Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 92 of 208
Found at i:31594166 original size:37 final size:37
Alignment explanation
Indices: 31594098--31594187 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 37
31594088 TATATATGTA
31594098 CATATATATATTTTTATAACTTAAATATACATAC-G-
1 CATATATATATTTTTATAACTTAAATATACATACAGC
** * *
31594133 CATATATATATTTCTTATAGTTTGTAATTTACATACATGTC
1 CATATATATATTT-TTATAACTT-AAATATACATACA-G-C
31594174 CATATATATATTTT
1 CATATATATATTTT
31594188 CTATTTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
35 13 0.29
36 7 0.16
37 10 0.22
39 1 0.02
40 1 0.02
41 13 0.29
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (37 bp):
CATATATATATTTTTATAACTTAAATATACATACAGC
Found at i:31594380 original size:6 final size:6
Alignment explanation
Indices: 31594369--31594395 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
31594359 TATACATAAA
31594369 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
31594396 GATAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:31594421 original size:18 final size:19
Alignment explanation
Indices: 31594370--31594421 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
31594360 ATACATAAAT
* *
31594370 TTTATTTTTATT-TTTATT
1 TTTATTTTCATTATTTATA
* *
31594388 TTTATTTTGATAATTT-TA
1 TTTATTTTCATTATTTATA
31594406 TTTATTTTCATTATTT
1 TTTATTTTCATTATTT
31594422 GTTGTTATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTATTTTCATTATTTATA
Found at i:31596284 original size:19 final size:18
Alignment explanation
Indices: 31596243--31596285 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
31596233 GTCTCTTTTT
31596243 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
31596262 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
31596281 TGCAT
1 TGCAT
31596286 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:31598338 original size:6 final size:6
Alignment explanation
Indices: 31598329--31598373 Score: 63
Period size: 6 Copynumber: 7.0 Consensus size: 6
31598319 CAAAATAGAA
31598329 AAAAAG AAAAAG AAGAAACAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG -A-AAA-AG AAAAAG AAAAAG AAAAAG AAAAAG
31598374 GAGAGGTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 26 0.72
7 4 0.11
8 4 0.11
9 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:31600994 original size:50 final size:48
Alignment explanation
Indices: 31600934--31601609 Score: 550
Period size: 50 Copynumber: 13.7 Consensus size: 48
31600924 ACAGTGGAAC
* *
31600934 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTACAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-ACATTGCAATTAA-A
* * * * *
31600984 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-CATTGCAAT-TAAA
*
31601034 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-ACATTGCAATTAA-A
* * * *
31601084 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-CATTGCAAT-TAAA
* * *
31601134 CGATTGAAGTTACAACAGCAGATCTTACTTCCCTGACATTGCAATTCAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-ACATTGCAATT-AAA
* * * ** * * *
31601184 ATATTGAAGCTACAACAGCGGATCTTATTTTCCTAGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-CATTGCAAT-TAAA
** * * *
31601234 AGATTGAAGCTACAACAGTAGATCTTGCTTCCC--C--GGCAGTTAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTACATTGCAATTAAA
* * * * * * *
31601278 AGATTGAAGCTACAACAGCTGATCTTACTTTCCTAGCGTTCCAGTGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-CATTGCAAT-TAAA
*
31601328 AGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACATTGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-ACATTGCAATTAA-A
* * * * * * *
31601378 AGATTGAAGCTACAACCGCGGATCTTACTTTCCTAGCGTTGTAGTGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-CATTGCAAT-TAAA
* * *
31601428 AGATTGAAGCTGCAACAGTGGATCTTACTTCCCCGACATTGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTT-CCCTACATTGCAATTAA-A
* * *** *
31601478 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGCGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTA-CATTGCA-ATTAAA
* * * * * *
31601528 AGATTGAAGCTACGACAGTGAATCTCATTTCCCTGACATTGCAAGTAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCT-ACATTGCAATTAAA
* ** *
31601577 TAGATTGAAGCTACGATGGCGAATCTTACTTCC
1 -AGATTGAAGCTACAACAGCGGATCTTACTTCC
31601610 TGAAATTGCA
Statistics
Matches: 497, Mismatches: 103, Indels: 52
0.76 0.16 0.08
Matches are distributed among these distances:
44 31 0.06
45 5 0.01
47 1 0.00
49 20 0.04
50 425 0.86
51 15 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (48 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCTACATTGCAATTAAA
Found at i:31601346 original size:294 final size:293
Alignment explanation
Indices: 31600782--31601546 Score: 1025
Period size: 294 Copynumber: 2.6 Consensus size: 293
31600772 TAACCATAGT
* * * * *
31600782 TTGCAATTTAA-AAGATTGAAGCTACAACGGCGAACCTTACTTTCC-AGGCGGTGCAGTGGGATA
1 TTGCAA-TTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAATA
* * *
31600845 GATTGAAGCTACAACGGCGAATCTT-CTTTCCCTGA-ATGGC-A--AAAAATTG-AG-TACAATA
64 GATTGAAGCTACAACAGCG-ATCTTAC-TTCCCTGACATTGCAATTAAAAATTGAAGCTACAACA
* * *
31600903 GCGGATCTTACTT-CTAGCGTTACAGTGGAACAGATTGAAGCTACAACAGCAGATCTTACTTCCC
127 GCGGATCTTATTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGTAGATCTTACTTCCC
* *
31600967 TGACATTACAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGA
192 --ACA-GACAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTCCAGTGGA
31601032 ACAGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
254 ACAGATTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* **
31601072 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACCGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAATAGA
*
31601137 TTGAAGTTACAACAGCAGATCTTACTTCCCTGACATTGCAATTCAAAATATTGAAGCTACAACAG
66 TTGAAGCTACAACAGC-GATCTTACTTCCCTGACATTGCAATT-AAAA-ATTGAAGCTACAACAG
* *
31601202 CGGATCTTATTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTACAACAGTAGATCTTGCTTCCC
128 CGGATCTTA-TTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGTAGATCTTACTTCCC
* * * *
31601267 -C-GGCAGTTAA-AAGATTGAAGCTACAACAGCTGATCTTACTTTCCTAGCGTTCCAGTGGAATA
192 ACAGACAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTCCAGTGGAACA
31601329 GATTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
257 GATTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* *
31601366 TTGCAATTAAGAAGATTGAAGCTACAACCGCGGATCTTACTTTCCTAGCGTTGTAGTGGAATAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAATAGA
* * *
31601431 TTGAAGCTGCAACAGTGGATCTTACTTCCCCGACATTGCAATTAAGAAGATTGAAGCTACAACAG
66 TTGAAGCTACAACAG-CGATCTTACTTCCCTGACATTGCAATTAA-AA-ATTGAAGCTACAACAG
* * *
31601496 CGGATCTTACTTTCCTAGCGTTGCAGCGGAATAGATTGAAGCTACGACAGT
128 CGGATCTTA-TTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGT
31601547 GAATCTCATT
Statistics
Matches: 421, Mismatches: 38, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
289 4 0.01
290 77 0.18
291 7 0.02
292 1 0.00
293 2 0.00
294 248 0.59
295 10 0.02
296 4 0.01
297 3 0.01
298 16 0.04
299 2 0.00
300 47 0.11
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (293 bp):
TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAATAGA
TTGAAGCTACAACAGCGATCTTACTTCCCTGACATTGCAATTAAAAATTGAAGCTACAACAGCGG
ATCTTATTTCCTAGCGTTGCAGTGGAACAGATTGAAGCTACAACAGTAGATCTTACTTCCCACAG
ACAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTCCAGTGGAACAGATT
GAAGCTACAACAGCAGATCTTACTTCCCTGACA
Found at i:31601607 original size:100 final size:99
Alignment explanation
Indices: 31600782--31601590 Score: 1051
Period size: 100 Copynumber: 8.2 Consensus size: 99
31600772 TAACCATAGT
* * * * * *
31600782 TTGCAATTTAAAAGATTGAAGCTACAACGGCGAACCTTACTTTCC-AGGCGGTGCAGTGGGATAG
1 TTGCAA-TTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACAG
*
31600846 ATTGAAGCTACAACGGC-GAATCTT-CTTTCCCTGA-A
64 ATTGAAGCTACAACAGCAG-ATCTTAC-TTCCCTGACA
* * *
31600881 TGGC-A--AAAA-ATTG-AG-TACAATAGCGGATCTTAC-TT-CTAGCGTTACAGTGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGAT
31600938 TGAAGCTACAACAGCAGATCTTACTTCCCTGACA
66 TGAAGCTACAACAGCAGATCTTACTTCCCTGACA
*
31600972 TTACAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
31601037 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* *
31601072 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACCGA
1 TTGCAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
*
31601137 TTGAAGTTACAACAGCAGATCTTACTTCCCTGACA
65 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* * *
31601172 TTGCAATTCAAAATATTGAAGCTACAACAGCGGATCTTATTTTCCTAGTGTTGCAGTGGAACAGA
1 TTGCAATT-AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
* *
31601237 TTGAAGCTACAACAGTAGATCTTGCTTCCC---C-
65 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* * * * *
31601268 -GGCAGTTAAAAGATTGAAGCTACAACAGCTGATCTTACTTTCCTAGCGTTCCAGTGGAATAGAT
1 TTGCAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGAT
31601332 TGAAGCTACAACAGCAGATCTTACTTCCCTGACA
66 TGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* * *
31601366 TTGCAATTAAGAAGATTGAAGCTACAACCGCGGATCTTACTTTCCTAGCGTTGTAGTGGAATAGA
1 TTGCAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
* ** *
31601431 TTGAAGCTGCAACAGTGGATCTTACTTCCCCGACA
65 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* *
31601466 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGCGGAATAGA
1 TTGCAATTAA-AAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
* * * *
31601531 TTGAAGCTACGACAG-TGAATCTCATTTCCCTGACA
65 TTGAAGCTACAACAGCAG-ATCTTACTTCCCTGACA
*
31601566 TTGCAAGTAAATAGATTGAAGCTAC
1 TTGCAATTAAA-AGATTGAAGCTAC
31601591 GATGGCGAAT
Statistics
Matches: 632, Mismatches: 56, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
90 43 0.07
91 8 0.01
92 15 0.02
93 2 0.00
94 84 0.13
95 11 0.02
96 4 0.01
97 4 0.01
98 18 0.03
99 14 0.02
100 427 0.68
101 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGAT
TGAAGCTACAACAGCAGATCTTACTTCCCTGACA
Found at i:31613627 original size:19 final size:18
Alignment explanation
Indices: 31613586--31613628 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
31613576 GTCTCTTTTT
31613586 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
31613605 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
31613624 TGCAT
1 TGCAT
31613629 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:31615680 original size:6 final size:6
Alignment explanation
Indices: 31615671--31615715 Score: 63
Period size: 6 Copynumber: 7.0 Consensus size: 6
31615661 CAAAATAGAA
31615671 AAAAAG AAAAAG AAGAAACAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG -A-AAA-AG AAAAAG AAAAAG AAAAAG AAAAAG
31615716 GAGAGGTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 26 0.72
7 4 0.11
8 4 0.11
9 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:31618246 original size:50 final size:49
Alignment explanation
Indices: 31618192--31618949 Score: 589
Period size: 50 Copynumber: 15.3 Consensus size: 49
31618182 GCAGTGGGAT
* * *
31618192 AGATTGAAGCTACAACGGCGAATCTT-CTTTCCCTGACATGGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCT-ACATTGCAATTAA-A
* * * * * *
31618242 AGATTGAAGCTACAATAGCGGATCTTACTTT-CCTAGCGTTACAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTA-CATTGCAAT-TAAA
* *
31618292 AGATTGAAGCTACAACAGCAGATCTTAC-TTCCCTGACATTACAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCT-ACATTGCAATTAA-A
* * * *
31618342 AGATTGAAGCTACAACAGCGGATCTTACTTT-CCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTA-CATTGCAAT-TAAA
*
31618392 AGATTGAAGCTACAACAGCAGATCTTAC-TTCCCTGACATTGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCT-ACATTGCAATTAA-A
* * *
31618442 AGATTGAAGCTACAACAGCGGATCTTACTTT-CCTAGCATTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTA-CATTGCAAT-TAAA
* * *
31618492 CGATTGAAGTTACAACAGCAGATCTTAC-TTCCCTGACATTGCAATTCAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCT-ACATTGCAATT-AAA
* * ** * * *
31618542 ATATTGAAGCTACAACAGCGGATCTTA-TTTTCCTAGTGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTA-CATTGCAAT-TAAA
** * * *
31618592 AGATTGAAGCTACAACAGTAGATCTTGC-TTCCC--C--GGCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTACATTGCAATT-AAA
* * * * * *
31618637 AGATTGAAGCTACAACAGCTGATCTTACTTT-CCTAGCGTTCCAGTGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTA-CATTGCAAT-TAAA
*
31618687 AGATTGAAGCTACAACAGCAGATCTTAC-TTCCCTGACATTGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCT-ACATTGCAATTAA-A
* * * * * *
31618737 AGATTGAAGCTACAACCGCGGATCTTACTTT-CCTAGCGTTGTAGTGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTA-CATTGCAAT-TAAA
* * * *
31618787 AGATTGAAGCTGCAACAGTGGATCTTACTTCCCCGACATTGCAATTAAGA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTACATTGCAATTAA-A
* *** *
31618837 AGATTGAAGCTACAACAGCGGATCTTACTTT-CCTAGCGTTGCAGCGGAAT
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTA-CATTGCA-ATTAAA
* * * * *
31618887 AGATTGAAGCTACGACAGTGAATCTCA-TTTCCCTGACATTGCAAGTAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTTCCCT-ACATTGCAATTAAA
31618936 TAGATTGAAGCTAC
1 -AGATTGAAGCTAC
31618950 GATGGCGAAT
Statistics
Matches: 563, Mismatches: 102, Indels: 86
0.75 0.14 0.11
Matches are distributed among these distances:
