Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006562.1 Hibiscus syriacus cultivar Beakdansim tig00016053_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: 66016
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2459 original size:31 final size:30
Alignment explanation
Indices: 2398--2539 Score: 101
Period size: 31 Copynumber: 4.7 Consensus size: 30
2388 CCTACAATAT
* *
2398 TTTAATAAT-TATTA-AA-AATTTGATAAA
1 TTTAATAATATTTTATAACAATTTGAAAAA
*
2425 TTTAATAAATATTTTATAACAATTCGAAAAA
1 TTTAAT-AATATTTTATAACAATTTGAAAAA
* * *
2456 TTTAATAATCATCTTATAATAATTTGATAATA
1 TTTAATAAT-ATTTTATAACAATTTGA-AAAA
* ** * *
2488 TATAATGCTTATTTTATAATAATTTGAGAAA
1 TTTAAT-AATATTTTATAACAATTTGAAAAA
**
2519 TTTAATTACCATTTTATAACA
1 TTTAA-TAATATTTTATAACA
2540 GCTTGAGAAG
Statistics
Matches: 89, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
27 6 0.07
28 3 0.03
29 4 0.04
30 5 0.06
31 45 0.51
32 25 0.28
33 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (30 bp):
TTTAATAATATTTTATAACAATTTGAAAAA
Found at i:3072 original size:40 final size:40
Alignment explanation
Indices: 3017--3092 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
3007 GAAAAGTAGT
*
3017 TTTGCTTTGAGTAGGATCTACTGGATCTATATTTTTCTAC
1 TTTGCTTTGAGTAGGATCTACTGGATATATATTTTTCTAC
* *
3057 TTTGCTTTGAGTAGGATTTACTGGATATGTATTTTT
1 TTTGCTTTGAGTAGGATCTACTGGATATATATTTTT
3093 TCATTGTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.50
Consensus pattern (40 bp):
TTTGCTTTGAGTAGGATCTACTGGATATATATTTTTCTAC
Found at i:3504 original size:20 final size:20
Alignment explanation
Indices: 3479--3521 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3469 ACTAAGAGCC
*
3479 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
3499 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
3519 CAT
1 CAT
3522 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:23785 original size:13 final size:13
Alignment explanation
Indices: 23767--23793 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23757 TTATAGACGC
23767 GCATATGAAGACT
1 GCATATGAAGACT
23780 GCATATGAAGACT
1 GCATATGAAGACT
23793 G
1 G
23794 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:25033 original size:2 final size:2
Alignment explanation
Indices: 25026--25090 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
25016 AAATAAAATA
25026 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
25068 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
25091 CTGCAACTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:29194 original size:17 final size:18
Alignment explanation
Indices: 29172--29205 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29162 TCAGCCGGTC
29172 CGATTC-GAACGGTTCAA
1 CGATTCTGAACGGTTCAA
*
29189 CGATTCTGACCGGTTCA
1 CGATTCTGAACGGTTCA
29206 CTAATAACGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (18 bp):
CGATTCTGAACGGTTCAA
Found at i:40011 original size:32 final size:32
Alignment explanation
Indices: 39970--40093 Score: 128
Period size: 31 Copynumber: 3.9 Consensus size: 32
39960 AGTTGAGGGT
39970 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTACGGAACATATGGACAGAA
** * *
40002 TTACCTATG-TCTTTTGGGACATATGGACAGTA
1 TTACCTATGTTC-TACGGAACATATGGACAGAA
* *
40034 -TACCTATGTTCTAAGGAACATATGGACA-AT
1 TTACCTATGTTCTACGGAACATATGGACAGAA
* * * *
40064 TTACCTAGGTTCTTCGGGACCTATGGACAG
1 TTACCTATGTTCTACGGAACATATGGACAG
40094 TTGCCGAGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
31 47 0.64
32 27 0.36
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAGAA
Found at i:44359 original size:13 final size:13
Alignment explanation
Indices: 44341--44366 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44331 CCCCCAACAA
44341 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
44354 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
44367 CATCTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:58631 original size:23 final size:23
Alignment explanation
Indices: 58596--58643 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
58586 ATAAAGTATA
*
58596 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
58619 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
58642 AT
1 AT
58644 TAACCTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:59168 original size:31 final size:31
Alignment explanation
Indices: 59132--59190 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
59122 AAGCACTACT
*
59132 TATTACATTATATAAACGCTACCTATTAGTC
1 TATTACAATATATAAACGCTACCTATTAGTC
*
59163 TATTACAATATATAAGCGCTACCTATTA
1 TATTACAATATATAAACGCTACCTATTA
59191 CATCATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (31 bp):
TATTACAATATATAAACGCTACCTATTAGTC
Found at i:59639 original size:21 final size:23
Alignment explanation
Indices: 59614--59686 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
59604 ATACTTTACA
*
59614 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
59637 ATATAAACGCTATCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
59660 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
59683 ATAT
1 ATAT
