Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 112 of 210
Found at i:33013007 original size:18 final size:17
Alignment explanation
Indices: 33012889--33013259 Score: 151
Period size: 16 Copynumber: 21.9 Consensus size: 17
33012879 ATTAAGTAAA
33012889 TTATGTAAGTTATGTACG
1 TTATGTAAGTTATGTA-G
33012907 TGTA--TAAGTTATGTAAG
1 T-TATGTAAGTTATGT-AG
*
33012924 TTATGT-A-TTAAGTAAG
1 TTATGTAAGTTATGT-AG
* *
33012940 CTATGTAAGTTGTGTA-
1 TTATGTAAGTTATGTAG
33012956 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
** *
33012974 TTATCAAAGTAATGTATG
1 TTATGTAAGTTATGTA-G
*
33012992 TTATGTAAGTTGTGTAG
1 TTATGTAAGTTATGTAG
* *
33013009 -AATGTAAGCTATGTAAG
1 TTATGTAAGTTATGT-AG
** *
33013026 TTATGTAAAG-GGTGCA-
1 TTATGT-AAGTTATGTAG
*
33013042 TAATGTAA-TTA---AG
1 TTATGTAAGTTATGTAG
33013055 TTATGTAAGTTATG-AG
1 TTATGTAAGTTATGTAG
33013071 TTATGTAAGTTATGTA-
1 TTATGTAAGTTATGTAG
* *
33013087 TAATGTACGTTATGTA-
1 TTATGTAAGTTATGTAG
*
33013103 TAATAT-TAAAAAATTTATGTAAG
1 T--TATGT----AAGTTATGT-AG
* *
33013126 TTGTGT-A-TAATGTAAG
1 TTATGTAAGTTATGT-AG
* *
33013142 TTATGTAAGTAATGT-C
1 TTATGTAAGTTATGTAG
*
33013158 TTATGTAAGTTGTGTA-
1 TTATGTAAGTTATGTAG
*
33013174 -TACTGTTAGTTATCAG-AG
1 TTA-TGTAAGTTAT--GTAG
33013192 TTATGT-A-TTATGTAAG
1 TTATGTAAGTTATGT-AG
33013208 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
* *
33013226 TTGTGTAAGTTATTTAAG
1 TTATGTAAGTTATGT-AG
*
33013244 TTATGTAAGTAATGTA
1 TTATGTAAGTTATGTA
33013260 ATATATACTT
Statistics
Matches: 272, Mismatches: 42, Indels: 79
0.69 0.11 0.20
Matches are distributed among these distances:
12 1 0.00
13 7 0.03
14 4 0.01
15 4 0.01
16 121 0.44
17 29 0.11
18 87 0.32
19 7 0.03
21 9 0.03
22 2 0.01
23 1 0.00
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (17 bp):
TTATGTAAGTTATGTAG
Found at i:33013098 original size:25 final size:25
Alignment explanation
Indices: 33012873--33013259 Score: 153
Period size: 25 Copynumber: 15.3 Consensus size: 25
33012863 TGATATATAT
*
33012873 TTATGTATTAA-GTAAATTATGTAAG
1 TTATGTA-TAATGTAAGTTATGTAAG
* *
33012898 TTATGTACGT-GTATAAGTTATGTAAG
1 TTATGTA--TAATGTAAGTTATGTAAG
*
33012924 TTATGTATTAA-GTAAGCTATGTAAG
1 TTATGTA-TAATGTAAGTTATGTAAG
* *
33012949 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATAATGTAAGTTATGTAAG
** *
33012974 TTATCAAAGTAATGTATGTTATGTAAG
1 TTAT-GTA-TAATGTAAGTTATGTAAG
* * *
33013001 TTGTGTAGAATGTAAGCTATGTAAG
1 TTATGTATAATGTAAGTTATGTAAG
* * *
33013026 TTATGTA-AAGGGTGCA-TAATGTAA-
1 TTATGTATAA-TGT-AAGTTATGTAAG
*
33013050 TTAAGT-T-ATGTAAGTTATG--AG
1 TTATGTATAATGTAAGTTATGTAAG
* * *
33013071 TTATGTAAGTTATGT-A-TAATGTACG
1 TTATGT-A-TAATGTAAGTTATGTAAG
* *
33013096 TTATGTATAATATTAAAAAATTTATGTAAG
1 TTATGTATAAT-GT----AAGTTATGTAAG
*
33013126 TTGTGTATAATGTAAGTTATGTAAG
1 TTATGTATAATGTAAGTTATGTAAG
* * * *
33013151 TAATGTCTTATGTAAGTTGTGTATACTG
1 TTATGTATAATGTAAGTTATGTA-A--G
*
33013179 TTA-GT-T-AT-CAGAGTTATGT-A-
1 TTATGTATAATGTA-AGTTATGTAAG
*
33013199 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TAATGTAAGTTATGTAAG
* * *
33013226 TTGTGTAAGTTATTTAAGTTATGTAAG
1 TTATGT-A-TAATGTAAGTTATGTAAG
*
33013253 TAATGTA
1 TTATGTA
33013260 ATATATACTT
Statistics
Matches: 272, Mismatches: 54, Indels: 71
0.69 0.14 0.18
Matches are distributed among these distances:
20 4 0.01
21 8 0.03
22 6 0.02
23 9 0.03
24 15 0.06
25 130 0.48
26 28 0.10
27 50 0.18
28 3 0.01
29 2 0.01
30 17 0.06
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (25 bp):
TTATGTATAATGTAAGTTATGTAAG
Found at i:33013297 original size:13 final size:13
Alignment explanation
Indices: 33013279--33013370 Score: 78
Period size: 13 Copynumber: 7.0 Consensus size: 13
33013269 TAAATTTTAG
*
33013279 TAAGTAATGTATT
1 TAAGTAATATATT
*
33013292 TAAGTAATAAATT
1 TAAGTAATATATT
** *
33013305 TAACCAA-ATTTT
1 TAAGTAATATATT
*
33013317 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
33013332 TAAGTAATTTATT
1 TAAGTAATATATT
33013345 TAAGTAATATATT
1 TAAGTAATATATT
**
33013358 CGAGTAATATATT
1 TAAGTAATATATT
33013371 AAATTAAATT
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
12 3 0.05
13 51 0.82
14 5 0.08
15 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.43
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:33013485 original size:15 final size:15
Alignment explanation
Indices: 33013467--33013496 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33013457 TTTAAAAAAT
33013467 TATATATTAATAATA
1 TATATATTAATAATA
*
33013482 TATATATTAGTAATA
1 TATATATTAATAATA
33013497 AGTTAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TATATATTAATAATA
Found at i:33013516 original size:53 final size:53
Alignment explanation
Indices: 33013415--33013517 Score: 124
Period size: 52 Copynumber: 1.9 Consensus size: 53
33013405 GTAATGTAAA
*
33013415 ATATACTTAAAAATATATATTTAAGTAATGTAAGATATAAATTTTAAAAAATT
1 ATATACTTAAAAATATATATTTAAGTAATGTAAGATATAAATTGTAAAAAATT
*
33013468 ATATA-TTAATAATATATATATT-AGTAATAAGTTAA-AT-TAAATTGTAAAAA
1 ATATACTTAAAAATATATAT-TTAAGTAAT--G-TAAGATATAAATTGTAAAAA
33013518 TATATTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
52 19 0.43
53 19 0.43
54 3 0.07
55 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (53 bp):
ATATACTTAAAAATATATATTTAAGTAATGTAAGATATAAATTGTAAAAAATT
Found at i:33013552 original size:20 final size:19
Alignment explanation
Indices: 33013519--33013571 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
33013509 TTGTAAAAAT
*
33013519 ATATTAAAAAATATAATAA
1 ATATTAAAATATATAATAA
*
33013538 ATATTGAAAATATATATTAA
1 ATATT-AAAATATATAATAA
*
33013558 CT-TTAAAATATATA
1 ATATTAAAATATATA
33013572 TATTAATAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.33
19 7 0.23
20 13 0.43
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
ATATTAAAATATATAATAA
Found at i:33014984 original size:13 final size:13
Alignment explanation
Indices: 33014968--33015008 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
33014958 CATTTACTAT
33014968 ATTCATTAAGAAA
1 ATTCATTAAGAAA
33014981 ATTCATTCAA-AAA
1 ATTCATT-AAGAAA
*
33014994 ATTCATTTAGAAA
1 ATTCATTAAGAAA
33015007 AT
1 AT
33015009 GTCGCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (13 bp):
ATTCATTAAGAAA
Found at i:33015139 original size:60 final size:60
Alignment explanation
Indices: 33015049--33015172 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 60
33015039 CACAAAATTC
* *
33015049 ATTC-GGGCAACTGTTAAATAAATAATTTATACCTAAATCCCTCATACACTGTAACCAAA
1 ATTCAGGGCAACTGCTAAATAAATAATTTATACCTAAATCCCTCACACACTGTAACCAAA
*
33015108 ATTCAGGGCAACTGCTAAATAAACTAA-TTATACCTAAATCCCTCACGCACTGTAACCAAA
1 ATTCAGGGCAACTGCTAAATAAA-TAATTTATACCTAAATCCCTCACACACTGTAACCAAA
33015168 ATTCA
1 ATTCA
33015173 CAAAATTCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
59 4 0.07
60 53 0.88
61 3 0.05
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (60 bp):
ATTCAGGGCAACTGCTAAATAAATAATTTATACCTAAATCCCTCACACACTGTAACCAAA
Found at i:33016695 original size:269 final size:269
Alignment explanation
Indices: 33016137--33016725 Score: 797
Period size: 269 Copynumber: 2.2 Consensus size: 269
33016127 AATACTTGAT
* * * * *
33016137 TTCTAAAATTTTTCTAAGTTAAAAATCGTACACAGAAACGGCACCGTTTACCCATTACTCTAATA
1 TTCTAAAATTTTTATAAGTTAAAAATCGTGCACAGAAACAGCGCCGTTTACACATTACTCTAATA
* * *
33016202 CCCTTTTGCGACGTTTACTGTAAAAATGCCGCTATTGCTTCCACATTTCCGGCGTTTTCCTAAAA
66 CCCTTTTGCGACGTTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTTCCTAAAA
* * *** * * *
33016267 ATGCCACTAAATATTAAAGTTGTAAAGGGAAACGTGCCGTTTTGTTAGTCTCAAATTGCATTATT
131 ATGCCAATAAATATTAAAGTCGTAAACAAAAACGCGCCGTTTTGCTACTCTCAAATTGCATTATT
** *
33016332 TCTGGCATTTTATGTAAAAACGCCACTAATACTTAATTTACTTTAACCCAAACGGTGATGTTTTA
196 TCTGGCATTTTATGTAAAAACGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTTTTA
33016397 AATAAATAA
261 AATAAATAA
* * * * * *
33016406 TTCTAAAATTTTTTTAAGTTAAAAATCGTGTACAGAAACATCGCCGTTTAGACATTATTTTAATA
1 TTCTAAAATTTTTATAAGTTAAAAATCGTGCACAGAAACAGCGCCGTTTACACATTACTCTAATA
* *
33016471 CCCTTTTGCGGCGTTTACTGTACAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTTGCC-AAA
66 CCCTTTTGCGACGTTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTT-CCTAAA
33016535 AATG-CAATAAATATTTAAAGTCGTAAACAAAAACGGCGCCGTTTTGCTACTCTCAAATTGCATT
130 AATGCCAATAAATA-TTAAAGTCGTAAACAAAAAC-GCGCCGTTTTGCTACTCTCAAATTGCATT
* * * *
33016599 GTTTCTGGCGTTTTATGTTAAAACGCCACTAATACTTAACGTACTTTAAGCCAAACGGTGACGTT
193 ATTTCTGGCATTTTATGTAAAAACGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTT
*
33016664 TTAAGTAAATAA
258 TTAAATAAATAA
* * * * *
33016676 TTCT-AAACTTTTATAAGTTAAAAATCATGGAGAGAAACAGCGTCGTTTAC
1 TTCTAAAATTTTTATAAGTTAAAAATCGTGCACAGAAACAGCGCCGTTTAC