45 34 0.06
46 2 0.00
48 1 0.00
49 30 0.05
50 468 0.83
51 28 0.05
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (49 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTTCCCTACATTGCAATTAAA
Found at i:31618966 original size:100 final size:100
Alignment explanation
Indices: 31618130--31618949 Score: 1142
Period size: 100 Copynumber: 8.2 Consensus size: 100
31618120 TAACCATAGT
* * * * * *
31618130 TTGCAATTTAA-AAGATTGAAGCTACAACGGCGAACCTTACTTTCC-AGGCGGTGCAGTGGGATA
1 TTGCAA-TTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTA-GCGTTGCAGTGGAACA
*
31618193 GATTGAAGCTACAACGGC-GAATCTT-CTTTCCCTGACA
64 GATTGAAGCTACAACAGCAG-ATCTTAC-TTCCCTGACA
* * *
31618230 TGGCAATTAAGAAGATTGAAGCTACAATAGCGGATCTTACTTTCCTAGCGTTACAGTGGAACAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
31618295 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
*
31618330 TTACAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
31618395 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* *
31618430 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCATTGCAGTGGAACCGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
*
31618495 TTGAAGTTACAACAGCAGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* * *
31618530 TTGCAATTCAA-AATATTGAAGCTACAACAGCGGATCTTATTTTCCTAGTGTTGCAGTGGAACAG
1 TTGCAATT-AAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAG
* *
31618594 ATTGAAGCTACAACAGTAGATCTTGCTTCCC---C-
65 ATTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* * * * * *
31618626 -GGCAGTTAAAAAGATTGAAGCTACAACAGCTGATCTTACTTTCCTAGCGTTCCAGTGGAATAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
31618690 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* * *
31618725 TTGCAATTAAGAAGATTGAAGCTACAACCGCGGATCTTACTTTCCTAGCGTTGTAGTGGAATAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
* ** *
31618790 TTGAAGCTGCAACAGTGGATCTTACTTCCCCGACA
66 TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
* *
31618825 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGCGGAATAGA
1 TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
* * * *
31618890 TTGAAGCTACGACAG-TGAATCTCATTTCCCTGACA
66 TTGAAGCTACAACAGCAG-ATCTTACTTCCCTGACA
*
31618925 TTGCAAGTAA-ATAGATTGAAGCTAC
1 TTGCAATTAAGA-AGATTGAAGCTAC
31618950 GATGGCGAAT
Statistics
Matches: 650, Mismatches: 57, Indels: 26
0.89 0.08 0.04
Matches are distributed among these distances:
94 2 0.00
95 81 0.12
97 1 0.00
98 1 0.00
99 6 0.01
100 554 0.85
101 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (100 bp):
TTGCAATTAAGAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAGA
TTGAAGCTACAACAGCAGATCTTACTTCCCTGACA
Found at i:31619393 original size:46 final size:44
Alignment explanation
Indices: 31619201--31620058 Score: 422
Period size: 44 Copynumber: 19.8 Consensus size: 44
31619191 TCACAAATCC
* * * *
31619201 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCC
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATCA-GATCT
* * * *
31619244 TATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-AATAAAGGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT-CA-GATCT
* * ** * * * *
31619288 TATCTCTCTGAAGTTACAGCAGAGTAGATC---GTATTAGGTCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATCAGATCT
* *
31619329 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TCAGATCT
* *
31619375 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG--CCATGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATCA-GATCT
* * * * *
31619418 TATCTCCCTGAGATTACAGCGGTGCAGATCGAAG-A-CACTATCC
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATCA-GATCT
* ** * *
31619461 TATCTCCCTGAAGTTACAGTGGAGTGGAT-TAA-AATAAAGGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT-CA-GATCT
* * ** * * *
31619505 TATCTCTCTGAAGTTACAGCAGAGTAGATC---GCATCAGGTCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATCAGATCT
* *
31619546 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TCAGATCT
* * *
31619592 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-GAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-AATCAGATCT
* * * *
31619636 TATCTCCCTGAGATTATAGTGGAGCAGATTGAAGACA-GAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA-ATCAGATCT
* * *
31619680 TATCTTCCTGAAGTTACAGTGGAGCAGA-CGAAAGAAATCA-ATCC
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCG-AAG-AATCAGATCT
* * * *
31619724 TATCTCCCTGAAGTTACAGTAGAGCAGA-CAAAAGAAATCA-ATCC
1 TATCTCCCTGAGGTTACAGTGGAGCAGATC-GAAG-AATCAGATCT
* * * * * * *
31619768 TATCTCTCTGAAGTTGCAGTAGAGCGGAT-TAA-AACCACAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TCAGATCT
* * ** * *
31619812 TATCTCTCTGAAGTTACAGCAGAGCAGAT---TGCATCCAG-TCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT-CAGATCT
* * *
31619853 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAGAAATCA-ATCC
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCG-AAG-AATCAGATCT
*** * * * * * *
31619897 TATC-GATTGAAGTTGCAGTGGAGCGGGT-TAA-AACCACAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TCAGATCT
* * ** * * * *
31619940 TATCTCTCTGAAGTTACAGCAGAGTAGATC---GCATAAGGTCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATCAGATCT
* *
31619981 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCT
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TCAGATCT
*
31620027 TATCTCCCTGAAGTTACAGTGGAGCAGA-CGAA
1 TATCTCCCTGAGGTTACAGTGGAGCAGATCGAA
31620059 AAATACCAAT
Statistics
Matches: 634, Mismatches: 129, Indels: 102
0.73 0.15 0.12
Matches are distributed among these distances:
40 2 0.00
41 117 0.18
42 17 0.03
43 124 0.20
44 258 0.41
45 8 0.01
46 107 0.17
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATCAGATCT
Found at i:31619534 original size:87 final size:85
Alignment explanation
Indices: 31619368--31619570 Score: 194
Period size: 87 Copynumber: 2.4 Consensus size: 85
31619358 CGAAGAATTT
* * ** * *** *
31619368 CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCATGATCTTATCTCCCTGAGAT
1 CAGATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCCCTGAGAT
* *
31619432 TACAGCGGTGCAGATCGAAGA
66 TACAGCAGAGCAGATCGAA-A
* *
31619453 CACTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGA-A
1 CA-GATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCCCTGAGA
* * *
31619517 GTTACAGCAGAGTAGATCGCAT
65 -TTACAGCAGAGCAGATCGAAA
* * *
31619539 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGT
1 CAGATCCTATCTCCCTGAAGTTACAGTGGAGT
31619571 AGACCGAAGA
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
85 28 0.29
86 33 0.35
87 34 0.36
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (85 bp):
CAGATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCCCTGAGAT
TACAGCAGAGCAGATCGAAA
Found at i:31619576 original size:217 final size:217
Alignment explanation
Indices: 31619201--31620054 Score: 1021
Period size: 217 Copynumber: 3.9 Consensus size: 217
31619191 TCACAAATCC
31619201 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTTACAGTG
1 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGCTATCCTATCTCCCTGAAGTTACAGTG
* *
31619265 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTATTAGGTCTT
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTT
*
31619330 ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGT
131 ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAGT
31619395 GGAGCAGATTGAAGCCATGATCT
196 GGAGCAGATTGAAGCCA-GATCT
*
31619418 TATCTCCCTGAGATTACAGCGGTGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTTACAGTG
1 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGCTATCCTATCTCCCTGAAGTTACAGTG
*
31619482 GAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTT
66 GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTT
*
31619547 ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGT
131 ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAGT
31619612 GGAGCAGATTGAAGCCAGAGATCT
196 GGAGCAGATTGAAGCC--AGATCT
* * * ** * *
31619636 TATCTCCCTGAGATTATAGTGGAGCAGATTGAAGACAGAGATCTTATCTTCCTGAAGTTACAGTG
1 TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGCTATCCTATCTCCCTGAAGTTACAGTG
* ** *** * * * * *
31619701 GAGCAGACGAAAGA-AATCAATCCTATCTCCCTGAAGTTACAGTAGAGCAGA-CAAAAGAAATCA
66 GAGCGGATTAAA-ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC----G-CATCA
* * * * * * ** ** *** *
31619764 -ATCCTATCTCTCTGAAGTTGCAGTAGAGCGGA-TTAA-AACCACAGATCTTATCTCTCTGAAGT
125 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGT
** * *
31619826 TACAGCAGAGCAGATTGCATCCAG-TCT
190 TACAGTGGAGCAGATTGAAGCCAGATCT
* * * * * *** *
31619853 TATCTCCCTGA-AGTTGCAGTGGAGCAGA-CGAAAGAAATCAATCCTATC-GATTGAAGTTGCAG
1 TATCTCCCTGAGA-TTACAGCGGAGCAGATCG-AAGACAGCTATCCTATCTCCCTGAAGTTACAG
* * * *
31619915 TGGAGCGGGTTAAAACCACA-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATAAGGT
64 TGGAGCGGATTAAAA-TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGT
31619979 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTAC
128 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTAC
31620044 AGTGGAGCAGA
193 AGTGGAGCAGA
31620055 CGAAAAATAC
Statistics
Matches: 536, Mismatches: 84, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
212 3 0.01
213 25 0.05
214 2 0.00
215 35 0.07
216 50 0.09
217 247 0.46
218 41 0.08
219 62 0.12
220 40 0.07
221 2 0.00
222 25 0.05
223 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (217 bp):
TATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGCTATCCTATCTCCCTGAAGTTACAGTG
GAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTT
ATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAGT
GGAGCAGATTGAAGCCAGATCT
Found at i:31619953 original size:128 final size:129
Alignment explanation
Indices: 31619724--31620009 Score: 441
Period size: 128 Copynumber: 2.2 Consensus size: 129
31619714 AAATCAATCC
* **
31619724 TATCTCCCTGAAGTTACAGTAGAGCAGACAAAAGAAATCAATCCTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTACAGTGGAGCAGACAAAAGAAATCAATCCTATCGATCTGAAGTTGCAGTA
* *
31619789 GAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATTGCATCCA-GTCT
66 GAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCAT-AAGGTCT
* * *
31619853 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATCAATCCTATCGAT-TGAAGTTGCAGTG
1 TATCTCCCTGAAGTTACAGTGGAGCAGACAAAAGAAATCAATCCTATCGATCTGAAGTTGCAGTA
* *
31619917 GAGCGGGTTAAAACCACAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATAAGGTCT
66 GAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATAAGGTCT
* *
31619981 TATCTCCCTGAGGTTACAGTGGAGTAGAC
1 TATCTCCCTGAAGTTACAGTGGAGCAGAC
31620010 CGAAGAATTT
Statistics
Matches: 143, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
127 1 0.01
128 96 0.67
129 46 0.32
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (129 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGACAAAAGAAATCAATCCTATCGATCTGAAGTTGCAGTA
GAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCATAAGGTCT
Found at i:31620056 original size:174 final size:174
Alignment explanation
Indices: 31619850--31620248 Score: 432
Period size: 174 Copynumber: 2.3 Consensus size: 174
31619840 TTGCATCCAG
* *
31619850 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATCAATCCTATCGAT-TGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAACCAATCCTATCGATCTGAAGTTGCA
* * *
31619914 GTGGAGCGGGTTAAAACCACAG-ATCTTAT-CTCTCTGAAGTTACAGCAGAGTAG-ATCGCAT-A
66 GTGGAGCGGATGAAAACCA-AGAATCATATAC-CTCTGAAGTTACAGCAG-GTAGAATCGCATCA
** * * *
31619975 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
128 A-ACCTTATCTCCCTGAAGTCACAGTGGAGCAGACCGAAG-ATTTCAGA
* * **
31620024 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAA-AATACCAATCGTGTCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAA-ACCAATCCTATCGATCTGAAGTTGC
* * * * * * * *
31620088 AGTGGAGTGGATGAAAACGATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATTGGATCAAA
65 AGTGGAGCGGATGAAAACCAAGAATCATATACCTCTGAAGTTACAGCAGGTAGAATCGCATCAAA
** ***
31620153 CCTTATCTCCCTGAAGTCGTAGTGGAGCAGGTTGAAGATTTCAGA
130 CCTTATCTCCCTGAAGTCACAGTGGAGCAGACCGAAGATTTCAGA
* * *
31620198 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACAAAAGAAACCGATCCTATC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAACCAATCCTATC
31620249 TCCCTGACGT
Statistics
Matches: 186, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
173 2 0.01
174 100 0.54
175 81 0.44
176 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (174 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAACCAATCCTATCGATCTGAAGTTGCA
GTGGAGCGGATGAAAACCAAGAATCATATACCTCTGAAGTTACAGCAGGTAGAATCGCATCAAAC
CTTATCTCCCTGAAGTCACAGTGGAGCAGACCGAAGATTTCAGA
Found at i:31624471 original size:9 final size:9
Alignment explanation
Indices: 31624432--31624771 Score: 247
Period size: 9 Copynumber: 39.8 Consensus size: 9
31624422 TATGTATTAA
*
31624432 GTAAATTAT
1 GTAAGTTAT
31624441 GTAAGTTAT
1 GTAAGTTAT
*
31624450 GTACGTGTA-
1 GTAAGT-TAT
31624459 -TAAGTTAT
1 GTAAGTTAT
*
31624467 GTAAGTCAT
1 GTAAGTTAT
*
31624476 GT-A-TTAA
1 GTAAGTTAT
*
31624483 GTAAGCTAT
1 GTAAGTTAT
*
31624492 GTAAGTTGT
1 GTAAGTTAT
31624501 GT-A-TTAT
1 GTAAGTTAT
*
31624508 GTAACTTAT
1 GTAAGTTAT
31624517 GTAAGTTAT
1 GTAAGTTAT
*** *
31624526 ACCAGTAAT
