Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008971.1 Hibiscus syriacus cultivar Beakdansim tig00112317_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: 53950
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:274 original size:21 final size:21
Alignment explanation
Indices: 231--274 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
221 AGATGAACTA
* *
231 TGGCTTTGTAAAAGTGTTGCT
1 TGGCTTTGTAAAAATGTTCCT
252 TGGCTTTGTAACAAAT-TTCCT
1 TGGCTTTGTAA-AAATGTTCCT
273 TG
1 TG
275 ATTTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.20, C:0.14, G:0.23, T:0.43
Consensus pattern (21 bp):
TGGCTTTGTAAAAATGTTCCT
Found at i:4889 original size:20 final size:20
Alignment explanation
Indices: 4861--4899 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4851 TCGATCTTTT
4861 TTACCAAAGG-TTCGATCCCC
1 TTACCAAAGGATT-GATCCCC
*
4881 TTACTAAAGGATTGATCCC
1 TTACCAAAGGATTGATCCC
4900 TTAGATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (20 bp):
TTACCAAAGGATTGATCCCC
Found at i:10256 original size:22 final size:20
Alignment explanation
Indices: 10206--10277 Score: 74
Period size: 22 Copynumber: 3.5 Consensus size: 20
10196 GCAAAAAAGA
* *
10206 TATCGATTCCATAG-GAGGG
1 TATCGATACCATAGTAAGGG
* *
10225 TATCGGTACCATAGTATGGTAG
1 TATCGATACCATAGTAAGG--G
*
10247 TATCGATACCATGGTAAGGG
1 TATCGATACCATAGTAAGGG
10267 TATCGATACCA
1 TATCGATACCA
10278 GGTAACATCG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.28
20 14 0.33
22 17 0.40
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (20 bp):
TATCGATACCATAGTAAGGG
Found at i:10262 original size:17 final size:18
Alignment explanation
Indices: 10240--10281 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
10230 GTACCATAGT
10240 ATGGTA-GTATCGATACC
1 ATGGTAGGTATCGATACC
10257 ATGGTAAGGGTATCGATACC
1 ATGGT-A-GGTATCGATACC
10277 A-GGTA
1 ATGGTA
10282 ACATCGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.23
18 2 0.09
19 3 0.14
20 12 0.55
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (18 bp):
ATGGTAGGTATCGATACC
Found at i:10767 original size:59 final size:59
Alignment explanation
Indices: 10693--11105 Score: 582
Period size: 59 Copynumber: 7.0 Consensus size: 59
10683 ATTTCCAAAT
* * *
10693 GGCACTAAGAGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCATATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
* *
10752 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTA
1 GGCACTATGTGTGCT-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
*
10812 GGCACTATGTGTGCTAAAATATTAAG-AATGTCATACTAAGTGTATGAA-TTTCTGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAAT-TCATACTAAGTGTATGAATTTTC-GTATTG
* *
10871 GGCACTATATGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
* *
10930 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATTG
1 GGCACTATGTGTGCT-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
* * * * *
10990 GGCACTATATGTCCTAAAATGTTAATAAATGCATACTAAGTGTATTG-ATTTTCATATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTA-TGAATTTTCGTATTG
* * *
11049 GGCACTTTGTGTGC-AAACATGTTAAGAAATTCATACTAGGTGTATGAATTTTTGTAT
1 GGCACTATGTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
11106 GGGAAATATA
Statistics
Matches: 317, Mismatches: 28, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
58 11 0.03
59 186 0.59
60 120 0.38
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (59 bp):
GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
Found at i:10885 original size:119 final size:118
Alignment explanation
Indices: 10693--11140 Score: 604
Period size: 119 Copynumber: 3.8 Consensus size: 118
10683 ATTTCCAAAT
* * *
10693 GGCACTAAGAGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT-TCATATTGGGCAC
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGCAC
* *
10757 TATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTA
65 TATATGTGCT-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
*
10812 GGCACTATGTGTGCTAAAATATTAAG-AATGTCATACTAAGTGTATGAATTTCTGTATTGGGCAC