33016726 TCAAAATTTT
Statistics
Matches: 278, Mismatches: 39, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
268 8 0.03
269 169 0.61
270 101 0.36
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (269 bp):
TTCTAAAATTTTTATAAGTTAAAAATCGTGCACAGAAACAGCGCCGTTTACACATTACTCTAATA
CCCTTTTGCGACGTTTACTGTAAAAACGCCGCTATTGCTTCCAAAGTTCCGGCGTTTTCCTAAAA
ATGCCAATAAATATTAAAGTCGTAAACAAAAACGCGCCGTTTTGCTACTCTCAAATTGCATTATT
TCTGGCATTTTATGTAAAAACGCCACTAATACTTAACGTACTTTAACCCAAACGGTGACGTTTTA
AATAAATAA
Found at i:33016844 original size:270 final size:269
Alignment explanation
Indices: 33016302--33016808 Score: 644
Period size: 270 Copynumber: 1.9 Consensus size: 269
33016292 AGGGAAACGT
* *
33016302 GCCGTTTTGTTAGTCTCAAATTGCATTATTTCTGGCATTTTATGTAAAAACGCCACTAATACTTA
1 GCCGTTTTGCTACTCTCAAATTGCATTATTTCTGGCATTTTATGTAAAAACGCCACTAATACTTA
** * * *
33016367 ATTTACTTTAACCCAAACGGTGATGTTTTAAATAAATAATTCTAAAATTTTTTTAAGTTAAAAAT
66 ACGTACTTTAACCCAAACGGTGACGTTTTAAATAAATAATTCTAAAACTTTTATAAGTTAAAAAT
* * * * ** * **
33016432 CGTGTACAGAAACATCGCCGTTTAGACATTATTTTAATACCCTTTTGCGGCGTTTACTGTACAAA
131 CATGGACAGAAACAGCGCCGTTTACACAAAATTTTAAGAAACTTTTGCGGCGTTTACTGTACAAA
* * * * ** *
33016497 CGCCGCTATTGCTTCCAAAGTTCCGGCGTTTTGCCAAAAATGCAATAAATATTTAAAGTCGTAAA
196 CGCCACTAATGCATCCAAAGTTACGGCGTTTTGAAAAAAACGCAATAAATATTTAAAGTCG-AAA
33016562 CAAAAACGGC
260 CAAAAACGGC
* * *
33016572 GCCGTTTTGCTACTCTCAAATTGCATTGTTTCTGGCGTTTTATGTTAAAACGCCACTAATACTTA
1 GCCGTTTTGCTACTCTCAAATTGCATTATTTCTGGCATTTTATGTAAAAACGCCACTAATACTTA
* *
33016637 ACGTACTTTAAGCCAAACGGTGACGTTTTAAGTAAATAATTCT-AAACTTTTATAAGTTAAAAAT
66 ACGTACTTTAACCCAAACGGTGACGTTTTAAATAAATAATTCTAAAACTTTTATAAGTTAAAAAT
* * * *
33016701 CATGGAGAGAAACAGCGTCGTTTACTCAAAATTTTAAGAAACTTTTTCGGCGTTT-CTTGTA-AG
131 CATGGACAGAAACAGCGCCGTTTACACAAAATTTTAAGAAACTTTTGCGGCGTTTAC-TGTACA-
* *
33016764 AACGCCACTAATGCATCCAATATTTACGGTGTTTT-AAAAAAACGC
194 AACGCCACTAATGCATCCAA-AGTTACGGCGTTTTGAAAAAAACGC
33016809 CACTAAAAGT
Statistics
Matches: 200, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
268 2 0.01
269 89 0.44
270 109 0.55
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (269 bp):
GCCGTTTTGCTACTCTCAAATTGCATTATTTCTGGCATTTTATGTAAAAACGCCACTAATACTTA
ACGTACTTTAACCCAAACGGTGACGTTTTAAATAAATAATTCTAAAACTTTTATAAGTTAAAAAT
CATGGACAGAAACAGCGCCGTTTACACAAAATTTTAAGAAACTTTTGCGGCGTTTACTGTACAAA
CGCCACTAATGCATCCAAAGTTACGGCGTTTTGAAAAAAACGCAATAAATATTTAAAGTCGAAAC
AAAAACGGC
Found at i:33017209 original size:14 final size:14
Alignment explanation
Indices: 33017168--33017202 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
33017158 AATCATTAAC
*
33017168 CCCTTAACCCCTAA
1 CCCTTAATCCCTAA
33017182 CCCTTAATCCCTAA
1 CCCTTAATCCCTAA
33017196 CCCTTAA
1 CCCTTAA
33017203 ATCCTAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTTAATCCCTAA
Found at i:33017421 original size:35 final size:34
Alignment explanation
Indices: 33017351--33017424 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 34
33017341 TAATATTATC
**
33017351 TTTATAATATTTATTTTTTGTATAAAGTTTGAAA
1 TTTATAATATTTATTTTTTGTATAAAGAATGAAA
33017385 TTTATAATATTTTATTTTATTG-ATAAATGAAT-AAA
1 TTTATAATA-TTTATTTT-TTGTATAAA-GAATGAAA
33017420 TTTAT
1 TTTAT
33017425 CTAATTAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 9 0.26
35 21 0.60
36 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (34 bp):
TTTATAATATTTATTTTTTGTATAAAGAATGAAA
Found at i:33018380 original size:41 final size:41
Alignment explanation
Indices: 33018322--33018432 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
33018312 AATTATTTTT
*
33018322 GCGGCGCTTCATCAAAAACGCCGCTAAAACCCCT-AGAATTA
1 GCGGCGCTTCATAAAAAACGCCGCTAAAA-CCCTAAGAATTA
* * ** *
33018363 GCGGCGATTCATAAAAAACGCTGCTAAAAGTCTAAGCATTA
1 GCGGCGCTTCATAAAAAACGCCGCTAAAACCCTAAGAATTA
* *
33018404 ACGGCGCTTCATGAAAAACGCCGCTAAAA
1 GCGGCGCTTCATAAAAAACGCCGCTAAAA
33018433 ACCTCGAGCA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 2 0.03
41 57 0.97
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTCATAAAAAACGCCGCTAAAACCCTAAGAATTA
Found at i:33018444 original size:42 final size:42
Alignment explanation
Indices: 33018323--33018445 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 42
33018313 ATTATTTTTG
* * * * *
33018323 CGGCGCTTCATCAAAAACGCCGCT-AAAACCCCTAGAATTAG
1 CGGCGCTTCATAAAAAACGCCGCTAAAAACCTCAAGCATTAA
* * **
33018364 CGGCGATTCATAAAAAACGCTGCTAAAAGTCT-AAGCATTAA
1 CGGCGCTTCATAAAAAACGCCGCTAAAAACCTCAAGCATTAA
* *
33018405 CGGCGCTTCATGAAAAACGCCGCTAAAAACCTCGAGCATTA
1 CGGCGCTTCATAAAAAACGCCGCTAAAAACCTCAAGCATTA
33018446 GCAGCGCATA
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
41 54 0.83
42 11 0.17
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.19
Consensus pattern (42 bp):
CGGCGCTTCATAAAAAACGCCGCTAAAAACCTCAAGCATTAA
Found at i:33018774 original size:122 final size:123
Alignment explanation
Indices: 33018507--33018867 Score: 340
Period size: 122 Copynumber: 2.9 Consensus size: 123
33018497 AATAAAAACG
* * * *
33018507 CCACTAATTCCCCCCGAAAGGTCACCAAACGACGCCGTTGGCTTTTATTATTTGCAGCATTTTTT
1 CCACTAAAT-CCCCCGAAAGGCCACCAAACGACGCCGTTGGCTTTAATTATTTGCAGCA-GTTTT
* * *
33018572 TAAAAAAAACGCCACTAATGGTTATTTTTTGCGGCGATTTTAAAGAAACGATGCTAATGCT
64 CAAAAAAAACGCCACTAATGATTATTTTTTGCGGCAATTTTAAAGAAACGA-GCTAATGCT
* *
33018633 CCACTAAATCCCCCGAAAGGGCACCAAACGACGCCGTTGGCATTTAATT-TTTGCGGC-GTTTTC
1 CCACTAAATCCCCCGAAAGGCCACCAAACGACGCCGTTGGC-TTTAATTATTTGCAGCAGTTTTC
** * * * ** *
33018696 CCAAAAAATGGCACTAATGATT-TTTTTTGGGGCAATTTTAGTGTAACACG-GCTGATGCT
65 AAAAAAAACGCCACTAATGATTATTTTTTGCGGCAATTTTAAAG-AA-ACGAGCTAATGCT
* * * *
33018755 CCACTAAATCCCCTGAAAGGCCACCAAACGACGCCGTTGGGTTTTATTATTTTG-TG-ACGTTTT
1 CCACTAAATCCCCCGAAAGGCCACCAAACGACGCCGTTGGCTTTAATTA-TTTGCAGCA-GTTTT
**** ** *
33018818 TGCTAAAAACGCCACTAAT-ACTTATTTTTTGCGGCGTTTTTAAGGAAACG
64 CAAAAAAAACGCCACTAATGA-TTATTTTTTGCGGCAATTTTAAAGAAACG
33018868 CCACTAATGG
Statistics
Matches: 195, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
121 6 0.03
122 68 0.35
123 50 0.26
124 19 0.10
125 38 0.19
126 14 0.07
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (123 bp):
CCACTAAATCCCCCGAAAGGCCACCAAACGACGCCGTTGGCTTTAATTATTTGCAGCAGTTTTCA
AAAAAAACGCCACTAATGATTATTTTTTGCGGCAATTTTAAAGAAACGAGCTAATGCT
Found at i:33027310 original size:43 final size:43
Alignment explanation
Indices: 33027260--33027614 Score: 473
Period size: 43 Copynumber: 8.3 Consensus size: 43
33027250 TTTTATAAAT
* * *
33027260 AAACGCCACTAAAGACCAGGACCTTTAGCGGCCCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
33027303 AAACGCCACTAAAGACCAAAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
33027346 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
33027389 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
33027432 AAACACCGGTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
**
33027475 AAACGCCGCTAAAGACCAAGACCTTTAGCAACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * ** * *
33027518 AAACGCTGCTAAAGACCATGGCCTTTAGTAGCACTTTTCACAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * **
33027561 AAACGCCGCTATATA--ATAGACCTTTAGCGGCACTTTTCGGA-
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTCCCAC
33027602 AAACGCCGCTAAA
1 AAACGCCGCTAAA
33027615 AATATATCAT
Statistics
Matches: 279, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
41 13 0.05
42 18 0.06
43 248 0.89
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:33031131 original size:9 final size:9
Alignment explanation
Indices: 33031117--33031143 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
33031107 CTATATATCC
33031117 ATATCAAAT
1 ATATCAAAT
33031126 ATATCAAAT
1 ATATCAAAT
33031135 ATATCAAAT
1 ATATCAAAT
33031144 GGTTTAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (9 bp):
ATATCAAAT
Found at i:33031448 original size:21 final size:21
Alignment explanation
Indices: 33031419--33031467 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
33031409 ACCCTTGAAA
*
33031419 CCCTAAATCCCTAACTCTTAAC
1 CCCT-AATCCCTAACTCCTAAC
**
33031441 CCCTAATCCCTATTTCCTAAC
1 CCCTAATCCCTAACTCCTAAC
33031462 CCCTAA
1 CCCTAA
33031468 ACCTTAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (21 bp):
CCCTAATCCCTAACTCCTAAC
Found at i:33031488 original size:14 final size:14
Alignment explanation
Indices: 33031469--33031502 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33031459 AACCCCTAAA
33031469 CCTTAAATCACAAC
1 CCTTAAATCACAAC
* *
33031483 CCTTAAATCATAAT
1 CCTTAAATCACAAC
33031497 CCTTAA
1 CCTTAA
33031503 TCCATAATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
CCTTAAATCACAAC
Found at i:33031508 original size:14 final size:15