1 GTAAGTTAT
*
31624535 GTATGTTAT
1 GTAAGTTAT
31624544 GTAAG-T-T
1 GTAAGTTAT
31624551 GTAAGTTAT
1 GTAAGTTAT
31624560 GT-A-TTAT
1 GTAAGTTAT
*
31624567 GTAACTTAT
1 GTAAGTTAT
31624576 GTAAGTTAT
1 GTAAGTTAT
* *
31624585 -CAAATTAAT
1 GTAAGTT-AT
*
31624594 GTATGTTAT
1 GTAAGTTAT
31624603 GTAAG-T-T
1 GTAAGTTAT
31624610 GTAAGTTAT
1 GTAAGTTAT
*
31624619 -TATGTATTAT
1 GTAAG--TTAT
31624629 GTAAGTTAT
1 GTAAGTTAT
31624638 GTAAGTTAT
1 GTAAGTTAT
31624647 GT-A-TTAT
1 GTAAGTTAT
*
31624654 GTAGGTTAT
1 GTAAGTTAT
31624663 GTAAGTTAT
1 GTAAGTTAT
*
31624672 GTAAGTTAC
1 GTAAGTTAT
*
31624681 GT-A-TTTT
1 GTAAGTTAT
*
31624688 GTAGGTTAT
1 GTAAGTTAT
*
31624697 GTAAGTTGT
1 GTAAGTTAT
*
31624706 GTAAGATAT
1 GTAAGTTAT
*
31624715 TTAAGTTAT
1 GTAAGTTAT
*
31624724 GTAAGTTTT
1 GTAAGTTAT
31624733 GT-A-TTAT
1 GTAAGTTAT
31624740 GTAAGTTAT
1 GTAAGTTAT
* *
31624749 GTATGCTAT
1 GTAAGTTAT
31624758 GT-A-TTAT
1 GTAAGTTAT
31624765 GTAAGTT
1 GTAAGTT
31624772 TATATAAAAA
Statistics
Matches: 254, Mismatches: 51, Indels: 52
0.71 0.14 0.15
Matches are distributed among these distances:
7 49 0.19
8 26 0.10
9 167 0.66
10 9 0.04
11 3 0.01
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:31624537 original size:59 final size:58
Alignment explanation
Indices: 31624459--31624703 Score: 228
Period size: 59 Copynumber: 4.1 Consensus size: 58
31624449 TGTACGTGTA
** * * *
31624459 TAAGTTATGTAAGTCATGTA-TTAAGTAAGCTATGTAAGTTGTGTATTATGTAACTTATG
1 TAAGTTATCAAAGTAATGTAGTTATGTAAG-T-TGTAAGTTATGTATTATGTAACTTATG
*
31624518 TAAGTTAT-ACCAGTAATGTATGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATG
1 TAAGTTATCA-AAGTAATGTA-GTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATG
* *
31624577 TAAGTTATCAAATTAATGTATGTTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTATG
1 TAAGTTATCAAAGTAATGTA-GTTATGTAAGTTGTAAG---TTATGTATTATGTAACTTATG
** * * * **
31624639 TAAGTTAT-GTA-TTATGTAGGTTATGTAAGTTATGTAAGTTACGTATTTTGTAGGTTATG
1 TAAGTTATCAAAGTAATGTA-GTTATGTAAG-T-TGTAAGTTATGTATTATGTAACTTATG
31624698 TAAGTT
1 TAAGTT
31624704 GTGTAAGATA
Statistics
Matches: 162, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
59 100 0.62
60 18 0.11
61 10 0.06
62 34 0.21
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.45
Consensus pattern (58 bp):
TAAGTTATCAAAGTAATGTAGTTATGTAAGTTGTAAGTTATGTATTATGTAACTTATG
Found at i:31624623 original size:19 final size:19
Alignment explanation
Indices: 31624599--31624637 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
31624589 TTAATGTATG
31624599 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
31624618 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
31624637 T
1 T
31624638 GTAAGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:31624768 original size:25 final size:26
Alignment explanation
Indices: 31624421--31624771 Score: 243
Period size: 25 Copynumber: 13.7 Consensus size: 26
31624411 GTTACATAAT
* *
31624421 TTATGTA-TTAAGTAAATTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
31624446 TTATGTACGTGTA--TAAGTTATGTAAG
1 TTATGTA-GT-TATGTAAGTTATGTAAG
* * *
31624472 TCATGTA-TTAAGTAAGCTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
* *
31624497 TTGTGTA-TTATGTAACTTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
** * *
31624522 TTATACCAGTAATGTATGTTATGTAAG
1 TTAT-GTAGTTATGTAAGTTATGTAAG
*
31624549 -T-TGTAAGTTATGT-A-TTATGTAAC
1 TTATGT-AGTTATGTAAGTTATGTAAG
* * *
31624572 TTATGTAAGTTAT-CAAATTAATGTATG
1 TTATGT-AGTTATGTAAGTT-ATGTAAG
*
31624599 TTATGTAAG-T-TGTAAGTTAT-TATG
1 TTATGT-AGTTATGTAAGTTATGTAAG
31624623 TATTATGTAAGTTATGTAAGTTATGT-A-
1 --TTATGT-AGTTATGTAAGTTATGTAAG
31624650 TTATGTAGGTTATGTAAGTTATGTAAG
1 TTATGTA-GTTATGTAAGTTATGTAAG
* * *
31624677 TTACGTA-TTTTGTAGGTTATGTAAG
1 TTATGTAGTTATGTAAGTTATGTAAG
* * *
31624702 TTGTGTAAGATATTTAAGTTATGTAAG
1 TTATGT-AGTTATGTAAGTTATGTAAG
* *
31624729 TTTTGTA-TTATGTAAGTTATGTATG
1 TTATGTAGTTATGTAAGTTATGTAAG
*
31624754 CTATGTA-TTATGTAAGTT
1 TTATGTAGTTATGTAAGTT
31624772 TATATAAAAA
Statistics
Matches: 262, Mismatches: 40, Indels: 48
0.75 0.11 0.14
Matches are distributed among these distances:
23 10 0.04
24 7 0.03
25 137 0.52
26 39 0.15
27 56 0.21
28 12 0.05
29 1 0.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (26 bp):
TTATGTAGTTATGTAAGTTATGTAAG
Found at i:31624834 original size:38 final size:39
Alignment explanation
Indices: 31624741--31624835 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 39
31624731 TTGTATTATG
* * * * *
31624741 TAAG-TTATGTATGCTATGTATTATGTAAGTTTATATAA
1 TAAGTTTATGTAAGTTATGTATTATGTAAGGTAACATAA
* * *
31624779 AAATTTTATATAAGTTATGTATTATGTAAGGTAACAT-A
1 TAAGTTTATGTAAGTTATGTATTATGTAAGGTAACATAA
31624817 TAAGTTTATGTAAGTTATG
1 TAAGTTTATGTAAGTTATG
31624836 AATGTAAGTT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
38 19 0.42
39 26 0.58
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (39 bp):
TAAGTTTATGTAAGTTATGTATTATGTAAGGTAACATAA
Found at i:31624958 original size:19 final size:20
Alignment explanation
Indices: 31624936--31624982 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
31624926 ATTTTCAAGT
* *
31624936 ATATATAAAATTTTA-ATAA
1 ATATATAAAACTGTATATAA
31624955 ATATATTAAAACTGTATATAA
1 ATATA-TAAAACTGTATATAA
31624976 ATATATA
1 ATATATA
31624983 TATCAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATATAAAACTGTATATAA
Found at i:31626926 original size:11 final size:11
Alignment explanation
Indices: 31626910--31626936 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
31626900 TTACTCAACC
31626910 AGTAATATGAA
1 AGTAATATGAA
31626921 AGTAATATGAA
1 AGTAATATGAA
31626932 AGTAA
1 AGTAA
31626937 ATTAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (11 bp):
AGTAATATGAA
Found at i:31627863 original size:27 final size:27
Alignment explanation
Indices: 31627815--31627866 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
31627805 TCTTACATTT
* *
31627815 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
**
31627842 AAATAAATAATTACTTACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
31627867 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:31627947 original size:10 final size:10
Alignment explanation
Indices: 31627932--31627968 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
31627922 ATTAATAACT
31627932 ATATATATCC
1 ATATATATCC
*
31627942 ATATATAT-T
1 ATATATATCC
31627951 A-ATATATCC
1 ATATATATCC
31627960 ATATATATC
1 ATATATATC
31627969 AAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
8 6 0.26
9 2 0.09
10 15 0.65
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:31629857 original size:41 final size:41
Alignment explanation
Indices: 31629807--31629903 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
31629797 GGTAAATGCT
* *
31629807 TTAGCGGCGCTTAGATACAAACGGCGCTAAAG-GCCGGAGAA
1 TTAGCGGCGCTTAGATAAAAACGGCACTAAAGAGCC-GAGAA
* * * * *
31629848 TTAGTGGCGCTCAGATAAAAACGTCACTAAAGATCCGAGCA
1 TTAGCGGCGCTTAGATAAAAACGGCACTAAAGAGCCGAGAA
31629889 TTAGCGGCGCTTAGA
1 TTAGCGGCGCTTAGA
31629904 CAAAGAGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTAGATAAAAACGGCACTAAAGAGCCGAGAA
Found at i:31629972 original size:41 final size:40
Alignment explanation
Indices: 31629913--31630026 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
31629903 ACAAAGAGGT
* *
31629913 TTAGCGGCGTTCATATAAAAACGCCGCTAAAGATCGGAGAA
1 TTAGCGGCGCTCA-ATAAAAACGCCGCTAAAGATCCGAGAA
** *
31629954 TTAGCGGCGCTCAGATAAAAACGCCATTAAAGATCCGAGCA
1 TTAGCGGCGCTCA-ATAAAAACGCCGCTAAAGATCCGAGAA
* *
31629995 TTAGCGACGCACTAATAAAAACGCCGCTAAAG
1 TTAGCGGCGCTC-AATAAAAACGCCGCTAAAG
31630027 GTTTAAAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 61 0.98
42 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (40 bp):
TTAGCGGCGCTCAATAAAAACGCCGCTAAAGATCCGAGAA
Found at i:31629991 original size:106 final size:106
Alignment explanation
Indices: 31629806--31630000 Score: 302
Period size: 106 Copynumber: 1.8 Consensus size: 106
31629796 AGGTAAATGC
* * * *
31629806 TTTAGCGGCGCTTAGATACAAACGGCGCTAAAGGCCGGAGAATTAGTGGCGCTCAGATAAAAACG
1 TTTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACCGGAGAATTAGCGGCGCTCAGATAAAAACG
*
31629871 TCACTAAAGATCCGAGCATTAGCGGCGCTTAGACAAAGAGG
66 CCACTAAAGATCCGAGCATTAGCGGCGCTTAGACAAAGAGG
* *
31629912 TTTAGCGGCG-TTCATATAAAAACGCCGCTAAAGATCGGAGAATTAGCGGCGCTCAGATAAAAAC
1 TTTAGCGGCGCTT-AGATAAAAACGCCGCTAAAGACCGGAGAATTAGCGGCGCTCAGATAAAAAC
*
31629976 GCCATTAAAGATCCGAGCATTAGCG
65 GCCACTAAAGATCCGAGCATTAGCG
31630001 ACGCACTAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 2 0.03
106 78 0.98
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (106 bp):
TTTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACCGGAGAATTAGCGGCGCTCAGATAAAAACG
CCACTAAAGATCCGAGCATTAGCGGCGCTTAGACAAAGAGG
Found at i:31630196 original size:40 final size:39
Alignment explanation
Indices: 31630072--31630199 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 39
31630062 GGTTTTTTGT
* * *
31630072 GGCGCTTTATATAAAACGCCGCTAAT-TTCTATTTTTAGC
1 GGCGCTTT-TCTAAATCGCCGCTAATGCTCTATTTTTAGC
* ** **
31630111 GGCGCTTCTTCGAAATCGCCGCGGATGCTCTACCTTTAGC
1 GGCGCTT-TTCTAAATCGCCGCTAATGCTCTATTTTTAGC
* * * *
31630151 CGCGCTTTGTCTAAATCGCCGCTAATGCTCGATTTTTTGT
1 GGCGCTTT-TCTAAATCGCCGCTAATGCTCTATTTTTAGC
31630191 GGCGCTTTT
1 GGCGCTTTT
31630200 GTTCCAAACC
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
39 21 0.31
40 47 0.69
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (39 bp):
GGCGCTTTTCTAAATCGCCGCTAATGCTCTATTTTTAGC
Found at i:31635834 original size:43 final size:43
Alignment explanation
Indices: 31635769--31635908 Score: 217
Period size: 43 Copynumber: 3.3 Consensus size: 43
31635759 TTATAGAAAT
*
31635769 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTCCCGC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTCCCAC
* *
31635812 AAATGCCGCTAAAGGCCATGTTCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTCCCAC
* * **
31635855 AAACGGCGTTAAAGGTCATGTTCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTCCCAC
31635898 AAACGCCGCTA
1 AAACGCCGCTA
31635909 TTGTTTGGTG
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTCCCAC
Found at i:31636317 original size:26 final size:27
Alignment explanation
Indices: 31636291--31636343 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
31636281 TTACAACAAT
*
31636291 AACAGCACATATAAAGTAGTTGAAATAA
1 AACAGCACATATAAAATAGTTGAAAT-A
31636319 AACAGCACATATAAAATAGTTGAAA
1 AACAGCACATATAAAATAGTTGAAA
31636344 AGTTATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (27 bp):
AACAGCACATATAAAATAGTTGAAATA
Found at i:31636466 original size:25 final size:26
Alignment explanation
Indices: 31636415--31636476 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
31636405 TTTTACAATG
* *
31636415 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
31636441 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
31636466 ATTAAGTTATG
1 ATTAAGTTATG
31636477 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:31636480 original size:17 final size:17
Alignment explanation
Indices: 31636415--31636486 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
31636405 TTTTACAATG
* *
31636415 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
31636432 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
31636449 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
31636466 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
31636483 ATTA
1 ATTA
31636487 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:31636624 original size:34 final size:36
Alignment explanation
Indices: 31636582--31636665 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 36
31636572 TATTTTAAAA
* * *
31636582 TTATTAAGTTATGTAA-ATTATGTGAGTTGT-TAGG
1 TTATTAAGTTATGTAATATTATGTGAATTATATAAG
*
31636616 TTATTAAGTTAAGTAAGTTATTATGTGAATTATATAAG
1 TTATTAAGTTATGTAA--TATTATGTGAATTATATAAG
31636654 TTATTAAGTTAT
1 TTATTAAGTTAT
31636666 ATGGTATGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 15 0.37
37 12 0.29
38 14 0.34
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.48
Consensus pattern (36 bp):
TTATTAAGTTATGTAATATTATGTGAATTATATAAG
Found at i:31636665 original size:46 final size:46
Alignment explanation
Indices: 31636590--31636760 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 46
31636580 AATTATTAAG
* * * *
31636590 TTATGTAAATTATGTGAGTTGTTAGGTTATTAAGTTAAGTAAGTTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTAAGTAAGTTA
* * *
31636636 TTATGTGAATTATATAAGTTATTAAGTTA-TATGGTATGACA-TATATATGTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTA-AGT-T-A-AGTA-A-GT-TA
* * * * *
31636687 TTATGTAAATTATGTGAGTTGTTAAGTTGTTAAGTTATGTAAGTTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTAAGTAAGTTA
*
31636733 TTATGTGAATTATATAAGTTATTAAGTT
1 TTATGTAAATTATATAAGTTATTAAGTT
31636761 GGACATTTTT
Statistics
Matches: 97, Mismatches: 19, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
45 2 0.02
46 52 0.54
47 2 0.02
48 4 0.04
49 5 0.05
50 2 0.02
51 28 0.29
52 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (46 bp):
TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTAAGTAAGTTA
Found at i:31636667 original size:17 final size:17
