Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 236 of 279
Found at i:77168217 original size:40 final size:40
Alignment explanation
Indices: 77168164--77168244 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
77168154 AGAATTGAGA
* *
77168164 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGT
* * * *
77168204 GTTACATCTGGGCTAAGTCCTGAAGGGCGTTCGTGCCGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGT
77168244 G
1 G
77168245 ATGTGTAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.27
Consensus pattern (40 bp):
GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCCGGT
Found at i:77168303 original size:43 final size:43
Alignment explanation
Indices: 77168233--77168375 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 43
77168223 CTGAAGGGCG
* * *
77168233 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* * * *
77168276 TTTGTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAGTAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* * *
77168319 TTCGTGCCGGTGATGTGTATTTGGGTCTTCGTGCCTAGCAGGT
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
**
77168362 TTAATGCCGGTGAT
1 TTCGTGCCGGTGAT
77168376 TCGAGCAAAG
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.13, C:0.20, G:0.32, T:0.35
Consensus pattern (43 bp):
TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
Found at i:77174353 original size:47 final size:47
Alignment explanation
Indices: 77174290--77174474 Score: 352
Period size: 47 Copynumber: 3.9 Consensus size: 47
77174280 ATGATAGTAT
77174290 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
77174337 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
77174384 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
77174431 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
77174475 ATGTGAAAGT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 137 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:77174403 original size:22 final size:23
Alignment explanation
Indices: 77174375--77174455 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
77174365 AAGTGTATAT
77174375 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
*** ****
77174397 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGCCTAA-TG-GCCG
77174422 ATGTGAT-AATGCCTAATGGCCG
1 ATGTGATGAATGCCTAATGGCCG
77174444 ATGTGATGAATG
1 ATGTGATGAATG
77174456 TGAAAGTGTA
Statistics
Matches: 41, Mismatches: 14, Indels: 7
0.66 0.23 0.11
Matches are distributed among these distances:
22 14 0.34
23 12 0.29
24 8 0.20
25 7 0.17
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGCCTAATGGCCG
Found at i:77174475 original size:22 final size:22
Alignment explanation
Indices: 77174450--77175222 Score: 1546
Period size: 22 Copynumber: 35.1 Consensus size: 22
77174440 GCCGATGTGA
77174450 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174472 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174494 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174516 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174538 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174560 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174582 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174604 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174626 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174648 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174670 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174692 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174714 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174736 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174758 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174780 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174802 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174824 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174846 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174868 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174890 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174912 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174934 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174956 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77174978 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175000 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175022 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175044 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175066 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175088 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175110 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175132 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175154 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175176 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175198 TGAATGTGAAAGTGTATATATG
1 TGAATGTGAAAGTGTATATATG
77175220 TGA
1 TGA
77175223 TAAGGCCTAA
Statistics
Matches: 751, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 751 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (22 bp):
TGAATGTGAAAGTGTATATATG
Found at i:77175282 original size:49 final size:47
Alignment explanation
Indices: 77175198--77175307 Score: 166
Period size: 49 Copynumber: 2.3 Consensus size: 47
77175188 TGTATATATG
*
77175198 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
* *
77175245 TGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATAGTCGATGTGA
1 TGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGA
77175294 TGAATGTGATAAGT
1 TGAATGTGA-AAGT
77175308 CCCGAAGGGC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
47 14 0.25
49 39 0.68
50 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (47 bp):
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
Found at i:77175481 original size:37 final size:37
Alignment explanation
Indices: 77175425--77175503 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
77175415 CCGAGCTCTA
* * *
77175425 AAGACCCAATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
* *
77175462 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
77175499 AAGAC
1 AAGAC
77175504 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:77178518 original size:41 final size:40
Alignment explanation
Indices: 77178473--77178592 Score: 123
Period size: 40 Copynumber: 3.0 Consensus size: 40
77178463 ATATGTGTGT
*
77178473 GCATTAGAATTGAGAGTTATATCCGGGCTAAGTCCCGAAGA
1 GCATTAGAACTG-GAGTTATATCCGGGCTAAGTCCCGAAGA
* ** *
77178514 GCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGA
1 GCATTAGAACTGGAGTTATATCCGGGCTAAGTCCCGAAGA
* ** * * * *
77178554 GCATTCGTGCTGGTGTTACATCTGGGCTAAGTCCTGAAG
1 GCATTAGAACTGGAGTTATATCCGGGCTAAGTCCCGAAG
77178593 GGCGTTCGTG
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 63 0.89
41 8 0.11
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
GCATTAGAACTGGAGTTATATCCGGGCTAAGTCCCGAAGA
Found at i:77178532 original size:40 final size:40
Alignment explanation
Indices: 77178488--77178608 Score: 188
Period size: 40 Copynumber: 3.0 Consensus size: 40
77178478 AGAATTGAGA
77178488 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
77178528 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * * * * *
77178568 GTTACATCTGGGCTAAGTCCTGAAGGGCGTTCGTGCCGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
77178608 G
1 G
77178609 ATGTGTAATC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:77178667 original size:43 final size:43
Alignment explanation
Indices: 77178597--77178739 Score: 178
Period size: 43 Copynumber: 3.3 Consensus size: 43
77178587 CTGAAGGGCG
* * *
77178597 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* * * *
77178640 TTTGTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAGTAGGC
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
* * *
77178683 TTCGTGCCGGTGATGTGTATTTGGGTCTTCGTGCCTAGCAGGT
1 TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
**
77178726 TTAATGCCGGTGAT
1 TTCGTGCCGGTGAT
77178740 TCGAGCAAAG
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.13, C:0.20, G:0.32, T:0.35
Consensus pattern (43 bp):
TTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
Found at i:77182949 original size:40 final size:40
Alignment explanation
Indices: 77182787--77182935 Score: 271
Period size: 40 Copynumber: 3.7 Consensus size: 40
77182777 ATTCGGATTG
77182787 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
77182827 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
