Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009130.1 Hibiscus syriacus cultivar Beakdansim tig00112627_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: 61188
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Found at i:6282 original size:2 final size:2
Alignment explanation
Indices: 6275--6299 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6265 AAGCTTCATG
6275 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 T
6300 CAATTTGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10155 original size:34 final size:34
Alignment explanation
Indices: 10112--10179 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
10102 GAGGGAGTGC
*
10112 AACATGTTGTACTAGATTCTTCTACCCATAGATA
1 AACATGTTGTACCAGATTCTTCTACCCATAGATA
10146 AACATGTTGTACCAGATTCTTCTACCCATAGATA
1 AACATGTTGTACCAGATTCTTCTACCCATAGATA
10180 TAGTTTGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (34 bp):
AACATGTTGTACCAGATTCTTCTACCCATAGATA
Found at i:16064 original size:26 final size:25
Alignment explanation
Indices: 16020--16072 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
16010 AAATTGATAT
*
16020 AAAATTAATAATATAAATTAAATTA
1 AAAATTAATAATATAAATTAAAATA
16045 AAAATTTATATAAT-TAAATTAAAATA
1 AAAA-TTA-ATAATATAAATTAAAATA
16071 AA
1 AA
16073 TTCTAATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 16 0.64
27 5 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAATTAATAATATAAATTAAAATA
Found at i:17601 original size:19 final size:20
Alignment explanation
Indices: 17577--17617 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
17567 TATTTTAGAG
17577 AAATATTAATTTAA-CCCTA
1 AAATATTAATTTAACCCCTA
17596 AAATATTAATTTAACCCCTA
1 AAATATTAATTTAACCCCTA
17616 AA
1 AA
17618 CTATAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATATTAATTTAACCCCTA
Found at i:23100 original size:23 final size:23
Alignment explanation
Indices: 23074--23121 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
23064 ATAAAGTACA
*
23074 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
23097 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
23120 AT
1 AT
23122 TACCTATTTT
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:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:23537 original size:23 final size:23
Alignment explanation
Indices: 23511--23571 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
23501 ATAACCACTG
23511 CCTATTACATTATATAAACGATA
1 CCTATTACATTATATAAACGATA
** *
23534 CCTATTACATTATATAAGGGCTA
1 CCTATTACATTATATAAACGATA
*
23557 CCTATTACATCATAT
1 CCTATTACATTATAT
23572 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
CCTATTACATTATATAAACGATA
Found at i:23954 original size:21 final size:22
Alignment explanation
Indices: 23929--23980 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
23919 ACACTTTACA
*
23929 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
23952 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
23975 ATATAA
1 ATATAA
23981 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:23965 original size:23 final size:23
Alignment explanation
Indices: 23939--24001 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
23929 ATATAACCAC
23939 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
23962 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
23985 TACCTATTACATCATAT
1 TACCTATTACATTATAT
24002 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:24423 original size:22 final size:23
Alignment explanation
Indices: 24359--24429 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 23
24349 GACACTTACA
* *
24359 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
24382 ATA-AAACGATACCTATTACATT
1 ATATAAACGCTACCTATTACATT
** *
24404 ATATAAGGGCTACCTA-TACATC
1 ATATAAACGCTACCTATTACATT
24426 ATAT
1 ATAT
24430 GTTTACCTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
22 28 0.70
23 12 0.30
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:24818 original size:23 final size:23
Alignment explanation
Indices: 24792--24854 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
24782 ATATAACCAC
24792 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
24815 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
24838 TACCTATTACATCATAT
1 TACCTATTACATTATAT
24855 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:25193 original size:20 final size:20
Alignment explanation
Indices: 25168--25206 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25158 TCCACAGTGA
* *
25168 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
25188 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
25207 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:25245 original size:23 final size:23
Alignment explanation
Indices: 25219--25280 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
25209 ATATAACCAC
25219 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
25242 TACCTATTACA-TATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
25264 TACCTATTACATCATAT
1 TACCTATTACATTATAT
25281 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:25462 original size:424 final size:431
Alignment explanation
Indices: 23232--27002 Score: 7161
Period size: 425 Copynumber: 8.9 Consensus size: 431
23222 GGATCGATAC
23232 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC--AAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
