Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000563.1 Hibiscus syriacus cultivar Beakdansim tig00001101_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: 75521
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:518 original size:23 final size:24
Alignment explanation
Indices: 488--532 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
478 TCGATATCAG
*
488 AGATTAATGTA-AAATTTTATGCT
1 AGATTAATATATAAATTTTATGCT
511 AGATTAATATATAAATTTTATG
1 AGATTAATATATAAATTTTATG
533 GACGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (24 bp):
AGATTAATATATAAATTTTATGCT
Found at i:2345 original size:5 final size:5
Alignment explanation
Indices: 2335--2378 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
2325 AACGATCAAC
* *
2335 GGTCG GGTCG GGTC- GGTCG GTTAG GGTC- GGTCG GGTCG GGTCG G
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG G
2379 TTCAGACCGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.02, C:0.18, G:0.57, T:0.23
Consensus pattern (5 bp):
GGTCG
Found at i:2353 original size:14 final size:14
Alignment explanation
Indices: 2334--2379 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
2324 CAACGATCAA
2334 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
* *
2348 CGGTCGGTTAGGGT
1 CGGTCGGGTCGGGT
2362 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
2376 CGGT
1 CGGT
2380 TCAGACCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.02, C:0.20, G:0.54, T:0.24
Consensus pattern (14 bp):
CGGTCGGGTCGGGT
Found at i:2390 original size:19 final size:19
Alignment explanation
Indices: 2375--2412 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2365 TCGGGTCGGG
2375 TCGGTTCAGACCGGTCAAA
1 TCGGTTCAGACCGGTCAAA
*
2394 TCGGTTTAGACCGGTCAAA
1 TCGGTTCAGACCGGTCAAA
2413 CCGATCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (19 bp):
TCGGTTCAGACCGGTCAAA
Found at i:2390 original size:28 final size:25
Alignment explanation
Indices: 2334--2380 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
2324 CAACGATCAA
2334 CGGTCGGGTCGGGTCGGTCGGTTAG
1 CGGTCGGGTCGGGTCGGTCGGTTAG
2359 -GGTC-GGTCGGGTCGGGTCGGTT
1 CGGTCGGGTCGGGTC-GGTCGGTT
2381 CAGACCGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.02, C:0.19, G:0.53, T:0.26
Consensus pattern (25 bp):
CGGTCGGGTCGGGTCGGTCGGTTAG
Found at i:9650 original size:5 final size:5
Alignment explanation
Indices: 9640--9669 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9630 AACGATCAAC
9640 GGTCG GGTCG GGTCG GGTC- GGTCG GGTCG G
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG G
9670 ACTGGTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:9662 original size:14 final size:15
Alignment explanation
Indices: 9640--9669 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9630 AACGATCAAC
9640 GGTCGGGTCGGGTCG
1 GGTCGGGTCGGGTCG
9655 GGTC-GGTCGGGTCG
1 GGTCGGGTCGGGTCG
9669 G
1 G
9670 ACTGGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (15 bp):
GGTCGGGTCGGGTCG
Found at i:9664 original size:9 final size:9
Alignment explanation
Indices: 9639--9669 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
9629 CAACGATCAA
9639 CGGTCGGGT
1 CGGTCGGGT
9648 CGGGTCGGGT
1 C-GGTCGGGT
9658 CGGTCGGGT
1 CGGTCGGGT
9667 CGG
1 CGG
9670 ACTGGTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.00, C:0.23, G:0.58, T:0.19
Consensus pattern (9 bp):
CGGTCGGGT
Found at i:9703 original size:19 final size:19
Alignment explanation
Indices: 9675--9711 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9665 GTCGGACTGG
* *
9675 TCAAACCGGTTCAGACCGA
1 TCAAAACGGTTCAAACCGA
9694 TCAAAACGGTTCAAACCG
1 TCAAAACGGTTCAAACCG
9712 GTCGAAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.16
Consensus pattern (19 bp):
TCAAAACGGTTCAAACCGA
Found at i:14681 original size:14 final size:14
Alignment explanation
Indices: 14662--14691 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14652 TTAAAGATTC
14662 AGTTAGAGTCTGTT
1 AGTTAGAGTCTGTT
14676 AGTTAGAGTCTGTT
1 AGTTAGAGTCTGTT
14690 AG
1 AG
14692 GCTTAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (14 bp):
AGTTAGAGTCTGTT
Found at i:15842 original size:18 final size:18
Alignment explanation
Indices: 15742--15830 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
15732 CTGTGTCACA
15742 AATGATAATCGTGCTTCC
1 AATGATAATCGTGCTTCC
15760 AATGATAATCGTGCTTCC
1 AATGATAATCGTGCTTCC
* ** *
15778 AATGGTCGTCGTCCTTCC
1 AATGATAATCGTGCTTCC
* *
15796 TACGATAATCGTGCTTCC
1 AATGATAATCGTGCTTCC
*
15814 AATGATCATCGTGCTTC
1 AATGATAATCGTGCTTC
15831 TTACGATAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (18 bp):
AATGATAATCGTGCTTCC
Found at i:15855 original size:36 final size:36
Alignment explanation
Indices: 15742--15842 Score: 130
Period size: 36 Copynumber: 2.8 Consensus size: 36
15732 CTGTGTCACA
* * * *
15742 AATGATAATCGTGCTTCCAATGATAATCGTGCTTCC
1 AATGATCATCGTCCTTCCTACGATAATCGTGCTTCC
* *
15778 AATGGTCGTCGTCCTTCCTACGATAATCGTGCTTCC
1 AATGATCATCGTCCTTCCTACGATAATCGTGCTTCC
* *
15814 AATGATCATCGTGCTTCTTACGATAATCG
1 AATGATCATCGTCCTTCCTACGATAATCG
15843 GACTTTCTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (36 bp):
AATGATCATCGTCCTTCCTACGATAATCGTGCTTCC
Found at i:15857 original size:54 final size:54
Alignment explanation
Indices: 15743--15858 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
15733 TGTGTCACAA
* * ** **
15743 ATGATAATCGTGCTTCCAATGATAATCGTGCTTCCAATGGTCGTCGTCCTTCCT
1 ATGATAATCGTGCTTCCAATGATAATCGTGCTTCCAACGATAATCGGACTTCCT
* * ** *
15797 ACGATAATCGTGCTTCCAATGATCATCGTGCTTCTTACGATAATCGGACTTTCT
1 ATGATAATCGTGCTTCCAATGATAATCGTGCTTCCAACGATAATCGGACTTCCT
15851 ATGATAAT
1 ATGATAAT
15859 TGTGGTTTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (54 bp):
ATGATAATCGTGCTTCCAATGATAATCGTGCTTCCAACGATAATCGGACTTCCT
Found at i:19384 original size:14 final size:14
Alignment explanation
Indices: 19365--19394 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
19355 TTAAAGATTC
19365 AGTTAGAGTCTGTT
1 AGTTAGAGTCTGTT
19379 AGTTAGAGTCTGTT
1 AGTTAGAGTCTGTT
19393 AG
1 AG
19395 GCTTAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (14 bp):
AGTTAGAGTCTGTT
Found at i:22340 original size:42 final size:42
Alignment explanation
Indices: 22289--22414 Score: 252
Period size: 42 Copynumber: 3.0 Consensus size: 42
22279 TAAATCGAAA
22289 CGAAAATTTAAAATTACTATATATATTATATTAAAAATCTAT
1 CGAAAATTTAAAATTACTATATATATTATATTAAAAATCTAT
22331 CGAAAATTTAAAATTACTATATATATTATATTAAAAATCTAT
1 CGAAAATTTAAAATTACTATATATATTATATTAAAAATCTAT
22373 CGAAAATTTAAAATTACTATATATATTATATTAAAAATCTAT
1 CGAAAATTTAAAATTACTATATATATTATATTAAAAATCTAT
22415 TTTCAGTCTG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 84 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (42 bp):