77182867 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
77182907 ATAACCGGGCTAAGTTTCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
77182936 AGCTAGTAGC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:77190286 original size:14 final size:14
Alignment explanation
Indices: 77190269--77190314 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
77190259 GAAAAGAGTG
77190269 AAAATGTAAAAAGA
1 AAAATGTAAAAAGA
77190283 AAAATG-AGAAAAGA
1 AAAATGTA-AAAAGA
77190297 AAAA-GATGAAAAAGA
1 AAAATG-T-AAAAAGA
77190312 AAA
1 AAA
77190315 GGAGTGTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.07
14 16 0.57
15 9 0.32
16 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATGTAAAAAGA
Found at i:77190293 original size:22 final size:20
Alignment explanation
Indices: 77190252--77190302 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
77190242 GATCAATGAG
*
77190252 AGAAAAAGAAAAGAGTGAAA
1 AGAAAAAGAAAAGAGAGAAA
77190272 ATGTAAAAAGAAAA-ATGAGAAA
1 A-G-AAAAAGAAAAGA-GAGAAA
77190294 AGAAAAAGA
1 AGAAAAAGA
77190303 TGAAAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.30
21 3 0.11
22 16 0.59
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.08
Consensus pattern (20 bp):
AGAAAAAGAAAAGAGAGAAA
Found at i:77190300 original size:15 final size:15
Alignment explanation
Indices: 77190276--77190314 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
77190266 GTGAAAATGT
77190276 AAAAAG-AAAA-ATG
1 AAAAAGAAAAAGATG
77190289 AGAAAAGAAAAAGATG
1 A-AAAAGAAAAAGATG
77190305 AAAAAGAAAA
1 AAAAAGAAAA
77190315 GGAGTGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 5 0.22
15 13 0.57
16 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAAAGATG
Found at i:77190315 original size:14 final size:14
Alignment explanation
Indices: 77190276--77190315 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
77190266 GTGAAAATGT
77190276 AAAAAGAAAA-ATG
1 AAAAAGAAAAGATG
77190289 AGAAAAGAAAAAGATG
1 A-AAAAG-AAAAGATG
77190305 AAAAAGAAAAG
1 AAAAAGAAAAG
77190316 GAGTGTGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.04
14 10 0.42
15 9 0.38
16 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (14 bp):
AAAAAGAAAAGATG
Found at i:77191242 original size:30 final size:30
Alignment explanation
Indices: 77191208--77191304 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
77191198 AGCTCACTCC
77191208 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
77191238 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
77191268 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
77191298 TAGCTCA
1 TAGCTCA
77191305 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:77194396 original size:48 final size:48
Alignment explanation
Indices: 77194340--77194436 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
77194330 CGTCCAACTT
77194340 GTGTGAAAGCTCTTATGGTTGCTTGGGGAGCTCAAAGGCCAAATTGGG
1 GTGTGAAAGCTCTTATGGTTGCTTGGGGAGCTCAAAGGCCAAATTGGG
*
77194388 GTGTGAAAGCTCTTATGGTTGCTTGGGGAGCTCAAAGGCCAACTTGGG
1 GTGTGAAAGCTCTTATGGTTGCTTGGGGAGCTCAAAGGCCAAATTGGG
77194436 G
1 G
77194437 AAGAGAAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (48 bp):
GTGTGAAAGCTCTTATGGTTGCTTGGGGAGCTCAAAGGCCAAATTGGG
Found at i:77194576 original size:31 final size:31
Alignment explanation
Indices: 77194538--77194599 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
77194528 AAAAATTATT
77194538 GGAAGCATTAATGAGCAGCGTTGGAGACTCC
1 GGAAGCATTAATGAGCAGCGTTGGAGACTCC
*
77194569 GGAAGCATTAATGAGCAGCTTTGGAGACTCC
1 GGAAGCATTAATGAGCAGCGTTGGAGACTCC
77194600 ATCAGCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (31 bp):
GGAAGCATTAATGAGCAGCGTTGGAGACTCC
Found at i:77195154 original size:82 final size:82
Alignment explanation
Indices: 77195051--77195213 Score: 213
Period size: 82 Copynumber: 2.0 Consensus size: 82
77195041 TTTTACTTCC
** * *
77195051 CTTTAAATACCGTTCCATGCATGGGAACTTCTCCTT-AATGCATGTTTCCTCT-GCCATTAAGTA
1 CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGTCTCCT-TAGCCATTAAGTA
77195114 GCCGAATTTCAATGACCTT
65 GCCGAA-TTCAATGACCTT
** * **
77195133 CTTTAAATGTCGTTCCTTGCATGTTAACAGCACCTTAAATGCATGTCTCCTTAGCCATTAAGTAG
1 CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGTCTCCTTAGCCATTAAGTAG
77195198 CCGAATTCAATGACCT
66 CCGAATTCAATGACCT
77195214 GCAGACACAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 40 0.57
83 30 0.43
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (82 bp):
CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGTCTCCTTAGCCATTAAGTAG
CCGAATTCAATGACCTT
Found at i:77195442 original size:82 final size:82
Alignment explanation
Indices: 77195339--77195501 Score: 204
Period size: 82 Copynumber: 2.0 Consensus size: 82
77195329 TTTTACTTCC
** * **
77195339 CTTTAAATACCGTTCCATGCATGGGAACTTCTCCTT-AATGCATGTTTCCTCT-GCCATTAAGTA
1 CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGCCTCCT-TAGCCATTAAGTA
77195402 GCCGAATTTCAATGACCTT
65 GCCGAA-TTCAATGACCTT
** * **
77195421 CTTTAAATGTCGTTCCTTGCATGTTAACAGCACCTTAAATGCATGCCTCCTTAGCCATTAAGTAG
1 CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGCCTCCTTAGCCATTAAGTAG
77195486 CCGAATTCAATGACCT
66 CCGAATTCAATGACCT
77195502 GCAGACACAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
82 40 0.58
83 29 0.42
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (82 bp):
CTTTAAATACCGTTCCATGCATGGGAACAGCACCTTAAATGCATGCCTCCTTAGCCATTAAGTAG
CCGAATTCAATGACCTT
Found at i:77195489 original size:288 final size:288
Alignment explanation
Indices: 77194973--77195548 Score: 1125
Period size: 288 Copynumber: 2.0 Consensus size: 288
77194963 CTAATTAATG
* *
77194973 CCATGCATGCAAGCTCCAGCAACTAATTAATGTCGTCCATGCATGGGAACACCTCATTTAATTCA
1 CCATGCATGCAAGCTCCAGCAACAAATTAATGCCGTCCATGCATGGGAACACCTCATTTAATTCA
77195038 TGTTTTTACTTCCCTTTAAATACCGTTCCATGCATGGGAACTTCTCCTTAATGCATGTTTCCTCT
66 TGTTTTTACTTCCCTTTAAATACCGTTCCATGCATGGGAACTTCTCCTTAATGCATGTTTCCTCT
77195103 GCCATTAAGTAGCCGAATTTCAATGACCTTCTTTAAATGTCGTTCCTTGCATGTTAACAGCACCT
131 GCCATTAAGTAGCCGAATTTCAATGACCTTCTTTAAATGTCGTTCCTTGCATGTTAACAGCACCT
*
77195168 TAAATGCATGTCTCCTTAGCCATTAAGTAGCCGAATTCAATGACCTGCAGACACAAAATAAATTC
196 TAAATGCATGCCTCCTTAGCCATTAAGTAGCCGAATTCAATGACCTGCAGACACAAAATAAATTC
77195233 GGTCAAATAATGCATCTAAAGACAATAA
261 GGTCAAATAATGCATCTAAAGACAATAA
77195261 CCATGCATGCAAGCTCCAGCAACAAATTAATGCCGTCCATGCATGGGAACACCTCATTTAATTCA
1 CCATGCATGCAAGCTCCAGCAACAAATTAATGCCGTCCATGCATGGGAACACCTCATTTAATTCA
77195326 TGTTTTTACTTCCCTTTAAATACCGTTCCATGCATGGGAACTTCTCCTTAATGCATGTTTCCTCT
66 TGTTTTTACTTCCCTTTAAATACCGTTCCATGCATGGGAACTTCTCCTTAATGCATGTTTCCTCT
77195391 GCCATTAAGTAGCCGAATTTCAATGACCTTCTTTAAATGTCGTTCCTTGCATGTTAACAGCACCT
131 GCCATTAAGTAGCCGAATTTCAATGACCTTCTTTAAATGTCGTTCCTTGCATGTTAACAGCACCT
77195456 TAAATGCATGCCTCCTTAGCCATTAAGTAGCCGAATTCAATGACCTGCAGACACAAAATAAATTC
196 TAAATGCATGCCTCCTTAGCCATTAAGTAGCCGAATTCAATGACCTGCAGACACAAAATAAATTC
77195521 GGTCAAATAATGCATCTAAAGACAATAA
261 GGTCAAATAATGCATCTAAAGACAATAA
77195549 AATTCGGCTG
Statistics
Matches: 285, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
288 285 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (288 bp):
CCATGCATGCAAGCTCCAGCAACAAATTAATGCCGTCCATGCATGGGAACACCTCATTTAATTCA
TGTTTTTACTTCCCTTTAAATACCGTTCCATGCATGGGAACTTCTCCTTAATGCATGTTTCCTCT
GCCATTAAGTAGCCGAATTTCAATGACCTTCTTTAAATGTCGTTCCTTGCATGTTAACAGCACCT
TAAATGCATGCCTCCTTAGCCATTAAGTAGCCGAATTCAATGACCTGCAGACACAAAATAAATTC
GGTCAAATAATGCATCTAAAGACAATAA
Found at i:77197057 original size:12 final size:12
Alignment explanation
Indices: 77197042--77197104 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
77197032 TCAAGCTCTC
77197042 TTTCAATTTCTT
1 TTTCAATTTCTT
*
77197054 TTTCCACTCTTTCTT
1 TTT-CA--ATTTCTT
77197069 TTTC---TTCTT
1 TTTCAATTTCTT
77197078 TTTCAATTTCTT
1 TTTCAATTTCTT
*
77197090 TTTCAATCTCTT
1 TTTCAATTTCTT
77197102 TTT
1 TTT
77197105 GCTTTTCACT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 9 0.21
12 22 0.51
13 2 0.05
14 1 0.02
15 9 0.21
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTCAATTTCTT
Found at i:77197179 original size:21 final size:21
Alignment explanation
Indices: 77197143--77197201 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
77197133 CTCATTTTCA
* *
77197143 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
77197164 TCTTTTTCTCTCATTTATTTT
1 TCTTTTTCTCTCATTTCTTTT
*
77197185 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
77197202 ATTCAAGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:77197586 original size:114 final size:114
Alignment explanation
Indices: 77197386--77197614 Score: 440