Alignment explanation
Indices: 31636582--31636667 Score: 50
Period size: 17 Copynumber: 4.8 Consensus size: 17
31636572 TATTTTAAAA
* *
31636582 TTATTAAGTTATGTAAA
1 TTATTAAGTTATATAAG
* * *
31636599 TTATGTGAGTTGT-TAGG
1 TTAT-TAAGTTATATAAG
31636616 TTATTAAGTTA-AGTAAG
1 TTATTAAGTTATA-TAAG
*
31636633 TTATTATGTGAATTATATAAG
1 TTATTA----AGTTATATAAG
31636654 TTATTAAGTTATAT
1 TTATTAAGTTATAT
31636668 GGTATGACAT
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
16 5 0.10
17 26 0.50
18 6 0.12
21 14 0.27
22 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (17 bp):
TTATTAAGTTATATAAG
Found at i:31640115 original size:199 final size:199
Alignment explanation
Indices: 31639775--31640462 Score: 1011
Period size: 199 Copynumber: 3.5 Consensus size: 199
31639765 ACATTCAGCT
* * * *
31639775 TTTTTTAGTAGCGCCACTAATGACCAGGAAAAACGACACCGTTTTATGAAAACTGAGAACAGAAC
1 TTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACACCGTTTTACGAAAACTGAGAACAAAAC
* * * * * *
31639840 TTTGTGGCATTTTTTCCTTAGCGCCGCTAATGACCACATTTAGCGGCGTTTTTACCTTAGTGCCG
66 CTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGTTTTTCCCTTAGCGCCG
* * *
31639905 CAAAACCCATTAAATTCGCAGCCAAAAATTTCACCATTTTGTCTTCATTATTAAGAATATTTTGA
131 CAAAACCCATTAAATTCGCAGCCAAAAACTACACCATTTTGTCTTCATTATTAAGAATATTTTGC
*
31639970 GGTG
196 GGCG
* * *
31639974 TTTTTTAGTAGCGCCACTAATGCCCAAGCAAAACGACACTGTTTTGCGAAAACTGAGAACAAAAC
1 TTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACACCGTTTTACGAAAACTGAGAACAAAAC
* * * *
31640039 CTTGCAGCGTTTTTTCCTTAGCGCCGCTAATGACAACCCTTAGCGGCATTTTTCCCTTAGCGCCG
66 CTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGTTTTTCCCTTAGCGCCG
31640104 CAAAACCCATTAAATTCGCAGCCAAAAACTACACCATTTTGTCTTCATTATTAAGAATATTTTGC
131 CAAAACCCATTAAATTCGCAGCCAAAAACTACACCATTTTGTCTTCATTATTAAGAATATTTTGC
31640169 GGCG
196 GGCG
* * * * **
31640173 TTTTTTACTAGCACCACTAATGCCCGGGCAAAACGACACCGTTTTACGAAAATTGAGAACTGAAC
1 TTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACACCGTTTTACGAAAACTGAGAACAAAAC
* *
31640238 TTTGCGGCGTTTTTTCCTTAGCACCGCTAATGACCACCTTTAGCGGCGTTTTTCCCTTAGCGCCG
66 CTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGTTTTTCCCTTAGCGCCG
* *
31640303 CAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGTCTTCATTATTAAGAATATTTTGC
131 CAAAACCCATTAAATTCGCAGCCAAAAACTACACCATTTTGTCTTCATTATTAAGAATATTTTGC
* *
31640368 TGCA
196 GGCG
* * * * *
31640372 TTTTTTAGAAGCGCCACTAAT-CCCAGGCAAAATGACACCGTTTTGCGAAAACTAATAACAGAAA
1 TTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACACCGTTTTACGAAAACTGAGAACA-AAA
31640436 -CTTGCGGCGTTTTTTCCTTAGCGCCGC
65 CCTTGCGGCGTTTTTTCCTTAGCGCCGC
31640463 AAAGTCCATT
Statistics
Matches: 435, Mismatches: 53, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
198 57 0.13
199 378 0.87
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (199 bp):
TTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACACCGTTTTACGAAAACTGAGAACAAAAC
CTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGTTTTTCCCTTAGCGCCG
CAAAACCCATTAAATTCGCAGCCAAAAACTACACCATTTTGTCTTCATTATTAAGAATATTTTGC
GGCG
Found at i:31640679 original size:47 final size:48
Alignment explanation
Indices: 31640611--31640709 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 48
31640601 CATAGTTTTG
* * * **
31640611 TTTAGGTAATATTTATAAAAATTAGATAAAATTATTAATTTTAGT-TT
1 TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTTAGTGTT
* *
31640658 TTTAAGTAGTATTTAAAAAAATTAGGTAAAAATAAAAATTTTAGTGTT
1 TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTTAGTGTT
31640706 TTTA
1 TTTA
31640710 TTTCTTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 38 0.86
48 6 0.14
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.45
Consensus pattern (48 bp):
TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTTAGTGTT
Found at i:31640731 original size:22 final size:21
Alignment explanation
Indices: 31640705--31640747 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31640695 ATTTTAGTGT
* *
31640705 TTTTATTTCTTTTTATTTTTTA
1 TTTTATTT-TTTATAATTTTTA
31640727 TTTTATTTTTTATAATTTTTA
1 TTTTATTTTTTATAATTTTTA
31640748 CAATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTTTTATAATTTTTA
Found at i:31640732 original size:12 final size:12
Alignment explanation
Indices: 31640715--31640739 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31640705 TTTTATTTCT
31640715 TTTTATTTTTTA
1 TTTTATTTTTTA
31640727 TTTTATTTTTTA
1 TTTTATTTTTTA
31640739 T
1 T
31640740 AATTTTTACA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:31640747 original size:9 final size:9
Alignment explanation
Indices: 31640733--31640781 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
31640723 TTTATTTTAT
*
31640733 TTTTTATAA
1 TTTTTACAA
31640742 TTTTTACAA
1 TTTTTACAA
31640751 TTTTTTACAA
1 -TTTTTACAA
31640761 -TTTTACAA
1 TTTTTACAA
31640769 TTTTTACAA
1 TTTTTACAA
31640778 TTTT
1 TTTT
31640782 AAATTATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 8 0.22
9 20 0.54
10 9 0.24
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTACAA
Found at i:31640753 original size:19 final size:18
Alignment explanation
Indices: 31640731--31640786 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 18
31640721 TTTTTATTTT
*
31640731 ATTTTTTATAATTTTTACA
1 ATTTTTTACAA-TTTTACA
31640750 ATTTTTTACAATTTTACA
1 ATTTTTTACAATTTTACA
31640768 A-TTTTTACAATTTTA-A
1 ATTTTTTACAATTTTACA
31640784 ATT
1 ATT
31640787 ATTATATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 2 0.06
17 15 0.43
18 8 0.23
19 10 0.29
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTTACAATTTTACA
Found at i:31640754 original size:8 final size:8
Alignment explanation
Indices: 31640743--31640786 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
31640733 TTTTTATAAT
31640743 TTTTACAA
1 TTTTACAA
31640751 TTTTTTACAA
1 --TTTTACAA
31640761 TTTTACAA
1 TTTTACAA
31640769 TTTTTACAA
1 -TTTTACAA
31640778 TTTTA-AA
1 TTTTACAA
31640785 TT
1 TT
31640787 ATTATATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 4 0.12
8 13 0.39
9 8 0.24
10 8 0.24
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTTACAA
Found at i:31640800 original size:21 final size:20
Alignment explanation
Indices: 31640775--31640829 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
31640765 ACAATTTTTA
31640775 CAATTTTAAATTATT-ATATT
1 CAATTTTAAATTATTGATA-T
*
31640795 CAAATTATTATA-TATTGGATAT
1 C-AATT-TTAAATTATT-GATAT
31640817 CAATTTTAAATTA
1 CAATTTTAAATTA
31640830 ATAATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 6 0.21
23 3 0.11
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (20 bp):
CAATTTTAAATTATTGATAT
Found at i:31640983 original size:89 final size:90
Alignment explanation
Indices: 31640878--31641053 Score: 309
Period size: 89 Copynumber: 2.0 Consensus size: 90
31640868 TATAAAGAAC
* *
31640878 TTATTTAATATATAAATTAAAAAGTACTAATTAATCCAAATCTTAAACCCT-AACCCGACCCCAA
1 TTATTTAATATATAAATTAAAAAATACTAATTAATCCAAACCTTAAACCCTAAACCCGACCCCAA
*
31640942 ATCCCTAACCTCTAACCCCTAAACT
66 ATCCCTAACCCCTAACCCCTAAACT
*
31640967 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAACCCTAAACCCGACCCCAA
1 TTATTTAATATATAAATTAAAAAATACTAATTAATCCAAACCTTAAACCCTAAACCCGACCCCAA
31641032 ATCCCTAACCCCTAACCCCTAA
66 ATCCCTAACCCCTAACCCCTAA
31641054 CCCCTAACCC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 48 0.59
90 34 0.41
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.27
Consensus pattern (90 bp):
TTATTTAATATATAAATTAAAAAATACTAATTAATCCAAACCTTAAACCCTAAACCCGACCCCAA
ATCCCTAACCCCTAACCCCTAAACT
Found at i:31641051 original size:14 final size:14
Alignment explanation
Indices: 31641034--31641063 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31641024 GACCCCAAAT
31641034 CCCTAACCCCTAAC
1 CCCTAACCCCTAAC
31641048 CCCTAACCCCTAAC
1 CCCTAACCCCTAAC
31641062 CC
1 CC
31641064 TTAAACTTTA
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:0.27, C:0.60, G:0.00, T:0.13
Consensus pattern (14 bp):
CCCTAACCCCTAAC
Found at i:31641062 original size:104 final size:104
Alignment explanation
Indices: 31640935--31641225 Score: 397
Period size: 104 Copynumber: 2.8 Consensus size: 104
31640925 CCCTAACCCG
* * *
31640935 ACCCCAAATCCCTAACCTCTAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTA
1 ACCCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTA
31641000 ATCTAAACCTTAAACCCTAAACCCGACCCCAAATCCCTA
66 ATCTAAACCTTAAACCCTAAACCCGACCCCAAATCCCTA
* *
31641039 ACCCCTAACCCCTAACCCCTAACCCTTAAACTTTATTTAATATATAAATTAAAAAATAGTAATTA
1 ACCCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTA
* * * * ** *
31641104 ATTTAAACCCTAAACCAT-AACCCGATCCTGAGTCCCTA
66 ATCTAAACCTTAAACCCTAAACCCGACCCCAAATCCCTA
* * * * * *
31641142 ACCCTTAACCCATAACCCATAACCCCTAAACCTTATTTAATATAT-AATTAAAATATACCAATTA
1 ACCCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTA
*
31641206 ATCTAAACCTTAAACTCTAA
66 ATCTAAACCTTAAACCCTAA
31641226 CCTAACACCA
Statistics
Matches: 162, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
102 30 0.19
103 57 0.35
104 75 0.46
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.28
Consensus pattern (104 bp):
ACCCCTAACCCCTAACCCCTAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTA
ATCTAAACCTTAAACCCTAAACCCGACCCCAAATCCCTA
Found at i:31641249 original size:103 final size:101
Alignment explanation
Indices: 31640954--31641238 Score: 356
Period size: 103 Copynumber: 2.8 Consensus size: 101
31640944 CCCTAACCTC
31640954 TAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAACCCTA
1 TAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAA-CCT-
* * * *
31641019 AACCCGACCCCAAATCCCTAACCCCTAACCCCTAACCCC
64 AACCC-AACCCAAATCCCTAACCCTTAACCCATAACCCA
* * * *
31641058 TAACCCTTAAACTTTATTTAATATATAAATTAAAAAATAGTAATTAATTTAAACCCTAAACCATA
1 TAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAACC-TA
* ** *
31641123 ACCCGATCCTGAGTCCCTAACCCTTAACCCATAACCCA
65 ACCC-AACCCAAATCCCTAACCCTTAACCCATAACCCA
* * *
31641161 TAACCCCTAAACCTTATTTAATATAT-AATTAAAATATACCAATTAATCTAAACCTTAAACTCTA
1 TAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAAC-CTA
*
31641225 ACCTAACACCAAAT
65 ACCCAAC-CCAAAT
31641239 TTATAAACCC
Statistics
Matches: 155, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
101 2 0.01
102 37 0.24
103 59 0.38
104 57 0.37
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.28
Consensus pattern (101 bp):
TAACCCCTAAACTTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAACCTAA
CCCAACCCAAATCCCTAACCCTTAACCCATAACCCA
Found at i:31641287 original size:12 final size:12
Alignment explanation
Indices: 31641270--31641294 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31641260 CTCTTAACAT
31641270 CTAACCCCTAAC
1 CTAACCCCTAAC
31641282 CTAACCCCTAAC
1 CTAACCCCTAAC
31641294 C
1 C
31641295 CTTAACCCAT
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:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:31641300 original size:14 final size:13
Alignment explanation
Indices: 31641271--31641313 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
31641261 TCTTAACATC
31641271 TAACCCCTAACC-
1 TAACCCCTAACCT
31641283 TAACCCCTAACCCT
1 TAACCCCTAA-CCT
*
31641297 TAACCCATAAACCT
1 TAACCCCT-AACCT
31641311 TAA
1 TAA
31641314 ATCACATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 10 0.37
13 2 0.07
14 13 0.48
15 2 0.07
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (13 bp):
TAACCCCTAACCT
Found at i:31641355 original size:14 final size:15
Alignment explanation
Indices: 31641336--31641368 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
31641326 CTTAAACCAG
31641336 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
31641350 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
31641365 AATC
1 AATC
31641369 TATAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:31642129 original size:114 final size:114
Alignment explanation
Indices: 31641922--31642243 Score: 475
Period size: 114 Copynumber: 2.8 Consensus size: 114
31641912 ATTTTAAATG
* *
31641922 CCTGAGCATTAGCGGCGCTTACTTAAAAACGCCCCTAAATCCCCGAAAGCTCAGAAAACAGCGTC
1 CCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* *
31641987 GTTGGGCTTAGGTATTTTTGCGGTGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGCTTAGATATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * *
31642036 CTTGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCACCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * * * *
31642101 GTTGGGATTAGATTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGC
66 GTTGGGCTTAGATATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * *
31642150 CCTGAGCATTAGTGGTGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* *
31642215 GTTGGGCTTAGGTA-TTTTGCGGTGCTTTC
66 GTTGGGCTTAGATATTTTTGCGGCGCTTTC
31642244 TTGAAAACAC
Statistics
Matches: 184, Mismatches: 24, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
113 13 0.07
114 171 0.93
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (114 bp):
CCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
GTTGGGCTTAGATATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
Found at i:31643253 original size:25 final size:25
Alignment explanation
Indices: 31643118--31643259 Score: 126