59687 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:60138 original size:23 final size:23
Alignment explanation
Indices: 60103--60175 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
60093 ATACTTTACA
*
60103 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
60126 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
60149 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
60172 ATAT
1 ATAT
60176 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:60314 original size:489 final size:488
Alignment explanation
Indices: 58717--60361 Score: 2808
Period size: 488 Copynumber: 3.4 Consensus size: 488
58707 TTATAATATG
**
58717 TTGAAAGTGTTTATACTTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATAC-TTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
* ** **
58782 TTTAA-TTTTTTAATAGAATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGTA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
58846 CAAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAATAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* * *
58911 TAACTAAAGATAATAATAAATATGTAATATATATATTTATTGTTTTTAATTTAATGATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* ** * * * *
58976 ACCGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATATCTAAAAATTCACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
59041 CAAAAGATAACCATAAATTAATGTTTTCACAGTTAAATAAGTATGGACACGTTTATAAAAAGGAT
325 CAAAAGATAACCTTAAATTAATGTTTTCACAGTTAAATAAGTATGGACACTTTTATAAAAAGGAT
* *
59106 ATATACTTTACAATATAAGCACTACTTATTACATTATATAAACGCTACCTATTAGTCTATTACAA
390 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTA--C-A-T----
*
59171 TATATAAGCGCTACCTATTACATCATATTTTTATCTATTATA
447 TATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
59213 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
59278 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
59343 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
59408 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
59473 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
59538 AAAAGATAACCTTAAATTAATGTTTTCACAGTTAAATAAGTATGGACACTTTTATAAAAAGGATA
326 AAAAGATAACCTTAAATTAATGTTTTCACAGTTAAATAAGTATGGACACTTTTATAAAAAGGATA
*
59603 GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTATCTATTACATTATATAAGC
391 GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGC
59668 GCTACCTATTACATCATATTTTTACCTATTATA
456 GCTACCTATTACATCATATTTTTACCTATTATA
59701 TTGAAAGTGTCCATACTTTTTATAAAAA-GAATCGATACTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAATG-ATCGATACTTTTTTTAAAGTTATGTAATTTATGT
*
59765 TTCAATTTTTTTAATAGTGTTTCATGCTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* * *
59830 CAAAAAATTATTTGATTGTTTTAATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* * *
59895 TAACCAAATATAATAATAAATATGTAATATATATGTTTATAGTTTTCAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
59960 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * * * *
60025 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAATATGGACACTTTTATAAAAATGA
325 CAAAAGATAACCTTAAATTAATGTTTT-CACAGTTAAATAAGTATGGACACTTTTATAAAAAGGA
60090 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
389 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
60155 GCGCTACCTATTACATCATATTTTTACCTATTATA
454 GCGCTACCTATTACATCATATTTTTACCTATTATA
*
60190 TTGAAAGTGTTCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
60255 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
60320 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
60362 AATTTGGGTC
Statistics
Matches: 1100, Mismatches: 45, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
487 1 0.00
488 380 0.35
489 298 0.27
490 1 0.00
492 1 0.00
493 1 0.00
494 1 0.00
495 51 0.05
496 366 0.33
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (488 bp):
TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATGTTTTCACAGTTAAATAAGTATGGACACTTTTATAAAAAGGATA
GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGC
GCTACCTATTACATCATATTTTTACCTATTATA
Found at i:63267 original size:120 final size:120
Alignment explanation
Indices: 63052--63298 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
63042 TTTTTCTTCC
*
63052 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTATCGACATAGGTTATAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTATCGACATAGGTTATAGACCTATTCGCT
63117 AATAAAACCGGTATACTTATACCGGATATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGATATATTACAAAATTATCTAGTACATTATA
* * *
63172 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTATCGACATAGGTTATAGACCTATTCGCT
* * * *
63237 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGATATATTACAAAATTATCTAGTACATTATA
63292 ATTCTGG
1 ATTCTGG
63299 GTTCCGATGT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTATCGACATAGGTTATAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGATATATTACAAAATTATCTAGTACATTATA
Found at i:63563 original size:118 final size:117
Alignment explanation
Indices: 63356--63586 Score: 372
Period size: 118 Copynumber: 2.0 Consensus size: 117
63346 TTCTTCCATT
*