Alignment explanation
Indices: 33031486--33031523 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
33031476 TCACAACCCT
33031486 TAAAT-CATAAT-CC
1 TAAATCCATAATCCC
*
33031499 TTAATCCATAATCCC
1 TAAATCCATAATCCC
33031514 TAAATCCATA
1 TAAATCCATA
33031524 TCTAATCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.19
14 6 0.29
15 11 0.52
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:33031706 original size:24 final size:24
Alignment explanation
Indices: 33031675--33031733 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
33031665 ATTATATGTG
33031675 AAAT-TATTTAATATATAAATTAA
1 AAATATATTTAATATATAAATTAA
*
33031698 AAATATATTTAAAATATAAATTAA
1 AAATATATTTAATATATAAATTAA
*
33031722 AAA-ATAATTAAT
1 AAATATATTTAAT
33031734 CTAAACCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 11 0.34
24 21 0.66
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATATATTTAATATATAAATTAA
Found at i:33031722 original size:12 final size:12
Alignment explanation
Indices: 33031682--33031732 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
33031672 GTGAAATTAT
*
33031682 TTAATATATAAA
1 TTAAAATATAAA
*
33031694 TTAAAA-ATATAT
1 TTAAAATATA-AA
33031706 TTAAAATATAAA
1 TTAAAATATAAA
*
33031718 TTAAAAAAT-AA
1 TTAAAATATAAA
33031729 TTAA
1 TTAA
33031733 TCTAAACCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
11 9 0.27
12 21 0.64
13 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAAAATATAAA
Found at i:33032246 original size:41 final size:41
Alignment explanation
Indices: 33032186--33032459 Score: 372
Period size: 41 Copynumber: 6.7 Consensus size: 41
33032176 TTTTTAGTGC
33032186 CGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGG
1 CGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGG
* * *
33032227 CGCTTTTCCAAAAAAGCCGCTAAATCCCTCAGCATTAGCGG
1 CGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGG
* * *
33032268 CGC-TTTCTAAAAAACGCCGCTAAATCCCCAAGCATTAGCGG
1 CGCTTTTC-CAAAAACGCCGCTAAAGCCCCCAGCATTAGCGG
* * ** *
33032309 TGCTTATCCAAAAACGCC-CTTAAAGCCCTTAGCATTAGTGG
1 CGCTTTTCCAAAAACGCCGC-TAAAGCCCCCAGCATTAGCGG
* *
33032350 CGCTTATCCAAAAACGCCGCTAAAGCCCCCCGCATTAGCGG
1 CGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGG
* * *
33032391 CTCTTATCCAAAAACGCCGCTAAAGCCCCCAACATTAGCGG
1 CGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGG
33032432 CGCTTTTCCAAAAACGCCGCTAAAGCCC
1 CGCTTTTCCAAAAACGCCGCTAAAGCCC
33032460 TGAAAGGTAA
Statistics
Matches: 205, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
40 5 0.02
41 196 0.96
42 4 0.02
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.19
Consensus pattern (41 bp):
CGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCATTAGCGG
Found at i:33032598 original size:40 final size:40
Alignment explanation
Indices: 33032516--33032628 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
33032506 TTTTTTCCAG
*
33032516 AAACGCCGCTAATGCT-CACTTTTAGCGGCGATTTTCAAA
1 AAACGCCGCTAATGCTCCACTTTTAGCGGCGATTTCCAAA
* *
33032555 AAACGCCGCTAATGCTCCA-TCTTTAGTGGCGATTTCCATA
1 AAACGCCGCTAATGCTCCACT-TTTAGCGGCGATTTCCAAA
* * *
33032595 AAACGCCGCTAATGCTCGATTTTTACCGGC-ATTT
1 AAACGCCGCTAATGCTCCACTTTTAGCGGCGATTT
33032629 TTTGTCCAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
39 21 0.32
40 43 0.66
41 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (40 bp):
AAACGCCGCTAATGCTCCACTTTTAGCGGCGATTTCCAAA
Found at i:33040782 original size:13 final size:13
Alignment explanation
Indices: 33040683--33040782 Score: 62
Period size: 13 Copynumber: 7.6 Consensus size: 13
33040673 CTGTAACTGA
33040683 TTCATAT-ATCCAT
1 TTCATATAAT-CAT
*
33040696 TCCATAT-ATCTAT
1 TTCATATAATC-AT
*
33040709 TTCTATATAA-CTAA
1 TTC-ATATAATC-AT
*
33040723 TTCTTATAATCAT
1 TTCATATAATCAT
* **
33040736 TTCACATACCCAT
1 TTCATATAATCAT
* *
33040749 TTCATATAAACAA
1 TTCATATAATCAT
33040762 TTCATATAATCAT
1 TTCATATAATCAT
*
33040775 TTCGTATA
1 TTCATATA
33040783 GCCATTCCAA
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
12 1 0.01
13 54 0.81
14 11 0.16
15 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.01, T:0.43
Consensus pattern (13 bp):
TTCATATAATCAT
Found at i:33040788 original size:39 final size:40
Alignment explanation
Indices: 33040676--33040777 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
33040666 TGTTTATCTG
* * * * *
33040676 TAACTGATTCATAT-ATCCATTCCATATATCTATTTCTATA
1 TAACTAATTCATATAAT-CATTTCACATACCCATTTCTATA
*
33040716 TAACTAATTCTTATAATCATTTCACATACCCATTTC-ATA
1 TAACTAATTCATATAATCATTTCACATACCCATTTCTATA
33040755 TAAAC-AATTCATATAATCATTTC
1 T-AACTAATTCATATAATCATTTC
33040778 GTATAGCCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
39 21 0.40
40 30 0.57
41 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.01, T:0.42
Consensus pattern (40 bp):
TAACTAATTCATATAATCATTTCACATACCCATTTCTATA
Found at i:33044743 original size:35 final size:36
Alignment explanation
Indices: 33044692--33044769 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 36
33044682 TCCCAACCTC
33044692 TTTTTTTTGTAGAAAAATATTTGGCCTA-CCCAACA
1 TTTTTTTTGTAGAAAAATATTTGGCCTAGCCCAACA
* *
33044727 TTTTTTTTGTCA-AAAAATATTTGGTCTAGCCCAACC
1 TTTTTTTTGT-AGAAAAATATTTGGCCTAGCCCAACA
33044763 TTTTTTT
1 TTTTTTT
33044770 GTTGTCTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
35 25 0.64
36 14 0.36
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (36 bp):
TTTTTTTTGTAGAAAAATATTTGGCCTAGCCCAACA
Found at i:33055669 original size:12 final size:12
Alignment explanation
Indices: 33055654--33055701 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
33055644 ATTAAAAGGT
33055654 TAAATAAGTAAA
1 TAAATAAGTAAA
*
33055666 TAAATAAATAAA
1 TAAATAAGTAAA
33055678 TAAACTAAGTAAA
1 TAAA-TAAGTAAA
*
33055691 TATA-AAGTAAA
1 TAAATAAGTAAA
33055702 ACAAGTTGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 7 0.22
12 15 0.47
13 10 0.31
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAATAAGTAAA
Found at i:33055671 original size:4 final size:4
Alignment explanation
Indices: 33055654--33055692 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
33055644 ATTAAAAGGT
* *
33055654 TAAA TAAG TAAA TAAA TAAA TAAA TAAA CTAAG TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA -TAAA TAAA TA
33055693 TAAAGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:33056566 original size:60 final size:60
Alignment explanation
Indices: 33056480--33056592 Score: 131
Period size: 60 Copynumber: 1.9 Consensus size: 60
33056470 TCATTGACCA
* * * * * *
33056480 ATGAAAAGGGATGGCTTCGGCTATCAAAATATGGATAGGGGTGGCTTTG-GCTATCCTATT
1 ATGAAAAGGGATGGCTACGACCATCAAAA-ATGAAAAGGGGTAGCTTTGAGCTATCCTATT
*
33056540 ATGAAAAGGGATGG-TGACGACCATCAACAATGAAAAGGGGTAGCTTTGAGCTA
1 ATGAAAAGGGATGGCT-ACGACCATCAAAAATGAAAAGGGGTAGCTTTGAGCTA
33056593 ATTGTAATGG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
59 17 0.39
60 27 0.61
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (60 bp):
ATGAAAAGGGATGGCTACGACCATCAAAAATGAAAAGGGGTAGCTTTGAGCTATCCTATT
Found at i:33059427 original size:35 final size:35
Alignment explanation
Indices: 33059381--33059550 Score: 250
Period size: 35 Copynumber: 4.9 Consensus size: 35
33059371 AAAAAAATTA
*
33059381 CCTTAGACGTGTCTATCCCAACTTTTTTAAGGTTG
1 CCTTAGACGTGTCTATCCCAACCTTTTTAAGGTTG
*
33059416 CCTTAGACGTGTCTATCCCAACCTTTTTAAAGTTG
1 CCTTAGACGTGTCTATCCCAACCTTTTTAAGGTTG
* * * *
33059451 CCTTAAACGTGTCTATCTCAACCTTTTAAAGTTTG
1 CCTTAGACGTGTCTATCCCAACCTTTTTAAGGTTG
* **
33059486 CCTTAGACGGGTCTATCCCAATGTTTTTAAGGTTG
1 CCTTAGACGTGTCTATCCCAACCTTTTTAAGGTTG
*
33059521 CCTTAGACGGGTCTATCCCAACCTTTTTAA
1 CCTTAGACGTGTCTATCCCAACCTTTTTAA
33059551 AGTCGCATTT
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 119 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (35 bp):
CCTTAGACGTGTCTATCCCAACCTTTTTAAGGTTG
Found at i:33061608 original size:22 final size:21
Alignment explanation
Indices: 33061573--33061651 Score: 54
Period size: 22 Copynumber: 3.7 Consensus size: 21
33061563 AAAGTGTATC
* * *
33061573 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
33061594 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
33061617 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
33061636 TGCATATATCATATCT
1 TACA-A-ATCATATCT
33061652 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 12 0.26
21 9 0.20
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:33061646 original size:21 final size:21
Alignment explanation
Indices: 33061609--33061663 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
33061599 AATCATATCT
33061609 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