23295 ATTTGATTGTTTTGATATTTTAT-AAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
23359 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
23424 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
*
23489 ACACTTTACAATATAACCACTGCCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
23554 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
23618 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
23659 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
23724 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
23789 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
23854 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
23919 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
23984 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
24049 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
24090 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
24155 ATTTGATTGTTTTGATATTTTATAAAAATAATATTTAGAATTTTTAA-TTAATAATAATATATAT
66 ATTTGATTGTTTTGATATTTTAT-AAAATAATATTTAGAATTTTTAATTTAATAATAATATATAT
24219 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
130 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
24284 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
195 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATA
24349 GACAC-TTACAATATAACCACTACCTATTACATTATA-AAACGATACCTATTACATTATATAAGG
260 GACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGG
24412 GCTACCTA-TACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
325 GCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGAT
24476 CGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAA-TTT
390 CGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
24517 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
24582 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT-A-ATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
24645 GTAACGT-AAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
24708 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
24772 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
24837 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
24902 GATAC-TTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
24942 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
25007 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
25072 GTAACGTAAAAAAT-AATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC-A
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
25135 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC-TTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
25199 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACA-TATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
25263 CTACCTATTACATCATATGTTTACCTATTATATTG-AAGTGTCCATAC-TTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
25326 GATAC-TTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
25366 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
25431 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT-A-ATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
25494 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
25559 AAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
*
25623 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATTACA-TATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
25687 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
25751 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
25792 TTTAACAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
25856 ATTTGATTGTTTTGATATTTTATAAAATAATA-TTAGAATTTTTAATTTAATAAT-ATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
25919 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
25984 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
26049 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
*
26114 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
26179 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
26220 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
26284 ATTTGATTGTTTTGATATTTTAT-AAATAATATTTAGAATTTTTAA-TT--TAATAATATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
26345 GTAACGTAAAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC-A
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
26408 AA-ATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
26471 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC---ATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
26533 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
*
26597 GATACTTTTTTTAAAAGTTATGTAATTTATGTATCAATTTT
391 GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
26638 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
26702 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAAT-A-ATATATC
66 ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
26765 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT-AATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
26829 AAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
26893 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
26958 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCA
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCA
27003 ATAATCGCTG
Statistics
Matches: 3301, Mismatches: 6, Indels: 76