Period size: 114 Copynumber: 2.0 Consensus size: 114
77197376 TGAATAACCC
* *
77197386 TTCGTATTCGAGTACTTTGACACTCTTGAAACACGTTCGCCTCTTCGTAAATAATCTTTCGTAGA
1 TTCGTATTCGAGTACTTTGACACTCTTGAAACACGTTCACCTCTTCGTAAATAATCCTTCGTAGA
77197451 TGAATAAATTGAGGCACTTGTAGAGACATGTTTACCTTTTCGTTTATCA
66 TGAATAAATTGAGGCACTTGTAGAGACATGTTTACCTTTTCGTTTATCA
77197500 TTCGTATTCGAGTACTTTGACACTCTTGAAACACGTTCACCTCTTCGTAAATAATCCTTCGTAGA
1 TTCGTATTCGAGTACTTTGACACTCTTGAAACACGTTCACCTCTTCGTAAATAATCCTTCGTAGA
77197565 TGAATAAATTGAGGCACTTGTAGAGACATGTTTACCTTTTCGTTTATCA
66 TGAATAAATTGAGGCACTTGTAGAGACATGTTTACCTTTTCGTTTATCA
77197614 T
1 T
77197615 CTCTGAAGGA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (114 bp):
TTCGTATTCGAGTACTTTGACACTCTTGAAACACGTTCACCTCTTCGTAAATAATCCTTCGTAGA
TGAATAAATTGAGGCACTTGTAGAGACATGTTTACCTTTTCGTTTATCA
Found at i:77198236 original size:25 final size:25
Alignment explanation
Indices: 77198208--77198265 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
77198198 ATCACTCTTT
* *
77198208 TTTTTTTCAATTTCGATTTTTTTTC
1 TTTTTTTCAATTCCGAATTTTTTTC
*
77198233 TTTTTTTTAATTCCGAATTTTTTTC
1 TTTTTTTCAATTCCGAATTTTTTTC
77198258 TTCTTTTT
1 TT-TTTTT
77198266 TTTTCTTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTTTTCAATTCCGAATTTTTTTC
Found at i:77198332 original size:12 final size:12
Alignment explanation
Indices: 77198310--77198346 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
77198300 AAATTGAATA
77198310 CAAACTTTTTTTT
1 CAAA-TTTTTTTT
77198323 CAAATTTTTTTT
1 CAAATTTTTTTT
*
77198335 CAAGTTTTTTTT
1 CAAATTTTTTTT
77198347 ATTTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.65
Consensus pattern (12 bp):
CAAATTTTTTTT
Found at i:77202025 original size:17 final size:18
Alignment explanation
Indices: 77201995--77202028 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
77201985 AGCAACTCAT
77201995 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
77202013 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
77202029 ACTCAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:77202042 original size:19 final size:19
Alignment explanation
Indices: 77202018--77202066 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
77202008 ATGAGTTATT
77202018 AACTAAGATGAACTCAATA
1 AACTAAGATGAACTCAATA
* *
77202037 AACTAAAATGAACTCAATT
1 AACTAAGATGAACTCAATA
77202056 AACTAAGATGA
1 AACTAAGATGA
77202067 GTAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.22
Consensus pattern (19 bp):
AACTAAGATGAACTCAATA
Found at i:77204266 original size:21 final size:20
Alignment explanation
Indices: 77204237--77204275 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
77204227 TCTTTTCAAA
77204237 CTCAATCTCATTTTGCTTTCT
1 CTCAATCTC-TTTTGCTTTCT
* *
77204258 CTCATTCTCTTTTTCTTT
1 CTCAATCTCTTTTGCTTT
77204276 ATCATTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.10, C:0.28, G:0.03, T:0.59
Consensus pattern (20 bp):
CTCAATCTCTTTTGCTTTCT
Found at i:77206490 original size:30 final size:30
Alignment explanation
Indices: 77206405--77206501 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
77206395 TAAACTAAAA
* *
77206405 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * * *
77206435 TAAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
77206465 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
77206494 ATGAGCTA
1 -TGAGCTA
77206502 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:77208803 original size:30 final size:29
Alignment explanation
Indices: 77208735--77208814 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 29
77208725 CTTTTGTTTC
*
77208735 AATTTCTTTTTC-TTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTTCTTTTTCAATCTCA
77208763 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TT-TCTTTTTCAATCTCA
*
77208792 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC--TTTCTTTTT
77208815 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
27 5 0.11
28 6 0.14
29 6 0.14
30 25 0.57
31 2 0.05
ACGTcount: A:0.12, C:0.21, G:0.01, T:0.65
Consensus pattern (29 bp):
AATTTCTTTTTCTTTCTTTTTCAATCTCA
Found at i:77208814 original size:18 final size:18
Alignment explanation
Indices: 77208765--77208820 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
77208755 CACTCTCAAA
* *
77208765 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
77208782 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
77208800 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
77208819 TT
1 TT
77208821 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:77208821 original size:12 final size:12
Alignment explanation
Indices: 77208790--77208814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77208780 TTTTTCAATC
77208790 TCATTTTCTTTT
1 TCATTTTCTTTT
77208802 TCATTTTCTTTT
1 TCATTTTCTTTT
77208814 T
1 T
77208815 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:77208893 original size:5 final size:5
Alignment explanation
Indices: 77208883--77208939 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
77208873 CTCTTGCCTC
*
77208883 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTATT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-CT-TT TCTTT
77208930 TCTTT TCTTT
1 TCTTT TCTTT
77208940 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 28 0.64
6 8 0.18
7 4 0.09
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:77208938 original size:25 final size:25
Alignment explanation
Indices: 77208887--77208935 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
77208877 TGCCTCTCTT
77208887 TTCTTTTTATTTCATTTTCTTTTTC
1 TTCTTTTTATTTCATTTTCTTTTTC
77208912 TTCTTTTGCTATTTC-TTTTCTTTT
1 TTCTTTT--TATTTCATTTTCTTTT
77208936 CTTTATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.32
26 9 0.41
27 6 0.27
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (25 bp):
TTCTTTTTATTTCATTTTCTTTTTC
Found at i:77208944 original size:26 final size:27
Alignment explanation
Indices: 77208894--77208944 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
77208884 CTTTTCTTTT
*
77208894 TATTTCATTTTCTTTTTCTTCTTTTGC
1 TATTTCATTTTCTTTTTCTTATTTTGC
77208921 TATTTC-TTTTC-TTTTCTTTATTTT
1 TATTTCATTTTCTTTTTC-TTATTTT
77208945 CTCTTTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 11 0.50
27 6 0.27
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.75
Consensus pattern (27 bp):
TATTTCATTTTCTTTTTCTTATTTTGC
Found at i:77208949 original size:21 final size:20
Alignment explanation
Indices: 77208881--77208950 Score: 54
Period size: 20 Copynumber: 3.4 Consensus size: 20
77208871 GCCTCTTGCC
77208881 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
** *
77208904 TCT-TTTTCTTCTTTTGCTAT
1 TCTCTTTTCTT-TTTTTATTT
77208924 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
77208944 TCTCTTT
1 TCTCTTT
77208951 ACAAGAATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 3 0.08
20 15 0.41
21 9 0.24
22 7 0.19
23 3 0.08
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:77215488 original size:14 final size:15
Alignment explanation
Indices: 77215439--77215488 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
77215429 GTATCTTGGG
*
77215439 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
77215454 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
77215469 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
77215483 TTTCTT
1 TTTCTT
77215489 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:77217931 original size:46 final size:46
Alignment explanation
Indices: 77217878--77218053 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
77217868 TGGTTGAGCA
* *
77217878 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGAAGCAAACG
* * ** *
77217924 TCCGAACTCGTTGAGTTGAGTCTGAGTTCA-TGAGATGTAA-CTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACT--TATGGAAGC-AAACG
* * *
77217971 TCCGAACTTGTTGAGTTGAGTCTGAGTTCACTCATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGAAGCAAACG
* ** *
77218017 -CCCAAGCTCGTTGAGTTGAGTCAAAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCTGAGTTCACTTATGG
77218054 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 5 0.05
46 62 0.60
47 36 0.35
48 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGAAGCAAACG
Found at i:77218045 original size:93 final size:93
Alignment explanation
Indices: 77217875--77218045 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
77217865 GGATGGTTGA
* * *
77217875 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGAAGCAAACGTCCCAACTCGTTGAGT
**
77217940 TGAGTCTGAGTTCATGAGATGTAACTAG
66 TGAGTCAAAGTTCATGAGATGTAACTAG