33061628 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
33061649 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
33061664 CCTTGAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 11 0.32
21 23 0.68
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:33062488 original size:44 final size:44
Alignment explanation
Indices: 33062440--33062546 Score: 160
Period size: 44 Copynumber: 2.4 Consensus size: 44
33062430 CTTCGATCTG
* *
33062440 CTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
* * *
33062484 CTCCACTACTGCTTTGGGAGATAAGGTCTACAATCTTCAACTTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
*
33062528 CTCCACTACTGCTCAGGGA
1 CTCCACTACTGCTTAGGGA
33062547 CTTCCCTACT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
Found at i:33062658 original size:44 final size:42
Alignment explanation
Indices: 33062627--33062852 Score: 281
Period size: 44 Copynumber: 5.1 Consensus size: 42
33062617 ATATGTAATT
* *
33062627 TTCAACTTATTCCACTGCTGACCAGGGAGATAAGATTCACCATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA--ATC
* *
33062671 TTCAACATATTCCACTGCTGACCAGTGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATT--CAATC
33062715 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATT--CAATC
* *
33062759 TTCAACCTATTCCACTGCTGACCAAGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-T-TCAATC
* * *
33062803 TTCAACCTATTTCACTACTAACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TT-CAATC
33062847 TTCAAC
1 TTCAAC
33062853 TTGATCTGCT
Statistics
Matches: 165, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
44 162 0.98
45 1 0.01
46 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCAATC
Found at i:33062672 original size:152 final size:152
Alignment explanation
Indices: 33062395--33062686 Score: 417
Period size: 152 Copynumber: 1.9 Consensus size: 152
33062385 CTTAAATCTG
33062395 CTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 CTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
* **
33062460 ATAAGATCTATAATTTTCAACCTACTCCACTACTGCTTTGGGAGATAAGGTCTACAATCTTCAAC
66 ATAAGATATATAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAAC
*
33062525 TTACTCCACTACTGCTCAGGGA
131 ATACTCCACTACTGCTCAGGGA
* * *
33062547 CTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTTTTTGATCTGCTCCACTACTGCTTAGGTAG
1 CTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
* * * * * * *
33062612 ATAGGATATGTAATTTTCAACTTATTCCACTGCTGAC-CAGGGAGATAAGAT-TCACCATCTTCA
66 ATAAGATATATAATTTTCAACCTACTCCACTACTG-CTCAGGGAGATAAGGTCT-ACAATCTTCA
*
33062675 ACATATTCCACT
129 ACATACTCCACT
33062687 GCTGACCAGT
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
151 1 0.01
152 121 0.98
153 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (152 bp):
CTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATATATAATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGTCTACAATCTTCAAC
ATACTCCACTACTGCTCAGGGA
Found at i:33062719 original size:88 final size:88
Alignment explanation
Indices: 33062627--33062852 Score: 348
Period size: 88 Copynumber: 2.6 Consensus size: 88
33062617 ATATGTAATT
* * *
33062627 TTCAACTTATTCCACTGCTGACCAGGGAGATAAGATTCACCATCTTCAACATATTCCACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACATATTCCACTGCTGA
*
33062692 CC-AGTGAGATAGGATTCACAATC
66 CCAAG-GAGATAGGACTCACAATC
*
33062715 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACATATTCCACTGCTGA
33062780 CCAAGGAGATAGGACTCACAATC
66 CCAAGGAGATAGGACTCACAATC
* * *
33062803 TTCAACCTATTTCACTACTAACCAGGGAGATAGGACTT-ACAATCTTCAAC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCAAC
33062853 TTGATCTGCT
Statistics
Matches: 128, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
88 124 0.97
89 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (88 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACATATTCCACTGCTGA
CCAAGGAGATAGGACTCACAATC
Found at i:33063126 original size:44 final size:44
Alignment explanation
Indices: 33063026--33063400 Score: 163
Period size: 44 Copynumber: 8.7 Consensus size: 44
33063016 CTTGAGTCTG
*** * * *
33063026 CTCCACTGCAACTTCAGGGAGATAAG---ACCCGATGTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGATTTAATCCA
* * *
33063067 CTCTACAGCAACTTCAGAGAGATAAGATCT-GTGGATTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGATTTAATCCA
* * * * **
33063111 TTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGATTTAATCCA
* * * ** * *
33063155 CTCCACTGTAACTTCAGGGAGATAATATTCG-CCACCTTCAGTCTGC-
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGA--TTTAATC--CA
* * * * *
33063201 CT-CACTGAAACTTCA-GGAGGATAAGACTT-GCT-TACTTAGTCTA
1 CTCCACTGCAACTTCAGGGA-GATAAGA-TTAG-TGGATTTAATCCA
* *** **
33063244 CTCCACTGCAACTTCAGGGAGATAAGACTA---GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGATTTAATCCA
* * * *
33063285 CT-CTCTGTAACTTCAGAGAGATAAGATCT-GT-GATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAGTGGA-TTTAATCCA
* * * *
33063328 CTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAA-CCTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGATTTAATCC-A
33063372 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
33063401 CGCCATCTTC
Statistics
Matches: 248, Mismatches: 61, Indels: 47
0.70 0.17 0.13
Matches are distributed among these distances:
40 21 0.08
41 30 0.12
42 2 0.01
43 14 0.06
44 148 0.60
45 28 0.11
46 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGTGGATTTAATCCA
Found at i:33063340 original size:217 final size:219
Alignment explanation
Indices: 33063000--33063415 Score: 667
Period size: 217 Copynumber: 1.9 Consensus size: 219
33062990 AATTTCAGAG
* * * *
33063000 GGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGATGTGATC
1 GGATAAGACTTGCTTACTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATC
*
33063065 TACTCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCATTCCACTGCAACTTCAGGG
66 TACTCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACTGCAACTTCAGGG
* * *
33063130 AGATAGGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAATATTCGCCACCTTCA
131 AGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCACCTTCA
33063195 GTCTGCCTCACTGAAACTTCAGGA
196 GTCTGCCTCACTGAAACTTCAGGA
*
33063219 GGATAAGACTTGCTTACTT-AGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATC
1 GGATAAGACTTGCTTACTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATC
* * * *
33063283 TGCTCT-CTGTAACTTCAGAGAGATAAGATCTGT-GATTTTAATCCGCTCCACTGCAACTTCAGG
66 TACTCTACAGCAACTTCAGAGAGATAAGATCTGTGGA-TTTAATCCACTCCACTGCAACTTCAGG
* *
33063346 GAGATAGGATTATTGGCTTTAACCTTCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTC
130 GAGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCACCTTC
33063411 AGTCT
195 AGTCT
33063416 TTTTAATTGC
Statistics
Matches: 181, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
216 2 0.01
217 115 0.64
218 46 0.25
219 18 0.10
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (219 bp):
GGATAAGACTTGCTTACTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATC
TACTCTACAGCAACTTCAGAGAGATAAGATCTGTGGATTTAATCCACTCCACTGCAACTTCAGGG
AGATAGGATTATTGGCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCACCTTCA
GTCTGCCTCACTGAAACTTCAGGA
Found at i:33063770 original size:93 final size:93
Alignment explanation
Indices: 33063607--33063776 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 93
33063597 CCAGGGAGAT
* * * *
33063607 AAGATTCACCGTCATAGCTTCAATTTGCTCCGCTACAATGCCAGGGAAGTAAAATTCACTGTTGC
1 AAGATTCACCATCATAGCTTCAATCTGCTCCACTACAACGCCAGGGAAGTAAAATTCACTGTTGC
*
33063672 GGCTTCAATCTTGCAATGTTAAGGAAAC
66 AGCTTCAATCTTGCAATGTTAAGGAAAC
* * * * **
33063700 AAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAGATTTGGC-GTTG
1 AAGATTCACCATCATAGCTTCAATCTGCTCCACTACAACGCCAGGGAAGTAA-AATTCACTGTTG
33063764 CAGCTTCAATCTT
65 CAGCTTCAATCTT
33063777 TTTCACTGTA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
93 61 0.94
94 4 0.06
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (93 bp):
AAGATTCACCATCATAGCTTCAATCTGCTCCACTACAACGCCAGGGAAGTAAAATTCACTGTTGC
AGCTTCAATCTTGCAATGTTAAGGAAAC
Found at i:33063898 original size:260 final size:260
Alignment explanation
Indices: 33063422--33063943 Score: 803
Period size: 260 Copynumber: 2.0 Consensus size: 260
33063412 GTCTTTTTAA
** * * * * *
33063422 TTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCGATTTGTTCCACTACACCGTCAAGGA
1 TTGCAATGTTAAGGAAACAAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGA
* * *
33063487 AGTAAGATTTGCCGTTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTTGCTGC
66 AGTAAGATTTGCCGTTGCAGCTTCAATCTTTTTCACTGTAATGCCAAAGAAATAGGATTCGCTGC
*