Period size: 25 Copynumber: 5.7 Consensus size: 25
31643108 GCATGTAAAT
* * * *
31643118 GGGAAGCTCTTCTGAGCTATATAAC
1 GGGAAGCTCATGTGAGCTAAATATC
31643143 GGGAAGCTCATGTGAGCTAAATAAT-
1 GGGAAGCTCATGTGAGCTAAAT-ATC
* **
31643168 GGGAAGCTCATGCGAGCTGTATATC
1 GGGAAGCTCATGTGAGCTAAATATC
* ** * *
31643193 GAGAAGCTCATAAGAGTTGAA-ATC
1 GGGAAGCTCATGTGAGCTAAATATC
*
31643217 GGGAAGTTCATGTGAGCTAAATATC
1 GGGAAGCTCATGTGAGCTAAATATC
* *
31643242 AGGAAGCTCATGAGAGCT
1 GGGAAGCTCATGTGAGCT
31643260 GTGGTGTGTC
Statistics
Matches: 93, Mismatches: 21, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
24 20 0.22
25 72 0.77
26 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (25 bp):
GGGAAGCTCATGTGAGCTAAATATC
Found at i:31647633 original size:22 final size:23
Alignment explanation
Indices: 31647591--31647661 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 23
31647581 AAATAAGTAT
*
31647591 TAAATAATAAA-ATAAAGTAATAAA
1 TAAATAA-AAAGA-AAAATAATAAA
*
31647615 TAAAT-TAAAGAAAAATAATAAA
1 TAAATAAAAAGAAAAATAATAAA
*
31647637 T-AATAAAAATAAAAATAA-AAA
1 TAAATAAAAAGAAAAATAATAAA
31647658 TAAA
1 TAAA
31647662 AATTGGGTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
21 7 0.17
22 27 0.68
23 1 0.03
24 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (23 bp):
TAAATAAAAAGAAAAATAATAAA
Found at i:31647647 original size:13 final size:13
Alignment explanation
Indices: 31647591--31647661 Score: 67
Period size: 13 Copynumber: 5.3 Consensus size: 13
31647581 AAATAAGTAT
31647591 TAAATAAT-AAAA
1 TAAATAATAAAAA
31647603 TAAAGTAATAAATAAA
1 TAAA-TAAT-AA-AAA
*
31647619 TTAAAGAA-AAATAA
1 -TAAATAATAAA-AA
31647633 TAAATAATAAAAA
1 TAAATAATAAAAA
31647646 TAAA-AATAAAAA
1 TAAATAATAAAAA
31647658 TAAA
1 TAAA
31647662 AATTGGGTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
12 16 0.32
13 17 0.34
14 7 0.14
15 1 0.02
16 5 0.10
17 4 0.08
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:31647649 original size:6 final size:6
Alignment explanation
Indices: 31647631--31647664 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
31647621 AAAGAAAAAT
31647631 AATAAA TAATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA -AATAAA AATAAA AATAAA AATAAA AAT
31647665 TGGGTTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:31647663 original size:13 final size:13
Alignment explanation
Indices: 31647592--31647663 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 13
31647582 AATAAGTATT
31647592 AAATAATAAAAT-A
1 AAATAA-AAAATAA
* *
31647605 AAGTAATAAAT-A
1 AAATAAAAAATAA
*
31647617 AATTAAAGAAA-AA
1 AAATAAA-AAATAA
* *
31647630 TAATAAATAATAA
1 AAATAAAAAATAA
31647643 AAAT-AAAAATAA
1 AAATAAAAAATAA
31647655 AAATAAAAA
1 AAATAAAAA
31647664 TTGGGTTGCC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
12 23 0.50
13 23 0.50
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:31654032 original size:26 final size:24
Alignment explanation
Indices: 31654003--31654058 Score: 58
Period size: 28 Copynumber: 2.2 Consensus size: 24
31653993 TAAAAATATT
* *
31654003 AATATGTATACATACATATATACTAA
1 AATATATATACATACAAAT-TA-TAA
31654029 AATAAATATATACATACAAATTATAA
1 AAT--ATATATACATACAAATTATAA
31654055 AATA
1 AATA
31654059 ATTACCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 1 0.04
26 9 0.35
27 2 0.08
28 14 0.54
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (24 bp):
AATATATATACATACAAATTATAA
Found at i:31655830 original size:45 final size:43
Alignment explanation
Indices: 31655577--31656400 Score: 363
Period size: 44 Copynumber: 19.0 Consensus size: 43
31655567 AAATTTACTA
* * * *
31655577 TCTTAGTTTGCTCCACTGCAACTTCAGGGAAATAAGACTAGAT
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTT
* * * * * * *
31655620 GC-GA-TCTGCT-CTCTACAACTTCAGAGAGATAAGATCTAAGGT
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTT
* * * *
31655662 T-TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGTCG
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-T
* * * * * * **
31655704 GCTTTAATCTGCTCCACTGCAACTTTAAGGAGATATGATTTGCCA
1 TC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TT
* *
31655749 TCTTCAGTCTGC-CTCACTGTAACTTTA-GGAGGATAAGACTTGCTT
1 TCTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TT
* * *
31655794 TACTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGAT
1 T-CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTT
* * * * * *
31655838 GC-GA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTT
* * * *
31655880 T-TTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGTCG
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-T
* * * *
31655922 ACTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATT
1 TC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG---TT
* *
31655969 T-TCAGTCTGC-CTCACTGCAACTTCA-AGAGGATAAGACTTGCTT
1 TCTTAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TT
* * * *
31656012 TACTTAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTAGAT
1 T-CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTT
* * * * * *
31656056 GC-GA-TCTGCT-CTCTGCGACTTCAGAGAGATAAGATCTGAGGTT
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT--TGTT
* * * * *
31656099 TC--AATCTGCTCCACTGCGACTTCAAGGAGATAGGA-TTGTCG
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-T
* * * * **
31656140 GCTTTAATCTGCTCCACTGCAACTTCAGGGATATAAGATTTGCCA
1 TC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TT
31656185 TCTTCAGTCTG-TCTCACTGCAACTTCA-GGAGGATAAGACTTGCTT
1 TCTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTG-TT
* * *
31656230 TACTTAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-A
1 T-CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTT
* * * * * * *
31656273 TGTGA-TCTACT-CTCTGCAACTTCAGAGAGATAAGATCTGAGGT
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGTT
* * * * *
31656316 T-TTAATCCGCTCCACTACAACTTCAGGGAGATAGGA-TTGTCA
1 TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-T
* * * * *
31656358 GCTTTAATCTGCTCCACTGTAATTTCAGGGAGATAAGATTTGT
1 TC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
31656401 CATCTTCACT
Statistics
Matches: 601, Mismatches: 120, Indels: 118
0.72 0.14 0.14
Matches are distributed among these distances:
40 87 0.14
41 32 0.05
42 22 0.04
43 31 0.05
44 221 0.37
45 188 0.31
46 19 0.03
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
TCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTT
Found at i:31655964 original size:218 final size:218
Alignment explanation
Indices: 31655578--31656408 Score: 1358
Period size: 218 Copynumber: 3.8 Consensus size: 218
31655568 AATTTACTAT
* *
31655578 CTTAGTTTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTACAACTTCA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
*
31655643 GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTT
66 GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGACTT
* * *
31655708 TAATCTGCTCCACTGCAACTTTAAGGAGATATGATTTGCCATCTTCAGTCTGCCTCACTGTAACT
131 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
*
31655773 TTAGGAGGATAAGACTTGCTTTA
196 TCAGGAGGATAAGACTTGCTTTA
31655796 CTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
31655861 GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGACTT
66 GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGACTT
*
31655926 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATTTTCAGTCTGCCTCACTGCAACT
131 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
*
31655991 TCAAGAGGATAAGACTTGCTTTA
196 TCAGGAGGATAAGACTTGCTTTA
* * * *
31656014 CTTAGTCTACTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCGACTTCA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
* * * * * *
31656079 GAGAGATAAGATCTGAGGTTTCAATCTGCTCCACTGCGACTTCAAGGAGATAGGATTGTCGGCTT
66 GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGACTT
* * *
31656144 TAATCTGCTCCACTGCAACTTCAGGGATATAAGATTTGCCATCTTCAGTCTGTCTCACTGCAACT
131 TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
31656209 TCAGGAGGATAAGACTTGCTTTA
196 TCAGGAGGATAAGACTTGCTTTA
* * * *
31656232 CTTAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTACTCTCTGCAACTTCA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
* *
31656297 GAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGTC-AGCT
66 GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGA-CT
* * * *
31656361 TTAATCTGCTCCACTGTAATTTCAGGGAGATAAGATTTGTCATCTTCA
130 TTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCA
31656409 CTGATCTGCT
Statistics
Matches: 572, Mismatches: 40, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
218 572 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
CTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCA
GAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGACTT
TAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACT
TCAGGAGGATAAGACTTGCTTTA
Found at i:31671997 original size:18 final size:20
Alignment explanation
Indices: 31671958--31671999 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
31671948 TCGTTAAAAT
*
31671958 TTAATCATATAAAAAGTTAC
1 TTAATAATATAAAAAGTTAC
31671978 TTAATAATAT-AAAA-TTAC
1 TTAATAATATAAAAAGTTAC
31671996 TTAA
1 TTAA
31672000 ATTTTACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAATAATATAAAAAGTTAC
Found at i:31677252 original size:21 final size:22
Alignment explanation
Indices: 31677208--31677261 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
31677198 ACAAAAGTTA
* *
31677208 AATAACAATAAACATATGATTT
1 AATAAAAATAAACATATAATTT
*
31677230 AATAAAAATAAA-ATCTAATTT
1 AATAAAAATAAACATATAATTT
*
31677251 AATACAAATAA
1 AATAAAAATAA
31677262 TTATTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAAAAATAAACATATAATTT
Found at i:31677742 original size:4 final size:4
Alignment explanation
Indices: 31677733--31677775 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
31677723 TGAGTATTGG
31677733 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
31677776 TATTAGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:31686176 original size:42 final size:42
Alignment explanation
Indices: 31686120--31686206 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
31686110 GTGTGAGAAC
31686120 AATCCGAAGAGTGCTGAGTGTTGAAGCTCAAGGTCGTCGCCA
1 AATCCGAAGAGTGCTGAGTGTTGAAGCTCAAGGTCGTCGCCA
* * *
31686162 AATCCGGAGTGTGCTGAGTGTTGAGGCTCAAGGTCGTCGCCA
1 AATCCGAAGAGTGCTGAGTGTTGAAGCTCAAGGTCGTCGCCA
31686204 AAT
1 AAT
31686207 ATGTCTTCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (42 bp):
AATCCGAAGAGTGCTGAGTGTTGAAGCTCAAGGTCGTCGCCA
Found at i:31687410 original size:15 final size:16
Alignment explanation
Indices: 31687386--31687422 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
31687376 AATTGAAATT
31687386 ATCTATATTGGTTATA
1 ATCTATATTGGTTATA
31687402 ATCTA-ATTGGTTATA
1 ATCTATATTGGTTATA
31687417 ATCTAT
1 ATCTAT
31687423 TCAATTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (16 bp):
ATCTATATTGGTTATA
Found at i:31687519 original size:19 final size:20
Alignment explanation
Indices: 31687497--31687537 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
31687487 AGAAATTCAA
*
31687497 TTAAATT-TTAATTTAAACT
1 TTAAATTATTAAGTTAAACT
31687516 TT-AATTATTAAGTTAAACT
1 TTAAATTATTAAGTTAAACT
31687535 TTA
1 TTA
31687538 TGTTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (20 bp):
TTAAATTATTAAGTTAAACT
Found at i:31687746 original size:173 final size:173
Alignment explanation
Indices: 31687330--31688023 Score: 935
Period size: 174 Copynumber: 3.9 Consensus size: 173
31687320 ACCTATGTGG
31687330 ACTTTAATTATTAAGTTAAACTTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATATT
1 ACTTTAATTATTAAGTTAAACTTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATA--
*
31687395 GGTTATAATCTAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCT
64 ----CT--T-TAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCT
* * * *
31687460 TGAAATTGATTTTTTAAATTAAAAATAAGAAATTCAATTAAATTTTAATTTAA
122 TTAAATTGATTTTGT-AATTAAAATTAAGAAATTCAATTAATTTTTAATTTAA
* *
31687513 ACTTTAATTATTAAGTTAAACTTTATGTTTTTAATTTTTATTTTTTAACTGAAATTATCTATACT
1 ACTTTAATTATTAAGTTAAACTTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACT
31687578 TTAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTA-TTTTTATTTAATCTTTAAATTGA
66 TTAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTGA
* *
31687642 TTTTTTTAAATTAAAATTAAGAAATTCAATTAGTTTTTAATTTAA
131 -TTTTGT-AATTAAAATTAAGAAATTCAATTAATTTTTAATTTAA
* *
31687687 AATTTAATTATTAAGTTAAAATTTATGTATTTAATTTTTA-TTTTTAATTGAAATTATCTATACT
1 ACTTTAATTATTAAGTTAAACTTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACT
* ** *
31687751 TTAATTGGTTATAATATATTCAATTGAAACCTATTAAATTATTTTTTATTTAACCTTTAAATTGA
66 TTAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTGA
* *
31687816 TTTTGTAATTAAAATTAAGGAATCCAATTAATTTTTAATTTAA
131 TTTTGTAATTAAAATTAAGAAATTCAATTAATTTTTAATTTAA
* * *
31687859 ACTTTAATTATCAAGTTAAACTTAATGTATTTAATTTTTTATGTTTTAATTGAAATTATCTATAC
1 ACTTTAATTATTAAGTTAAACTTTATGTATTTAA-TTTTTATTTTTTAATTGAAATTATCTATAC
* *
31687924 TTTAATTGGTTTATTAGTTGGTTTTAATCT-TTCAATTGAAATGTTTTAAATTATTATTTATTTA
65 TTTAATTGG----TTA--------TAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTA
*