* * *
77217968 GCATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTCATGGATGCAAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGAAGCAAACGTCCCAA-CTCGTTGAG
77218032 TTGAGTCAAAGTTC
65 TTGAGTCAAAGTTC
77218046 GCTTATGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 4 0.06
93 65 0.94
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGAAGCAAACGTCCCAACTCGTTGAGT
TGAGTCAAAGTTCATGAGATGTAACTAG
Found at i:77220192 original size:14 final size:14
Alignment explanation
Indices: 77220170--77220217 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
77220160 ACCTAAACCG
* *
77220170 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
77220184 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
77220198 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
77220212 ACCATT
1 ACCATT
77220218 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:77221280 original size:12 final size:10
Alignment explanation
Indices: 77221276--77221328 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 10
77221266 TTTTGAAACT
77221276 TTTTTTTGAA
1 TTTTTTTGAA
77221286 TTTTTTTTCGAA
1 -TTTTTTT-GAA
77221298 TTTTTTTCCGAA
1 TTTTTTT--GAA
77221310 TTTTTTTTGAAA
1 -TTTTTTTG-AA
77221322 TTTTTTT
1 TTTTTTT
77221329 ATACTTGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
11 22 0.58
12 9 0.24
13 7 0.18
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.70
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:77221293 original size:24 final size:24
Alignment explanation
Indices: 77221261--77221328 Score: 95
Period size: 24 Copynumber: 2.8 Consensus size: 24
77221251 TGCACAAATC
*
77221261 ATTTTTTTTGAAACTTTTTTT-TGA
1 ATTTTTTTTGAAA-TTTTTTTCCGA
77221285 ATTTTTTTTCG-AATTTTTTTCCGA
1 ATTTTTTTT-GAAATTTTTTTCCGA
77221309 ATTTTTTTTGAAATTTTTTT
1 ATTTTTTTTGAAATTTTTTT
77221329 ATACTTGTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 8 0.20
24 31 0.77
25 1 0.03
ACGTcount: A:0.19, C:0.06, G:0.07, T:0.68
Consensus pattern (24 bp):
ATTTTTTTTGAAATTTTTTTCCGA
Found at i:77223049 original size:30 final size:30
Alignment explanation
Indices: 77222964--77223051 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
77222954 TAAACTAAAA
* *
77222964 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * * *
77222994 TAAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
77223024 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGATTTAGCTCGTGAGCTGAA
77223052 TATAAGCTAG
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:77224885 original size:17 final size:17
Alignment explanation
Indices: 77224855--77224909 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
77224845 AATAATTCAT
77224855 TTATTAATCTAAGATGAG
1 TTATTAA-CTAAGATGAG
*
77224873 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
77224891 TCAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
77224909 T
1 T
77224910 AATTTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.25
18 11 0.34
19 13 0.41
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:77229222 original size:5 final size:5
Alignment explanation
Indices: 77229212--77229261 Score: 100
Period size: 5 Copynumber: 10.0 Consensus size: 5
77229202 TAAATGTTGG
77229212 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
77229262 ATAATGATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:77230205 original size:30 final size:31
Alignment explanation
Indices: 77230171--77230267 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
77230161 AGCTCACTCC
*
77230171 TAGCTC-ACTTTCAACTTACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
* * * *
77230201 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
* * *
77230231 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
77230261 TAGCTCA
1 TAGCTCA
77230268 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTTACGAGCTAAACCT
Found at i:77232798 original size:5 final size:5
Alignment explanation
Indices: 77232788--77232844 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
77232778 AAGAGAAAAT
*
77232788 AAAGA AAAGA AAAGA AAAGGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAGA AAA-G-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
77232835 AAAGA AAAGA
1 AAAGA AAAGA
77232845 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:77232924 original size:11 final size:12
Alignment explanation
Indices: 77232892--77232922 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
77232882 TTGAGAGAAC
77232892 TTGAAAAAGCCT
1 TTGAAAAAGCCT
77232904 TTGAAAAAGCCT
1 TTGAAAAAGCCT
77232916 TTGAAAA
1 TTGAAAA
77232923 GCAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:77232988 original size:30 final size:31
Alignment explanation
Indices: 77232935--77232995 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
77232925 AAAAATAAAA
*
77232935 TGAGATTGAAAAAGAGAACG-AAAAGAAATT
1 TGAGAGTGAAAAAGAGAACGAAAAAGAAATT
*
77232965 TGAGAGTGAAAAAGA-AGATGAAAAAGAAATT
1 TGAGAGTGAAAAAGAGA-ACGAAAAAGAAATT
77232996 GAAATAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 1 0.04
30 16 0.59
31 10 0.37
ACGTcount: A:0.57, C:0.02, G:0.25, T:0.16
Consensus pattern (31 bp):
TGAGAGTGAAAAAGAGAACGAAAAAGAAATT
Found at i:77234634 original size:30 final size:31
Alignment explanation
Indices: 77234600--77234696 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
77234590 AGCTCACTCC
*
77234600 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
77234630 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
77234660 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
77234690 TAGCTCA
1 TAGCTCA
77234697 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:77236215 original size:30 final size:31
Alignment explanation
Indices: 77236181--77236277 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
77236171 AGCTCACTCC
*
77236181 TAGCTC-ACTTTCAACTTACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
* * * *
77236211 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
* * *
77236241 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTTACGAGCTAAACCT
77236271 TAGCTCA
1 TAGCTCA
77236278 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTTACGAGCTAAACCT
Found at i:77237881 original size:46 final size:46
Alignment explanation
Indices: 77237831--77238006 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
77237821 TGGTTGAGCA
*
77237831 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
77237877 TCCGAACTCGTTGAGTTGAGTCCGAGCTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
77237922 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
77237970 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77238007 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:77244509 original size:40 final size:40
Alignment explanation
Indices: 77244425--77244649 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
77244415 TTGAATGATG
* * * *
77244425 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
77244465 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77244505 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77244544 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
77244585 T-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
77244625 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77244650 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
39 35 0.21
40 119 0.72
41 11 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77244671 original size:119 final size:119
Alignment explanation
Indices: 77244425--77244682 Score: 294
Period size: 119 Copynumber: 2.2 Consensus size: 119
77244415 TTGAATGATG
*
77244425 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
* * **
77244490 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
77244544 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAT-CGGGCTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCGGACTAAGAT-CCGAAGGCA
* * *
77244606 TTTGTGCGAGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
63 TTTGTGCGAGTCACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
77244664 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
77244683 TACGTGATTT
Statistics
Matches: 119, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 33 0.28
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:77251996 original size:2 final size:2
Alignment explanation
Indices: 77251989--77252059 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
77251979 CAAGAACTAT
77251989 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
77252031 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