1 GGCACTATGTGTGCTAAAATGTTAAGAAAT-TCATACTAAGTGTATGAATTTCTGTATTGGGCAC
10876 TATATGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
65 TATATGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* *
10930 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATTGGGCAC
1 GGCACTATGTGTGCT-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCAC
* * * * *
10995 TATATGTCCTAAAATGTTAATAAATGCATACTAAGTGTATTG-ATTTTCATATTG
65 TATATGTGCTAAAATGTTAAGAAATTCATACTAAGTGTA-TGAATTTCCGTATTG
* * * * *
11049 GGCACTTTGTGTGC-AAACATGTTAAGAAATTCATACTAGGTGTATGAATTTTTGTA-TGGGAAA
1 GGCACTATGTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCAC
**
11112 TATATGTG-TATAAA-CATAAGAAATTCATA
65 TATATGTGCTA-AAATGTTAAGAAATTCATA
11141 ACAAGGAAAT
Statistics
Matches: 296, Mismatches: 26, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
116 13 0.04
117 18 0.06
118 95 0.32
119 164 0.55
120 6 0.02
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (118 bp):
GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACT
ATATGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
Found at i:10996 original size:178 final size:178
Alignment explanation
Indices: 10703--11099 Score: 629
Period size: 178 Copynumber: 2.2 Consensus size: 178
10693 GGCACTAAGA
*
10703 GTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGGCACTATGTGTGCTA
1 GTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTATGTGTGCTA
* *
10768 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTATGTGTGCTAAAATA
66 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTATATGTCCTAAAATA
* *
10833 TTAA-GAATGTCATACTAAGTGTA-TGAATTTCTGTATTGGGCACTATAT
131 TTAATAAATG-CATACTAAGTGTATTGAATTTC-ATATTGGGCACTATAT
*
10881 GTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTATGTGTGCTA
1 GTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTATGTGTGCTA
* * *
10946 AAAATGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATTGGGCACTATATGTCCTAAAATG
66 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTATATGTCCTAAAATA
* * *
11011 TTAATAAATGCATACTAAGTGTATTGATTTTCATATTGGGCACTTTGT
131 TTAATAAATGCATACTAAGTGTATTGAATTTCATATTGGGCACTATAT
*
11059 GTGC-AAACATGTTAAGAAATTCATACTAGGTGTATGAATTT
1 GTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTT
11100 TTGTATGGGA
Statistics
Matches: 203, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
177 3 0.01
178 189 0.93
179 11 0.05
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (178 bp):
GTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTATGTGTGCTA
AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTATATGTCCTAAAATA
TTAATAAATGCATACTAAGTGTATTGAATTTCATATTGGGCACTATAT
Found at i:17997 original size:59 final size:59
Alignment explanation
Indices: 17822--18233 Score: 605
Period size: 60 Copynumber: 7.0 Consensus size: 59
17812 ATTAACAAAT
*
17822 GGCACTAAGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTATGTGTGCT-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* * *
17882 GGCACTATGTGTGCTAAAACTGTTAAGAAATTCATATTAAGTGTATGAATTACCGTAATG
1 GGCACTATGTGTGCTAAAA-TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* *
17942 GGCACTATGTGTGCTAAAATATTAAGAAATTCATACTAAGTGTATAAATTTCCGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* *
18001 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTTTTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* *
18060 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTTTATGAATTTCAGTATTG
1 GGCACTATGTGTGCT-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* * *
18120 GGCACTATGTGCGCTAAAATGTTAAGAAA-TCATACTAAGTGTATAAATTTCTGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* * * * *
18178 GGCACTTTGTGTGC-AAATATGTTAA-AAAATCATACTAGGTGTAGGAATTTCTGTAT
1 GGCACTATGTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
18234 GGGAAATATA
Statistics
Matches: 322, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
57 6 0.02
58 69 0.21
59 123 0.38
60 124 0.39
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (59 bp):
GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
Found at i:18080 original size:119 final size:119
Alignment explanation
Indices: 17822--18233 Score: 625
Period size: 119 Copynumber: 3.5 Consensus size: 119
17812 ATTAACAAAT
*
17822 GGCACTAAGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
1 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
* *
17887 TATGTGTGCTAAAACTGTTAAGAAATTCATATTAAGTGTATGAATTACCGTAATG
66 TATGTGTGCTAAAA-TGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATTG
* *
17942 GGCACTATGTGTGCT-AAAATATTAAGAAATTCATACTAAGTGTATAAATTTCCGTATTGGGCAC
1 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
*
18006 TATGTGTGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTTTTG
66 TATGTGTGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATTG
* *
18060 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTTTATGAATTTCAGTATTGGGCAC
1 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
* * * *
18125 TATGTGCGCTAAAATGTTAAGAAA-TCATACTAAGTGTATAAATTTCTGTATTG
66 TATGTGTGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATTG
* * * * * *
18178 GGCACTTTGTGTGC-AAATATGTTAA-AAAATCATACTAGGTGTAGGAATTTCTGTAT
1 GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
18234 GGGAAATATA
Statistics
Matches: 269, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
116 26 0.10
117 10 0.04
118 90 0.33
119 129 0.48
120 14 0.05
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (119 bp):
GGCACTATGTGTGCTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
TATGTGTGCTAAAATGTTAAGAAATTCATATTAAGTGTATGAATTTCCGTATTG
Found at i:19425 original size:2 final size:2
Alignment explanation
Indices: 19418--19456 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19408 CTTTTAATTG
19418 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
19457 ATTCAGAAAA
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:29562 original size:40 final size:40
Alignment explanation
Indices: 29505--29586 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
29495 ATCGTAGTGA
* *
29505 TACACATAAGGTCGTGCCCACTATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATACACACCGAAGTGTAT
*
29545 TACACATAAGGTTGTGCCCACCATACACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATACACACCGAAGTGTAT
29585 TA
1 TA
29587 TAAACCTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATACACACCGAAGTGTAT
Found at i:31840 original size:34 final size:34
Alignment explanation
Indices: 31797--31862 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
31787 AACAAGCCCA
** *
31797 ACTCAATGCCATATCTATGCACATTCTCTTTTCT
1 ACTCAATGCCATAGATATGAACATTCTCTTTTCT
*
31831 ACTCAATGCCATAGATATGAACATTCTTTTTT
1 ACTCAATGCCATAGATATGAACATTCTCTTTT
31863 TACACTGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (34 bp):
ACTCAATGCCATAGATATGAACATTCTCTTTTCT
Found at i:36862 original size:700 final size:693
Alignment explanation
Indices: 35511--36905 Score: 2641
Period size: 700 Copynumber: 2.0 Consensus size: 693
35501 CATGTTTTAA
*
35511 TGATTTTTTTAAAATACTTTGACCTTAATGTGATTTTGTTAAAAAAATATTTTCTTTAAACAAGT
1 TGATTTTTTTAAAATACCTTGACCTTAATGTGATTTTGTTAAAAAAATATTTTCTTTAAACAAGT
35576 GATATCCATGATTCATTGAATATTTTTTAACAAATGAAATCACTTTAAAGTTATGATGTCAAAGT
66 GATATCCATGATTCATTGAATATTTTTTAACAAATGAAATCACTTTAAAGTTATGATGTCAAAGT
35641 ATGATAATATTTAAAAAAAATCAACTATTATCATTTTAAATGATTTTAGTGGATTGCATTCATGC
131 ATGATAATATTTAAAAAAAATCAACTATTATCATTTTAAATGATTTTAGTGGATTGCATTCATGC
35706 AAATCAAAATAATGCAAAGCGTAATTATGAAAGATAGTTTTCGGTTGCATGATTACGTAGTAATT
196 AAATCAAAATAATGCAAAGCGTAATTATGAAAGATAGTTTTCGGTTGCATGATTACGTAGTAATT
35771 GGTTTGAATATTCATCATTTGATTTTAAAGGTTTGAATCTTAATACTTTGATGAAATTTCTATTT
261 GGTTTGAATATTCATCATTTGATTTTAAAGGTTTGAATCTTAATACTTTGATGAAATTTCTATTT
*
35836 ACACGTGTTTAGTTTTTACATCTTAATATGAAAATACAAATGGTTAAATGTTTATGCATATGCTC
326 ACACGTGTTTAGTGTTTACATCTTAATATGAAAATACAAATGGTTAAATGTTTATGCATATGCTC
35901 ACACTTTCAAATGATATCAAACTAACAATTGGTATGCATATTATTTAAATAATTAAATTTTAACA
391 ACACTTTCAAATGATATCAAACTAACAATTGGTATGCATATTATTTAAATAATTAAATTTTAACA