31687988 ATCTTTAAATTGATTTTGTAATTGAAATTAAGAAAT
118 ATCTTTAAATTGATTTTGTAATTAAAATTAAGAAAT
31688024 CATGGGAAAT
Statistics
Matches: 463, Mismatches: 32, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
172 64 0.14
173 94 0.20
174 171 0.37
175 1 0.00
177 1 0.00
178 3 0.01
183 61 0.13
185 63 0.14
186 5 0.01
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.52
Consensus pattern (173 bp):
ACTTTAATTATTAAGTTAAACTTTATGTATTTAATTTTTATTTTTTAATTGAAATTATCTATACT
TTAATTGGTTATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTGA
TTTTGTAATTAAAATTAAGAAATTCAATTAATTTTTAATTTAA
Found at i:31687827 original size:24 final size:24
Alignment explanation
Indices: 31687778--31687827 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
31687768 ATTCAATTGA
* *
31687778 AACCTATTAAATTATTTTTTATTT
1 AACCTATTAAATTATTTTGTAATT
31687802 AACCT-TTAAATTGATTTTGTAATT
1 AACCTATTAAATT-ATTTTGTAATT
31687826 AA
1 AA
31687828 AATTAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (24 bp):
AACCTATTAAATTATTTTGTAATT
Found at i:31687865 original size:19 final size:18
Alignment explanation
Indices: 31687843--31687895 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
31687833 AGGAATCCAA
31687843 TTAATTTTTAATTTAAAC
1 TTAATTTTTAATTTAAAC
* * *
31687861 TTTAATTATCAAGTTAAAC
1 -TTAATTTTTAATTTAAAC
31687880 TTAATGTATTTAATTT
1 TTAAT-T-TTTAATTT
31687896 TTTATGTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (18 bp):
TTAATTTTTAATTTAAAC
Found at i:31691232 original size:107 final size:109
Alignment explanation
Indices: 31691107--31691303 Score: 249
Period size: 107 Copynumber: 1.8 Consensus size: 109
31691097 AGTTGATGTC
* * *
31691107 GGCCATCTAGCTCCCCCAATCCAAAATTTT-TTTATCTAATAAAGTGAGTGTCGACCATTACTGT
1 GGCCATCTAGCTCCCCCAA-CCAAAATTTTATTTATCTAATAAAGCGAGTGCCGACCATCACTGT
*
31691171 GCTAGCA-C-AAAAAAAATATTTTTTAATCTAAAAAGCTGATGCT
65 GCCAGCACCTAAAAAAAATATTTTTTAATCTAAAAAGCTGATGCT
* * * * * *
31691214 GGCCATCTAG-TACTCCCAACCCAAATTTTATTTATCTGATAAAGCGGGTGCCGGCCATCAGTGT
1 GGCCATCTAGCT-CCCCCAACCAAAATTTTATTTATCTAATAAAGCGAGTGCCGACCATCACTGT
*
31691278 GCCAGCACCTAAAAAAATTATTTTTT
65 GCCAGCACCTAAAAAAAATATTTTTT
31691304 TAAAAATTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
106 10 0.13
107 49 0.65
108 1 0.01
109 15 0.20
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (109 bp):
GGCCATCTAGCTCCCCCAACCAAAATTTTATTTATCTAATAAAGCGAGTGCCGACCATCACTGTG
CCAGCACCTAAAAAAAATATTTTTTAATCTAAAAAGCTGATGCT
Found at i:31693569 original size:49 final size:46
Alignment explanation
Indices: 31693497--31693603 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 46
31693487 TCCGAATAAG
* * **
31693497 AAAAGGTAAAACTATATCGTTTTGATAAATGTTTACTTTTTCTAAAGTT
1 AAAAGGTAAAACTACATCGTTTTGATAAATATTTAC-TCAT-T-AAGTT
* * *
31693546 AAAAGGTAAAATTACGTTGTTTTGATAAATATTTACTCATTAAGTT
1 AAAAGGTAAAACTACATCGTTTTGATAAATATTTACTCATTAAGTT
31693592 AAAAGGTAAAAC
1 AAAAGGTAAAAC
31693604 AATTATATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 16 0.32
47 1 0.02
48 2 0.04
49 31 0.62
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.38
Consensus pattern (46 bp):
AAAAGGTAAAACTACATCGTTTTGATAAATATTTACTCATTAAGTT
Found at i:31695314 original size:29 final size:30
Alignment explanation
Indices: 31695261--31695317 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
31695251 GAATTGGATT
*
31695261 AAATCAAAATTTCATATATAAAATTACATA
1 AAATCAAAATTCCATATATAAAATTACATA
* *
31695291 AAATCAAAA-TCCATGTATACAATTACA
1 AAATCAAAATTCCATATATAAAATTACA
31695318 CATTAGACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.30
Consensus pattern (30 bp):
AAATCAAAATTCCATATATAAAATTACATA
Found at i:31706343 original size:16 final size:16
Alignment explanation
Indices: 31706322--31706352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31706312 TTCACTATTA
*
31706322 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
31706338 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
31706353 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:31708864 original size:113 final size:113
Alignment explanation
Indices: 31708503--31708853 Score: 612
Period size: 113 Copynumber: 3.1 Consensus size: 113
31708493 AAACCAAGCA
*
31708503 TCAGCAGCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTT
1 TCAGCGGCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTT
* * *
31708568 GGGAACATTAGTGGTGGTTTTTCCCAAGTGCCGCTAATACTCCATTCT
66 GGGAACATTAGTGGCGGTTTTTCCCAAGCGCCGCTAATACTCCGTTCT
* *
31708616 TCAGCGGCGTTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACGCCGTTTTCATATATTT
1 TCAGCGGCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTT
*
31708681 GGGAACATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCT
66 GGGAACATTAGTGGCGGTTTTTCCCAAGCGCCGCTAATACTCCGTTCT
*
31708729 TCAGCGGCGTTTTACAAAAAGCGCCACAATAGAGTAACACAGAACGACGCCGTTTTCATATATTT
1 TCAGCGGCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTT
* *
31708794 GGGAACACTAGTGGCGGTTTTTCCCAAACGCCGCTAATACTCCGTTCT
66 GGGAACATTAGTGGCGGTTTTTCCCAAGCGCCGCTAATACTCCGTTCT
31708842 TCAGCGGCGTTT
1 TCAGCGGCGTTT
31708854 GGCGTTAAGC
Statistics
Matches: 225, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 225 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (113 bp):
TCAGCGGCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTT
GGGAACATTAGTGGCGGTTTTTCCCAAGCGCCGCTAATACTCCGTTCT
Found at i:31709121 original size:8 final size:8
Alignment explanation
Indices: 31709108--31709169 Score: 61
Period size: 8 Copynumber: 7.1 Consensus size: 8
31709098 TTTCATTCTT
31709108 TTATATTA
1 TTATATTA
31709116 TTATATTA
1 TTATATTA
*
31709124 TTATAATAA
1 TTAT-ATTA
31709133 GTTATATTA
1 -TTATATTA
*
31709142 TTATGTTTGAA
1 TTAT-ATT--A
31709153 TTATATTA
1 TTATATTA
31709161 TTATATTA
1 TTATATTA
31709169 T
1 T
31709170 AAGTTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 26 0.58
9 8 0.18
10 6 0.13
11 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (8 bp):
TTATATTA
Found at i:31709181 original size:19 final size:20
Alignment explanation
Indices: 31709116--31709183 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 20
31709106 TTTTATATTA
31709116 TTATATTATTATA--ATAAG
1 TTATATTATTATATTATAAG
*
31709134 TTATATTATTATGTT-TGAA-
1 TTATATTATTATATTAT-AAG
31709153 TTATATTATTATATTATAAG
1 TTATATTATTATATTATAAG
31709173 TTATA-TATTAT
1 TTATATTATTAT
31709184 GAAACATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 12 0.28
19 23 0.53
20 8 0.19
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTATATTATTATATTATAAG
Found at i:31711571 original size:16 final size:16
Alignment explanation
Indices: 31711547--31711577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31711537 ATTTTTCCTC
31711547 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
31711563 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
31711578 CTCCATTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:31713114 original size:14 final size:14
Alignment explanation
Indices: 31713095--31713134 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
31713085 TATGACACCA
31713095 AATAAATTTTAAAC
1 AATAAATTTTAAAC
31713109 AATAAATTTTAAAC
1 AATAAATTTTAAAC
*
31713123 ATTAAATTTTAA
1 AATAAATTTTAA
31713135 TTTTAAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAAATTTTAAAC
Found at i:31719139 original size:66 final size:66
Alignment explanation
Indices: 31719067--31719208 Score: 216
Period size: 66 Copynumber: 2.2 Consensus size: 66
31719057 GAGGCAACAT
* *
31719067 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGC-TCTAACTTAAAGCAGATGCGG
1 CGAGAGAAGCTGAGGTTCAACAAAAG-TATGAACAACTCCAGCAGC-AACTTAAAGCAGATGCGG
31719130 CAG
64 CAG
* *
31719133 CGAGAGAAGCTGAGGTTCAACGAAAGTATGAACAACTCCAGCAGCAGCTTAAAGCAGATGCGGCA
1 CGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCAGCAACTTAAAGCAGATGCGGCA
31719198 G
66 G
31719199 CGAGAGAAGC
1 CGAGAGAAGC
31719209 AGCGGCTGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
66 65 0.93
67 5 0.07
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (66 bp):
CGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCAGCAACTTAAAGCAGATGCGGCA
G
Found at i:31719228 original size:21 final size:21
Alignment explanation
Indices: 31719204--31719253 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
31719194 GGCAGCGAGA
* *
31719204 GAAGCAGCGGCTGTAGCAAAG
1 GAAGCAGAGGCTGCAGCAAAG
* * *
31719225 GAAGTAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCAAAG
31719246 GAAGCAGA
1 GAAGCAGA
31719254 ACAGCTTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.42, T:0.08
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCAAAG
Found at i:31719480 original size:14 final size:14
Alignment explanation
Indices: 31719461--31719490 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31719451 TTATTTAGAT
31719461 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
31719475 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
31719489 TT
1 TT
31719491 TCTTCTGATT
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:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (14 bp):
TTGGTTAGATTTGG
Found at i:31719650 original size:43 final size:43
Alignment explanation
Indices: 31719573--31720017 Score: 391
Period size: 43 Copynumber: 10.4 Consensus size: 43
31719563 GCGTTTTTCT
* * **
31719573 AAAAGCGCCGCTAAAAACCATGAGGTC--TAGCGGCGTTTGTTTT
1 AAAAGCGCCGCTAAAGACCAT--GGTCTATAGCGGCGTTTGATGG
** * *
31719616 TTAAGCGCCGCTAAAGACCAAGGTCTATAACGGCGTTTGATGG
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGG
* * *
31719659 GAAAGCGCCGCGAAAGATCC-TGGTCTATAGCGGCGTTTTATGG
1 AAAAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTGATGG
** * * * * *
31719702 TTAAGCGCCGCGAAAGATCTTGGTCTATAGCAGCGTTTTATGG
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGG
* * * *
31719745 GAAAGCGCCGCAAAAGATCC-TAGTCTATAGCGGCGTTTTA-GG
1 AAAAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTGATGG
** * * *
31719787 GTAAGCGCCGCTAAAGACCATGGTCTATGGCGGCATTTGATGC
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGG
* * * *
31719830 AAAAGCGCCGCTAAAGACCACGGTCTATGGCGGCGATTGATGC
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGG
* ** *
31719873 CAAAGCGCCGCTAAAGACCACAGTCTATAGCGGCGTTTGATGC
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGG
* **
31719916 AAAAGCGCCCCTAAAGACCATGGTCTATAGCGGCGTTT-ATTT
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGG
* * * * *
31719958 ATAAGTGCCGCTAAAGACCATTGTCTATAGCGGCATTT-ATTGT
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGA-TGG
*
31720001 ATAAAGCGCCGCGAAAG
1 A-AAAGCGCCGCTAAAG
31720018 TTACCGACGC
Statistics
Matches: 338, Mismatches: 55, Indels: 17
0.82 0.13 0.04
Matches are distributed among these distances:
41 6 0.02
42 70 0.21
43 247 0.73
44 15 0.04
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGATGG
Found at i:31719727 original size:86 final size:86
Alignment explanation
Indices: 31719573--31720017 Score: 431
Period size: 86 Copynumber: 5.2 Consensus size: 86
31719563 GCGTTTTTCT
* **
31719573 AAAAGCGCCGCTAAAAACCATGAGGTC--TAGCGGCGTTTGT-TTTTTAAGCGCCGCTAAAGACC
1 AAAAGCGCCGCTAAAGACCAT--GGTCTATAGCGGCGTTT-TATGGTTAAGCGCCGCTAAAGACC
* * *
31719635 AAGGTCTATAACGGCGTTTGATGG
63 ATGGTCTATAGCGGCGTTTGATGC
* * * * *
31719659 GAAAGCGCCGCGAAAGATCC-TGGTCTATAGCGGCGTTTTATGGTTAAGCGCCGCGAAAGATCTT
1 AAAAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTTATGGTTAAGCGCCGCTAAAGACCAT
* * *
31719723 GGTCTATAGCAGCGTTTTATGG
65 GGTCTATAGCGGCGTTTGATGC
* * * *
31719745 GAAAGCGCCGCAAAAGATCC-TAGTCTATAGCGGCGTTTTA-GGGTAAGCGCCGCTAAAGACCAT
1 AAAAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTTATGGTTAAGCGCCGCTAAAGACCAT
* *
31719808 GGTCTATGGCGGCATTTGATGC
65 GGTCTATAGCGGCGTTTGATGC
* * * * *** **
31719830 AAAAGCGCCGCTAAAGACCACGGTCTATGGCGGCGATTGATGCCAAAGCGCCGCTAAAGACCACA
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGTTAAGCGCCGCTAAAGACCATG
31719895 GTCTATAGCGGCGTTTGATGC
66 GTCTATAGCGGCGTTTGATGC
* * *
31719916 AAAAGCGCCCCTAAAGACCATGGTCTATAGCGGCG-TTTAT-TTATAAGTGCCGCTAAAGACCAT
1 AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGT-TAAGCGCCGCTAAAGACCAT
* * *
31719979 TGTCTATAGCGGCATTT-ATTGT
65 GGTCTATAGCGGCGTTTGA-TGC
*
31720001 ATAAAGCGCCGCGAAAG
1 A-AAAGCGCCGCTAAAG
31720018 TTACCGACGC
Statistics
Matches: 299, Mismatches: 51, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
84 7 0.02
85 106 0.35
86 184 0.62
87 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGTTAAGCGCCGCTAAAGACCATG
GTCTATAGCGGCGTTTGATGC
Found at i:31719857 original size:171 final size:171
Alignment explanation
Indices: 31719617--31720017 Score: 441
Period size: 171 Copynumber: 2.3 Consensus size: 171
31719607 GTTTGTTTTT
* * * ** *
31719617 TAAGCGCCGCTAAAGACCAAGGTCTATAACGGCGTTTGATGGGAAAGCGCCGCGAAAGATCCTGG
1 TAAGCGCCGCTAAAGACCATGGTCTATAGCGGCATTTGATGCAAAAGCGCCGCGAAAGATCCCGG
* * *** * *** * **
31719682 TCTATAGCGGCGTTTTATGGTTAAGCGCCGCGAAAGATCTTGGTCTATAGCAGCGTTTTATGGGA
66 TCTATAGCGGCGATTGATGCCAAAGCGCCGCGAAAGACCACAGTCTATAGCAGCGTTTGATGCAA
* *
31719747 AAGCGCCGCAAAAGATCC-TAGTCTATAGCGGCGTTT-TAGGG
131 AAGCGCCCCAAAAGA-CCATAGTCTATAGCGGCGTTTAT-GGA
* *
31719788 TAAGCGCCGCTAAAGACCATGGTCTATGGCGGCATTTGATGCAAAAGCGCCGCTAAAGA-CCACG