CGAAAATTTAAAATTACTATATATATTATATTAAAAATCTAT
Found at i:23292 original size:23 final size:23
Alignment explanation
Indices: 23261--23333 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
23251 ATAGGTAAAA
*
23261 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
23284 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
23307 ATATAATATAATAGGAAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
23330 ATAT
1 ATAT
23334 TGTAAAATAT
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:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:23769 original size:23 final size:23
Alignment explanation
Indices: 23738--23810 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
23728 ATAGGTAAAA
*
23738 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
23761 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
23784 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
23807 ATAT
1 ATAT
23811 TGTAAAGTAT
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:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:24247 original size:23 final size:23
Alignment explanation
Indices: 24216--24288 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
24206 ATAGGTAAAA
*
24216 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
24239 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
24262 ATATAATATAATAGGAAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
24285 ATAT
1 ATAT
24289 TGTAAAGTAT
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:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:24591 original size:477 final size:477
Alignment explanation
Indices: 22838--26232 Score: 6163
Period size: 477 Copynumber: 7.1 Consensus size: 477
22828 TTTTTACATG
22838 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
22903 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGG--------T---T-AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
22968 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
119 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
23033 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
184 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
* *
23098 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAA
249 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
23163 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAA
314 CACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAA
23228 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
378 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
* *
23293 AATAGGTAGCGTTTATATAATATAATAGGAAGTGC
443 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * * *
23328 TTATATTGTAAAATATATATCCTTTTTATAAAAGTGTTCATACTTTTTTCACTGTGAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
23393 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
23458 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
* *
23523 TTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAT
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
23588 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
*
23653 AATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGAT-ATTTTTTATAAAAAGTATGGACA
326 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCA-TTTTTATAAAAAGTATGGACA
23717 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
390 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
23782 TTATATAATGTAATAGGTAGTGC
455 TTATATAATGTAATAGGTAGTGC
* *
23805 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTTCACTGTAGAAAACAT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTTCACTGTGGAAAACAT
*
23870 TAATTTAAGGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
65 TAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
23935 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
130 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
24000 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
195 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
* *
24065 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTAAAA
260 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
24130 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACA
325 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACA
24195 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
390 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
* *
24260 TTATATAATATAATAGGAAGTGC
455 TTATATAATGTAATAGGTAGTGC
* *
24283 TTATATTGTAAAGTATATATACTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
24348 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
24413 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
* *
24478 TTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAT
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
24543 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* *
24608 AATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGAT-ATTTTTTATAAAATGTATGGACA
326 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCA-TTTTTATAAAAAGTATGGACA
24672 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
390 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
24737 TTATATAATGTAATAGGTAGTGC
455 TTATATAATGTAATAGGTAGTGC
* *
24760 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTTCACTGTAGAAAACAT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTTCACTGTGGAAAACAT
*
24825 TAATTTAAGGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
65 TAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
24890 GTTACGG--TATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
130 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
24952 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
195 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
* *
25017 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTAAAA
260 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
25082 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACA
325 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACA
25147 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
390 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
*
25212 TTATATAATATAATAGGTAGTGC
455 TTATATAATGTAATAGGTAGTGC
* *
25235 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCAATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
25300 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
25365 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
* *
25430 TTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAT
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
25495 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
*
25560 AATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGAT-ATTTTTTATAAAAAGTATGGACA
