TGTTATAAATTAT
1 ATATTAATATAAAATATAGT-TA-AGATAATTAACATTAATATAAACTATAGT-TTATAAATTAT
63772 ATTGTATAGTTTATAAACTATATACT
63 ATTGTATAGTTTATAAACTATATACT
* * *
63798 ATATTAATATAAATTATAGTTAAGATAATTAGCATTAATATAAACTATAGTTTATAAATTATATA
1 ATATTAATATAAAATATAGTTAAGATAATTAACATTAATATAAACTATAGTTTATAAATTATATT
** * * *
63863 CAATAGGTTATAAAGTATAAACT
66 GTATAGTTTATAAACTATATACT
63886 ATAT
1 ATAT
63890 CGTACACAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
86 1 0.01
87 3 0.04
88 75 0.94
89 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.41
Consensus pattern (88 bp):
ATATTAATATAAAATATAGTTAAGATAATTAACATTAATATAAACTATAGTTTATAAATTATATT
GTATAGTTTATAAACTATATACT
Found at i:63800 original size:21 final size:21
Alignment explanation
Indices: 63748--63888 Score: 72
Period size: 21 Copynumber: 6.5 Consensus size: 21
63738 TTAATATTAA
*
63748 TATAAACTATA-TGTTATAAAT
1 TATATACTATAGT-TTATAAAT
** *
63769 TATATTGTATAGTTTATAAAC
1 TATATACTATAGTTTATAAAT
63790 TATATACTATA-TTAATATAAAT
1 TATATACTATAGTT--TATAAAT
** * * *
63812 TATAGTTAAGATAATTAGCATTAA-
1 TATA--TACTATAGTT--TATAAAT
*
63836 TATAAACTATAGTTTATAAAT
1 TATATACTATAGTTTATAAAT
* * *
63857 TATATACAATAGGTTATAAAG
1 TATATACTATAGTTTATAAAT
*
63878 TATAAACTATA
1 TATATACTATA
63889 TCGTACACAA
Statistics
Matches: 89, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
20 6 0.07
21 50 0.56
22 17 0.19
24 9 0.10
25 7 0.08
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (21 bp):
TATATACTATAGTTTATAAAT
Found at i:63982 original size:57 final size:55
Alignment explanation
Indices: 63919--64054 Score: 166
Period size: 57 Copynumber: 2.4 Consensus size: 55
63909 TTGCCTATAA
* *
63919 ACTATAGGTTACATATATAGTTTATATA-ACTTATAAATAGATTGTTTATATAAATAT
1 ACTATAGGTTACATATATAGTTTATATATAC-TATAAATAG-TT-TATACATAAATAT
* * * * *
63976 ATTATAGGTTATATATATAGTTTATATATGCTATACATAGTTTATACATACATAT
1 ACTATAGGTTACATATATAGTTTATATATACTATAAATAGTTTATACATAAATAT
*
64031 ACTATAAGTTACATATATAGTTTA
1 ACTATAGGTTACATATATAGTTTA
64055 CATGTATACA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
55 31 0.46
56 2 0.03
57 34 0.50
58 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (55 bp):
ACTATAGGTTACATATATAGTTTATATATACTATAAATAGTTTATACATAAATAT
Found at i:64052 original size:35 final size:36
Alignment explanation
Indices: 64012--64085 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
64002 TATGCTATAC
*
64012 ATAGTTT-ATACATACATATACTATAAGTTACATAT
1 ATAGTTTAATACATACATATACTATAAGTTACACAT
** *
64047 ATAGTTTACATGTATACATATACTATAGGTTACACAT
1 ATAGTTTA-ATACATACATATACTATAAGTTACACAT
64084 AT
1 AT
64086 TAACTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 7 0.21
37 26 0.79
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (36 bp):
ATAGTTTAATACATACATATACTATAAGTTACACAT
Found at i:64337 original size:42 final size:42
Alignment explanation
Indices: 64290--64399 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
64280 TAGTTTATAC
*
64290 ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
64332 ATACATATACTATAAGTTACATATATAGTTTACATTGCATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
64374 ATACACATACTATAAGTTACATATAT
1 ATACATATACTATAAGTTACATATAT
64400 TAACTATTGT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (42 bp):
ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
Found at i:64505 original size:21 final size:21
Alignment explanation
Indices: 64444--64505 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
64434 ATATATAATT
* *
64444 TATATA-ATCTATTGTTTATA
1 TATATATATATATAGTTTATA
*
64464 TATATATA-ATTATCA-TGTATA
1 TATATATATA-TAT-AGTTTATA
64485 TATATATATATATAGTTTATA
1 TATATATATATATAGTTTATA
64506 ATGTTTAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
20 7 0.21
21 25 0.76
22 1 0.03