33063552 CCTCAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
131 CCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
* * * * *
33063617 GTCATAGCTTCAATTTGCTCCGCTACAATGCCAGGGAAGTAAAATTCACTGTTGCGGCTTCAATC
196 GTCATAGCTTCAATCTGCTCCGCTACAACGCCACGGAAGTAAAATTCACCGTCGCGGCTTCAATC
*
33063682 TTGCAATGTTAAGGAAACAAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGA
1 TTGCAATGTTAAGGAAACAAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGA
*
33063747 AGTAAGATTTGGCGTTGCAGCTTCAATCTTTTTCACTGTAATGCCAAAGAAATAGGATTCGCTGC
66 AGTAAGATTTGCCGTTGCAGCTTCAATCTTTTTCACTGTAATGCCAAAGAAATAGGATTCGCTGC
* *
33063812 CCACAGCTTCAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACAG-TAGGGAGATAAGATTCAC
131 CCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAAC-GCCAGGGAGATAAGATTCAC
* * * * *
33063876 CGTCGTGGTTTCAATCTGCTCCGCTACAACGCCACGGAAGTAAGATTCACCGTCGTGGCTTCAAT
195 CGTCATAGCTTCAATCTGCTCCGCTACAACGCCACGGAAGTAAAATTCACCGTCGCGGCTTCAAT
33063941 C
260 C
33063942 TT
1 TT
33063944 TTCCATTGCA
Statistics
Matches: 236, Mismatches: 25, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
260 235 1.00
261 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (260 bp):
TTGCAATGTTAAGGAAACAAGATTCACCATCGTAGCTTCAATCTGTTCCACTACACCGCCAAGGA
AGTAAGATTTGCCGTTGCAGCTTCAATCTTTTTCACTGTAATGCCAAAGAAATAGGATTCGCTGC
CCACAGCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCACC
GTCATAGCTTCAATCTGCTCCGCTACAACGCCACGGAAGTAAAATTCACCGTCGCGGCTTCAATC
Found at i:33063970 original size:50 final size:49
Alignment explanation
Indices: 33063864--33063970 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 49
33063854 ACAGTAGGGA
* * *
33063864 GATAAGATTCACCGTCGTGGTTTCAATCTGCTCCGCTACAACGCCACGG
1 GATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCCAAGG
* ** * * *
33063913 AAGTAAGATTCACCGTCGTGGCTTCAATCTTTTCCATTGCAACGTCAAGG
1 GA-TAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCCAAGG
33063963 CGATAAGA
1 -GATAAGA
33063971 CGGGTGTCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.02
50 44 0.96
51 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (49 bp):
GATAAGATTCACCGTCGTGGCTTCAATCTGCTCCACTACAACGCCAAGG
Found at i:33064147 original size:88 final size:88
Alignment explanation
Indices: 33063977--33064149 Score: 256
Period size: 88 Copynumber: 2.0 Consensus size: 88
33063967 AAGACGGGTG
* * ** *
33063977 TCTTCGATCTGCTTCACTGCCAGCACAGGAAGGTAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
* *
33064042 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGAGAAACAAGGCTGGTA
* *
33064065 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTAC
1 TCTTCGATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
*
33064130 TGCTCAGAGAAATAAGGCTG
66 TGCTCAGAGAAACAAGGCTG
33064150 AAGTTTCACC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTAC
TGCTCAGAGAAACAAGGCTGGTA
Found at i:33065419 original size:19 final size:19
Alignment explanation
Indices: 33065397--33065440 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
33065387 CCTTGACCTC
33065397 TCTTTTTCCTCTTCTTCTT
1 TCTTTTTCCTCTTCTTCTT
* * *
33065416 TCTTTTTCTTTTTCTTTTT
1 TCTTTTTCCTCTTCTTCTT
33065435 TCTTTT
1 TCTTTT
33065441 ATTTTCCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TCTTTTTCCTCTTCTTCTT
Found at i:33065423 original size:6 final size:6
Alignment explanation
Indices: 33065397--33065458 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
33065387 CCTTGACCTC
* * *
33065397 TCTTTT TCCTCT TCTTCTT TCTTTT TCTTTT TCTTTT T-TCTTT TATTTT
1 TCTTTT TCTTTT TCTT-TT TCTTTT TCTTTT TCTTTT TCT-TTT TCTTTT
* *
33065446 CCTTTT CCTTTT T
1 TCTTTT TCTTTT T
33065459 TCCATCATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 1 0.02
6 39 0.85
7 6 0.13
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:33070490 original size:22 final size:21
Alignment explanation
Indices: 33070455--33070531 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 21
33070445 AAATGGTATC
* * *
33070455 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
33070476 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
33070499 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
33070518 TGCATATCATATCT
1 TACAAATCATATCT
33070532 AAGATTGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
19 19 0.40
21 4 0.09
22 15 0.32
23 9 0.19
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:33070515 original size:19 final size:19
Alignment explanation
Indices: 33070491--33070544 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
33070481 AATCATATCT
33070491 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33070510 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
33070529 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
33070545 CTTGAAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:33071056 original size:21 final size:23
Alignment explanation
Indices: 33071029--33071081 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 23
33071019 TGGATACAAA
33071029 ATTTTAAAATTTTAAACTT-AAC
1 ATTTTAAAATTTTAAACTTAAAC
* *
33071051 -TTTT--AATTTTTATCTTAAAC
1 ATTTTAAAATTTTAAACTTAAAC
33071071 ATTTTAAAATT
1 ATTTTAAAATT
33071082 ACATTTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 10 0.40
20 3 0.12
21 8 0.32
23 4 0.16
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTAAAATTTTAAACTTAAAC
Found at i:33072298 original size:2 final size:2
Alignment explanation
Indices: 33072291--33072353 Score: 51
Period size: 2 Copynumber: 33.0 Consensus size: 2
33072281 TTATAATAAG
* * * * *
33072291 TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA TA TA -A AA AA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
33072332 TA TC TA TA -A TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
33072354 AAATACAGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
1 3 0.06
2 46 0.94
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:33073958 original size:40 final size:39
Alignment explanation
Indices: 33073903--33073981 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
33073893 GACCAATTTG
*
33073903 ATCTTTGATCTCACGTATTTGGCTAATTTGGTCATGTTTT
1 ATCTTTGATCTCACGTATTTGACTAATTTGGTCAT-TTTT
33073943 ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
1 ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
33073982 GACTAGAGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (39 bp):
ATCTTTGATCTCACGTATTTGACTAATTTGGTCATTTTT
Found at i:33073972 original size:23 final size:23
Alignment explanation
Indices: 33073906--33073972 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
33073896 CAATTTGATC
*
33073906 TTTGATCTCACGTATTTGGCTAA
1 TTTGATCTCACGTATTTGACTAA
* * *
33073929 TTTG--GTCATGT-TTT-A-T-C
1 TTTGATCTCACGTATTTGACTAA
33073946 TTTGATCTCACGTATTTGACTAA
1 TTTGATCTCACGTATTTGACTAA
33073969 TTTG
1 TTTG
33073973 GTCATTTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 12
0.62 0.14 0.24
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 5 0.16
20 6 0.19
21 6 0.19
22 1 0.03
23 8 0.26
ACGTcount: A:0.19, C:0.15, G:0.16, T:0.49
Consensus pattern (23 bp):
TTTGATCTCACGTATTTGACTAA
Found at i:33074515 original size:14 final size:15
Alignment explanation
Indices: 33074496--33074530 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
33074486 AGTACAGTAA
33074496 AATATTTA-AAAAAT
1 AATATTTATAAAAAT
33074510 AATATTTATAAAAAT
1 AATATTTATAAAAAT
33074525 ATATAT
1 A-ATAT
33074531 ATCAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 7 0.37
16 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATATTTATAAAAAT
Found at i:33075112 original size:11 final size:11
Alignment explanation
Indices: 33075096--33075120 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33075086 TTTTATAATT
33075096 AATTATGTTTA
1 AATTATGTTTA
33075107 AATTATGTTTA
1 AATTATGTTTA
33075118 AAT
1 AAT
33075121 AAAGTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (11 bp):
AATTATGTTTA
Found at i:33076091 original size:14 final size:14
Alignment explanation
Indices: 33076051--33076092 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
33076041 CAGATTTCAG
33076051 TTTTTTTCAATTTT-
1 TTTTTTT-AATTTTA
* *
33076065 TTTTTGTAGTTTTA
1 TTTTTTTAATTTTA
33076079 TTTTTTTAATTTTA
1 TTTTTTTAATTTTA
33076093 ATTATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTTTTTAATTTTA
Found at i:33077106 original size:2 final size:2
Alignment explanation
Indices: 33077099--33077153 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
33077089 TCTCATAGTT
33077099 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
33077141 AG AG AG AG AG AG A
1 AG AG AG AG AG AG A