77252060 GGATCTCACC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:77270104 original size:5 final size:5
Alignment explanation
Indices: 77270094--77270130 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
77270084 TATTTGCTTC
77270094 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TG
77270131 TGGTGATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
TGATA
Found at i:77271842 original size:18 final size:18
Alignment explanation
Indices: 77271805--77271852 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
77271795 TGTAGTTTTT
*
77271805 AAATTATAAAAATTTTAAA
1 AAATTAT-AAAATTTAAAA
*
77271824 AAATTATAGAATTTAAAA
1 AAATTATAAAATTTAAAA
77271842 AAATTATAAAA
1 AAATTATAAAA
77271853 CATTATAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTATAAAATTTAAAA
Found at i:77271857 original size:10 final size:9
Alignment explanation
Indices: 77271805--77271859 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
77271795 TGTAGTTTTT
77271805 AAATTATAA
1 AAATTATAA
*
77271814 AAATTTTAAA
1 AAATTAT-AA
*
77271824 AAATTATAG
1 AAATTATAA
* *
77271833 AATTTAAAA
1 AAATTATAA
77271842 AAATTATAA
1 AAATTATAA
77271851 AACATTATA
1 AA-ATTATA
77271860 GAGAAATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
9 22 0.61
10 14 0.39
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:77271870 original size:28 final size:27
Alignment explanation
Indices: 77271812--77271878 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 27
77271802 TTTAAATTAT
* **
77271812 AAAAATTTTAAAAAATTATAGAATTTAA
1 AAAAATTATAAAAAATTATAGAAAAT-A
*
77271840 AAAAATTATAAAACATTATAGAGAAAT-
1 AAAAATTATAAAAAATTATAGA-AAATA
77271867 AAAAATTA-AAAA
1 AAAAATTATAAAA
77271879 GAAAGTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.12
27 8 0.24
28 20 0.59
29 2 0.06
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (27 bp):
AAAAATTATAAAAAATTATAGAAAATA
Found at i:77275225 original size:15 final size:15
Alignment explanation
Indices: 77275205--77275244 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
77275195 ACTCCATTCC
77275205 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
77275220 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
77275235 CTTTAGTCAT
1 CTTTAGTCAT
77275245 TGCTTGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATGGTAA
Found at i:77279295 original size:26 final size:26
Alignment explanation
Indices: 77279264--77279371 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
77279254 TGAAATGCCC
*
77279264 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
77279290 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
77279316 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
77279342 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77279368 ATCA
1 ATCA
77279372 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77284529 original size:22 final size:22
Alignment explanation
Indices: 77284501--77284543 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
77284491 CTATCTCTAA
77284501 GGTTTAGTACTAACTACAGTAC
1 GGTTTAGTACTAACTACAGTAC
77284523 GGTTTAGTACTAACTACAGTA
1 GGTTTAGTACTAACTACAGTA
77284544 TAGTTCAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (22 bp):
GGTTTAGTACTAACTACAGTAC
Found at i:77284553 original size:22 final size:22
Alignment explanation
Indices: 77284506--77284553 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
77284496 TCTAAGGTTT
* *
77284506 AGTACTAACTACAGTACGGTTT
1 AGTACTAACTACAGTACAGTTC
*
77284528 AGTACTAACTACAGTATAGTTC
1 AGTACTAACTACAGTACAGTTC
77284550 AGTA
1 AGTA
77284554 TATAAAACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (22 bp):
AGTACTAACTACAGTACAGTTC
Found at i:77286970 original size:26 final size:26
Alignment explanation
Indices: 77286940--77287021 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
77286930 TGAAATTCCC
77286940 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
77286966 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77286992 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77287018 ATCA
1 ATCA
77287022 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77287560 original size:31 final size:31
Alignment explanation
Indices: 77287487--77287566 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
77287477 AAATTTTAGT
* *
77287487 TTGTTGGATTTTGAAATTATTATGCCTTGAAT
1 TTGTTGGATATTGAAATTATTATG-CTTGAAC
* * *
77287519 TTGTTAGATATTGAATTTATTATG-TTTAAGC
1 TTGTTGGATATTGAAATTATTATGCTTGAA-C
77287550 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
77287567 GATTGATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 4 0.10
31 15 0.38
32 21 0.52
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.50
Consensus pattern (31 bp):
TTGTTGGATATTGAAATTATTATGCTTGAAC
Found at i:77295760 original size:15 final size:17
Alignment explanation
Indices: 77295727--77295765 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
77295717 TTTAATTAAT
77295727 AAAAATATAAGAATATA
1 AAAAATATAAGAATATA
*
77295744 AAAAATATTA-AAT-TA
1 AAAAATATAAGAATATA
77295759 AAAAATA
1 AAAAATA
77295766 ATTATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAAATATAAGAATATA
Found at i:77299616 original size:41 final size:41
Alignment explanation
Indices: 77299550--77299718 Score: 157
Period size: 41 Copynumber: 4.1 Consensus size: 41
77299540 ATAAAGTGAT
* * *
77299550 TGAATGTAATACAGACGTTACGTCTAGCAGGCTTAATGCCGG
1 TGAA-GTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
77299592 TGAAGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
1 TGAAGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
* *
77299633 TG-A-TACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGG
1 TGAAGTA-A-TTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGG
* * * * ** *
77299674 TGTACTGAA-TCAGGCTTTAAGCCTAGCAGGCAAAATGCAGG
1 TGAAGT-AATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
77299715 TGAA
1 TGAA
77299719 TCTGTTTAAA
Statistics
Matches: 108, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 91 0.84
42 7 0.06
43 2 0.02
44 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (41 bp):
TGAAGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGG
Found at i:77303079 original size:8 final size:8
Alignment explanation
Indices: 77303068--77303092 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
77303058 CCACCTACCC
77303068 CCCACTTG
1 CCCACTTG
77303076 CCCACTTG
1 CCCACTTG
77303084 CCCACTTG
1 CCCACTTG
77303092 C
1 C
77303093 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:77303613 original size:13 final size:12
Alignment explanation
Indices: 77303577--77303614 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
77303567 CCTTCCCCCC
77303577 TCCCTTCTCTC-
1 TCCCTTCTCTCT
77303588 TCCCTTCTCTCT
1 TCCCTTCTCTCT
77303600 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
77303613 TC
1 TC
77303615 TTTTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:77304103 original size:3 final size:3
Alignment explanation
Indices: 77304079--77304149 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
77304069 AATATCCTTG
* * * *
77304079 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
77304126 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
77304150 GTACGNNNNN
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:77304146 original size:23 final size:22
Alignment explanation
Indices: 77304091--77304152 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
77304081 ATTTTTATAT
*
77304091 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
77304112 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
77304134 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
77304153 CGNNNNNNNN
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:77315583 original size:43 final size:43
Alignment explanation
Indices: 77315535--77315619 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
77315525 GGTGTCAACA
* ** *
77315535 ACCTTTAGCGGCATTTTTCCCACAAACGCCGCTAATGGTCATG
1 ACCTTTAGCGGCACTAATCCCACAAACGCCGCTAAAGGTCATG
*
77315578 ACCTTTAGCGGCGCTAATCCCACAAACGCCGCTAAAGGTCAT
1 ACCTTTAGCGGCACTAATCCCACAAACGCCGCTAAAGGTCAT
77315620 AAAATTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (43 bp):
ACCTTTAGCGGCACTAATCCCACAAACGCCGCTAAAGGTCATG
Found at i:77315661 original size:41 final size:40
Alignment explanation
Indices: 77315610--77315689 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
77315600 CAAACGCCGC
**
77315610 TAAAGGTCATAAAATTTTAAAAAAATTATTAT-AAAATATTA
1 TAAAGGTCATAAAAAATT--AAAAATTATTATCAAAATATTA
* *