0.98 0.00 0.02
Matches are distributed among these distances:
418 135 0.04
419 86 0.03
420 45 0.01
421 29 0.01
422 238 0.07
423 229 0.07
424 420 0.13
425 534 0.16
426 234 0.07
427 351 0.11
428 263 0.08
429 103 0.03
430 314 0.10
431 297 0.09
432 23 0.01
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.39
Consensus pattern (431 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATC
GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
GATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTT
Found at i:25695 original size:22 final size:22
Alignment explanation
Indices: 25628--25704 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
25618 GATAGACACT
* *
25628 TTACA-ATATAACCACTACCTA
1 TTACATATATAAACGCTACCTA
* *
25649 TTACATTATATAAACGATACATA
1 TTACA-TATATAAACGCTACCTA
**
25672 TTACATATATAAGGGCTACCTA
1 TTACATATATAAACGCTACCTA
25694 TTACATCATAT
1 TTACAT-ATAT
25705 GTTTACCTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.11
22 19 0.42
23 21 0.47
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACATATATAAACGCTACCTA
Found at i:26084 original size:21 final size:22
Alignment explanation
Indices: 26059--26110 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
26049 ACACTTTACA
*
26059 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
26082 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
26105 ATATAA
1 ATATAA
26111 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:26095 original size:23 final size:23
Alignment explanation
Indices: 26069--26131 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
26059 ATATAACCAC
26069 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
26092 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
26115 TACCTATTACATCATAT
1 TACCTATTACATTATAT
26132 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:26529 original size:20 final size:20
Alignment explanation
Indices: 26504--26545 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
26494 CTATTACATT
26504 ATATAAACGATACCTATTAC
1 ATATAAACGATACCTATTAC
** *
26524 ATATAAGGGCTACCTATTAC
1 ATATAAACGATACCTATTAC
26544 AT
1 AT
26546 CATATGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (20 bp):
ATATAAACGATACCTATTAC
Found at i:26928 original size:21 final size:22
Alignment explanation
Indices: 26903--26954 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
26893 ACACTTTACA
*
26903 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
26926 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
26949 ATATAA
1 ATATAA
26955 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:26939 original size:23 final size:23
Alignment explanation
Indices: 26913--26975 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
26903 ATATAACCAC
26913 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
26936 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
26959 TACCTATTACATCATAT
1 TACCTATTACATTATAT
26976 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:28390 original size:196 final size:199
Alignment explanation
Indices: 27856--29018 Score: 2114
Period size: 196 Copynumber: 5.9 Consensus size: 199
27846 TTTAAATTAG
27856 TATCGACACAAA-TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
27920 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
27985 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGG-AA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
28047 AAAA
196 AAAA
28051 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
28116 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
28181 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
28246 AAAA
196 AAAA
28250 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTAT-
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
28313 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* ** *
28378 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
28442 AAAA
196 AAAA
28446 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
28511 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
28575 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
28639 AAAA
196 AAAA
28643 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
28707 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
28772 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAA
28836 AAAAA
195 AAAAA
28841 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
28906 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
28971 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
29019 GGCCATATTG
Statistics
Matches: 945, Mismatches: 11, Indels: 19
0.97 0.01 0.02
Matches are distributed among these distances:
195 12 0.01
196 330 0.35
197 150 0.16
198 215 0.23
199 198 0.21
200 40 0.04
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGGAAA
AAAA
Found at i:28775 original size:395 final size:394
Alignment explanation
Indices: 27856--29018 Score: 2127
Period size: 395 Copynumber: 2.9 Consensus size: 394
27846 TTTAAATTAG
*
27856 TATCGACACAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
1 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
27921 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
*
27986 GACACTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAAA
131 GACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAAA
28050 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
196 ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
28115 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
261 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* **
28180 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGA
326 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAA
28245 AAAAA
390 AAAAA
28250 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTAT-
1 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
28313 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
28378 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
130 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAAA
28443 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
194 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
28508 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGG
259 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
28572 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAA
324 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAA
28637 AAAAAA
389 AAAAAA
28643 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
1 TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
*
28708 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGAT
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGAT
*
28773 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
130 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
28838 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
194 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
* *
28903 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
259 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTG
*
28968 GGATTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
323 GGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
29019 GGCCATATTG
Statistics
Matches: 745, Mismatches: 14, Indels: 16
0.96 0.02 0.02
Matches are distributed among these distances:
392 43 0.06
393 116 0.16
394 179 0.24
395 290 0.39
396 56 0.08
397 21 0.03
398 40 0.05
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (394 bp):
TATCGACACAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAAA
ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTCCATTCATTCTGGAAAA
AAAA
Found at i:29182 original size:19 final size:19
Alignment explanation
Indices: 29136--29184 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
29126 TTATATTCAC
*
29136 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
29155 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
29174 ATACAAAATTA
1 ATACAAAATTA
29185 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:31109 original size:21 final size:22
Alignment explanation
Indices: 31085--31133 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
31075 AGTGTATCTT
* *
31085 CGACTCT-ATCGAGTTTCTGTA
1 CGACTCTGATCAAGTTTCTCTA
*
31106 CGACT-TGATCAAGTTTCTCTT
1 CGACTCTGATCAAGTTTCTCTA
31127 CGACTCT
1 CGACTCT
31134 TGATTGTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (22 bp):
CGACTCTGATCAAGTTTCTCTA
Found at i:33372 original size:17 final size:18
Alignment explanation
Indices: 33350--33392 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
33340 ATATATCCGA
33350 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
33367 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
33387 TATCAT
1 TATCAT
33393 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:33382 original size:20 final size:20
Alignment explanation
Indices: 33355--33401 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
33345 TCCGATATCA
33355 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
33374 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
33395 TTTTACC
1 TTTTACC
33402 TGTTACATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:33549 original size:20 final size:20
Alignment explanation
Indices: 33523--33568 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
33513 CACTTTTAAA
33523 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
33542 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
33563 TTTACC
1 TTTACC
33569 TAGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:42593 original size:127 final size:127
Alignment explanation
Indices: 42367--42622 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 127
42357 AGTGCATGCC
42367 GCAACGTAATGTCATGGCATGGAACGCTATGCTTAGTGGACTAACTATGCATGGACGAGGCCGAG
1 GCAACGTAATGTCATGGCATGGAACGCTATGCTTAGTGGACTAACTATGCATGGACGAGGCCGAG
42432 TTGTGGTCGAAATGTTCTGGCAGATGATTAAGGAAGTCAGGCCGGATGATTTAACCTTTATT
66 TTGTGGTCGAAATGTTCTGGCAGATGATTAAGGAAGTCAGGCCGGATGATTTAACCTTTATT
*
42494 GCAACGTAATGTCATGGCATGGAACGCTATGCTTAGTGGACTAGCTATGCATGGACGAGGCCGAG
1 GCAACGTAATGTCATGGCATGGAACGCTATGCTTAGTGGACTAACTATGCATGGACGAGGCCGAG
42559 TTGTGGTCGAAATGTTCTGGCAGATGATTAAGGAAGTCAGGCCGGATGATTTAACCTTTATT
66 TTGTGGTCGAAATGTTCTGGCAGATGATTAAGGAAGTCAGGCCGGATGATTTAACCTTTATT
42621 GC
1 GC
42623 TGTTCTAAGT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (127 bp):
GCAACGTAATGTCATGGCATGGAACGCTATGCTTAGTGGACTAACTATGCATGGACGAGGCCGAG
TTGTGGTCGAAATGTTCTGGCAGATGATTAAGGAAGTCAGGCCGGATGATTTAACCTTTATT
Found at i:50433 original size:9 final size:9
Alignment explanation
Indices: 50419--50444 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