63356 TGGACATAAAGTACCGACACAATATTAAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATAA
1 TGGACATAAAGTACCGACACAATATTAAAAGTATCGACATAGGTTATAGACCTATTCGCTAATAA
* *
63421 AACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTAATTC
66 AACCGATATACTTATACCAGTTATATTACAAAATTATCTAGTACATTAATTC
* * *
63473 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAATATT-AAAAGTATCGACATAGGTTATAGACCTATTCGCTAATA
* * *
63538 AAACTGATATATTTATACCAGTTATATTACAAAATTATCTATTACATTA
65 AAACCGATATACTTATACCAGTTATATTACAAAATTATCTAGTACATTA
63587 TAATTATGGG
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
117 26 0.25
118 78 0.75
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (117 bp):
TGGACATAAAGTACCGACACAATATTAAAAGTATCGACATAGGTTATAGACCTATTCGCTAATAA
AACCGATATACTTATACCAGTTATATTACAAAATTATCTAGTACATTAATTC
Found at i:63564 original size:297 final size:302
Alignment explanation
Indices: 62888--63777 Score: 1585
Period size: 297 Copynumber: 3.0 Consensus size: 302
62878 TTAAAATTAG
62888 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCAT-AAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
62952 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
63017 CACTTTTTGACAAGGTATCGAAACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATT-TGGACATAAAGTACCGACACAATATT
* *
63082 AAAAAGTATCGACATAGGTTATAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGATATA
195 AAAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
63147 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
260 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
*
63190 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
63255 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
63320 CAC-TTTTGACAAGGTATCGACACA-TTTTCTTCCATTTGGACATAAAGTACCGACACAATATT-
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTTGGACATAAAGTACCGACACAATATTA
63382 AAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
196 AAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
63447 TACAAAATTATCTAGTACA-T-TAATTCTGGACATAAAGTAC
261 TACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
* * *
63487 CGACACAATATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCTCATAAAACTGATATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
63552 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
63617 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATCTGGACATAAAGTACCGACACAATATTA
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTTGGACATAAAGTACCGACACAATATTA
* * * * *
63682 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTTATAT
196 AAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
*
63747 TACAAAATTATCTATTACATTATAATTCTGG
261 TACAAAATTATCTAGTACATTATAATTCTGG
63778 GTTCCGATGT
Statistics
Matches: 565, Mismatches: 17, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
297 147 0.26
298 22 0.04
299 119 0.21
300 104 0.18
301 13 0.02
302 78 0.14
303 82 0.15
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (302 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTTGGACATAAAGTACCGACACAATATTA
AAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATAT
TACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:63781 original size:182 final size:183
Alignment explanation
Indices: 63469--63872 Score: 722
Period size: 182 Copynumber: 2.2 Consensus size: 183
63459 TAGTACATTA
63469 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCT
63534 CATAAAACTGATATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACTGATATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
*
63599 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGATATCGACACATTTTTCTTCC
*
63652 A-TCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCT
* * *
63716 CATAAAA-TCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGT
66 CATAAAACT-GATATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTATGGGT
*
63780 TCCGATGTGTAAATGTCGACACTTTTTGACAAGATATCGACATATTTTTCTTCC
130 TCCGATGTGTAAATGTCGACACTTTTTGACAAGATATCGACACATTTTTCTTCC
*
63834 ATTCTGGATATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
63873 GAAAACTTTG
Statistics
Matches: 212, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
181 1 0.00
182 174 0.82
183 37 0.17
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTATAGACCTATTCGCT
CATAAAACTGATATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGATATCGACACATTTTTCTTCC
Found at i:65093 original size:12 final size:12
Alignment explanation
Indices: 65078--65111 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65068 ATTGTCGTCG
65078 TCATCGTCATCT
1 TCATCGTCATCT
*
65090 TCATCGTCAGCT
1 TCATCGTCATCT
*
65102 TCATCTTCAT
1 TCATCGTCAT
65112 TGACCGCTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:65096 original size:18 final size:18
Alignment explanation
Indices: 65075--65111 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
65065 ATCATTGTCG
*
65075 TCGTCATCGTCATCTTCA
1 TCGTCAGCGTCATCTTCA
*
65093 TCGTCAGCTTCATCTTCA
1 TCGTCAGCGTCATCTTCA
65111 T
1 T
65112 TGACCGCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (18 bp):
TCGTCAGCGTCATCTTCA
Done.