77315651 TAAAGTTCATAAAAAATTAAAATTTATTATCAAAATATT
1 TAAAGGTCATAAAAAATTAAAAATTATTATCAAAATATT
77315690 GAGAAGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 11 0.32
40 8 0.24
41 15 0.44
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
TAAAGGTCATAAAAAATTAAAAATTATTATCAAAATATTA
Found at i:77316196 original size:23 final size:23
Alignment explanation
Indices: 77316166--77316368 Score: 218
Period size: 23 Copynumber: 8.9 Consensus size: 23
77316156 AAACAGATGC
* *
77316166 CAATTTACAACATTTAAGCACTT
1 CAATTTACAGCATTTAAACACTT
77316189 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
77316212 CAATTTGCAGCACTTT-AACA-TCT
1 CAATTTACAGCA-TTTAAACACT-T
* * *
77316235 CAATTAACAACATTTATACAAC-T
1 CAATTTACAGCATTTAAAC-ACTT
* *
77316258 CAA-TTACAGCAATAAAACA-TCT
1 CAATTTACAGCATTTAAACACT-T
* **
77316280 CAATTTTCAGCAACTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
77316303 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
77316326 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
77316349 CAATTTGCAGCATTTAAACA
1 CAATTTACAGCATTTAAACA
77316369 ACAGCATCCA
Statistics
Matches: 150, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
21 1 0.01
22 18 0.12
23 126 0.84
24 5 0.03
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (23 bp):
CAATTTACAGCATTTAAACACTT
Found at i:77316284 original size:22 final size:23
Alignment explanation
Indices: 77316228--77316284 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
77316218 GCAGCACTTT
* *
77316228 AACATCTCAATTAACAACATTTA
1 AACATCTCAATTAACAACAATAA
* * *
77316251 TACAACTCAATT-ACAGCAATAA
1 AACATCTCAATTAACAACAATAA
77316273 AACATCTCAATT
1 AACATCTCAATT
77316285 TTCAGCAACT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACAATAA
Found at i:77316352 original size:91 final size:91
Alignment explanation
Indices: 77316188--77316353 Score: 212
Period size: 91 Copynumber: 1.8 Consensus size: 91
77316178 TTTAAGCACT
** * * *
77316188 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATA
1 TCAATTTACAGCAACTAAACACTTCAATTTACAACACTTTAACATCTCAATTAACAACATTTAAA
77316253 CAACTCAATTACAGCAATAAAACATC
66 CAACTCAATTACAGCAATAAAACATC
* * *
77316279 TCAATTTTCAGCAACTAAACACTTCAATTTACAACA-TTTAAACA-CTTCAATTTACAGCATTTA
1 TCAATTTACAGCAACTAAACACTTCAATTTACAACACTTT-AACATC-TCAATTAACAACATTTA
77316342 AAC-ACTTCAATT
64 AACAAC-TCAATT
77316354 TGCAGCATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
90 6 0.09
91 58 0.91
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.33
Consensus pattern (91 bp):
TCAATTTACAGCAACTAAACACTTCAATTTACAACACTTTAACATCTCAATTAACAACATTTAAA
CAACTCAATTACAGCAATAAAACATC
Found at i:77317926 original size:34 final size:35
Alignment explanation
Indices: 77317874--77317943 Score: 108
Period size: 34 Copynumber: 2.0 Consensus size: 35
77317864 TAGGTATTAT
77317874 ATGACCCCCCCCAAAAAAAAAAAAGAATGAGCATTC
1 ATGACCCCCCCC-AAAAAAAAAAAGAATGAGCATTC
77317910 NATGA-CCCCCCC-AAAAAAAAAAGAATGAGCATTC
1 -ATGACCCCCCCCAAAAAAAAAAAGAATGAGCATTC
77317944 CTGCACAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 22 0.67
36 7 0.21
37 4 0.12
ACGTcount: A:0.49, C:0.27, G:0.11, T:0.11
Consensus pattern (35 bp):
ATGACCCCCCCCAAAAAAAAAAAGAATGAGCATTC
Found at i:77318716 original size:29 final size:30
Alignment explanation
Indices: 77318650--77318716 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 30
77318640 TTTCCTGGAC
77318650 ACAACAAAATGTTTTCTAAGTACCTACACG
1 ACAACAAAATGTTTTCTAAGTACCTACACG
*
77318680 AC-ANAAAATGTTTTCTAAGTA-CTACACG
1 ACAACAAAATGTTTTCTAAGTACCTACACG
77318708 ACAACAAAA
1 ACAACAAAA
77318717 ATTCCAAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 9 0.26
29 23 0.68
30 2 0.06
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.24
Consensus pattern (30 bp):
ACAACAAAATGTTTTCTAAGTACCTACACG
Found at i:77320352 original size:27 final size:26
Alignment explanation
Indices: 77320315--77320456 Score: 131
Period size: 27 Copynumber: 5.3 Consensus size: 26
77320305 AGCATGGCTG
* **
77320315 CCAGAACAGATAATGTGACAGAGTTA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
77320341 CCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
77320369 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
77320396 CCAGATCAGATATTTGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
77320423 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
77320450 CCCGAAC
1 CCAGAAC
77320457 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.05
27 79 0.80
28 15 0.15
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:77320380 original size:54 final size:54
Alignment explanation
Indices: 77320315--77320451 Score: 150
Period size: 54 Copynumber: 2.5 Consensus size: 54
77320305 AGCATGGCTG
** *
77320315 CCAGAACAGATA-ATGTGACAGAGTTACCAGATACAGATAATCGTGGCAGGGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
77320369 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * * *
77320423 CCAGATCAGATATTTGTGGCATAGCCACC
1 CCAGAACAGATATATGTGACAGAGCCACC
77320452 CGAACGCTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
54 53 0.76
55 17 0.24
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:77322109 original size:26 final size:26
Alignment explanation
Indices: 77322073--77322182 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
77322063 CATGAAATTC
*
77322073 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
77322099 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
77322125 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
77322151 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
77322177 TTATCA
1 TTATCA
77322183 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:77322778 original size:33 final size:33
Alignment explanation
Indices: 77322741--77322806 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
77322731 AAAAAAACCC
77322741 TCTTCCGACTATAGATAAACAAAATAGAAACAA
1 TCTTCCGACTATAGATAAACAAAATAGAAACAA
*
77322774 TCTTCCGATTATAGATAAACAAAATAGAAACAA
1 TCTTCCGACTATAGATAAACAAAATAGAAACAA
77322807 AGACATCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.52, C:0.17, G:0.09, T:0.23
Consensus pattern (33 bp):
TCTTCCGACTATAGATAAACAAAATAGAAACAA
Found at i:77323852 original size:41 final size:40
Alignment explanation
Indices: 77323807--77323931 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 40
77323797 TAATTTCACC
* *
77323807 TTTTGCGGCGTTTTAAAAAACAACGCCACTATAGTTTAGTT
1 TTTTGCGGCGTTTTAAAAAA-AACGCCACTATAGCTTAATT
* *
77323848 TTTTGCGGCGTTTTTGATAAAAACGCCACTATAGCTTAATT
1 TTTTGCGGCG-TTTTAAAAAAAACGCCACTATAGCTTAATT
* * *** * *
77323889 TTTTGTGGCATTTTTCCTAAAAACGCCATTATTGCTTAATT
1 TTTTGCGGC-GTTTTAAAAAAAACGCCACTATAGCTTAATT
77323930 TT
1 TT
77323932 AATTTTTTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 64 0.89
42 8 0.11
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (40 bp):
TTTTGCGGCGTTTTAAAAAAAACGCCACTATAGCTTAATT
Found at i:77323966 original size:18 final size:18
Alignment explanation
Indices: 77323928--77323966 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
77323918 TATTGCTTAA
*
77323928 TTTTAATTTTTTTGTTAT
1 TTTTAATTTTTTTATTAT
77323946 TTTTAATATTTTTTATT-T
1 TTTTAAT-TTTTTTATTAT
77323964 TTT
1 TTT
77323967 CTTTCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTAATTTTTTTATTAT
Found at i:77324079 original size:7 final size:7
Alignment explanation
Indices: 77324077--77324117 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
77324067 TTTTTTTAGT
*
77324077 TTTTTAG
1 TTTTTAA
77324084 TTTTTTAA
1 TT-TTTAA
77324092 TTTTTAA
1 TTTTTAA
77324099 TTTTTAA
1 TTTTTAA
77324106 TTTTTAA
1 TTTTTAA
77324113 TTTTT
1 TTTTT
77324118 TTGAGCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:77324103 original size:8 final size:8
Alignment explanation
Indices: 77324068--77324118 Score: 63
Period size: 7 Copynumber: 6.8 Consensus size: 8
77324058 TAAATATTAT
*
77324068 TTTTTTAG
1 TTTTTTAA
*
77324076 TTTTTTAG
1 TTTTTTAA
77324084 TTTTTTAA
1 TTTTTTAA
77324092 -TTTTTAA
1 TTTTTTAA
77324099 -TTTTTAA
1 TTTTTTAA
77324106 -TTTTTAA
1 TTTTTTAA
77324113 TTTTTT
1 TTTTTT
77324119 TGAGCATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 21 0.51
8 20 0.49
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:77324702 original size:21 final size:22
Alignment explanation
Indices: 77324671--77324717 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
77324661 TATAACACTT
* *
77324671 AACCCCAAACCCATAAGCCTTA
1 AACCCCAAACCCATAAACCATA
*
77324693 AACCCC-AACCCTTAAACCATA
1 AACCCCAAACCCATAAACCATA
77324714 AACC
1 AACC