326 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCA-TTTTTATAAAAAGTATGGACA
25624 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
390 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
25689 TTATATAATGTAATAGGTAGTGC
455 TTATATAATGTAATAGGTAGTGC
* *
25712 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
25777 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
25842 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
25907 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
* *
25972 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAATACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* *
26037 AATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTCATAAAAAGTATGGACAC
326 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACAC
26102 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
391 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
26167 TATATAATGTAATAGGTAGTGC
456 TATATAATGTAATAGGTAGTGC
*
26189 TTATATTGTAAAGTATCTATCCTTTTAATAAAAGTGTCCATACT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACT
26233 GTAACCCCCC
Statistics
Matches: 2812, Mismatches: 82, Indels: 35
0.96 0.03 0.01
Matches are distributed among these distances:
474 90 0.03
475 365 0.13
476 12 0.00
477 1482 0.53
478 790 0.28
479 2 0.00
482 1 0.00
490 70 0.02
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (477 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACAC
TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
TATATAATGTAATAGGTAGTGC
Found at i:24724 original size:23 final size:23
Alignment explanation
Indices: 24693--24765 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
24683 ATAGGTAAAA
*
24693 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
24716 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
24739 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
24762 ATAT
1 ATAT
24766 TGTAAAGTAT
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:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:25199 original size:23 final size:23
Alignment explanation
Indices: 25168--25240 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
25158 ATAGGTAAAA
*
25168 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
25191 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
25214 ATATAATATAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
25237 ATAT
1 ATAT
25241 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:25315 original size:952 final size:953
Alignment explanation
Indices: 22838--26232 Score: 6416
Period size: 952 Copynumber: 3.5 Consensus size: 953
22828 TTTTTACATG
* *
22838 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
*
22903 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGG---TC---------AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
22968 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
119 TTATTTTTTACGTTACGG-ATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
23033 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
183 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
23098 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAA
248 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAA
23163 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAA
313 CACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAA
23228 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
377 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
*
23293 AATAGGTAGCGTTTATATAATATAATAGGAAGTGCTTATATTGTAAAATATATATCCTTTTTATA
442 AATAGGTAGCGTTTATATAATATAATAGGAAGTGCTTATATTGTAAAGTATATATCCTTTTTATA
* *
23358 AAAGTGTTCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTT
507 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTT
23423 AGTAATTATATGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAA
572 AGTAATTATATGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAA
23488 CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTACATTTAAATTCTAA
637 CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTACATTTAAATTCTAA
23553 ATAATATTTTATAAAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAA
702 ATAATATTTTATAAAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAA
23618 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTCAAACATAAATTACATAACTTTAAAA
767 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTCAAACATAAATTACATAACTTTAAAA
23683 AAAGTATCGATATTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
832 AAAGTATCGATATTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTA
23748 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
897 ATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
23805 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTTCACTGTAGAAAACAT
1 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATAC-TTTTTTCACTGTAGAAAACAT
23870 TAATTTAAGGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
65 TAATTTAAGGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
23935 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
130 GTTACGG-ATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
24000 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
194 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
24065 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTAAAA
259 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTAAAA
*
24130 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACA
324 AAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAAAAGTATGGACA
24195 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
389 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
*
24260 TTATATAATATAATAGGAAGTGCTTATATTGTAAAGTATATATACTTTTTATAAAAGTGTCCATA
454 TTATATAATATAATAGGAAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATA
24325 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATATG
519 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATATG
24390 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATAT
584 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATAT
24455 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTAT
649 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTAT
24520 AAAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
714 AAAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
24585 AAAACATGAAACACTATTAAAAAAATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGATA
779 AAAACATGAAACACTATTAAAAAAATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGATA
*
24650 TTTTTTATAAAATGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
844 TTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
24715 TATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