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (21 bp):
TATATATATATATAGTTTATA
Found at i:64566 original size:2 final size:2
Alignment explanation
Indices: 64559--64802 Score: 174
Period size: 2 Copynumber: 125.5 Consensus size: 2
64549 TTTTATAAAC
* * * *
64559 TA TA TA TA TA TT TA TA TA GT- TT TA TA TA TG TT 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
64601 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA T- TA TA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
64639 T- TA TA TA GTT TA TA -A TA TA AA TA TA TT TA TA -A TA TT TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
64679 TA TA GTT TA TA TA TA TT TA TA -A TA -A TA -A TA TA GTT 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
* * * *
64720 TA AA TA TA GTT TA TA -A TA TA TA TA GTT TA TA GTT 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
* *
64762 TA TA TA TA TT TA TA TA TA TA -A T- TT 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
64802 T
1 T
64803 TTTTTCAATT
Statistics
Matches: 190, Mismatches: 31, Indels: 42
0.72 0.12 0.16
Matches are distributed among these distances:
1 14 0.07
2 169 0.89
3 7 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64806 original size:20 final size:20
Alignment explanation
Indices: 64559--64802 Score: 199
Period size: 20 Copynumber: 12.4 Consensus size: 20
64549 TTTTATAAAC
64559 TATATATATATTTATATAGT-
1 TATATATATATTTATATA-TA
* *
64579 TTTATATATGTTTATATATA
1 TATATATATATTTATATATA
*
64599 TATATATATATATATATA-A
1 TATATATATATTTATATATA
64618 TATATATATATATTATA-ATA
1 TATATATATAT-TTATATATA
64638 -AT-TATATAGTTTATA-ATA
1 TATATATATA-TTTATATATA
64656 TA-A-ATATATTTATA-ATA
1 TATATATATATTTATATATA
*
64673 TTTATATATAGTTTATATATA
1 TATATATATA-TTTATATATA
* * * *
64694 TTTATA-ATAATAATATAGTT
1 TATATATATATTTATATA-TA
* * *
64714 TATATATAAATATAGTTTATA
1 TATATATATATTTA-TATATA
*
64735 -ATATATATAGTTTATAGTTTA
1 TATATATATA-TTTATA-TATA
* *
64756 TATATATATATATATTTATA
1 TATATATATATTTATATATA
64776 TATATA-AT-TTTATATATA
1 TATATATATATTTATATATA
64794 TATATATAT
1 TATATATAT
64803 TTTTTCAATT
Statistics
Matches: 181, Mismatches: 26, Indels: 35
0.75 0.11 0.14
Matches are distributed among these distances:
17 10 0.06
18 34 0.19
19 33 0.18
20 69 0.38
21 23 0.13
22 12 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (20 bp):
TATATATATATTTATATATA
Found at i:65587 original size:64 final size:64
Alignment explanation
Indices: 65449--65588 Score: 192
Period size: 64 Copynumber: 2.2 Consensus size: 64
65439 GAACTGAAAA
* *
65449 TTACCCGACCTGAACCCGATCTGGATCTGGTGTCAAATCAACCTGAAAATAACCCGAACTGATT
1 TTACCCGACCTGAACCCGATCTGAATCTGGTGTCAAATCAACCTGAAAATAACCCGAACCGATT
* * * * * *
65513 TGACCTGACCTGAACCCGATCTGAATCTGGTGTCAAATCAACCTG-AATTGACCTGTACCCGATT
1 TTACCCGACCTGAACCCGATCTGAATCTGGTGTCAAATCAACCTGAAAATAACCCG-AACCGATT
65577 TTACCCGACCTG
1 TTACCCGACCTG
65589 CCAAGATCCG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 7 0.11
64 58 0.89
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (64 bp):
TTACCCGACCTGAACCCGATCTGAATCTGGTGTCAAATCAACCTGAAAATAACCCGAACCGATT
Found at i:68193 original size:23 final size:23
Alignment explanation
Indices: 68167--68235 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
68157 CACCACAGCT
*
68167 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
68190 CGTAGAATTGCACCGGAGTACCG
1 CGTAGAATTGCACCGAAGTGCCA
*
68213 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
68236 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:68422 original size:103 final size:103
Alignment explanation
Indices: 68251--68468 Score: 393
Period size: 103 Copynumber: 2.1 Consensus size: 103
68241 TAATGTCCAT
*
68251 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGTATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACAAGGTATCAAGTATGTGTCTCACCA