77324718 ATAATCCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.43, C:0.43, G:0.02, T:0.13
Consensus pattern (22 bp):
AACCCCAAACCCATAAACCATA
Found at i:77324777 original size:14 final size:14
Alignment explanation
Indices: 77324755--77324799 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
77324745 TCATACACTT
77324755 TAAACCCTAAA-TAA
1 TAAACCCTAAACT-A
*
77324769 TATACCCTAAACTA
1 TAAACCCTAAACTA
77324783 TAAACCCTAAACTA
1 TAAACCCTAAACTA
77324797 TAA
1 TAA
77324800 TGATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:77328545 original size:41 final size:40
Alignment explanation
Indices: 77328500--77328624 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 40
77328490 TAATTTCACC
* *
77328500 TTTTGCGGCGTTTTAAAAAACAACGCCACTATAGTTTAGTT
1 TTTTGCGGCGTTTTAAAAAA-AACGCCACTATAGCTTAATT
* *
77328541 TTTTGCGGCGTTTTTGATAAAAACGCCACTATAGCTTAATT
1 TTTTGCGGCG-TTTTAAAAAAAACGCCACTATAGCTTAATT
* * *** * *
77328582 TTTTGTGGCATTTTTCCTAAAAACGCCATTATTGCTTAATT
1 TTTTGCGGC-GTTTTAAAAAAAACGCCACTATAGCTTAATT
77328623 TT
1 TT
77328625 AATTTTTTTG
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 64 0.89
42 8 0.11
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (40 bp):
TTTTGCGGCGTTTTAAAAAAAACGCCACTATAGCTTAATT
Found at i:77328659 original size:18 final size:18
Alignment explanation
Indices: 77328621--77328659 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
77328611 TATTGCTTAA
*
77328621 TTTTAATTTTTTTGTTAT
1 TTTTAATTTTTTTATTAT
77328639 TTTTAATATTTTTTATT-T
1 TTTTAAT-TTTTTTATTAT
77328657 TTT
1 TTT
77328660 CTTTCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTAATTTTTTTATTAT
Found at i:77328772 original size:7 final size:7
Alignment explanation
Indices: 77328770--77328810 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
77328760 TTTTTTTAGT
*
77328770 TTTTTAG
1 TTTTTAA
77328777 TTTTTTAA
1 TT-TTTAA
77328785 TTTTTAA
1 TTTTTAA
77328792 TTTTTAA
1 TTTTTAA
77328799 TTTTTAA
1 TTTTTAA
77328806 TTTTT
1 TTTTT
77328811 TTGAGCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:77328796 original size:8 final size:8
Alignment explanation
Indices: 77328761--77328811 Score: 63
Period size: 7 Copynumber: 6.8 Consensus size: 8
77328751 TAAATATTAT
*
77328761 TTTTTTAG
1 TTTTTTAA
*
77328769 TTTTTTAG
1 TTTTTTAA
77328777 TTTTTTAA
1 TTTTTTAA
77328785 -TTTTTAA
1 TTTTTTAA
77328792 -TTTTTAA
1 TTTTTTAA
77328799 -TTTTTAA
1 TTTTTTAA
77328806 TTTTTT
1 TTTTTT
77328812 TGAGCATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 21 0.51
8 20 0.49
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:77329398 original size:21 final size:22
Alignment explanation
Indices: 77329367--77329413 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
77329357 TATAACACTT
* *
77329367 AACCCCAAACCCATAAGCCTTA
1 AACCCCAAACCCATAAACCATA
*
77329389 AACCCC-AACCCTTAAACCATA
1 AACCCCAAACCCATAAACCATA
77329410 AACC
1 AACC
77329414 ATAATTCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.43, C:0.43, G:0.02, T:0.13
Consensus pattern (22 bp):
AACCCCAAACCCATAAACCATA
Found at i:77329473 original size:14 final size:14
Alignment explanation
Indices: 77329451--77329495 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
77329441 TCATACACTT
77329451 TAAACCCTAAA-TAA
1 TAAACCCTAAACT-A
*
77329465 TATACCCTAAACTA
1 TAAACCCTAAACTA
77329479 TAAACCCTAAACTA
1 TAAACCCTAAACTA
77329493 TAA
1 TAA
77329496 TGATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:77329827 original size:40 final size:38
Alignment explanation
Indices: 77329767--77329867 Score: 114
Period size: 40 Copynumber: 2.6 Consensus size: 38
77329757 TTTTTTTTGT
*
77329767 GGCGCTTTTTAAAAACGCCGCTAAAGATCAAGCAT-TAGC
1 GGCG-TTTTTAAAAGCGCCGCTAAAGATCAA-CATATAGC
* ** *
77329806 GGCGTTTTTTATAAAGCGCCGCTAAAGGTGTACCTATAGC
1 GGCG-TTTTTA-AAAGCGCCGCTAAAGATCAACATATAGC
77329846 GGCGTTTTTAAAAGCGCCGCTA
1 GGCGTTTTTAAAAGCGCCGCTA
77329868 CAGCAACTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
38 12 0.22
39 18 0.33
40 24 0.44
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (38 bp):
GGCGTTTTTAAAAGCGCCGCTAAAGATCAACATATAGC
Found at i:77330049 original size:11 final size:11
Alignment explanation
Indices: 77330033--77330064 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
77330023 TAAACCCCAA
*
77330033 CCTTAAACTAC
1 CCTTAAACCAC
77330044 CCTTAAACCAC
1 CCTTAAACCAC
77330055 CCTTAAACCA
1 CCTTAAACCA
77330065 TGATCCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (11 bp):
CCTTAAACCAC
Found at i:77330838 original size:115 final size:115
Alignment explanation
Indices: 77330492--77330979 Score: 764
Period size: 115 Copynumber: 4.2 Consensus size: 115
77330482 TCAAGCATTA
* * *
77330492 GCGGCG-TTTTTTATAAAGCGCCGCTAAAGGTGTACCTATAGCGGCGTTTTT-AATAGCGCCGCT
1 GCGGCGCTTTTTGA-AAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCT
* * * * *
77330555 ACAGCAACTAAAAGGTCAATAAAAAACGATGTCGTTTTGCAAAACTCTTTT
65 AAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTGTAAAACTCTTTT
* *
77330606 GCGGCTCTTTTTGAAAAACGCCGCTAAAGGTGTACTTATAGCGGCGTTTTTCAAAAAGCGCCGCT
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTT-AAAAAGCGCCGCT
* *
77330671 AAAGCCACAAAAAGGTCAATATAAAACGACGTCGTTTTGTAAAACTCTTTT
65 AAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTGTAAAACTCTTTT
77330722 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
* *
77330787 AAGCCACTAAAAGGTCAATACAAAACGATGTTGTTTTGTAAAACTCTTTT
66 AAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTGTAAAACTCTTTT
* *
77330837 GCGGCGTTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAGAAGCGCCGCTA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
* *
77330902 AAGCCACTAAAAGGTCAATACAAAATGACGTTGTTTTGTAAAACTCTTTT
66 AAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTGTAAAACTCTTTT
* *
77330952 GCGGCGCTTTTTAAAAAACACCGCTAAA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAA
77330980 AACGCCGCTA
Statistics
Matches: 347, Mismatches: 24, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
114 40 0.12
115 202 0.58
116 105 0.30
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (115 bp):
GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
AAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTGTAAAACTCTTTT
Found at i:77330980 original size:12 final size:12
Alignment explanation
Indices: 77330965--77330994 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
77330955 GCGCTTTTTA
77330965 AAAAACACCGCT
1 AAAAACACCGCT
*
77330977 AAAAACGCCGCT
1 AAAAACACCGCT
77330989 AAAAAC
1 AAAAAC
77330995 CTGTTTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.30, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAACACCGCT
Found at i:77335654 original size:35 final size:35
Alignment explanation
Indices: 77335608--77335678 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
77335598 ATAGGTTAAC
77335608 TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
1 TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
77335643 TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
1 TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
77335678 T
1 T
77335679 GCTAGTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.46
Consensus pattern (35 bp):
TTAACCATGGATTGCTTGAATATGTTATTTGTAAT
Found at i:77342814 original size:6 final size:7
Alignment explanation
Indices: 77342797--77342824 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
77342787 AGTGTATGAT
77342797 TTTTTTA
1 TTTTTTA
77342804 TTTTTTA
1 TTTTTTA
77342811 TTTTTTA
1 TTTTTTA
77342818 TTTTTTA
1 TTTTTTA
77342825 AGTAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:77349257 original size:13 final size:14
Alignment explanation
Indices: 77349227--77349259 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
77349217 TAATATTATT
77349227 ATATTAATTATAAA
1 ATATTAATTATAAA
*
77349241 ATATTAA-TATCAA
1 ATATTAATTATAAA
77349254 ATATTA
1 ATATTA
77349260 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTAATTATAAA
Found at i:77350249 original size:15 final size:17
Alignment explanation
Indices: 77350214--77350252 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
77350204 GCATATTAAA
*
77350214 ATATTAAAATAATATAT
1 ATATTAAAATAATATAC
77350231 ATATTAAAA-AA-ATAC
1 ATATTAAAATAATATAC
77350246 ATATTAA
1 ATATTAA
77350253 TTTTTTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 2 0.10
17 9 0.43
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATTAAAATAATATAC
Found at i:77352564 original size:16 final size:18
Alignment explanation
Indices: 77352538--77352604 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