909 TATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
24760 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTTCACTGTAGAAAACAT
1 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATAC-TTTTTTCACTGTAGAAAACAT
24825 TAATTTAAGGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
65 TAATTTAAGGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
24890 GTTACGG-TATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
130 GTTACGGATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
24953 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
195 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
25018 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTAAAAA
260 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTAAAAA
*
25083 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACAC
325 AATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAAAAGTATGGACAC
25148 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
390 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
* *
25213 TATATAATATAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCAATAC
455 TATATAATATAATAGGAAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATAC
25278 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATATGC
520 TTTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATATGC
25343 GTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATA
585 GTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATA
25408 TATTACATATTTATTATTATCTTTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTATA
650 TATTACATATTTATTATTATCTTTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTATA
25473 AAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
715 AAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
25538 AAACATGAAACACTATTAAAAAAATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGATAT
780 AAACATGAAACACTATTAAAAAAATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGATAT
25603 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
845 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
25668 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
910 ATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
25712 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
1 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
*
25777 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
25842 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGG-ATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
25907 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
195 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
* * * *
25972 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAATACTATTAAAAA
260 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTAAAAA
*
26037 AATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTCATAAAAAGTATGGACAC
325 AATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAAAAGTATGGACAC
26102 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
390 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
* * * *
26167 TATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTAATAAAAGTGTCCATAC
455 TATATAATATAATAGGAAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATAC
26232 T
520 T
26233 GTAACCCCCC
Statistics
Matches: 2400, Mismatches: 24, Indels: 21
0.98 0.01 0.01
Matches are distributed among these distances:
951 92 0.04
952 850 0.35
953 8 0.00
954 368 0.15
955 765 0.32
956 243 0.10
965 2 0.00
967 42 0.02
968 30 0.01
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (953 bp):
TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
AATTTAAGGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
TTACGGATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTT
TGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAT
TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGAGAAAAACATGAAACACTATTAAAAAA
ATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCATTTTTATAAAAAGTATGGACACT
TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTT
ATATAATATAATAGGAAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACT
TTTTTCACTGTGGAAAACATTAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATATGCG
TCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATAT
ATTACATATTTATTATTATCTTTGGTTAATATTGTTACATTTAAATTCTAAATAATATTTTATAA
AATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAA
AACATGAAACACTATTAAAAAAATTCAAACATAAATTACATAACTTTAAAAAAAGTATCGATATT
TTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTA
TATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:25676 original size:23 final size:23
Alignment explanation
Indices: 25645--25717 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
25635 ATAGGTAAAA
*
25645 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
25668 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
25691 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
25714 ATAT
1 ATAT
25718 TGTAAAGTAT
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:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:26153 original size:23 final size:23
Alignment explanation
Indices: 26122--26194 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
26112 ATAGGTAAAA
*
26122 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
26145 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
26168 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
26191 ATAT
1 ATAT
26195 TGTAAAGTAT
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:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:27003 original size:24 final size:24
Alignment explanation
Indices: 26976--27082 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 24
26966 AAACGGAGAT
*
26976 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
27000 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
27024 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
27048 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
27072 ATCAGAAATCA
1 ATCAGAAATCA
27083 GATAAAATAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:27082 original size:48 final size:48
Alignment explanation
Indices: 26976--27084 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
26966 AAACGGAGAT
* * * *
26976 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
27024 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
27072 ATCAGAAATCAGA
1 ATCAGAAATCAGA
27085 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:28111 original size:29 final size:29
Alignment explanation
Indices: 28042--28150 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 29
28032 ATAGGTCATG
* ** *
28042 AGGGTGCTATTTTGGTAATTTTTTTTGAAA