*
35966 AATGATTAAATCCTTTATTAAAATAATTACATTTTAAAAATATTAGAATATGCTTAATTATTTTA
456 AATGATTAAATCCTTTATTAAAATAATTACATTTTAAAAATATTAGAATATACTTAATTATTTTA
36031 ATATATTATTTAAAATACATGATCTTTATCGAAAGAGCGCTTTTTGTCACGTACAACAAAGATGG
521 ATATATTATTTAAAATACATGATCTTTATCGAAAGAGCGCTTTTTGTCACGTACAACAAAGATGG
36096 TTTCTCATAGGAAGTTTCACTGTGAAGTTAAAATATGACTAATAAATGGTGTGGCAGGTTAAAAG
586 TTTCTCATAGGAAGTTTCACTGTGAAGTTAAAATATGACTAATAAATGGTGTGGCAGGTTAAAAG
36161 GTGACATGTTAAAAGTAGAACAAAAAA-GTTATAATTTGAAAT
651 GTGACATGTTAAAAGTAGAACAAAAAATGTTATAATTTGAAAT
36203 TGATTTTTTTAAAATACCTTGACCTTAATGTGATTTTGTTAAAAAAATATTTTCTTTAAACAAGT
1 TGATTTTTTTAAAATACCTTGACCTTAATGTGATTTTGTTAAAAAAATATTTTCTTTAAACAAGT
36268 GATATCCATGATTCATTGAATATTTTTTAACAAATGAAATCACTTTAAAGTTATGATGTCAAAGT
66 GATATCCATGATTCATTGAATATTTTTTAACAAATGAAATCACTTTAAAGTTATGATGTCAAAGT
36333 ATGATAATATTTAAAAAAAATTCAACTATTATCATTTTAAATGATTTTAGTGGATTTGCATTCAT
131 ATGATAATATTTAAAAAAAA-TCAACTATTATCATTTTAAATGATTTTAGTGGA-TTGCATTCAT
36398 GCAAATCAAAATAATGCAAAGCGTAATTTATGAAAGATAGTTTTCGGTTGCATGATTACGTAGTA
194 GCAAATCAAAATAATGCAAAGCGTAA-TTATGAAAGATAGTTTTCGGTTGCATGATTACGTAGTA
36463 ATTGGTTTGAATATTCATCATTTGATTTTAAAGGTTTGAATCTTAATACTTTGATGAAATTTCTA
258 ATTGGTTTGAATATTCATCATTTGATTTTAAAGGTTTGAATCTTAATACTTTGATGAAATTTCTA
36528 TTTACACGTGTGTGTTTAGTGTTTACATTCTTAATATGAAAATACAAATGGTTAAATGTTTATGC
323 TTTACAC----GTGTTTAGTGTTTACA-TCTTAATATGAAAATACAAATGGTTAAATGTTTATGC
*
36593 ATATGCTCACACTTTCAAATGATATCAAACTAACAATTGGTATGCATATTATTTAAATAATTACA
383 ATATGCTCACACTTTCAAATGATATCAAACTAACAATTGGTATGCATATTATTTAAATAATTAAA
36658 TTTTAACAAATGATTAAATCCTTTATTAAAATAATTACATTTTAAAAATATTAGAATATACTTAA
448 TTTTAACAAATGATTAAATCCTTTATTAAAATAATTACATTTTAAAAATATTAGAATATACTTAA
36723 TTATTTTAATATATTATTTAAAATACATGATCTTTATCGAAAGAGCGC-TTTTGTCACGTACAAC
513 TTATTTTAATATATTATTTAAAATACATGATCTTTATCGAAAGAGCGCTTTTTGTCACGTACAAC
* *
36787 AAAGATGTTTTCTCATAGGAAGTTTCACTGTGAAGTTAAAATATGATTAATAAATGGTGTGGCAG
578 AAAGATGGTTTCTCATAGGAAGTTTCACTGTGAAGTTAAAATATGACTAATAAATGGTGTGGCAG
36852 GTTAAAAAGGTGACATGTTAAAAGTAGAACAAAAAATGTTATAATTTGAAAT
643 GTT-AAAAGGTGACATGTTAAAAGTAGAACAAAAAATGTTATAATTTGAAAT
36904 TG
1 TG
36906 GAAAAGTTAG
Statistics
Matches: 687, Mismatches: 6, Indels: 11
0.98 0.01 0.02
Matches are distributed among these distances:
692 149 0.22
693 33 0.05
694 36 0.05
695 110 0.16
699 97 0.14
700 245 0.36
701 17 0.02
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (693 bp):
TGATTTTTTTAAAATACCTTGACCTTAATGTGATTTTGTTAAAAAAATATTTTCTTTAAACAAGT
GATATCCATGATTCATTGAATATTTTTTAACAAATGAAATCACTTTAAAGTTATGATGTCAAAGT
ATGATAATATTTAAAAAAAATCAACTATTATCATTTTAAATGATTTTAGTGGATTGCATTCATGC
AAATCAAAATAATGCAAAGCGTAATTATGAAAGATAGTTTTCGGTTGCATGATTACGTAGTAATT
GGTTTGAATATTCATCATTTGATTTTAAAGGTTTGAATCTTAATACTTTGATGAAATTTCTATTT
ACACGTGTTTAGTGTTTACATCTTAATATGAAAATACAAATGGTTAAATGTTTATGCATATGCTC
ACACTTTCAAATGATATCAAACTAACAATTGGTATGCATATTATTTAAATAATTAAATTTTAACA
AATGATTAAATCCTTTATTAAAATAATTACATTTTAAAAATATTAGAATATACTTAATTATTTTA
ATATATTATTTAAAATACATGATCTTTATCGAAAGAGCGCTTTTTGTCACGTACAACAAAGATGG
TTTCTCATAGGAAGTTTCACTGTGAAGTTAAAATATGACTAATAAATGGTGTGGCAGGTTAAAAG
GTGACATGTTAAAAGTAGAACAAAAAATGTTATAATTTGAAAT
Found at i:37477 original size:188 final size:186
Alignment explanation
Indices: 37025--37584 Score: 673
Period size: 188 Copynumber: 3.0 Consensus size: 186
37015 TTGCGCCTAG
* * ** *
37025 AATATCTATAGTAAATACAATTGTACCTAAGAATG-CAATGATTCACTAAGAAAGTAGGTTGCGA
1 AATATCTATAATAAATACAGTTGCGCCAAAGAATGTC-ATGATTCACTAAGAAAGTAGGTTGCGA
* ** * *
37089 TTTGGAATGCTACTA-TTTTTTTAATAAAATGGGTTGCACCTAAAATGTTATCAGAGTTTAAGCT
65 TCT-GAATATTAATATTTTTTTTAATAAAATGGGTTGCACCTAAAATGTTATCAGAGTTTAAACT
* * * * * * *
37153 GATTGAACCTTATATTTTTTCACGATAACAAAATAAGTTAAAAGCTGAAAATGTTATG
129 GATGGAGCCTTAGATTTTCTCACGATAACAAAAAAAGTTAAAAGATGAAAATGTTATA
* * * *
37211 AATAACTATAATAAATACGGTTGCGCCCAAGAATTTCATGATTCACTAAGAAAGTAGGTTGCGAT
1 AATATCTATAATAAATACAGTTGCGCCAAAGAATGTCATGATTCACTAAGAAAGTAGGTTGCGAT
* *
37276 CTGAAAAATTAATATTTTTTTTAATAAAATGGGTTGCACCTAAAATGTTA-CTAGAATTTAAACT