77352528 TAAAATTTAA
77352538 AAAAAATTAT-AATTTTT
1 AAAAAATTATAAATTTTT
*
77352555 AAAAAA-TATAAATTTTG
1 AAAAAATTATAAATTTTT
* * *
77352572 AAATATTTATAAATATTT
1 AAAAAATTATAAATTTTT
* *
77352590 AAAAATTTAAAAATT
1 AAAAAATTATAAATT
77352605 ATTTTGAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
16 3 0.08
17 16 0.40
18 21 0.52
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (18 bp):
AAAAAATTATAAATTTTT
Found at i:77353312 original size:16 final size:16
Alignment explanation
Indices: 77353281--77353311 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
77353271 TTCACTGCTG
77353281 CTTTTTCATTTTTTTT
1 CTTTTTCATTTTTTTT
77353297 CTTTTTC-TTTTTTTT
1 CTTTTTCATTTTTTTT
77353312 TTTGCTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (16 bp):
CTTTTTCATTTTTTTT
Found at i:77363943 original size:88 final size:88
Alignment explanation
Indices: 77363842--77364013 Score: 317
Period size: 88 Copynumber: 2.0 Consensus size: 88
77363832 CAACTAATCG
*
77363842 AGATTGTTGTTAAATCTCTTATGAGAGAATGACATGACAGTTAAAAAATTAATATAATAACAAAT
1 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
*
77363907 TTTTAAAATTTACCTTTATATCA
66 TCTTAAAATTTACCTTTATATCA
*
77363930 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAATAAAT
1 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
77363995 TCTTAAAATTTACCTTTAT
66 TCTTAAAATTTACCTTTAT
77364014 CTTCCGCTTC
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (88 bp):
AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
TCTTAAAATTTACCTTTATATCA
Found at i:77371607 original size:14 final size:14
Alignment explanation
Indices: 77371588--77371621 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
77371578 AATTCAAGAG
77371588 AAAGTTATAGAGAA
1 AAAGTTATAGAGAA
77371602 AAAGTTATAGAGAA
1 AAAGTTATAGAGAA
77371616 AAAGTT
1 AAAGTT
77371622 CTCTAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (14 bp):
AAAGTTATAGAGAA
Found at i:77378767 original size:42 final size:42
Alignment explanation
Indices: 77378704--77378830 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
77378694 CTTCGTTTTC
** * *
77378704 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
77378747 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
77378788 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
77378829 TC
1 TC
77378831 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:77378892 original size:47 final size:46
Alignment explanation
Indices: 77378789--77378912 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
77378779 ATTCATATAT
* * * * *
77378789 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
77378835 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
77378882 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
77378913 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:77378965 original size:31 final size:31
Alignment explanation
Indices: 77378930--77379078 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
77378920 CTTGTCACTT
*
77378930 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
77378961 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
77378992 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
77379023 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
77379054 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
77379079 TGTCATTTGT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:77379160 original size:50 final size:50
Alignment explanation
Indices: 77379054--77379230 Score: 293
Period size: 50 Copynumber: 3.5 Consensus size: 50
77379044 CACTGATTAG
* * * *
77379054 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
77379105 GTAGCCGAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTGTCCTTGATCAGATAAGT
77379155 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
77379205 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
77379231 GTTGCCATGG
Statistics
Matches: 120, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
49 3 0.03
50 91 0.76
51 26 0.22
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:77387518 original size:19 final size:21
Alignment explanation
Indices: 77387482--77387520 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
77387472 CTAGGGTTTG
*
77387482 TTTTGTATTTTGATTGATTTT
1 TTTTGTATTCTGATTGATTTT
77387503 TTTTGT-TTCTGA-TGATTT
1 TTTTGTATTCTGATTGATTT
77387521 GTCCAAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.13, C:0.03, G:0.15, T:0.69
Consensus pattern (21 bp):
TTTTGTATTCTGATTGATTTT
Found at i:77390879 original size:22 final size:23
Alignment explanation
Indices: 77390849--77390893 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
77390839 TAGTGTACTA
77390849 TTTTAAAATATATTAA-ATAATT
1 TTTTAAAATATATTAATATAATT
* *
77390871 TTTTTAAATATTTTAATATAATT
1 TTTTAAAATATATTAATATAATT
77390894 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTAAAATATATTAATATAATT
Found at i:77390916 original size:26 final size:28
Alignment explanation
Indices: 77390881--77390935 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
77390871 TTTTTAAATA
77390881 TTTTAATATAA-TTAA-ATAAAAATAAT
1 TTTTAATATAATTTAATATAAAAATAAT
*
77390907 TTTTTATATAATTTAATATAAAAATAAT
1 TTTTAATATAATTTAATATAAAAATAAT
77390935 T
1 T
77390936 ATATTAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 10 0.38
27 4 0.15
28 12 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTTAATATAATTTAATATAAAAATAAT
Found at i:77391198 original size:46 final size:44
Alignment explanation
Indices: 77391114--77391205 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 44
77391104 ATATCTATTC
* *
77391114 CATTCAACCAAACACAATAATGCTATTACAGTTCTATTCCATTA
1 CATTCAACCAAACACAATAATACTATTACAGCTCTATTCCATTA
*
77391158 CATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACACAAT-AA-TACT-ATTACAGCTCTATTCCATTA
77391204 CA
1 CA
77391206 GTTTTATTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.38
45 3 0.07
46 21 0.50
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAGCTCTATTCCATTA
Found at i:77391205 original size:16 final size:16
Alignment explanation
Indices: 77391184--77391234 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
77391174 TGAATTACTG
77391184 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
77391200 ATTACAGTTTTATTCA
1 ATTACAGCTCTATTCC
77391216 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
77391232 ATT
1 ATT
77391235 TCAGTGAACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:77391806 original size:14 final size:14
Alignment explanation
Indices: 77391787--77391881 Score: 52
Period size: 13 Copynumber: 6.4 Consensus size: 14
77391777 TAATTGTAAT
77391787 AAATATTATTATTA
1 AAATATTATTATTA
*
77391801 AAATATTAATATTGA
1 AAATATTATTATT-A
* *
77391816 ACATTTTCAATACTATGTGA
1 AAATATT--AT--TAT-T-A
77391836 ATAATATTA-T-TTA
1 A-AATATTATTATTA
*
77391849 AAATTATTATTTTTA
1 AAA-TATTATTATTA
77391864 AAAT-TTATTATTA
1 AAATATTATTATTA
77391877 AAATA
1 AAATA
77391882 AATTTGAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
12 2 0.03
13 19 0.30
14 15 0.24
15 13 0.21
16 1 0.02
17 1 0.02
19 4 0.06
20 4 0.06
21 4 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (14 bp):
AAATATTATTATTA
Found at i:77391871 original size:16 final size:16
Alignment explanation
Indices: 77391840--77391876 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
77391830 ATGTGAATAA
77391840 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
77391856 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
77391872 TATTA
1 TATTA
77391877 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:77391929 original size:34 final size:33
Alignment explanation
Indices: 77391849--77391929 Score: 78
Period size: 34 Copynumber: 2.5 Consensus size: 33
77391839 ATATTATTTA
*
77391849 AAATTATTATTT-TT-AAAATTTATTATTAAAAT
1 AAATTA-TATTTATTAAAAATTTATTAATAAAAT
** *
77391881 AAATT-TGAAATATTAAACAATTTATTAATATAAT
1 AAATTAT-ATTTATTAAA-AATTTATTAATAAAAT
77391915 AAATTATATTTATTA
1 AAATTATATTTATTA
77391930 TATTATTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
30 1 0.03
31 2 0.05
32 7 0.18
33 2 0.05
34 25 0.66
35 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
AAATTATATTTATTAAAAATTTATTAATAAAAT
Found at i:77391943 original size:16 final size:17
Alignment explanation
Indices: 77391917--77391948 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
77391907 AATATAATAA
77391917 ATTATATTTATTATATT
1 ATTATATTTATTATATT
77391934 ATTA-ATTTATTATAT
1 ATTATATTTATTATAT
77391949 GACTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATATTTATTATATT
Done.