1 AGGGTGCTATTTTGGGAA-TTAATTCGAAA
* * *
28072 AAGGTGATATTCTGGGAATTAATTC-AAA
1 AGGGTGCTATTTTGGGAATTAATTCGAAA
* *
28100 ATTGGTGCTATTTTGGGATTTAATTCGAAA
1 A-GGGTGCTATTTTGGGAATTAATTCGAAA
*
28130 AGGGTGCTATTTTGGTAATTA
1 AGGGTGCTATTTTGGGAATTA
28151 TTTAAAAAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 4 0.06
29 41 0.65
30 18 0.29
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (29 bp):
AGGGTGCTATTTTGGGAATTAATTCGAAA
Found at i:30024 original size:23 final size:23
Alignment explanation
Indices: 29956--30027 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
29946 ATAGGTAAAA
* *
29956 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
*
29979 ATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
30002 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
30025 ATA
1 ATA
30028 GTGTAAAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:30525 original size:20 final size:19
Alignment explanation
Indices: 30502--30548 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
30492 CGATATACCA
30502 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
30522 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
30542 GGTAAAA
1 GGTAAAA
30549 CGTTACCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:32846 original size:15 final size:15
Alignment explanation
Indices: 32826--32854 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32816 GTTGTATTGG
32826 GGGATGACGGTGAGT
1 GGGATGACGGTGAGT
32841 GGGATGACGGTGAG
1 GGGATGACGGTGAG
32855 GGAAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.55, T:0.17
Consensus pattern (15 bp):
GGGATGACGGTGAGT
Found at i:32965 original size:21 final size:21
Alignment explanation
Indices: 32939--33003 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
32929 AAGACAATCA
*
32939 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
32960 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
32981 AGAGTCAAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
33002 AG
1 AG
33004 GCATAAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:33079 original size:33 final size:33
Alignment explanation
Indices: 33037--33099 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
33027 AAATAGATGG
*
33037 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
33070 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGG
33100 GTGATATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:34922 original size:19 final size:19
Alignment explanation
Indices: 34898--34946 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
34888 AATGTAGGGT
34898 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
34917 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
34936 TAATTTTGTAT
1 TAATTTTGTAT
34947 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:36360 original size:200 final size:200
Alignment explanation
Indices: 35180--36341 Score: 2035
Period size: 200 Copynumber: 5.8 Consensus size: 200
35170 AATTTACAAT
* * * *
35180 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCTATATATAAAAAGTGTTGATCCCATAAATAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
35245 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCAGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
35310 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
35375 AATGA
196 AATGA
*
35380 ATGGCAAACAGGGTGCAACAAT-AAGTGTCGATCCATATA-AAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
35443 CGAAACCCATAAGTATAATATAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTGT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
35508 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
35573 AATGA
196 AATGA
35578 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
35643 CGAAACCCATAAGTTTAATGTAATAGGTAATTTGTCAATCTAACCGGTACAAGTATATCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
35708 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
35773 AATGA
196 AATGA
35778 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
35843 CGAAACCCATAA-TCATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTT
66 CGAAACCCATAAGT-ATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
*
35907 TATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
35972 GAATGA
195 GAATGA
*
35978 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
36043 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
36108 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
36173 AATGA
196 AATGA
* * *
36178 ATGGTAAACAGGGTGCAACCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * *
36243 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACAGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
36308 ATGAGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT
36342 GTTTAATGTT
Statistics
Matches: 925, Mismatches: 32, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
198 173 0.19
199 34 0.04
200 714 0.77
201 4 0.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:37852 original size:12 final size:12
Alignment explanation
Indices: 37830--37887 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
37820 CAAGCGGTCA
*
37830 ATGAAGATGAAG
1 ATGACGATGAAG
*
37842 CTGACGATGAAG
1 ATGACGATGAAG
* *
37854 ATGACGACGATG
1 ATGACGATGAAG
* *
37866 ATGATGATGATG
1 ATGACGATGAAG
*
37878 ATGATGATGA
1 ATGACGATGA
37888 TGATCCAAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:37868 original size:3 final size:3
Alignment explanation
Indices: 37847--37891 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
37837 TGAAGCTGAC
* * *
37847 GAT GAA GAT GAC GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
37892 CCAAACAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.36, C:0.04, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:39452 original size:183 final size:182
Alignment explanation
Indices: 39100--39505 Score: 679
Period size: 183 Copynumber: 2.2 Consensus size: 182
39090 CAAAGTTTTC
*
39100 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
39165 CAAAAAGTGTCGATTGAAAAAATATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATT--AAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
39230 TAATCGGTATAAATATACCAGTTTTATGAACGAATAGGTCTACAACCTATATCG
129 TAACCGGTATAAATATACCAGTTTTATGAACGAATAGGTCTACAACCTATATCG
39284 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
39349 CAAAAAGTGTCGACATT-TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCG--ATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* **
39413 TAACCGGTATAAATATACCGGTTTTATGAGTGAATAGGTCTACAACCTATATCG
129 TAACCGGTATAAATATACCAGTTTTATGAACGAATAGGTCTACAACCTATATCG
*
39467 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
39506 TATAATGTAC
Statistics