1 TAAGCGCCGCTAAAGACCATGGTCTATAGCGGCATTTGATGCAAAAGCGCCGCGAAAGATCC-CG
* * *
31719852 GTCTATGGCGGCGATTGATGCCAAAGCGCCGCTAAAGACCACAGTCTATAGCGGCGTTTGATGCA
65 GTCTATAGCGGCGATTGATGCCAAAGCGCCGCGAAAGACCACAGTCTATAGCAGCGTTTGATGCA
* * **
31719917 AAAGCGCCCCTAAAGACCATGGTCTATAGCGGCGTTTATTTA
130 AAAGCGCCCCAAAAGACCATAGTCTATAGCGGCGTTTATGGA
* * *
31719959 TAAGTGCCGCTAAAGACCATTGTCTATAGCGGCATTT-ATTGTATAAAGCGCCGCGAAAG
1 TAAGCGCCGCTAAAGACCATGGTCTATAGCGGCATTTGA-TGCA-AAAGCGCCGCGAAAG
31720018 TTACCGACGC
Statistics
Matches: 191, Mismatches: 34, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
170 5 0.03
171 171 0.90
172 15 0.08
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (171 bp):
TAAGCGCCGCTAAAGACCATGGTCTATAGCGGCATTTGATGCAAAAGCGCCGCGAAAGATCCCGG
TCTATAGCGGCGATTGATGCCAAAGCGCCGCGAAAGACCACAGTCTATAGCAGCGTTTGATGCAA
AAGCGCCCCAAAAGACCATAGTCTATAGCGGCGTTTATGGA
Found at i:31722869 original size:25 final size:26
Alignment explanation
Indices: 31722824--31722875 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 26
31722814 TTAAATACTT
31722824 ATATTAATAGTATTTTATTAAT-TTA
1 ATATTAATAGTATTTTATTAATATTA
31722849 ATATTAA-AGTGA-TTTACTTAATATTA
1 ATATTAATAGT-ATTTTA-TTAATATTA
31722875 A
1 A
31722876 ATTTAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 7 0.29
25 13 0.54
26 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
ATATTAATAGTATTTTATTAATATTA
Found at i:31727677 original size:83 final size:83
Alignment explanation
Indices: 31727587--31727756 Score: 268
Period size: 83 Copynumber: 2.0 Consensus size: 83
31727577 TTAATTGGAC
* * * *
31727587 TTTAATTATTTTTGTTTGATTTATTTTTCTGGTTGGATTTTTGTTTGGGCCGGGGCCGAACTAAA
1 TTTAATTATTTTTGTTTGACTTATTTTTCTAGTTGGATTTTTGTTTGGGCCGGGGCCAAACGAAA
*
31727652 TTTGGCTTTCACATAATG
66 TTGGGCTTTCACATAATG
* * *
31727670 TTTAATTATTTTTGTTTGACTTATTTTTCTATTTGGTTTTTTGTTTGGGTCGGGGCCAAACGAAA
1 TTTAATTATTTTTGTTTGACTTATTTTTCTAGTTGGATTTTTGTTTGGGCCGGGGCCAAACGAAA
31727735 TTGGGCTTTCACATAATG
66 TTGGGCTTTCACATAATG
31727753 TTTA
1 TTTA
31727757 TATTGTAGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.19, C:0.11, G:0.21, T:0.50
Consensus pattern (83 bp):
TTTAATTATTTTTGTTTGACTTATTTTTCTAGTTGGATTTTTGTTTGGGCCGGGGCCAAACGAAA
TTGGGCTTTCACATAATG
Found at i:31730317 original size:21 final size:21
Alignment explanation
Indices: 31730293--31730340 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
31730283 TGTGTCCCCG
*
31730293 TCACACAGCCGTGTGCCTCTT
1 TCACACAGCCGTGTACCTCTT
* *
31730314 TCACACGGGCGTGTACCTCTT
1 TCACACAGCCGTGTACCTCTT
*
31730335 CCACAC
1 TCACAC
31730341 GGCTATGTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.40, G:0.19, T:0.25
Consensus pattern (21 bp):
TCACACAGCCGTGTACCTCTT
Found at i:31730341 original size:21 final size:21
Alignment explanation
Indices: 31730302--31730342 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31730292 GTCACACAGC
* *
31730302 CGTGTGCCTCTTTCACACGGG
1 CGTGTACCTCTTCCACACGGG
31730323 CGTGTACCTCTTCCACACGG
1 CGTGTACCTCTTCCACACGG
31730343 CTATGTAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.37, G:0.24, T:0.27
Consensus pattern (21 bp):
CGTGTACCTCTTCCACACGGG
Found at i:31735372 original size:18 final size:18
Alignment explanation
Indices: 31735349--31735385 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31735339 ACATACCACA
31735349 GTGTTTTGAAAATGATTT
1 GTGTTTTGAAAATGATTT
*
31735367 GTGTTTTGAAAATGTTTT
1 GTGTTTTGAAAATGATTT
31735385 G
1 G
31735386 CGAAAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (18 bp):
GTGTTTTGAAAATGATTT
Found at i:31735795 original size:39 final size:39
Alignment explanation
Indices: 31735731--31735817 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
31735721 TCAAAATCTA
* *
31735731 AAATAATTTGAAAATGGGTGAAGATTGTTGGAACATTTTC
1 AAAT-ATTTGAAAATGGGGGAAGATTGTTGGAACATTTAC
* *
31735771 AATTATTTGAAAATGGGGGGAGATTGTTGGAACATTTAC
1 AAATATTTGAAAATGGGGGAAGATTGTTGGAACATTTAC
31735810 AAATATTT
1 AAATATTT
31735818 ATAGTGTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 39 0.93
40 3 0.07
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.36
Consensus pattern (39 bp):
AAATATTTGAAAATGGGGGAAGATTGTTGGAACATTTAC
Found at i:31737830 original size:3 final size:3
Alignment explanation
Indices: 31737822--31737867 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
31737812 TAAAATATAT
* * * *
31737822 ATA ATA ATA CTA ATA CTA ATA CTA ATA CTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31737868 ACATACTATC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:31737837 original size:6 final size:6
Alignment explanation
Indices: 31737826--31737866 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
31737816 ATATATATAA
* *
31737826 TAATAC TAATAC TAATAC TAATAC TAATAA TAATAA TAATA
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
31737867 AACATACTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (6 bp):
TAATAC
Found at i:31739054 original size:43 final size:43
Alignment explanation
Indices: 31738993--31739221 Score: 316
Period size: 43 Copynumber: 5.3 Consensus size: 43
31738983 GTCAACACCG
31738993 ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTAC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTAC
* *
31739036 ACAAACGCCGCTATAGATCATGACCTTTAGCGGCGC-TTTTCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTAC
*
31739078 GACAAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTTAC
1 -ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTAC
* * **
31739122 ACAAACGCCGCTATAGCTCAGGACTTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTAC
* * * **
31739165 ACAAACGCTGCTATAGATCAAGACTTTTTAGCGGCGCTTTGCAC
1 ACAAACGCCGCTATAGATCAGGAC-CTTTAGCGGCGCTTTTTAC
*
31739209 ACAAATGCCGCTA
1 ACAAACGCCGCTA
31739222 AAGGTCATGA
Statistics
Matches: 166, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
42 5 0.03
43 128 0.77
44 33 0.20
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (43 bp):
ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTAC
Found at i:31739135 original size:86 final size:86
Alignment explanation
Indices: 31738990--31739231 Score: 358
Period size: 86 Copynumber: 2.8 Consensus size: 86
31738980 ATTGTCAACA
31738990 CCGACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGATC
1 CCGACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGATC
31739055 ATGACCTTTAGCGGCGCTTTT
66 ATGACCTTTAGCGGCGCTTTT
* *
31739076 CCGACAAACGCCGCTAAAGATCAGGACCTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGCTC
1 CCGACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGATC
* *
31739141 AGGACTTTTAGCGGCGCTTTT
66 ATGACCTTTAGCGGCGCTTTT
* * * * ** * * *
31739162 CCCACAAACGCTGCTATAGATCAAGACTTTTTAGCGGCGCTTTGCACACAAATGCCGCTAAAGGT
1 CCGACAAACGCCGCTATAGATCAGGAC-CTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGAT
31739227 CATGA
65 CATGA
31739232 AAAATAAAAA
Statistics
Matches: 140, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
86 105 0.75
87 35 0.25
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (86 bp):
CCGACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGATC
ATGACCTTTAGCGGCGCTTTT
Found at i:31740378 original size:17 final size:17
Alignment explanation
Indices: 31740356--31740388 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31740346 TATGTCACTG
31740356 CAATTAATTATATATAA
1 CAATTAATTATATATAA
31740373 CAATTAATTATATATA
1 CAATTAATTATATATA
31740389 GAAAGTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
CAATTAATTATATATAA
Found at i:31748688 original size:16 final size:15
Alignment explanation
Indices: 31748659--31748698 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
31748649 TTTTGGCTTC
*
31748659 TTTCTTTTTGTTTTT
1 TTTCTTTTTATTTTT
31748674 TTTCTATTTTATTTTT
1 TTTCT-TTTTATTTTT
31748690 TTTCTTTTT
1 TTTCTTTTT
31748699 CTAGTGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.05, C:0.07, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTCTTTTTATTTTT
Found at i:31748733 original size:10 final size:10
Alignment explanation
Indices: 31748718--31748746 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
31748708 TGGGTTTCTT
31748718 TATTCTTTGC
1 TATTCTTTGC
31748728 TATTCTTTGC
1 TATTCTTTGC
31748738 TATTCTTTG
1 TATTCTTTG
31748747 GATATTGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.10, T:0.62
Consensus pattern (10 bp):
TATTCTTTGC
Found at i:31753646 original size:25 final size:25
Alignment explanation
Indices: 31753616--31753669 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
31753606 TTAATAAATA
* *
31753616 ATTTATATA-GAGAATTTATATTAAT
1 ATTTATATATGA-AAATTATATTAAC
31753641 ATTTATATATGAAAATTATATTAAC
1 ATTTATATATGAAAATTATATTAAC
31753666 ATTT
1 ATTT
31753670 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (25 bp):
ATTTATATATGAAAATTATATTAAC
Found at i:31754432 original size:18 final size:18
Alignment explanation
Indices: 31754409--31754444 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31754399 GTGACACCTT
31754409 GTAACTAGAACCTAACGA
1 GTAACTAGAACCTAACGA
**
31754427 GTAACTCTAACCTAACGA
1 GTAACTAGAACCTAACGA
31754445 TTGAGTTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (18 bp):
GTAACTAGAACCTAACGA
Found at i:31755279 original size:11 final size:11
Alignment explanation
Indices: 31755263--31755291 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
31755253 TACTGCATAC
31755263 AATAATTACTT
1 AATAATTACTT
31755274 AATAATTACTT
1 AATAATTACTT
31755285 AATAATT
1 AATAATT
31755292 TCGAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (11 bp):
AATAATTACTT
Found at i:31763562 original size:18 final size:18
Alignment explanation
Indices: 31763541--31763830 Score: 103
Period size: 18 Copynumber: 16.3 Consensus size: 18
31763531 CACAATATTT
31763541 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
31763559 -TTTTG-AAATATGAGAA
1 TTTTTGAAAACACGAAAA
* *
31763575 TTTTAG-AAACACGGAAA
1 TTTTTGAAAACACGAAAA
* *
31763592 TTTCT-AAAACATGAAAA
1 TTTTTGAAAACACGAAAA
31763609 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
31763627 TTTTTG-AAACAAGAGAAAAAAA
1 TTTTTGAAAAC-A-CG---AAAA
*
31763649 ATTTT--AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
31763665 TTTAT-AAAACGTGAGAAA
1 TTTTTGAAAACACGA-AAA
*
31763683 TTTTTTTTTGAAAACTC--AAA
1 ----TTTTTGAAAACACGAAAA
*** *
31763703 TTTTTTTTAACACGAACA
1 TTTTTGAAAACACGAAAA
* **
31763721 TTGTTGAAAACACGAATTT
1 TTTTTGAAAACACGAA-AA
*
31763740 TTTTTG-AAACACAGAAAT
1 TTTTTGAAAACAC-GAAAA
*
31763758 TTTTTGAAAACAATG-AAA
1 TTTTTGAAAAC-ACGAAAA
*
31763776 TTTTTGAAATAC-CG-GAA
1 TTTTTGAAA-ACACGAAAA
*
31763793 TTTTTGAAAACTC-AAAGA
1 TTTTTGAAAACACGAAA-A
31763811 TTTTTG-AAACAC--AAA
1 TTTTTGAAAACACGAAAA
31763826 TTTTT
1 TTTTT
31763831 CGATTTTTCC
Statistics
Matches: 204, Mismatches: 43, Indels: 53
0.68 0.14 0.18
Matches are distributed among these distances:
15 6 0.03
16 28 0.14
17 61 0.30
18 66 0.32
19 17 0.08
20 5 0.02
21 4 0.02
22 12 0.06
23 5 0.02
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:31763636 original size:17 final size:17
Alignment explanation
Indices: 31763541--31763637 Score: 97
Period size: 17 Copynumber: 5.6 Consensus size: 17
31763531 CACAATATTT
31763541 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* * *
31763559 -TTTTGAAATATGAGAA
1 TTTTTGAAACACGAAAA
* *
31763575 TTTTAGAAACACGGAAA
1 TTTTTGAAACACGAAAA
* * *
31763592 TTTCTAAAACATGAAAA
1 TTTTTGAAACACGAAAA
31763609 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
31763627 TTTTTGAAACA
1 TTTTTGAAACA
31763638 AGAGAAAAAA
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
16 8 0.13
17 37 0.61
18 16 0.26
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:31764319 original size:9 final size:8
Alignment explanation
Indices: 31764298--31764378 Score: 60
Period size: 8 Copynumber: 9.9 Consensus size: 8
31764288 AATTCGGGCT
*
31764298 TTTTTTTG
1 TTTTTTTC
31764306 TTTTTTT-
1 TTTTTTTC
**
31764313 TCCTTTTC
1 TTTTTTTC
31764321 TCTTTTTTC
1 T-TTTTTTC
31764330 TTTTTTT-
1 TTTTTTTC
31764337 TCTTTTTTC
1 T-TTTTTTC
*
31764346 TTTTCTTC
1 TTTTTTTC
31764354 TTTTCTTCTC
1 TTTT-TT-TC
31764364 TTATTTTT-
1 TT-TTTTTC
31764372 TTTTTTT
1 TTTTTTT
31764379 GCAGATTGGG
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
7 11 0.18
8 32 0.53
9 9 0.15
10 6 0.10
11 2 0.03
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:31764319 original size:10 final size:9
Alignment explanation
Indices: 31764296--31764378 Score: 54
Period size: 9 Copynumber: 9.8 Consensus size: 9
31764286 GCAATTCGGG
31764296 CTTTTTTTT
1 CTTTTTTTT
*
31764305 GTTTTTTTT
1 CTTTTTTTT
*
31764314 C---CTTTT
1 CTTTTTTTT
*
31764320 CTCTTTTTT
1 CTTTTTTTT
31764329 CTTTTTTTT
1 CTTTTTTTT
31764338 C--TTTTTT
1 CTTTTTTTT
*
31764345 C-TTTTCTT
1 CTTTTTTTT
*
31764353 CTTTTCTTCT
1 CTTTT-TTTT
31764363 CTTATTTTTT
1 CTT-TTTTTT
31764373 -TTTTTT
1 CTTTTTT
31764379 GCAGATTGGG
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
6 5 0.09
7 7 0.12
8 10 0.17
9 26 0.45
10 8 0.14
11 2 0.03
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.82
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:31764326 original size:15 final size:15
Alignment explanation