66 CTG-AATATTAATATTTTTTTTAATAAAATGGGTTGCACCTAAAATGTTATC-AGAGTTTAAACT
*
37340 G-TGGTGCCTTAGATTTTCTCACGATAAACAAAAAAAGTTAAAAAGATGAAAATGTTATA
129 GATGGAGCCTTAGATTTTCTCACGAT-AACAAAAAAAGTT-AAAAGATGAAAATGTTATA
* * * *
37399 AATATCTATAATAAATACAGTTGCGCCAAAGAATGTCATGGTTCACTAAGAAAGGAGGCTGCAAT
1 AATATCTATAATAAATACAGTTGCGCCAAAGAATGTCATGATTCACTAAGAAAGTAGGTTGCGAT
* *
37464 CTAGAATATTAATATTTTTATTAATAAAATGGGTTATC-CCTAAAATGTTATCAGAGTTTAAGA-
66 CT-GAATATTAATATTTTTTTTAATAAAATGGGTT-GCACCTAAAATGTTATCAGAGTTTAA-AC
* * * * * *
37527 TGATGGAGTCTTAGAATTTCTCACGATAACCAAAAAAGTTGAAAGTTAAAAATGTTAT
128 TGATGGAGCCTTAGATTTTCTCACGATAACAAAAAAAGTTAAAAGATGAAAATGTTAT
37585 GGCTGTTCCT
Statistics
Matches: 321, Mismatches: 42, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
185 1 0.00
186 82 0.26
187 74 0.23
188 139 0.43
189 25 0.08
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (186 bp):
AATATCTATAATAAATACAGTTGCGCCAAAGAATGTCATGATTCACTAAGAAAGTAGGTTGCGAT
CTGAATATTAATATTTTTTTTAATAAAATGGGTTGCACCTAAAATGTTATCAGAGTTTAAACTGA
TGGAGCCTTAGATTTTCTCACGATAACAAAAAAAGTTAAAAGATGAAAATGTTATA
Found at i:39272 original size:2 final size:2
Alignment explanation
Indices: 39265--39298 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
39255 ATAATAATAC
39265 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
39299 GAAAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39423 original size:21 final size:21
Alignment explanation
Indices: 39379--39430 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
39369 ATATATACAT
* * *
39379 AAATAATAATATTAATATTGA
1 AAATAATAATAATAATAGTAA
*
39400 AAATAATAATAATAATGGTAA
1 AAATAATAATAATAATAGTAA
39421 AAA-AA-AATAA
1 AAATAATAATAA
39431 AAGAAAGTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 20 0.74
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AAATAATAATAATAATAGTAA
Found at i:40329 original size:21 final size:21
Alignment explanation
Indices: 40285--40335 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
40275 ATATATACAT
* * *
40285 AAATAATAATATTAATATTGA
1 AAATAATAATAATAATAGTAA
*
40306 AAATAATAATAATAATGGTAA
1 AAATAATAATAATAATAGTAA
*
40327 AAAAAATAA
1 AAATAATAA
40336 AAGAAAGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AAATAATAATAATAATAGTAA
Found at i:41226 original size:21 final size:21
Alignment explanation
Indices: 41182--41233 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
41172 ATATATACAT
* * *
41182 AAATAATAATATTAATATTGA
1 AAATAATAATAATAATAGTAA
*
41203 AAATAATAATAATAATGGTAA
1 AAATAATAATAATAATAGTAA
41224 AAA-AA-AATAA
1 AAATAATAATAA
41234 AAGAAAGTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 20 0.74
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AAATAATAATAATAATAGTAA
Found at i:41674 original size:898 final size:902
Alignment explanation
Indices: 39279--41980 Score: 5128
Period size: 898 Copynumber: 3.0 Consensus size: 902
39269 ATATATATAT
39279 ATATATATATATATATATATGAAAATAAAAGATAAAATATGTATAAATAATAATTTGTAAAAAAA
1 ATATATATATATATATATATGAAAATAAAAGATAAAATATGTATAAATAATAATTTGTAAAAAAA
*
39344 AATAAAATAAAAATAAAC--A-AAAATGATATATACATAAATAATAATATTAATATTGAAAATAA
66 TA-AAAATAAAAATAAACAAATAAAATGATATATACATAAATAATAATATTAATATTGAAAATAA
39406 TAATAATAATGGTAAAAAAAAATAAAAGAAAGTGGTAAAATATTCGTATGGGACCAGATTGGAAT
130 TAATAATAATGGTAAAAAAAAATAAAAGAAAGTGGTAAAATATTCGTATGGGACCAGATTGGAAT
39471 AAAATCCAAATCAGGGGACAAGTTCAGAAGAAAATCAGATTCAAATTCAATTTAGGGGATCAAAA
195 AAAATCCAAATCAGGGGACAAGTTCAGAAGAAAATCAGATTCAAATTCAATTTAGGGGATCAAAA
39536 TGGAGTTGATTTAAAATCAGAGGGATCAAAATCGAGGTTTACCCTTTAACAGAAACACGCGGATC
260 TGGAGTTGATTTAAAATCAGAGGGATCAAAATCGAGGTTTACCCTTTAACA-AAACACGCGGATC
39601 CTTCCCCGGGTCGGGTTGACGCGCGGGTCACCGCACGGGCTATGTATAAAGCCCAAAAACCTTTT
324 CTTCCCC-GGT-GGGTTGACGCGCGGGTCACCGCACGGGCTATGTATAAAGCCCAAAAACCTTTT
39666 TTTCTCTTCATTTCTCCCTTCTTCGCCCGAGAGCTTTCCTCTCTTTCTCTCGTTTCCTTCATCTG
387 TTTCTCTTCATTTCTCCCTTCTTCGCCCGAGAGCTTTCCTCTCTTTCTCTCGTTTCCTTCATCTG
39731 TTCATGCGTGTTCTTCAGAAATGAAGAACACGCCGCCGTAAAATCCCAGAAATGGCCACACGCCG