Matches: 210, Mismatches: 10, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
183 131 0.62
184 76 0.36
186 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (182 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCAGTTTTATGAACGAATAGGTCTACAACCTATATCG
Found at i:42135 original size:22 final size:22
Alignment explanation
Indices: 42091--42135 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
42081 ATTACATAAC
*
42091 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
42113 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
42135 T
1 T
42136 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:42187 original size:23 final size:23
Alignment explanation
Indices: 42161--42224 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
42151 AAATATGATG
42161 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* *
42184 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
*
42207 TAATAGGTAGTGC-TATAT
1 TAATAGGTAGCGCTTATAT
42225 TGTAAAGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:42228 original size:20 final size:21
Alignment explanation
Indices: 42153--42229 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 21
42143 ATAGGTAAAA
42153 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGC-T
* *
42176 ATATAATATAATAGGTAGCGTTT
1 ATAT-ATGTAATAGGTAGCG-CT
*
42199 ATATAATGTAATAGGTAGTGCT
1 ATAT-ATGTAATAGGTAGCGCT
42221 ATAT-TGTAA
1 ATATATGTAA
42230 AGTATCTATC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
20 5 0.11
22 5 0.11
23 37 0.79
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (21 bp):
ATATATGTAATAGGTAGCGCT
Found at i:42623 original size:23 final size:22
Alignment explanation
Indices: 42578--42623 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
42568 ATTACATAAC
*
42578 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
42600 TTTATAAAAAAGTAT-GAACACTT
1 TTTA-AAAAAAGTATCGAAC-CTT
42623 T
1 T
42624 CAACATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:43036 original size:21 final size:21
Alignment explanation
Indices: 43012--43057 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
43002 CTAACGTTCT
*
43012 ATGACTATGAGCCAGATCCTG
1 ATGACTATGAGCCAGACCCTG
* *
43033 ATGACTCTGAGCCCGACCCTG
1 ATGACTATGAGCCAGACCCTG
43054 ATGA
1 ATGA
43058 GTCTTCGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (21 bp):
ATGACTATGAGCCAGACCCTG
Found at i:43547 original size:21 final size:21
Alignment explanation
Indices: 43518--43579 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
43508 ATATAAATTG
* *
43518 TGTATCGATGCACTACTACAA
1 TGTACCGATGCACTGCTACAA
43539 TGTACCGATGCACTGCTACAA
1 TGTACCGATGCACTGCTACAA
43560 TGTACCGATGCACTGCTACA
1 TGTACCGATGCACTGCTACA
43580 GTAACTTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (21 bp):
TGTACCGATGCACTGCTACAA
Found at i:43919 original size:19 final size:18
Alignment explanation
Indices: 43869--43919 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 18
43859 GTCATCGACT
*
43869 TAATGAGGCATAATAATAA
1 TAATGATGCATAAT-ATAA
*
43888 TAACGATG-A-AATATAA
1 TAATGATGCATAATATAA
43904 TAATGATGCTATAATA
1 TAATGATGC-ATAATA
43920 AGATAAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 11 0.42
17 3 0.12
18 2 0.08
19 10 0.38
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (18 bp):
TAATGATGCATAATATAA
Found at i:44317 original size:23 final size:23
Alignment explanation
Indices: 44289--44355 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
44279 AATACATATA
44289 TGTCCCAAAGGACCACGTAGAAT
1 TGTCCCAAAGGACCACGTAGAAT
44312 TGTCCCAAAGGACCACGTAGAAT
1 TGTCCCAAAGGACCACGTAGAAT
* *
44335 TGTCCCGAAGGACCGCGTAGA
1 TGTCCCAAAGGACCACGTAGA
44356 CCCTCTACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.16
Consensus pattern (23 bp):
TGTCCCAAAGGACCACGTAGAAT
Found at i:62772 original size:23 final size:23
Alignment explanation
Indices: 62735--62796 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
62725 TTATCAAGTA
* * *
62735 AAATAACAAATTAGGTAGCGCTT
1 AAATAATAAAATAGGTAGCACTT
**
62758 AAATAATGTAATAGGTAGCACTT
1 AAATAATAAAATAGGTAGCACTT
*
62781 ATATAATAAAATAGGT
1 AAATAATAAAATAGGT
62797 TAATTACTAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (23 bp):
AAATAATAAAATAGGTAGCACTT
Found at i:62869 original size:87 final size:87
Alignment explanation
Indices: 62719--62958 Score: 372
Period size: 87 Copynumber: 2.8 Consensus size: 87
62709 CATTTAACCG
* * * *
62719 GAAATATTATCAAGTAAAATAACAAATTAGGTAGCGCTTAAATAATGTAATAGGTAGCACTTATA
1 GAAATATTATCAAGCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
62784 TAATAAAATAGGTTAATTACTA
66 TAATAAAATAGGTTAATTACTA
* * ** *
62806 GAAATATTATCAAGCATAATAACATATTAGGTAACATTTATATAATGTAATAGGCAGCGCTTATA
1 GAAATATTATCAAGCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
*
62871 TAATAAAATAGGTTAATTACTG
66 TAATAAAATAGGTTAATTACTA
* *
62893 GAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATATGTAGCGCTTATA
1 GAAATATTATCAAGCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
62958 T
66 T
62959 TGACATATTC
Statistics
Matches: 137, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 137 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.33
Consensus pattern (87 bp):
GAAATATTATCAAGCAAAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
TAATAAAATAGGTTAATTACTA
Found at i:63314 original size:198 final size:199
Alignment explanation
Indices: 62971--63637 Score: 945
Period size: 198 Copynumber: 3.4 Consensus size: 199
62961 ACATATTCTA
* * *
62971 TCATAAAACCGGTATATTTATACCGGCAACATTGCAAATTTACCTATTACATTATAATTATTGGT
1 TCATAAAACCGGTATATTTATACCGGCTACATTGTAAATTTACCTATTACATTATAATTATCGGT
* * * *
63036 TTCGATGTTTTTGGGATGGATACAATTT--TAAATGTATCGACATTTTATGCGTGCACCTCGTTG
66 TTCGATATTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTG
*
63099 GACATTCATTTTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTA
130 GACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTA
63164 TTTTC
195 TTTTC
* * *
63169 TCATAAAACTGGTATATTTCTACCGAG-TACATTGTAAATTTACCTATTACATTGTAATTATCGG
1 TCATAAAACCGGTATATTTATACCG-GCTACATTGTAAATTTACCTATTACATTATAATTATCGG
*
63233 TTTCGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGATACTTTATGCGTGCACCTCGTTG
65 TTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTG
* *
63297 GACATTCATTCTGGAAAAAAGTATCGACGCAAACTTAAAACGTGTCGATACATTATGTAGATCTA
130 GACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTA
63362 TTTTC
195 TTTTC
* * * * *
63367 TCATAAAACCGATATATTTCTACCGAG-TACATTATAAATTTACATATTACATTGTAATTATCGG
1 TCATAAAACCGGTATATTTATACCG-GCTACATTGTAAATTTACCTATTACATTATAATTATCGG
*
63431 TTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTT
65 TTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTG
* ** **