68316 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
*
68354 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGG-ATCAAGTATGTGTCTCACC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-ACAAGGTATCAAGTATGTGTCTCACC
*
68418 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCAAAAGAATACATATATGTCCCG
68457 AAGGACCACATA
1 AAGGACCACATA
68469 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
103 107 0.96
104 4 0.04
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACAAGGTATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCAAAAGAATACATATATGTCCCG
Found at i:73117 original size:20 final size:18
Alignment explanation
Indices: 73071--73117 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
73061 CCATAACCCC
73071 TATCACACATATATCATA
1 TATCACACATATATCATA
73089 TCATGCACACATTATATACATA
1 T-AT-CACACA-TATAT-CATA
73111 TATCACA
1 TATCACA
73118 TAGCATCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.04
19 2 0.08
20 10 0.40
21 7 0.28
22 5 0.20
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (18 bp):
TATCACACATATATCATA
Found at i:73309 original size:23 final size:24
Alignment explanation
Indices: 73283--73351 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 24
73273 CACCACAGCT
*
73283 CGTATAATTGCACCGAAGTGCCA-
1 CGTAGAATTGCACCGAAGTGCCAG
* *
73306 CGTAGAATTGTACCGGAGTG-CAG
1 CGTAGAATTGCACCGAAGTGCCAG
*
73329 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
73352 TATAATAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
22 2 0.05
23 35 0.90
24 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (24 bp):
CGTAGAATTGCACCGAAGTGCCAG
Found at i:73538 original size:103 final size:103
Alignment explanation
Indices: 73367--73584 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
73357 TAATGTCCAT
* **
73367 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAAGATCAAGTATGTGTCTCACCA
*
73432 GACTTCATACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
73470 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTTTGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAAGATCAAGTATGTGTCTCACCA
73535 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
73573 AAGGACCACATA
1 AAGGACCACATA
73585 AACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAAGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:78814 original size:14 final size:13
Alignment explanation
Indices: 78793--78849 Score: 82
Period size: 12 Copynumber: 4.5 Consensus size: 13
78783 TATTTTTTTA
78793 ATATATATATAAT
1 ATATATATATAAT
78806 ATAATATATATAAT
1 AT-ATATATATAAT
*
78820 ATATA-ATATAAG
1 ATATATATATAAT
78832 ATATATATAT-AT
1 ATATATATATAAT
78844 ATATAT
1 ATATAT
78850 GGATAGATGG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
12 18 0.45
13 9 0.22
14 13 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:78865 original size:2 final size:2
Alignment explanation
Indices: 78793--78849 Score: 70
Period size: 2 Copynumber: 31.0 Consensus size: 2
78783 TATTTTTTTA
78793 AT AT AT AT AT A- AT AT A- AT AT AT AT A- AT AT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
78830 AG AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
78850 GGATAGATGG
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
1 5 0.10
2 44 0.90
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:78871 original size:20 final size:22
Alignment explanation
Indices: 78838--78881 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
78828 TAAGATATAT
78838 ATATATATATATGGATAGATGG
1 ATATATATATATGGATAGATGG
* *
78860 ATATAT-TA-ATGGGTGGATGG
1 ATATATATATATGGATAGATGG
78880 AT
1 AT
78882 GCTGCGGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (22 bp):
ATATATATATATGGATAGATGG