33077154 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33093265 original size:22 final size:24
Alignment explanation
Indices: 33093211--33093275 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 24
33093201 CTAGACAAAG
*
33093211 ATACGCCACAAAGACAACATATGAA
1 ATACGCCACAAAGACTA-ATATGAA
* *
33093236 ATATGCCACAAAGCCTAATA-G-A
1 ATACGCCACAAAGACTAATATGAA
*
33093258 ATACGCCACAAAGGCTAA
1 ATACGCCACAAAGACTAA
33093276 CAGAGTACCA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 17 0.49
23 1 0.03
24 3 0.09
25 14 0.40
ACGTcount: A:0.48, C:0.25, G:0.14, T:0.14
Consensus pattern (24 bp):
ATACGCCACAAAGACTAATATGAA
Found at i:33097477 original size:13 final size:13
Alignment explanation
Indices: 33097456--33097489 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33097446 GAAGTTTCAT
* *
33097456 TCCTCACACGTTA
1 TCCTAACACGCTA
33097469 TCCTAACACGCTA
1 TCCTAACACGCTA
33097482 TCCTAACA
1 TCCTAACA
33097490 TTTATGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.38, G:0.06, T:0.26
Consensus pattern (13 bp):
TCCTAACACGCTA
Found at i:33112530 original size:27 final size:26
Alignment explanation
Indices: 33112470--33112633 Score: 166
Period size: 27 Copynumber: 6.1 Consensus size: 26
33112460 GATTCATGGG
* *
33112470 AAAATGATCGAAATACCCTCAAAGGGC
1 AAAATGA-CGAAATACCCTCGAAGGGT
*
33112497 AACATGACAGAAATACCCTCGAAGGGT
1 AAAATGAC-GAAATACCCTCGAAGGGT
* * * *
33112524 ACAATGATCGAAAGACGCTCGAAAGGT
1 AAAATGA-CGAAATACCCTCGAAGGGT
* * *
33112551 AAAATTACCAAATAACCTCGAAGGGT
1 AAAATGACGAAATACCCTCGAAGGGT
*
33112577 AAAATGATCAAAATACCCTCGAAGGGT
1 AAAATGA-CGAAATACCCTCGAAGGGT
**
33112604 AAAATGACTGAAATACCCTCTTAGGGT
1 AAAATGAC-GAAATACCCTCGAAGGGT
33112631 AAA
1 AAA
33112634 TGATTGTTAT
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
26 22 0.20
27 89 0.79
28 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (26 bp):
AAAATGACGAAATACCCTCGAAGGGT
Found at i:33112635 original size:53 final size:52
Alignment explanation
Indices: 33112471--33112637 Score: 190
Period size: 53 Copynumber: 3.1 Consensus size: 52
33112461 ATTCATGGGA
* * *
33112471 AAATGATCGAAATACCCTCAAAGGGCAACATGACAGAAATACCCTCGAAGGGT
1 AAATGATCGAAATACCCTCGAAGGGTAAAATGAC-GAAATACCCTCGAAGGGT
* * * * * *
33112524 ACAATGATCGAAAGACGCTCGAAAGGTAAAATTACCAAATAACCTCGAAGGGT
1 A-AATGATCGAAATACCCTCGAAGGGTAAAATGACGAAATACCCTCGAAGGGT
* **
33112577 AAAATGATCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTCTTAGGGT
1 -AAATGATCGAAATACCCTCGAAGGGTAAAATGAC-GAAATACCCTCGAAGGGT
33112631 AAATGAT
1 AAATGAT
33112638 TGTTATACTC
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
53 52 0.56
54 41 0.44
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.19
Consensus pattern (52 bp):
AAATGATCGAAATACCCTCGAAGGGTAAAATGACGAAATACCCTCGAAGGGT
Found at i:33112810 original size:27 final size:27
Alignment explanation
Indices: 33112768--33113047 Score: 356
Period size: 27 Copynumber: 10.4 Consensus size: 27
33112758 TGTGATTCAT
* *
33112768 GGGT-AAATGATTGAAATACCCTCAAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* *
33112794 GGGCAAAATTATCGAAATACCCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* * *
33112821 TGGTAAAATGACCGAAATACCCCCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* *
33112848 GGGTAAAATGA-CTGAAATACTCTTGAA
1 GGGTAAAATGATC-GAAATACCCTCGAA
33112875 GGGTAAAATGATCGAAATACCCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
*
33112902 GGGTAAAATGA-CTGAAATACCCTCAAA
1 GGGTAAAATGATC-GAAATACCCTCGAA
*
33112929 GGGTAAAATGATCGAAAGACCCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
* *
33112956 GGGTAAAATTATCGAAATAACCTCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
*
33112983 GGGTAAAATGATCTAAATACCC-CGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
33113009 GGGTAAAATGA-CTGAAATACCCTC-ATA
1 GGGTAAAATGATC-GAAATACCCTCGA-A
33113036 GGGTAAAATGAT
1 GGGTAAAATGAT
33113048 TATCATACTC
Statistics
Matches: 220, Mismatches: 25, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.00
26 29 0.13
27 188 0.85
28 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGATCGAAATACCCTCGAA
Found at i:33113256 original size:26 final size:26
Alignment explanation
Indices: 33113225--33113283 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
33113215 CCACATATAA
* *
33113225 TGTTACTGGAAGCTATACTGCGTTAC
1 TGTTACTGGAAGCTATACTGCATCAC
* * *
33113251 TGTTACTGGCAGCTTTGCTGCATCAC
1 TGTTACTGGAAGCTATACTGCATCAC
33113277 TGTTACT
1 TGTTACT
33113284 AGCAGCTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TGTTACTGGAAGCTATACTGCATCAC
Found at i:33113450 original size:28 final size:28
Alignment explanation
Indices: 33113413--33113493 Score: 99
Period size: 30 Copynumber: 2.8 Consensus size: 28
33113403 CACTGACTAT
* * *
33113413 TGTATCGGGCTAAGGCCCCCACTATTAC
1 TGTATTGGGCTAAGGCCCACACTATCAC
*
33113441 TGTATTGGGCGAAGGCCTACACACTATCAC
1 TGTATTGGGCTAAGGCC--CACACTATCAC
*
33113471 TGTAATGGGCTAAGGCCCACACT
1 TGTATTGGGCTAAGGCCCACACT
33113494 GTACTGATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.47
30 24 0.53
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACACTATCAC
Found at i:33120186 original size:27 final size:27
Alignment explanation
Indices: 33120152--33120508 Score: 364
Period size: 27 Copynumber: 13.2 Consensus size: 27
33120142 ATTCATTAGT
* * *
33120152 AAATGACCAAAATACCATCGAAGGATA
1 AAATGACCGAAATACCCTCGAAGGGTA
33120179 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
33120206 AAATGACCGAAATACCC-CAGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* *
33120233 AAATGACCGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
33120260 AAATGACCGAAATACTCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
33120287 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
33120314 AAATGACCGAAATACCCGCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
33120341 AAATGACCAAAATACCCTCAAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
33120368 AAATGATCGAAATACCC-CTAAAGGCTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* ** ***
33120395 AAATTATTGAAATACCC-CAGAAATATA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
33120422 AAAGGATCGAAATATCCCT-AAAGGGTA
1 AAATGACCGAAATA-CCCTCGAAGGGTA
** * *
33120449 AAATGATTGATATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
33120476 AAATGACTGAAATACCCTC-ATAGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
33120503 AAATGA
1 AAATGA
33120509 GTGTTATACT
Statistics
Matches: 283, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.02
27 272 0.96
28 4 0.01
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:33120701 original size:27 final size:27
Alignment explanation
Indices: 33120657--33120728 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
33120647 TAGGAGAAGC
**
33120657 ATACTG-TACTGGTGGCTTTGCCACAT
1 ATACTGTTACTGGCAGCTTTGCCACAT
**
33120683 ATACTGTTACTGGCAGCTTTGCTGCAT
1 ATACTGTTACTGGCAGCTTTGCCACAT
* *
33120710 -CACTATTACTGGCAGCTTT
1 ATACTGTTACTGGCAGCTTT
33120729 ACTGCGATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 23 0.59
27 16 0.41
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
ATACTGTTACTGGCAGCTTTGCCACAT
Found at i:33121960 original size:16 final size:16
Alignment explanation
Indices: 33121939--33121973 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
33121929 CATTTCACTA
*
33121939 TTATGTCTTTTGTATT
1 TTATGTCTTTTATATT
33121955 TTATGTCTTTTATATT
1 TTATGTCTTTTATATT
33121971 TTA
1 TTA
33121974 CATGCATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.09, T:0.69
Consensus pattern (16 bp):
TTATGTCTTTTATATT
Found at i:33145856 original size:50 final size:50
Alignment explanation
Indices: 33145745--33146091 Score: 367
Period size: 50 Copynumber: 6.8 Consensus size: 50
33145735 ATTTGGGTAA
* * *
33145745 AGAGATCCCATGTAAGACCATGTCTGGTACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
33145801 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
33145851 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATG
* * *
33145901 AGAGGTCCCATGTAAGGCCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
33145951 AGAGGTCCCCTGTAAAACCATGTCTGGGACATGGCATGGGCATCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
33146001 AGAACTCCCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * *
33146050 AAACATCCTATGTAAGACAATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33146092 TGTTATTATC
Statistics
Matches: 250, Mismatches: 38, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 37 0.15
50 170 0.68
53 2 0.01
55 1 0.00
56 39 0.16
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:33152964 original size:50 final size:50
Alignment explanation