63496 GTCATTCATTCTGGACAAAATA-TATCGACAC--TTTTCAAATTTGTGTCGATACATTATGTAGA
130 GACATTCATTCTGGA-AAAA-AGTATCGACACAAACTT-AAA-ACGTGTCGATACATTATGTAGA
*
63558 CCTATTCTC
191 CCTATTTTC
* * * *
63567 TCATAAAACCGGTATATTTATACTGGTTACATTGTAAATTTAGCTATTACATTATAATTATCTGT
1 TCATAAAACCGGTATATTTATACCGGCTACATTGTAAATTTACCTATTACATTATAATTATCGGT
63632 TTCGAT
66 TTCGAT
63638 GTAACATATG
Statistics
Matches: 425, Mismatches: 35, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
196 3 0.01
197 15 0.04
198 232 0.55
199 74 0.17
200 100 0.24
201 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
TCATAAAACCGGTATATTTATACCGGCTACATTGTAAATTTACCTATTACATTATAATTATCGGT
TTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGG
ACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTAT
TTTC
Found at i:63856 original size:14 final size:15
Alignment explanation
Indices: 63814--63858 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
63804 AGTTATAGAT
*
63814 ATAATATTTTAATAA
1 ATAATATTTAAATAA
*
63829 A-AATATTTACATAA
1 ATAATATTTAAATAA
63843 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
63857 AT
1 AT
63859 TATTCTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:64556 original size:33 final size:32
Alignment explanation
Indices: 64472--64590 Score: 90
Period size: 33 Copynumber: 3.7 Consensus size: 32
64462 TTCTCATTAT
* *
64472 AATATAATTAATGATATATTATTCTTATTATAA-AA
1 AATATAA-TAATCATA-A-TATT-TTATTTTAATAA
*
64507 AATAT-ATAATTTATAATAATTTTATTTTAATAA
1 AATATAATAA-TCATAAT-ATTTTATTTTAATAA
*
64540 AATATAATAATCATAATTTTTTA-TTT-ATAA
1 AATATAATAATCATAATATTTTATTTTAATAA
64570 AAT-T-ATAGAT-ATAATATTTTA
1 AATATAATA-ATCATAATATTTTA
64591 ATAATAATAT
Statistics
Matches: 74, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
28 13 0.18
29 3 0.04
30 7 0.09
31 3 0.04
32 14 0.19
33 20 0.27
34 9 0.12
35 5 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (32 bp):
AATATAATAATCATAATATTTTATTTTAATAA
Found at i:64597 original size:14 final size:14
Alignment explanation
Indices: 64507--64616 Score: 57
Period size: 14 Copynumber: 7.9 Consensus size: 14
64497 TATTATAAAA
*
64507 AATATATAAT-TTAT
1 AATA-ATAATATTTT
**
64521 AATAATTTTATTTT
1 AATAATAATATTTT
**
64535 AATAA-AATATAAT
1 AATAATAATATTTT
* *
64548 AATCATAATTTTTT
1 AATAATAATATTTT
* * * *
64562 ATTTATAAAATTAT
1 AATAATAATATTTT
64576 AGAT-ATAATATTTT
1 A-ATAATAATATTTT
64590 AATAATAATA-TTT
1 AATAATAATATTTT
64603 ACATAAATAATATT
1 A-AT-AATAATATT
64617 AAATAAATTA
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
13 17 0.24
14 44 0.63
15 8 0.11
16 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (14 bp):
AATAATAATATTTT
Found at i:64597 original size:28 final size:28
Alignment explanation
Indices: 64529--64597 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
64519 ATAATAATTT
*
64529 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
64556 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
64584 TATTTTAATAATAA
1 TATTTTAATAATAA
64598 TATTTACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:64622 original size:14 final size:15
Alignment explanation
Indices: 64580--64624 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
64570 AATTATAGAT
*
64580 ATAATATTTTAAT-A
1 ATAATATTTAAATAA
*
64594 ATAATATTTACATAA
1 ATAATATTTAAATAA
64609 ATAATA-TTAAATAA
1 ATAATATTTAAATAA
64623 AT
1 AT
64625 TATTCTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATTTAAATAA
Found at i:64640 original size:22 final size:22
Alignment explanation
Indices: 64615--64687 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
64605 ATAAATAATA
64615 TTAAATAAATTATTCTTATATT
1 TTAAATAAATTATTCTTATATT
*
64637 TTAAA-AATATTATTATT-T-TT
1 TTAAATAA-ATTATTCTTATATT
*
64657 TTTAATAAATTATTCTTATA-T
1 TTAAATAAATTATTCTTATATT
*
64678 TTACATAAAT
1 TTAAATAAAT
64688 AATATTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 14 0.33
21 15 0.36
22 13 0.31
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TTAAATAAATTATTCTTATATT
Found at i:65087 original size:23 final size:23
Alignment explanation
Indices: 65061--65111 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
65051 CCAGTAATTA
**
65061 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
65084 ACCTATTACATTATATAAGCGGT
1 ACCTATTACATTATATAAGCGCT
65107 ACCTA
1 ACCTA
65112 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:65099 original size:87 final size:87
Alignment explanation
Indices: 64966--65194 Score: 379
Period size: 87 Copynumber: 2.6 Consensus size: 87
64956 TAACAAATTA
*
64966 AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGTGTTACCTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGTTACCTAATATGT
65031 TATTGTGCTTAATAATATTTCC
66 TATTGTGCTTAATAATATTTCC
* * *
65053 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGTTACCTAATATGT
* * *
65118 TATTGTGCTTGATTATGTTTCC
66 TATTGTGCTTAATAATATTTCC
*
65140 AATAATTAACCTATTTTATTATATAA-CACTACCTATTACATTATATTAGCGTTAC
1 AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGTTAC
65195 TTATTAAATT
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
86 26 0.20
87 105 0.80
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (87 bp):
AATAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAAGCGTTACCTAATATGT
TATTGTGCTTAATAATATTTCC
Found at i:65200 original size:109 final size:110
Alignment explanation
Indices: 65061--65330 Score: 398
Period size: 109 Copynumber: 2.5 Consensus size: 110
65051 CCAGTAATTA
**
65061 ACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
* *
65126 TTGATTATGTTTCCAATAATTAACCTATTTTATTATATAA-CACT
66 TTGATAATGTTTCCAATAATTAACATATTTTATTATATAAGCACT
* * * *
65170 ACCTATTACATTATATTAGCGTTACTTATTAAATTATATAAGCGGTACCTAATATGTTATTGTGC
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
* * *
65235 TTGATAATGTTTCTAGTAATTAACATATTTTATTATATAAGCGCT
66 TTGATAATGTTTCCAATAATTAACATATTTTATTATATAAGCACT
* * * *
65280 ATCTATTACATTATATAAACGCTACCTATTACATTATATAAGTGCTACCTA
1 ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTA
65331 TTACATCATA
Statistics
Matches: 141, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
109 95 0.67
110 46 0.33
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (110 bp):
ACCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGC
TTGATAATGTTTCCAATAATTAACATATTTTATTATATAAGCACT
Found at i:65292 original size:23 final size:23
Alignment explanation
Indices: 65266--65341 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
65256 AACATATTTT
*
65266 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
65289 ATTATATAAACGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
65312 ATTATATAAGTGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
65335 ATCATAT
1 ATTATAT