452 TTCATGCGTGTTCTTCAGAAATGAAGAACACGCCGCCGTAAAATCCCAGAAATGGCCACACGCCG
* *
39796 CCTCGCCGGCCGCCGTTGGTCGGCGCCAGCCACCGATCATCGGCGGTAAACCCATAAAAAAAAAT
517 CCTCGCCGGCCGCCGTTGGTCGGCGCCGGCCACCGATCATCGGCGGCAAACCCATAAAAAAAAAT
39861 TGGTTTTTTTGAAAGCCCTTCTCTCCCTCGACTCAAATCTCAAACCTTTTTTTGAAATAGGCCTC
582 TGGTTTTTTTGAAAGCCCTTCTCTCCCTCGACTCAAATCTCAAACCTTTTTTTGAAATAGGCCTC
39926 GGGGGAGGGTAGATCCGATATCAAAGTCTTGATCCCTCCCCTAAAAGTTCATCGGCCAAAAATGG
647 GGGGGAGGGTAGATCCGATATCAAAGTCTTGATCCCTCCCCTAAAAGTTCATCGGCCAAAAATGG
39991 TTTTTTTGGGTTCGATTCACACCAGATCTCAAAGGAGATACAACATGCCAGGGAGAAACAGAAAT
712 TTTTTTTGGGTTCGATTCACACCAGATCTCAAAGGAGATACAACATGCCAGGGAGAAACAGAAAT
40056 CAACAAGGT-AAAAAAAAACTACCTTTTATTGCTTTCGAATAGCTACAAATACTTCGAGTGTTTA
777 CAACAAGGTAAAAAAAAAACTACCTTTTATTGCTTTCGAATAGCTACAAATACTTCGAGTGTTTA
*
40120 CGGTTTGCTTGTGATTTCTCTCGTAACCGTGTACAAACTTGTGTGTTTGTGTGTAAAAATAT
842 CGGTTTGCTTGTGATTTCTCTCGTAACCGTGTACAAACTTGTGTGTTTGTGTGTAAAAA-AA
40182 ATATATATATATATATATATGAAAATAAAAGATAAAATATGTATAAATAATAATTTGTAAAAAAA
1 ATATATATATATATATATATGAAAATAAAAGATAAAATATGTATAAATAATAATTTGT-AAAAAA
40247 ATAAAAATAAAAATAAACAAATAAAATGATATATACATAAATAATAATATTAATATTGAAAATAA
65 ATAAAAATAAAAATAAACAAATAAAATGATATATACATAAATAATAATATTAATATTGAAAATAA
40312 TAATAATAATGGT-AAAAAAAATAAAAGAAAGTGGTAAAATATTCGTATGGGACCAGATTGGAAT
130 TAATAATAATGGTAAAAAAAAATAAAAGAAAGTGGTAAAATATTCGTATGGGACCAGATTGGAAT
40376 AAAATCCAAATCAGGGGACAAGTTCAGAAGAAAATCAGATTCAAATTCAATTTAGGGGATCAAAA
195 AAAATCCAAATCAGGGGACAAGTTCAGAAGAAAATCAGATTCAAATTCAATTTAGGGGATCAAAA
40441 TGGAGTTGATTT-AAATCAGAGGGATCAAAATCGA-GTTTACCCTTTAACAAAACACGC-GATCC
260 TGGAGTTGATTTAAAATCAGAGGGATCAAAATCGAGGTTTACCCTTTAACAAAACACGCGGATCC
* * *
40503 TTCCCGGGT-CGTTGACGCGCGGGTCACTGCACGGGCTATGTATAAAGCCCAAAAACCTTTTTTT
325 TTCCCCGGTGGGTTGACGCGCGGGTCACCGCACGGGCTATGTATAAAGCCCAAAAACCTTTTTTT
40567 CTCTTCATTTCTCCCTTCTTCGCCCGAGAGCTTTCCTCTCTTTCTCTCTCGTTTCCTTCATCTGT
390 CTCTTCATTTCTCCCTTCTTCGCCCGAGAGCTTTCCTCTC-TT-TCTCTCGTTTCCTTCATCTGT
40632 TCATGCGTGTTCTTCAGAAATGAAGAACACGCCGCCGTAAAATCCCAGAAATGGCCACACGCCGC
453 TCATGCGTGTTCTTCAGAAATGAAGAACACGCCGCCGTAAAATCCCAGAAATGGCCACACGCCGC
40697 CTCGCCGGCCGCCGTTGGTCGGCGCCGGCCACCGATCATCGGCGGCAAACCCATAAAAAAAAATT
518 CTCGCCGGCCGCCGTTGGTCGGCGCCGGCCACCGATCATCGGCGGCAAACCCATAAAAAAAAATT
*
40762 GGTTTTTCTGAAAGCCCTTCTCTCCCTCGACTCAAATCTCAAACCTTTTTTTGAAATAGGCCTCG
583 GGTTTTTTTGAAAGCCCTTCTCTCCCTCGACTCAAATCTCAAACCTTTTTTTGAAATAGGCCTCG
40827 GGGGAGGGTAGATCCGATATCAAAGTCTTGATCCCTCCCCTAAAAGTTCATCGGCCAAAAATGGT
648 GGGGAGGGTAGATCCGATATCAAAGTCTTGATCCCTCCCCTAAAAGTTCATCGGCCAAAAATGGT
40892 TTTTTTGGGTTTCGATTCACACCAGATCTCAAAGGAGATACAACATGCCAGGGAGAAACAGAAAT
713 TTTTTTGGG-TTCGATTCACACCAGATCTCAAAGGAGATACAACATGCCAGGGAGAAACAGAAAT
40957 CAACAAGGTAAAAAAAAAACTACCTTTTATTGCTTTCGAATAGCTACAAATACTTCGAGTGTTTA
777 CAACAAGGTAAAAAAAAAACTACCTTTTATTGCTTTCGAATAGCTACAAATACTTCGAGTGTTTA
41022 CGGTTTGCTTGTGATTTCTCTCGTAACCGTGTACAAACTTGTGTG-TT-TGTGTAAAAAAA
842 CGGTTTGCTTGTGATTTCTCTCGTAACCGTGTACAAACTTGTGTGTTTGTGTGTAAAAAAA
41081 ATATATATATATATATATATGAAAAT-AAAGATAAAATATGTATAAATAATAATTTGTAAAAAAA
1 ATATATATATATATATATATGAAAATAAAAGATAAAATATGTATAAATAATAATTTGTAAAAAAA
41145 TAAAAATAAAAATAAACAAATAAAATGATATATACATAAATAATAATATTAATATTGAAAATAAT
66 TAAAAATAAAAATAAACAAATAAAATGATATATACATAAATAATAATATTAATATTGAAAATAAT
41210 AATAATAATGGTAAAAAAAAATAAAAGAAAGTGGTAAAATATTCGTATGGGACCAGATTGGAATA
131 AATAATAATGGTAAAAAAAAATAAAAGAAAGTGGTAAAATATTCGTATGGGACCAGATTGGAATA
41275 AAATCCAAATCA-GGGACAAGTTCA-AAGAAAATCAGATTCAAATTCAATTTAGGGGATCAAAAT
196 AAATCCAAATCAGGGGACAAGTTCAGAAGAAAATCAGATTCAAATTCAATTTAGGGGATCAAAAT
*
41338 GGAGTTGATTTAAAATTAGAGGGATC-AAATCGAGGTTTACCCTTTAACAAAACACGCGGATCCT
261 GGAGTTGATTTAAAATCAGAGGGATCAAAATCGAGGTTTACCCTTTAACAAAACACGCGGATCCT
41402 TCCCCGGTAGGGTTGACGCGCGGGTCACCGCACGGGCTATGTATAAAGCCCAAAAACCTTTTTTT
326 TCCCCGGT-GGGTTGACGCGCGGGTCACCGCACGGGCTATGTATAAAGCCCAAAAACCTTTTTTT
41467 CTCTTCATTTCTCCCTTCTTCGCCCGAGAGCTTTCCTCTCTTTCTCTCGTTTCCTTCATCTGTTC