Indices: 33152853--33153200 Score: 358
Period size: 50 Copynumber: 6.9 Consensus size: 50
33152843 ATTTGGGTAA
* * *
33152853 AGAGATCCCATGTATGACCATGTCTGGAACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA---AG---ATG
* * **
33152909 AGAGGTCCCATGTAAGACCATGCCTAGGACATGGTGTTGGCATCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATG
* * * *
33152959 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATG
* * *
33153009 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATG
** * * *
33153059 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATG
** * * *
33153109 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGT--ACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCAAGATG
* ** * *
33153158 AAACATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
33153201 GTTATTATCA
Statistics
Matches: 252, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.00
49 39 0.15
50 171 0.68
51 1 0.00
53 2 0.01
56 38 0.15
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATG
Found at i:33153089 original size:150 final size:152
Alignment explanation
Indices: 33152853--33153200 Score: 398
Period size: 150 Copynumber: 2.3 Consensus size: 152
33152843 ATTTGGGTAA
* *
33152853 AGAGATCCCATGTATGACCATGTCTGGAACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATCA-CGAG--TATGAGAGGTCCC
* ** * ** * *
33152918 ATGTAAGACCATGCCTAGGACATGGTGTTGGCATCAAGATGAGAGGTCTCATGTAAGACCATGTC
63 ACGTAAGACCATGCCTAGGACATGGCATGGGCATCAAGATGAGAACTCCCATGTAAGACCATATC
* *
33152983 TGGGACATGGCGTTGGCACCAAGACG
128 TGGGACATGGCATTGGCA-CAACACG
* *
33153009 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCA-C-CGAG-ATGAGAGGTCCCCCG
1 AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATCACGAGTATGAGAGGTCCCACG
* * * *
33153071 TAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAACTCCCATGTAAGACCATATCTGG
66 TAAGACCATGCCTAGGACATGGCATGGGCATCAAGATGAGAACTCCCATGTAAGACCATATCTGG
* ** *
33153136 GATATGGCATTGGCAGTACATG
131 GACATGGCATTGGCACAACACG
* * *
33153158 AAACATCCCATGTAAGACCATGTCTAGG-ACATGGCTTTGGCAT
1 AGAGATCCCATGTAAGACCATGTCT-GGAACATGGCATTGGCAT
33153201 GTTATTATCA
Statistics
Matches: 164, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
149 38 0.23
150 82 0.50
153 3 0.02
155 1 0.01
156 40 0.24
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (152 bp):
AGAGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATCACGAGTATGAGAGGTCCCACG
TAAGACCATGCCTAGGACATGGCATGGGCATCAAGATGAGAACTCCCATGTAAGACCATATCTGG
GACATGGCATTGGCACAACACG
Found at i:33161694 original size:61 final size:61
Alignment explanation
Indices: 33161578--33161696 Score: 141
Period size: 61 Copynumber: 2.0 Consensus size: 61
33161568 ATAAAGGAAA
* * * *
33161578 CCTTTGTGGCAAAAATCTAGACAGGAAAGCCATTGTGGGGAGTACTAAATTTAAAGGACTT
1 CCTTTGTGGAAAAAATCTAGACACGAAAGCCATTGTGGAGAGTACTAAATCTAAAGGACTT
* * * **
33161639 CCTTTGTGGAAAAAATTTTGACACGAAAGCC-TATGTGGAGAGTTCTGTATCTAAAGGA
1 CCTTTGTGGAAAAAATCTAGACACGAAAGCCAT-TGTGGAGAGTACTAAATCTAAAGGA
33161697 ACGCCTTTGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
60 1 0.02
61 47 0.98
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (61 bp):
CCTTTGTGGAAAAAATCTAGACACGAAAGCCATTGTGGAGAGTACTAAATCTAAAGGACTT
Found at i:33161704 original size:61 final size:61
Alignment explanation
Indices: 33161569--33161788 Score: 139
Period size: 61 Copynumber: 3.7 Consensus size: 61
33161559 AAACACCAAA
* * * *
33161569 TAAAGGAA-ACCTTTGTGGCAAAAATCTAGACAGGAAAGCCATTGTGGGGAGTACTAAATT
1 TAAAGGAACACCTTTGTGGAAAAAATCTAGACACGAAAGCCATTGTGGAGAGTACTAAATC
* * * * **
33161629 TAAAGG-ACTTCCTTTGTGGAAAAAATTTTGACACGAAAGCC-TATGTGGAGAGTTCTGTATC
1 TAAAGGAAC-ACCTTTGTGGAAAAAATCTAGACACGAAAGCCAT-TGTGGAGAGTACTAAATC
* * * * * ** * **
33161690 TAAAGGAACGCCTTTG-CGAAAAAACTCTGGACAGGAAAACC--T-TGGCCAGTACGAAAAG
1 TAAAGGAACACCTTTGTGGAAAAAA-TCTAGACACGAAAGCCATTGTGGAGAGTACTAAATC
* * * * *
33161748 TAAAGGACCGCCTTTGTGGAAAAACTCTGGACAAGAAAGCC
1 TAAAGGAACACCTTTGTGGAAAAAATCTAGACACGAAAGCC
33161789 TTTCTCGCAA
Statistics
Matches: 125, Mismatches: 29, Indels: 14
0.74 0.17 0.08
Matches are distributed among these distances:
58 37 0.30
59 8 0.06
60 14 0.11
61 64 0.51
62 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (61 bp):
TAAAGGAACACCTTTGTGGAAAAAATCTAGACACGAAAGCCATTGTGGAGAGTACTAAATC
Found at i:33175132 original size:114 final size:113
Alignment explanation
Indices: 33174719--33175874 Score: 1251
Period size: 114 Copynumber: 10.2 Consensus size: 113
33174709 GGTGATTTCC
* * * * ** * *
33174719 AGAAAACGCCGCAAAAAACCTAAGCCCAACGACCCCATTTTCTGAGCATTCAAGGATTTAACGGT
1 AGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGC
* * * *
33174784 ATTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTA
66 GTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * * * * *
33174832 AGAAAGCACCATAAAAAAACCTAACCCCAACGACGCCGTTTTTTG-TCATCCGGGGATTTAGCGG
1 AGAAAGCGCC-GAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGG
* * * *
33174896 CATTTTTGAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTCG
65 CGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * *
33174945 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTTTCGGGGATTTAGCG
1 AGAAAGCGCCG-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-ATTCGGGGATTTAGCG
* *
33175010 GCG-TTTTTAAGAAGGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
64 GCGTTTTTTAGGAA-GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * * * *
33175060 AGAAAGCACCGTAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCATTCGGGGATTTTGAGGC
1 AGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGC
* *
33175125 GTTTTTTAGGAAGCGTCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
66 GTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
** * * *
33175173 AGAAAATGCCGCAAAAAAACCTAAGCCTAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
1 AGAAAGCGCCG-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGG
* ** * *
33175238 CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
65 CGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * * * * *
33175287 ACAAAGCACCGTAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCATTCGGGGATTTTGAGGC
1 AGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGC
* *
33175352 GTTTTTTAGGAAGCGTCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
66 GTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
** * * *
33175400 AGAAAATGCCGCAAAAAAACCTAAGCCTAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
1 AGAAAGCGCCG-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGG
* ** * *
33175465 CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
65 CGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * *
33175514 ACAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGGGGATTTAGCGG
1 AGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC-ATTCGGGGATTTAGCGG
* * * * * * *
33175579 C-ATTTTTAAGAGAGTGTCGCTACTGCTCAGGGCTTTAGAGGCCTTTTTG
65 CGTTTTTTAGGA-AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * * * * **
33175628 ACAAAGCGCCGCAAAAAACCTAAGCCCAACGATGCCGTTTTCTGA-AATTTTGGGGATTTAGTTG
1 AGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCA-TTCGGGGATTTAGCGG
* * * * * *
33175692 CATTTTTAAGAAAGCACCGCTAATGCTTAGGGATTTAGCGGCGTTTTTG
65 CGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
* * ** * * * *
33175741 ATAAAGCACCGCAAAAAAATATAAGCCCAACGACGCCATTTTCTGACCTTTCGGGGGCTTTAGCG
1 AGAAAGCGCCG-AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTC-GGGGATTTAGCG
* ** * * * *
33175806 ACG-TTTTTAATACAGTGCCGCTAATGCTCTGGGATTTAGCAGCGTTTTTG
64 GCGTTTTTTAGGA-AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
*
33175856 GGAAAGCGCCGTAAAAAAA
1 AGAAAGCGCCG-AAAAAAA
33175875 TTATTTGTCT
Statistics
Matches: 872, Mismatches: 155, Indels: 30
0.82 0.15 0.03
Matches are distributed among these distances:
113 350 0.40
114 406 0.47
115 116 0.13
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (113 bp):
AGAAAGCGCCGAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGC
GTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
Found at i:33175287 original size:227 final size:227
Alignment explanation
Indices: 33174719--33175874 Score: 1365
Period size: 227 Copynumber: 5.1 Consensus size: 227
33174709 GGTGATTTCC
* * ** *
33174719 AGAAAACGCCGC-AAAAAACCTAAGCCCAACGACCCCATTTTCTGAGCATTCAAGGATTTAACGG
1 AGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
* ** * * * * *
33174783 TATTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTAAGAAAGCACCATAAAA
66 CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGACAAAGCACCGT-AAA
* * * * * * *