Found at i:85719 original size:2 final size:2
Alignment explanation
Indices: 85712--85752 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
85702 ATGTTTGAAT
85712 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85753 CCATTCATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88339 original size:32 final size:33
Alignment explanation
Indices: 88248--88358 Score: 116
Period size: 32 Copynumber: 3.2 Consensus size: 33
88238 AAAAATCGGG
* *
88248 TTCGGGTCTGGTCGGGTTTTTTTAAGTTTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTATGATA
* * *
88281 TTCAGGTCGGGGTCGAGACATGTTTTTTAAAGTGTGATA
1 TTCGGGTC-GGGTCG-G----GTTTTTTTAAGTATGATA
88320 TTCGGGTC-GGTCGGGTTTTTTTAAGTATGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTATGATA
88352 TTCGGGT
1 TTCGGGT
88359 TGTATTCGGG
Statistics
Matches: 65, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
32 23 0.35
33 7 0.11
34 5 0.08
35 1 0.02
36 1 0.02
37 5 0.08
39 23 0.35
ACGTcount: A:0.16, C:0.10, G:0.32, T:0.42
Consensus pattern (33 bp):
TTCGGGTCGGGTCGGGTTTTTTTAAGTATGATA
Found at i:89667 original size:17 final size:17
Alignment explanation
Indices: 89627--89672 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
89617 TTTTAATATT
*
89627 ATATATTTAATTTATTTA
1 ATAT-TTTACTTTATTTA
89645 AGTATTTTACTTTATTTA
1 A-TATTTTACTTTATTTA
89663 ATATTTTACT
1 ATATTTTACT
89673 AATATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (17 bp):
ATATTTTACTTTATTTA
Found at i:90865 original size:17 final size:18
Alignment explanation
Indices: 90828--90868 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
90818 ATATTATGTA
*
90828 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
90846 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
90863 TTTACT
1 TTTACT
90869 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:93079 original size:23 final size:24
Alignment explanation
Indices: 93031--93081 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
93021 GCATCGATAG
*
93031 ATTTTTTTATAATTGTATTTACTTT
1 ATTTTGTTATAATTGTATTTA-TTT
93056 ATTTTGTTA-AATTGTAATTT-TTT
1 ATTTTGTTATAATTGT-ATTTATTT
93079 ATT
1 ATT
93082 ATTTCTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 6 0.25
25 12 0.50
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (24 bp):
ATTTTGTTATAATTGTATTTATTT
Found at i:93118 original size:26 final size:24
Alignment explanation
Indices: 93047--93118 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
93037 TTATAATTGT
93047 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
93072 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
93094 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
93119 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:93868 original size:51 final size:51
Alignment explanation
Indices: 93764--93890 Score: 125
Period size: 51 Copynumber: 2.5 Consensus size: 51
93754 CTACGTGGCG
* ** *
93764 TATAGCGCGGATCAGGGGGCGCGCTATACACATGTGTAACCCATGTCAGCA
1 TATAGCGCGGATCAGGGGGCGCGCTATACACACGTGTAACCCAAATCAACA
*
93815 TATAGCGCGG-TACAGGGGGCGCGTTATACCACACGTG--ACACCAAATCAACA
1 TATAGCGCGGAT-CAGGGGGCGCGCTATA-CACACGTGTAAC-CCAAATCAACA
* ** *
93866 TATAACGCGGGGCAGGAGGCGCGCT
1 TATAGCGCGGATCAGGGGGCGCGCT
93891 TTACTGCTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
50 3 0.05
51 53 0.84
52 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.31, T:0.17
Consensus pattern (51 bp):
TATAGCGCGGATCAGGGGGCGCGCTATACACACGTGTAACCCAAATCAACA
Found at i:96764 original size:2 final size:2
Alignment explanation
Indices: 96757--96793 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
96747 AATTTTAAAC
96757 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96794 GGTTGTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.