390 CTCTTCATTTCTCCCTTCTTCGCCCGAGAGCTTTCCTCTCTTTCTCTCGTTTCCTTCATCTGTTC
41532 ATGCGTGTTCTTCAGAAATGAAGAACACGCCGCCGTAAAATCCCAGAAATGGCCACACGCCGCCT
455 ATGCGTGTTCTTCAGAAATGAAGAACACGCCGCCGTAAAATCCCAGAAATGGCCACACGCCGCCT
41597 CGCCGGCCGCCGTTGGTCGGCGCCGGCCACCGATCATCGGCGGCAAACCCATAAAAAAAAATTGG
520 CGCCGGCCGCCGTTGGTCGGCGCCGGCCACCGATCATCGGCGGCAAACCCATAAAAAAAAATTGG
41662 TTTTTTTGAAAGCCCTTCTCTCCCTCGACTCAAATCTCAAACCTTTTTTTGAAATAGGCCTCGGG
585 TTTTTTTGAAAGCCCTTCTCTCCCTCGACTCAAATCTCAAACCTTTTTTTGAAATAGGCCTCGGG
41727 GGAGGGTAGATCCGATATCAAAGTCTTGATCCCTCCCCTAAAAGTTCATCGGCCAAAAATGGTTT
650 GGAGGGTAGATCCGATATCAAAGTCTTGATCCCTCCCCTAAAAGTTCATCGGCCAAAAATGGTTT
41792 TTTTGGGTTCGATTCACACCAGATCTCAAAGGAGATACAACATGCCAGGGAGAAACAGAAATCAA
715 TTTTGGGTTCGATTCACACCAGATCTCAAAGGAGATACAACATGCCAGGGAGAAACAGAAATCAA
41857 CAAGGTAAAAAAAAAACTACCTTTTATTGCTTTCGAATAGCTACAAATACTTCGAGTGTTTACGG
780 CAAGGTAAAAAAAAAACTACCTTTTATTGCTTTCGAATAGCTACAAATACTTCGAGTGTTTACGG
41922 TTTGCTTGTGATTTCTCTCGTAACCGTGTACAAACTTGTGTGTTTGTGTGTAAAAAAA
845 TTTGCTTGTGATTTCTCTCGTAACCGTGTACAAACTTGTGTGTTTGTGTGTAAAAAAA
41980 A
1 A
41981 AAATTCCCTT
Statistics
Matches: 1770, Mismatches: 13, Indels: 36
0.97 0.01 0.02
Matches are distributed among these distances:
896 57 0.03
897 297 0.17
898 492 0.28
899 44 0.02
900 393 0.22
901 76 0.04
902 108 0.06
903 88 0.05
904 30 0.02
905 129 0.07
906 56 0.03
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (902 bp):
ATATATATATATATATATATGAAAATAAAAGATAAAATATGTATAAATAATAATTTGTAAAAAAA
TAAAAATAAAAATAAACAAATAAAATGATATATACATAAATAATAATATTAATATTGAAAATAAT
AATAATAATGGTAAAAAAAAATAAAAGAAAGTGGTAAAATATTCGTATGGGACCAGATTGGAATA
AAATCCAAATCAGGGGACAAGTTCAGAAGAAAATCAGATTCAAATTCAATTTAGGGGATCAAAAT
GGAGTTGATTTAAAATCAGAGGGATCAAAATCGAGGTTTACCCTTTAACAAAACACGCGGATCCT
TCCCCGGTGGGTTGACGCGCGGGTCACCGCACGGGCTATGTATAAAGCCCAAAAACCTTTTTTTC
TCTTCATTTCTCCCTTCTTCGCCCGAGAGCTTTCCTCTCTTTCTCTCGTTTCCTTCATCTGTTCA
TGCGTGTTCTTCAGAAATGAAGAACACGCCGCCGTAAAATCCCAGAAATGGCCACACGCCGCCTC
GCCGGCCGCCGTTGGTCGGCGCCGGCCACCGATCATCGGCGGCAAACCCATAAAAAAAAATTGGT
TTTTTTGAAAGCCCTTCTCTCCCTCGACTCAAATCTCAAACCTTTTTTTGAAATAGGCCTCGGGG
GAGGGTAGATCCGATATCAAAGTCTTGATCCCTCCCCTAAAAGTTCATCGGCCAAAAATGGTTTT
TTTGGGTTCGATTCACACCAGATCTCAAAGGAGATACAACATGCCAGGGAGAAACAGAAATCAAC
AAGGTAAAAAAAAAACTACCTTTTATTGCTTTCGAATAGCTACAAATACTTCGAGTGTTTACGGT
TTGCTTGTGATTTCTCTCGTAACCGTGTACAAACTTGTGTGTTTGTGTGTAAAAAAA
Found at i:42321 original size:17 final size:17
Alignment explanation
Indices: 42299--42335 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
42289 AAAAAATGTA
* *
42299 ATAATATATATATATTT
1 ATAATATAAATATATAT
42316 ATAATATAAATATATAT
1 ATAATATAAATATATAT
42333 ATA
1 ATA
42336 TAAGGACGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATAAATATATAT
Found at i:43050 original size:106 final size:105
Alignment explanation
Indices: 42659--43807 Score: 2067
Period size: 105 Copynumber: 10.9 Consensus size: 105
42649 CTGAAAATGG
* * *
42659 GAAATTGTTTATTGACAACCAGCGGTCCC-T--TCGTGAAGTTGAACTTGCATTGTCTGGAGTCT
1 GAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
42721 AATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAATTTGA
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
42762 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
42827 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
*
42867 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
42932 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
42972 GAAATGTTTGTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATGTTTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
43037 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
43078 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
43143 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
43183 GAAATGTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATG-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
43248 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACTTGA
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