Indices: 31764308--31764357 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
31764298 TTTTTTTGTT
31764308 TTTTTTCCTTTTCTC
1 TTTTTTCCTTTTCTC
* *
31764323 TTTTTTCTTTTTTTTC
1 TTTTTTC-CTTTTCTC
31764339 TTTTTT-CTTTTCTTC
1 TTTTTTCCTTTTC-TC
31764354 TTTT
1 TTTT
31764358 CTTCTCTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.14
15 13 0.45
16 12 0.41
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCCTTTTCTC
Found at i:31764333 original size:24 final size:23
Alignment explanation
Indices: 31764299--31764357 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
31764289 ATTCGGGCTT
*
31764299 TTTTTTGTTTTTTTTCCTTTTCTC
1 TTTTTTCTTTTTTTT-CTTTTCTC
*
31764323 TTTTTTCTTTTTTTTCTTTTTTC
1 TTTTTTCTTTTTTTTCTTTTCTC
31764346 TTTTCTTCTTTT
1 TTTT-TTCTTTT
31764358 CTTCTCTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 11 0.34
24 21 0.66
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (23 bp):
TTTTTTCTTTTTTTTCTTTTCTC
Found at i:31765496 original size:30 final size:30
Alignment explanation
Indices: 31765448--31765519 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
31765438 GCTAGTGGTC
* * *
31765448 AAAATGTAAATTTAGAAAAATTTAGGGGTT
1 AAAATGTAATTTTAGAAAAATTTAAGGGCT
* * *
31765478 AAAATATAATTTTTGAAAAGTTTAAGGGCT
1 AAAATGTAATTTTAGAAAAATTTAAGGGCT
31765508 AAAATGTAATTT
1 AAAATGTAATTT
31765520 ATATTTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAATTTAAGGGCT
Found at i:31765928 original size:76 final size:76
Alignment explanation
Indices: 31765840--31766356 Score: 641
Period size: 76 Copynumber: 6.7 Consensus size: 76
31765830 GATCTGAAGT
* ** * *
31765840 TCAACTCACCTCTCAG-ATTATGAGTTGA-CCTTTGAAAAATAGAAATTGAAAAATACCTCGGCA
1 TCAACTCACCTCTC-GCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAAATACCTCGGTA
31765903 TGTGACCCGAGGC
64 TGTGACCCGAGGC
* * * *
31765916 TCAACTCACCTCTCGCAATATGAGTTTA-TTTTCGAAAAGCATAAATTGAAAAATACCTCAGCG-
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAAATACCTC-G-GT
** *
31765979 A-GCAACCCGAGGT
63 ATGTGACCCGAGGC
* *
31765992 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATAACTCGGTA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATT-AAAAATACCTCGGTA
*
31766057 TGTGACCCGATGC
64 TGTGACCCGAGGC
* * *
31766070 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA-AAATTAAAGATACCACAGTAT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATACCTCGGTAT
31766134 GTGACCCGAGGC
65 GTGACCCGAGGC
* * * * *
31766146 TCAACTCATCTCTCGCAATATAAGTTGATTTTTTGAAAAATATAAGTTAAAAATACCTCGGTATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCTCGGTATG
31766211 TGACCCGAGGC
66 TGACCCGAGGC
* * *
31766222 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAATATACCTCGGATAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCTCGG-TAT
31766287 GTGACCCGAGGC
65 GTGACCCGAGGC
*
31766299 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTTGAAAAACAGAAATTAAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTG---ATTTTTTGAAAAACAGAAATTAAAAATA
31766357 TAATTCTTGA
Statistics
Matches: 389, Mismatches: 40, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
75 14 0.04
76 221 0.57
77 50 0.13
78 79 0.20
80 25 0.06
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCTCGGTATG
TGACCCGAGGC
Found at i:31766072 original size:154 final size:150
Alignment explanation
Indices: 31765840--31766356 Score: 626
Period size: 154 Copynumber: 3.4 Consensus size: 150
31765830 GATCTGAAGT
* ** * *
31765840 TCAACTCACCTCTCAG-ATTATGAGTTGA-CCTTTGAAAAATAGAAATTGAAAAATACCTCGGCA
1 TCAACTCACCTCTC-GCAATATGAGTTGATTTTTTGAAAAACAGAAATT-AAAAATACCTCGGTA
* *
31765903 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTCGAAAAGCATAAATTGAAAA
64 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTGAAAAACA-AAATT-AAAA
* ** *
31765968 ATACCTCAGCGA-GCAACCCGAGGT
127 ATACCTCAG-TATGTGACCCGAGGC
* *
31765992 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAAATAACTCGGTA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATT-AAAAATACCTCGGTA
* * *
31766057 TGTGACCCGATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAATTAAAG
64 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT--TATTTTTGAAAAACAAAATTAAAA
*
31766122 ATACCACAGTATGTGACCCGAGGC
127 ATACCTCAGTATGTGACCCGAGGC
* * * * *
31766146 TCAACTCATCTCTCGCAATATAAGTTGATTTTTTGAAAAATATAAGTTAAAAATACCTCGGTATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCTCGGTATG
* * * *
31766211 TGACCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTAAATAT
66 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTA-TTTTTGAAAAACA-AAATTAAAAAT
*
31766276 ACCTCGGATATGTGACCCGAGGC
129 ACCTCAG-TATGTGACCCGAGGC
*
31766299 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTTGAAAAACAGAAATTAAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTG---ATTTTTTGAAAAACAGAAATTAAAAATA
31766357 TAATTCTTGA
Statistics
Matches: 316, Mismatches: 37, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
151 13 0.04
152 91 0.29
153 58 0.18
154 113 0.36
155 5 0.02
156 36 0.11
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (150 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATACCTCGGTATG
TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTGAAAAACAAAATTAAAAATAC
CTCAGTATGTGACCCGAGGC
Found at i:31766243 original size:230 final size:230
Alignment explanation
Indices: 31765840--31766356 Score: 672
Period size: 230 Copynumber: 2.2 Consensus size: 230
31765830 GATCTGAAGT
* ** * * *
31765840 TCAACTCACCTCTCAG-ATTATGAGTTGA--CCTTTGAAAAATAGAAATTGAAAAATACCTCGGC
1 TCAACTCACCTCTC-GCAATATGAGTTGATTTTTTTGAAAAACAGAAATT-AAAAATACCACAGC
* * *
31765902 ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTCGAAAAGCATAAATTGAAA
64 ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTCGAAAAACATAAATTGAAA
*
31765967 AATACCTCAGCGAGCAACCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
129 AATACCTCAGCGAGCAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA
*
31766032 ACAAAAATTGAAAAATAACTCGG-TATGTGACCCGATGC
193 ACAAAAATT-AAAAATAACTCGGATATGTGACCCGAGGC
* *
31766070 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA-AAATTAAAGATACCACAGTAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCACAGCAT
* * * *
31766134 GTGACCCGAGGCTCAACTCATCTCTCGCAATATAAGTTGATTTTTTGAAAAATATAAGTT-AAAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTCGAAAAACATAAATTGAAAA
** *
31766198 ATACCTC-G-GTATGTGACCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAA
130 ATACCTCAGCG-A-GCAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
* * * *
31766261 ATAGAAATTAAATATACCTCGGATATGTGACCCGAGGC
193 ACAAAAATTAAAAATAACTCGGATATGTGACCCGAGGC
*
31766299 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTTGAAAAACAGAAATTAAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTG--ATTTTTTTGAAAAACAGAAATTAAAAATA
31766357 TAATTCTTGA
Statistics
Matches: 251, Mismatches: 26, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
228 12 0.05
229 62 0.25
230 121 0.48
231 35 0.14
232 21 0.08
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (230 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAATACCACAGCAT
GTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTCGAAAAACATAAATTGAAAAA
TACCTCAGCGAGCAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
AAAATTAAAAATAACTCGGATATGTGACCCGAGGC
Found at i:31767249 original size:18 final size:18
Alignment explanation
Indices: 31767228--31767292 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
31767218 CTTTTTCCTT
*
31767228 TTTTTGGGTTTTTTTGTG
1 TTTTTGGTTTTTTTTGTG
*
31767246 TTTTTGTTTTTTTTTGTG
1 TTTTTGGTTTTTTTTGTG
*
31767264 TTTTT-GTTTTTGTTTTTG
1 TTTTTGGTTTTT-TTTGTG
31767282 TTTTT-GTTTTT
1 TTTTTGGTTTTT
31767293 GTTTTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.12
18 37 0.88
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (18 bp):
TTTTTGGTTTTTTTTGTG
Found at i:31767255 original size:6 final size:6
Alignment explanation
Indices: 31767239--31767302 Score: 96
Period size: 6 Copynumber: 10.7 Consensus size: 6
31767229 TTTTGGGTTT
31767239 TTTTGTG TTTTTG TTTTT- TTTTGTG TTTTTG TTTTTG TTTTTG TTTTTG
1 TTTT-TG TTTTTG TTTTTG TTTT-TG TTTTTG TTTTTG TTTTTG TTTTTG
31767288 TTTTTG TTTTT- TTTT
1 TTTTTG TTTTTG TTTT
31767303 CTTTAGGCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
5 8 0.15
6 39 0.71
7 8 0.15
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:31777472 original size:17 final size:17
Alignment explanation
Indices: 31777376--31777628 Score: 120
Period size: 18 Copynumber: 14.3 Consensus size: 17
31777366 CACAATATTT
*
31777376 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* * *
31777394 -GTTTGAAATACGAGAA
1 TTTTTGAAACACGAAAA
*
31777410 TTTTAGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* * * *
31777427 ATTCTAAAACACAAAAA
1 TTTTTGAAACACGAAAA
31777444 TTTTTGACAACACGAAAA
1 TTTTTGA-AACACGAAAA
*
31777462 TTTTTGAAACATGAGAAA
1 TTTTTGAAACACGA-AAA
*
31777480 TGTTTTTTTGAAA-ACTCAAAA
1 ----TTTTTGAAACAC-GAAAA
** *
31777501 TTTTTTTAATACGAAAAA
1 TTTTTGAAACACG-AAAA
* **
31777519 TTGTTTGAAACGCGAATTT
1 TT-TTTGAAACACGAA-AA
*
31777538 TTTTTGAAACACGGAAAT
1 TTTTTGAAACAC-GAAAA
* *
31777556 TTTTTGAAAACAAGGAAA
1 TTTTTG-AAACACGAAAA
* * *
31777574 TTTTTGAAATACCAGAA
1 TTTTTGAAACACGAAAA
*
31777591 TTTTTAAAAACAC-AAAGA
1 TTTTT-GAAACACGAAA-A
31777609 TTTTTGAAACAC--AAA
1 TTTTTGAAACACGAAAA
31777624 TTTTT
1 TTTTT
31777629 CAATTTTTCC
Statistics
Matches: 176, Mismatches: 43, Indels: 35
0.69 0.17 0.14
Matches are distributed among these distances:
15 6 0.03
16 10 0.06
17 64 0.36
18 65 0.37
19 17 0.10
21 4 0.02
22 10 0.06
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:31778115 original size:9 final size:8
Alignment explanation
Indices: 31778096--31778166 Score: 65
Period size: 8 Copynumber: 8.8 Consensus size: 8
31778086 CAATTCAGGC
*
31778096 TTTTTTGT
1 TTTTTTCT
*
31778104 TTTTTTCC
1 TTTTTTCT
*
31778112 TTTTCTC-
1 TTTTTTCT
31778119 TTTTTTCT
1 TTTTTTCT
31778127 TTTTTT-T
1 TTTTTTCT
31778134 CTTTTTTCT
1 -TTTTTTCT
*
31778143 TTTCTTCTT
1 TTTTTTC-T
31778152 TTTTTTCT
1 TTTTTTCT
31778160 CTTTTTT
1 -TTTTTT
31778167 TTTCTGCAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
7 7 0.13
8 31 0.60
9 14 0.27
ACGTcount: A:0.00, C:0.15, G:0.01, T:0.83
Consensus pattern (8 bp):
TTTTTTCT
Found at i:31778122 original size:16 final size:15
Alignment explanation
Indices: 31778103--31778167 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 15
31778093 GGCTTTTTTG
31778103 TTTTTTTCCTTTTCTC
1 TTTTTTT-CTTTTCTC
* *
31778119 -TTTTTTCTTTTTTT
1 TTTTTTTCTTTTCTC
31778133 TCTTTTTTC-TTT-TC
1 T-TTTTTTCTTTTCTC
*
31778147 TTCTTTT-TTTTCTC
1 TTTTTTTCTTTTCTC
31778161 TTTTTTT
1 TTTTTTT
31778168 TTCTGCAGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
13 8 0.20
14 16 0.40
15 9 0.22
16 7 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTTTCTC
Found at i:31778130 original size:24 final size:24
Alignment explanation
Indices: 31778095--31778164 Score: 90
Period size: 23 Copynumber: 2.9 Consensus size: 24
31778085 GCAATTCAGG
*
31778095 CTTTTTT-GTTTTTTTCCTTTTCT
1 CTTTTTTCTTTTTTTTCCTTTTCT
*
31778118 CTTTTTTCTTTTTTTT-CTTTTTT
1 CTTTTTTCTTTTTTTTCCTTTTCT
31778141 CTTTTCTTCTTTTTTTTCTCTTTT
1 CTTTT-TTCTTTTTTTTC-CTTTT
31778165 TTTTTCTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
23 18 0.44
24 18 0.44
26 5 0.12
ACGTcount: A:0.00, C:0.17, G:0.01, T:0.81
Consensus pattern (24 bp):
CTTTTTTCTTTTTTTTCCTTTTCT
Found at i:31778147 original size:12 final size:11
Alignment explanation
Indices: 31778103--31778171 Score: 68
Period size: 12 Copynumber: 5.9 Consensus size: 11
31778093 GGCTTTTTTG
*
31778103 TTTTTTTCCTT
1 TTTTTTTTCTT
*
31778114 TTCTCTTTTT-TC
1 TT-T-TTTTTCTT
31778126 TTTTTTTTCTT
1 TTTTTTTTCTT
31778137 TTTTCTTTTCTT
1 TTTT-TTTTCTT
31778149 CTTTTTTTTCTCT
1 -TTTTTTTTCT-T
31778162 TTTTTTTTCT
1 TTTTTTTTCT
31778172 GCAGATTAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
10 5 0.10
11 8 0.16
12 27 0.55
13 9 0.18
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:31778169 original size:16 final size:16
Alignment explanation
Indices: 31778095--31778169 Score: 75
Period size: 16 Copynumber: 4.6 Consensus size: 16
31778085 GCAATTCAGG
31778095 CTTTTTTGTTTTTTTC-
1 CTTTTTT-TTTTTTTCT
* *
31778111 CTTTTCTCTTTTTTCT
1 CTTTTTTTTTTTTTCT
31778127 -TTTTTTTCTTTTTTCT
1 CTTTTTTT-TTTTTTCT
31778143 -TTTCTTCTTTTTTTTCT
1 CTTT-TT-TTTTTTTTCT
31778160 CTTTTTTTTT
1 CTTTTTTTTT
31778170 CTGCAGATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
15 12 0.24
16 21 0.42
17 12 0.24
18 5 0.10
ACGTcount: A:0.00, C:0.16, G:0.01, T:0.83
Consensus pattern (16 bp):
CTTTTTTTTTTTTTCT
Found at i:31778169 original size:24 final size:25
Alignment explanation
Indices: 31778103--31778171 Score: 101
Period size: 24 Copynumber: 2.9 Consensus size: 25
31778093 GGCTTTTTTG
31778103 TTTTTTTC-CTTTTCTCTTTT-TTCT
1 TTTTTTTCTCTTTT-TCTTTTCTTCT
31778127 TTTTTTTCT-TTTTTCTTTTCTTCT
1 TTTTTTTCTCTTTTTCTTTTCTTCT
31778151 TTTTTTTCTCTTTTT-TTTTCT
1 TTTTTTTCTCTTTTTCTTTTCT
31778172 GCAGATTAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.14
24 31 0.74
25 5 0.12
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (25 bp):
TTTTTTTCTCTTTTTCTTTTCTTCT
Done.