50409 CGGTGATGAT
50419 GAGTTCGAC
1 GAGTTCGAC
50428 GAGTTCGAC
1 GAGTTCGAC
50437 GAGTTCGA
1 GAGTTCGA
50445 TCCGACTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (9 bp):
GAGTTCGAC
Found at i:50981 original size:51 final size:51
Alignment explanation
Indices: 50911--51144 Score: 242
Period size: 51 Copynumber: 4.8 Consensus size: 51
50901 TCCACCTCCT
* * * * *
50911 GAATTTGGATCTGGGTATGG-TGGAAGACCTGAGTATGGGGAACACGGATCC
1 GAATATGGATCTGGATATGGCAGGAA-ACCCGAGTATGGGGAACAAGGATCC
* *
50962 GAATATGGATCTGGATATGGCAGGAAACCCGATTATGTGGAACAAGGATCC
1 GAATATGGATCTGGATATGGCAGGAAACCCGAGTATGGGGAACAAGGATCC
* *
51013 GAATACGGATCTGGATATGGCAGGAAACCCGGGTATGGGGAACAAGGATCC
1 GAATATGGATCTGGATATGGCAGGAAACCCGAGTATGGGGAACAAGGATCC
*
51064 -------GA-----ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCC
1 GAATATGGATCTGGATATGGCAGGAAACCCGAGTATGGGGAACAAGGATCC
* * * *
51103 CACTACGGATCCGGATATGGCAGGAAACCCGAGTATGGGGAA
1 GAATATGGATCTGGATATGGCAGGAAACCCGAGTATGGGGAA
51145 TCCGAATCTG
Statistics
Matches: 157, Mismatches: 13, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
39 35 0.22
44 2 0.01
46 2 0.01
51 114 0.73
52 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.33, T:0.18
Consensus pattern (51 bp):
GAATATGGATCTGGATATGGCAGGAAACCCGAGTATGGGGAACAAGGATCC
Found at i:51073 original size:39 final size:39
Alignment explanation
Indices: 51027--51102 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
51017 ACGGATCTGG
* *
51027 ATATGGCAGGAAACCCGGGTATGGGGAACAAGGATCCGA
1 ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCGA
51066 ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCC
1 ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCC
51103 CACTACGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.33, T:0.13
Consensus pattern (39 bp):
ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCGA
Found at i:51094 original size:90 final size:90
Alignment explanation
Indices: 50976--51144 Score: 275
Period size: 90 Copynumber: 1.9 Consensus size: 90
50966 ATGGATCTGG
* * * * *
50976 ATATGGCAGGAAACCCGATTATGTGGAACAAGGATCCGAATACGGATCTGGATATGGCAGGAAAC
1 ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCCAATACGGATCCGGATATGGCAGGAAAC
*
51041 CCGGGTATGGGGAACAAGGATCCGA
66 CCGAGTATGGGGAACAAGGATCCGA
*
51066 ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCCACTACGGATCCGGATATGGCAGGAAAC
1 ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCCAATACGGATCCGGATATGGCAGGAAAC
51131 CCGAGTATGGGGAA
66 CCGAGTATGGGGAA
51145 TCCGAATCTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.34, C:0.19, G:0.32, T:0.15
Consensus pattern (90 bp):
ATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCCAATACGGATCCGGATATGGCAGGAAAC
CCGAGTATGGGGAACAAGGATCCGA
Found at i:51160 original size:90 final size:90
Alignment explanation
Indices: 50970--51161 Score: 269
Period size: 90 Copynumber: 2.1 Consensus size: 90
50960 CCGAATATGG
* * * * *
50970 ATCTGGATATGGCAGGAAACCCGATTATGTGGAACAAGGATCCGAATACGGATCTGGATATGGCA
1 ATCTGGATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCCAATACGGATCCGGATATGGCA
* *
51035 GGAAACCCGGGTATGGGGAACAAGG
66 GGAAACCCGAGTATGGGGAACAAGA
* * *
51060 ATCCGAATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCCACTACGGATCCGGATATGGCA
1 ATCTGGATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCCAATACGGATCCGGATATGGCA
*
51125 GGAAACCCGAGTATGGGGAATC-CGA
66 GGAAACCCGAGTATGGGGAA-CAAGA
51150 ATCTGGATATGG
1 ATCTGGATATGG
51162 ATCTGGGTAT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 87 0.99
91 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.32, T:0.17
Consensus pattern (90 bp):
ATCTGGATATGGCAGGAAACCCGAGTATGGGGAACAAGAATCCCAATACGGATCCGGATATGGCA
GGAAACCCGAGTATGGGGAACAAGA
Found at i:57396 original size:31 final size:31
Alignment explanation
Indices: 57305--57406 Score: 136
Period size: 31 Copynumber: 3.3 Consensus size: 31
57295 GAGTCGAGGG
*
57305 TTACCTATGT-ATTTCGAGACATATGGAAAGT
1 TTACCTATGTCA-TTCGAGACATATGGACAGT
*
57336 TTACCTATGTCTTTCGAGACATATGGACAGT
1 TTACCTATGTCATTCGAGACATATGGACAGT
* *
57367 TTACCTATGTCATTCGGGACATATAGACAG-
1 TTACCTATGTCATTCGAGACATATGGACAGT
*
57397 TTACTTATGT
1 TTACCTATGT
57407 TCTCCGGAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
30 9 0.14
31 55 0.86
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCATTCGAGACATATGGACAGT
Found at i:57419 original size:30 final size:31
Alignment explanation
Indices: 57323--57420 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
57313 GTATTTCGAG
* * * *
57323 ACATATGGAAAGTTTACCTATGTCTTTC-GA
1 ACATATAGACAGTTTACCTATGTCATCCGGA
* * *
57353 GACATATGGACAGTTTACCTATGTCATTCGGG
1 -ACATATAGACAGTTTACCTATGTCATCCGGA
*
57385 ACATATAGACAG-TTACTTATGTTC-TCCGGA
1 ACATATAGACAGTTTACCTATG-TCATCCGGA
57415 ACATAT
1 ACATAT
57421 GGATAGGTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.31
31 39 0.67
32 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (31 bp):
ACATATAGACAGTTTACCTATGTCATCCGGA
Found at i:58705 original size:17 final size:19
Alignment explanation
Indices: 58683--58725 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
58673 GAAACATTGA
*
58683 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
58700 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
58719 ATGCACT
1 ATGCACT
58726 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Done.