65342 TTTTACCTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:65973 original size:11 final size:11
Alignment explanation
Indices: 65957--65982 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65947 ATCCGGTAAT
65957 GTCGTATATTA
1 GTCGTATATTA
65968 GTCGTATATTA
1 GTCGTATATTA
65979 GTCG
1 GTCG
65983 CATTTCCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (11 bp):
GTCGTATATTA
Found at i:66825 original size:26 final size:25
Alignment explanation
Indices: 66792--66870 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
66782 GTTGGAGTGA
*
66792 TTTT-AGGTTAAAGTTGTATAGGGT
1 TTTTAAGGTTAAAGTGGTATAGGGT
* *
66816 TTGTTAAGGTGAAAGTGGTGA-AGGAT
1 TT-TTAAGGTTAAAGTGGT-ATAGGGT
*
66842 TTTGT-AGGTTAAAGTGGTTTAGGGT
1 TTT-TAAGGTTAAAGTGGTATAGGGT
66867 TTTT
1 TTTT
66871 TAATGTGAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
24 3 0.07
25 22 0.50
26 18 0.41
27 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (25 bp):
TTTTAAGGTTAAAGTGGTATAGGGT
Found at i:66855 original size:25 final size:25
Alignment explanation
Indices: 66822--66910 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
66812 GGGTTTGTTA
*
66822 AGGTGAAAGTGGTGAAGGATTTTGT
1 AGGTGAAAGTGGTCAAGGATTTTGT
* ** * *
66847 AGGTTAAAGTGGTTTAGGGTTTTTT
1 AGGTGAAAGTGGTCAAGGATTTTGT
* * *
66872 AATGTGAGAGTGGTCAAGGATTGTGT
1 -AGGTGAAAGTGGTCAAGGATTTTGT
*
66898 AGGTTAAAGTGGT
1 AGGTGAAAGTGGT
66911 TTAAGGTAAG
Statistics
Matches: 47, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
25 30 0.64
26 17 0.36
ACGTcount: A:0.26, C:0.01, G:0.37, T:0.36
Consensus pattern (25 bp):
AGGTGAAAGTGGTCAAGGATTTTGT
Found at i:66865 original size:51 final size:51
Alignment explanation
Indices: 66795--66913 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
66785 GGAGTGATTT
* * * *
66795 TAGGTTAAAGTTGTATAGGGTTTGTTAAGGTGAAAGTGGTGAAGGATTTTG
1 TAGGTTAAAGTGGTTTAGGGTTTGTTAAGGTGAAAGTGGTCAAGGATTGTG
* * *
66846 TAGGTTAAAGTGGTTTAGGGTTTTTTAATGTGAGAGTGGTCAAGGATTGTG
1 TAGGTTAAAGTGGTTTAGGGTTTGTTAAGGTGAAAGTGGTCAAGGATTGTG
66897 TAGGTTAAAGTGGTTTA
1 TAGGTTAAAGTGGTTTA
66914 AGGTAAGGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.26, C:0.01, G:0.34, T:0.39
Consensus pattern (51 bp):
TAGGTTAAAGTGGTTTAGGGTTTGTTAAGGTGAAAGTGGTCAAGGATTGTG
Found at i:70534 original size:24 final size:25
Alignment explanation
Indices: 70506--70626 Score: 61
Period size: 24 Copynumber: 5.0 Consensus size: 25
70496 ACTTTAATTG
70506 GAATATAAAGTT-ACTTTGAATTTC
1 GAATATAAAGTTAACTTTGAATTTC
* ** * * *
70530 GAATACAATTTTAAATTTTAA-TTG
1 GAATATAAAGTTAACTTTGAATTTC
* * *
70554 GAATATGAAGTTGACATTGAATTTC
1 GAATATAAAGTTAACTTTGAATTTC
* ** * * *
70579 GAATACAATTTTAAATTGGAA-TTA
1 GAATATAAAGTTAACTTTGAATTTC
*
70603 GAATATTAAGTTGAA-TTTGAATTT
1 GAATATAAAGTT-AACTTTGAATTT
70627 TAAAAACATA
Statistics
Matches: 64, Mismatches: 29, Indels: 7
0.64 0.29 0.07
Matches are distributed among these distances:
24 39 0.61
25 25 0.39
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (25 bp):
GAATATAAAGTTAACTTTGAATTTC
Found at i:70588 original size:49 final size:49
Alignment explanation
Indices: 70498--70626 Score: 181
Period size: 49 Copynumber: 2.7 Consensus size: 49
70488 CATTATGAAC
*
70498 TTTAATTGGAATATAAAGTT-ACTTTGAATTTCGAATACAATTTTAAAT
1 TTTAATTGGAATATAAAGTTGACATTGAATTTCGAATACAATTTTAAAT
*
70546 TTTAATTGGAATATGAAGTTGACATTGAATTTCGAATACAATTTTAAAT
1 TTTAATTGGAATATAAAGTTGACATTGAATTTCGAATACAATTTTAAAT
** * *
70595 TGGAATTAGAATATTAAGTTGA-ATTTGAATTT
1 TTTAATTGGAATATAAAGTTGACA-TTGAATTT
70627 TAAAAACATA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
48 20 0.27
49 53 0.73
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (49 bp):
TTTAATTGGAATATAAAGTTGACATTGAATTTCGAATACAATTTTAAAT
Found at i:71210 original size:42 final size:42
Alignment explanation
Indices: 71138--71226 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
71128 AGGAATGTAA
* * *
71138 CCCTGTAGTGGTGGCATATGAAATGTTGGACTGGGCATATAC
1 CCCTGCAGAGGTGGCATATGAAATGGTGGACTGGGCATATAC
* * *
71180 CCCTGCAGAGGTGGCATCTGAACTGGTGGACTGGGCATGTAC
1 CCCTGCAGAGGTGGCATATGAAATGGTGGACTGGGCATATAC
71222 CCCTG
1 CCCTG
71227 AGACCTCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (42 bp):
CCCTGCAGAGGTGGCATATGAAATGGTGGACTGGGCATATAC
Found at i:72631 original size:22 final size:23
Alignment explanation
Indices: 72600--72659 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
72590 AATAAATTTA
*
72600 ATTATATAATAATTATATAA-AT
1 ATTATTTAATAATTATATAACAT
**
72622 ATTATTTAATAAAAATATAACAT
1 ATTATTTAATAATTATATAACAT
*
72645 ATT-TTAAATAATTAT
1 ATTATTTAATAATTAT
72660 TTATAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTATTTAATAATTATATAACAT
Found at i:72633 original size:25 final size:25
Alignment explanation
Indices: 72579--72666 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 25
72569 AATTAGCACA
*
72579 AATAATTAATTA-ATAAAT-TTAATT
1 AATAA-TAATTATATAAATATTATTT
72603 ATATAATAATTATATAAATATTATTT
1 A-ATAATAATTATATAAATATTATTT
*
72629 AATAA-AA--ATATAACATATT-TTA
1 AATAATAATTATATAA-ATATTATTT
*
72651 AATAATTATT-TATAAA
1 AATAATAATTATATAAA
72667 AAAATAATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
22 13 0.24
23 7 0.13
24 14 0.26
25 14 0.26
26 6 0.11
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (25 bp):
AATAATAATTATATAAATATTATTT
Found at i:72671 original size:18 final size:19
Alignment explanation
Indices: 72650--72689 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
72640 AACATATTTT
*
72650 AAATAATTA-TTTATAAAA
1 AAATAATAACTTTATAAAA
*
72668 AAATAATAACTTTTTAAAA
1 AAATAATAACTTTATAAAA
72687 AAA
1 AAA
72690 ATATACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATAATAACTTTATAAAA
Found at i:72683 original size:33 final size:32
Alignment explanation
Indices: 72617--72685 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 32
72607 AATAATTATA
*
72617 TAAATATTATTTAATAAAAATATAACATATTT
1 TAAATATTATTTAAAAAAAATATAACATATTT
72649 TAAATAATTATTTATAAAAAAATAATAAC-T-TTT
1 TAAAT-ATTATTTA-AAAAAAAT-ATAACATATTT
72682 TAAA
1 TAAA
72686 AAAAATATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
32 5 0.15
33 15 0.45
34 8 0.24
35 5 0.15
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (32 bp):
TAAATATTATTTAAAAAAAATATAACATATTT
Found at i:72702 original size:19 final size:20
Alignment explanation
Indices: 72651--72711 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
72641 ACATATTTTA
*
72651 AATAATTATTTATAAAAAAAT
1 AATAACTATTTA-AAAAAAAT
*
72672 AATAACTTTTTAAAAAAAAT
1 AATAACTATTTAAAAAAAAT
72692 -AT-ACTAATTTAAAAATAAAT
1 AATAACT-ATTTAAAAA-AAAT
72712 TTCTTACCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 10 0.29
20 12 0.34
21 10 0.29
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAACTATTTAAAAAAAAT
Done.