43289 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
43354 ATATCCTTCATTGCGAAGTTTGAAATTGGCTCTGAAATTGA
66 ATATCCTTCGTTGTGAAG-TTGAAATTGGCTCTGAATTTGA
43395 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG-TTGAACTTGCGTTGTCTGGAGTCC
43460 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-ATTT--
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
43498 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
43563 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACTTGA
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
*
43603 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGATTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
43668 ATATCCTTCGTTGCGAAGTTTGAAATTGGCTCTGAAATTGA
66 ATATCCTTCGTTGTGAAG-TTGAAATTGGCTCTGAATTTGA
43709 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG-TTGAACTTGCGTTGTCTGGAGTCC
*
43774 AATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTG
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
43808 GGTAAAACCT
Statistics
Matches: 1014, Mismatches: 20, Indels: 21
0.96 0.02 0.02
Matches are distributed among these distances:
102 81 0.08
103 48 0.05
105 444 0.44
106 360 0.36
107 81 0.08
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
Found at i:43063 original size:211 final size:210
Alignment explanation
Indices: 42659--43807 Score: 2067
Period size: 211 Copynumber: 5.5 Consensus size: 210
42649 CTGAAAATGG
* * *
42659 GAAATTGTTTATTGACAACCAGCGGTCCC-T--TCGTGAAGTTGAACTTGCATTGTCTGGAGTCT
1 GAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
42721 AATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGG
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGG
42786 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
130 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
42851 TTGGCTCTGAATTTGA
195 TTGGCTCTGAATTTGA
*
42867 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
42932 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTG-TTGACAACCAGCGG
42997 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
130 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
43062 TTGGCTCTGAATTTGA
195 TTGGCTCTGAATTTGA
43078 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
43143 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTTGTTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATG-TTTGTTGACAACCAGCGG
43208 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
130 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
43273 TTGGCTCTGAACTTGA
195 TTGGCTCTGAATTTGA
43289 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
43354 ATATCCTTCATTGCGAAGTTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAG-TTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGG
43419 TCCCTTCGTCGTGAAGTTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
130 TCCCTTCGTCGTGAAG-TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
43484 ATTGGCTCTG-ATTT--
194 ATTGGCTCTGAATTTGA
43498 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
43563 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAACTTGAGAAATGTTTGTTGACAACCAGCGGT
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGT
* *
43628 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGATTCCAATATCCTTCGTTGCGAAGTTTGAAA
131 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG-TTGAAA
*
43693 TTGGCTCTGAAATTGA
195 TTGGCTCTGAATTTGA
43709 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTTGAACTTGCGTTGTCTGGAGTCC
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG-TTGAACTTGCGTTGTCTGGAGTCC
*
43774 AATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTG
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
43808 GGTAAAACCT
Statistics
Matches: 911, Mismatches: 18, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
207 64 0.07
208 81 0.09
209 84 0.09
210 79 0.09
211 457 0.50
212 146 0.16
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (210 bp):
GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
TGGCTCTGAATTTGA
Done.