33174848 AAACCTAACCCCAACGACGCCGTTTTTTG-TCATCCGGGGATTTAGCGGCATTTTTGAGGAAGCG
130 AAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGAGGCGTTTTTTAGGAAGCG
* * * *
33174912 CCGCTAATGCTCAGGGCTTTAGCGGCATTTTCG
195 TCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
* * * * * *
33174945 AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTTTCGGGGATTTAGCG
1 AGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTAAGC-ATTCGGGGATTTAGCG
* * * * * *
33175010 GCGTTTT-TAAGAAGGCGCCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGAGAAAGCACCGTAA
65 GCATTTTCCAGGAA-GCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGACAAAGCACCGTAA
* *
33175074 AAAACCTAAGCCCAACGATGCCGTTTTCTGAGCATTCGGGGATTTTGAGGCGTTTTTTAGGAAGC
129 AAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGAGGCGTTTTTTAGGAAGC
33175139 GTCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
194 GTCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
* *
33175173 AGAAAATGCCGCAAAAAAACCTAAGCCTAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
1 AGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
*
33175238 CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGACAAAGCACCGTAAAA
66 CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGACAAAGCACCGTAAAA
* *
33175303 AACCTAAGCCCAACGATGCCGTTTTCTGAGCATTCGGGGATTTTGAGGCGTTTTTTAGGAAGCGT
131 AACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGAGGCGTTTTTTAGGAAGCGT
33175368 CGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
196 CGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
* *
33175400 AGAAAATGCCGCAAAAAAACCTAAGCCTAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
1 AGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
* * *
33175465 CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGACAAAGCGCCGCAAAA
66 CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGACAAAGCACCGTAAAA
* * * * *
33175530 AACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGGGGATTTAGCGGC-ATTTTTAAGAGAGT
131 AACCTAAGCCCAACGACGCCGTTTTCTGAGC-ATTCGGGGATTTAGAGGCGTTTTTTAGGA-AGC
* * *
33175594 GTCGCTACTGCTCAGGGCTTTAGAGGCCTTTTTG
194 GTCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
* * * * * *
33175628 ACAAAGCGCCGC-AAAAAACCTAAGCCCAACGATGCCGTTTTCTGAA--ATTTTGGGGATTTAGT
1 AGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCT-AAGCA-TTCGGGGATTTAGC
* ** * * * * *
33175690 TGCATTTTTAAGAAAGCACCGCTAATGCTTAGGGATTTAGCGGCGTTTTTGATAAAGCACCGCAA
64 GGCATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGACAAAGCACCG-TA
** * * * * * * **
33175755 AAAAATATAAGCCCAACGACGCCATTTTCTGACCTTTCGGGGGCTTTAGCGACG-TTTTTAATAC
128 AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTC-GGGGATTTAGAGGCGTTTTTTAGGA-
* * * * **
33175819 AGTGCCGCTAATGCTCTGGGATTTAGCAGCGTTTTTG
191 AGCGTCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
* * *
33175856 GGAAAGCGCCGTAAAAAAA
1 AGAAAACGCCGCAAAAAAA
33175875 TTATTTGTCT
Statistics
Matches: 824, Mismatches: 93, Indels: 23
0.88 0.10 0.02
Matches are distributed among these distances:
226 12 0.01
227 493 0.60
228 313 0.38
229 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (227 bp):
AGAAAACGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGACAAAGCACCGTAAAA
AACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGAGGCGTTTTTTAGGAAGCGT
CGCTAATGCTCAGGGCTTTAGTGGCGTTTTTG
Found at i:33175419 original size:341 final size:339
Alignment explanation
Indices: 33174719--33175874 Score: 1342
Period size: 341 Copynumber: 3.4 Consensus size: 339
33174709 GGTGATTTCC
* * ** * *
33174719 AGAAAACGCCGC-AAAAAACCTAAGCCCAACGACCCCATTTTCTGAGCATTCAAGGA-TTTAACG
1 AGAAAACACCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTTGAGG
* * * **
33174782 -GTATTTTTGAGGAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGTTTTTAAGAAAGCACCATAA
66 CGT-TTTTT-AGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAA
* * * *
33174846 AAAAACCTAACCCCAACGACGCCGTTTT-TTGTCATCCGGGGATTTAGCGGCATTTTTGAGGAAG
129 AAAAACCTAAGCCCAACGACGCCGTTTTCTAG-CATTCGGGGATTTAGCGGCA-TTTTCAGGAAG
* *
33174910 CGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTCGAGAAAGCGCCGCAAAAAAACCTAAGCCCAA
192 CGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGACAAAGCGCCG-AAAAAAACCTAAGCCCAA
* * * *
33174975 CGATGCCGTTTTTTGAGCTTTTCGGGGATTTAGCGGCG-TTTTTAAGAAGGCGCCGCTAATGCTC
256 CGATGCCGTTTTCTGAGC-ATTCGGGGATTTAGAGGCGTTTTTTAGGAA-GCGCCGCTAATGCTC
33175039 AGGGCTTTAGTGGCGTTTTTG
319 AGGGCTTTAGTGGCGTTTTTG
* * * *
33175060 AGAAAGCACCG-TAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGCATTCGGGGATTTTGAGG
1 AGAAAACACCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTTGAGG
* * **
33175124 CGTTTTTTAGGAAGCGTCGCTAATGCTCAGGGCTTTAGTGGCGTTTTTGAGAAAATGCCGCAAAA
66 CGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA
* * *
33175189 AAACCTAAGCCTAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGGCATTTTCCAGGAAGCA
131 AAACCTAAGCCCAACGACGCCGTTTTCT-AGCATTCGGGGATTTAGCGGCATTTT-CAGGAAGCG
* *
33175254 CCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGACAAAGCACCGTAAAAAACCTAAGCCCAACGA
194 CCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGACAAAGCGCCGAAAAAAACCTAAGCCCAACGA
* *
33175319 TGCCGTTTTCTGAGCATTCGGGGATTTTGAGGCGTTTTTTAGGAAGCGTCGCTAATGCTCAGGGC
259 TGCCGTTTTCTGAGCATTCGGGGATTTAGAGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGC
33175384 TTTAGTGGCGTTTTTG
324 TTTAGTGGCGTTTTTG
** * * * *
33175400 AGAAAATGCCGCAAAAAAACCTAAGCCTAACGACGCCATTTTCTAAGCATTCGGGGATTTAGCGG
1 AGAAAACACCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTTGAGG
* ** * * *
33175465 CATTTTCCAGGAAGCACCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGACAAAGCGCCGC-AAA
66 CGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA
* * * *
33175529 AAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGGGGATTTAGCGGCATTTTTAAGAGAGT
131 AAACCTAAGCCCAACGACGCCGTTTTCT-AGC-ATTCGGGGATTTAGCGGCATTTTCAGGA-AGC
* * * * *
33175594 GTCGCTACTGCTCAGGGCTTTAGAGGCCTTTTTGACAAAGCGCCGCAAAAAACCTAAGCCCAACG
193 GCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGACAAAGCGCCGAAAAAAACCTAAGCCCAACG
* * ** * * * * *
33175659 ATGCCGTTTTCTGA-AATTTTGGGGATTTAGTTGCATTTTTAAGAAAGCACCGCTAATGCTTAGG
258 ATGCCGTTTTCTGAGCA-TTCGGGGATTTAGAGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGG
* *
33175723 GATTTAGCGGCGTTTTTG
322 GCTTTAGTGGCGTTTTTG
* * ** * * **
33175741 ATAAAGCACCGCAAAAAAATATAAGCCCAACGACGCCATTTTCTGACCTTTCGGGGGCTTT-AGC
1 AGAAAACACCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTTGAG-
** * * * * * *
33175805 GACG-TTTTTAATACAGTGCCGCTAATGCTCTGGGATTTAGCAGCGTTTTTGGGAAAGCGCCGTA
65 G-CGTTTTTTAGGA-AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCA
33175869 AAAAAA
128 AAAAAA
33175875 TTATTTGTCT
Statistics
Matches: 690, Mismatches: 110, Indels: 28
0.83 0.13 0.03
Matches are distributed among these distances:
340 96 0.14
341 466 0.68
342 119 0.17
343 9 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (339 bp):
AGAAAACACCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTTGAGG
CGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA
AAACCTAAGCCCAACGACGCCGTTTTCTAGCATTCGGGGATTTAGCGGCATTTTCAGGAAGCGCC
GCTAATGCTCAGGGCTTTAGCGGCATTTTTGACAAAGCGCCGAAAAAAACCTAAGCCCAACGATG
CCGTTTTCTGAGCATTCGGGGATTTAGAGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTT
TAGTGGCGTTTTTG
Found at i:33180077 original size:21 final size:20
Alignment explanation
Indices: 33180051--33180102 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
33180041 CTACAACTTA
* *
33180051 AAGCAGAGGTGGCAGCAAGGG
1 AAGCAGAGGTGG-AACAAGAG
*
33180072 AAGCAGAGGCTGGAACGAGAG
1 AAGCAGAGG-TGGAACAAGAG
33180093 AAGCAGAGGT
1 AAGCAGAGGT
33180103 TCAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.37, C:0.13, G:0.44, T:0.06
Consensus pattern (20 bp):
AAGCAGAGGTGGAACAAGAG
Found at i:33180162 original size:87 final size:86
Alignment explanation
Indices: 33180011--33180186 Score: 244
Period size: 87 Copynumber: 2.0 Consensus size: 86
33180001 GACCACAGTT
* * * *
33180011 GAGGTTCAAAGGAAATATGAAGAACTTCAGCTACAACTTAAAGCAGAGGTGGCAGCAAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGC
* **
33180076 AGAGGCTGGAACGAGAGAAGCA
66 AGACGCTACAACGAG-GAAGCA
* ** *
33180098 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCTTCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGC
33180163 AGACGCTACAACGAGGAAGCA
66 AGACGCTACAACGAGGAAGCA
33180184 GAG
1 GAG
33180187 CAGAGCAGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 9 0.12
87 69 0.88
ACGTcount: A:0.40, C:0.17, G:0.30, T:0.13
Consensus pattern (86 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCAAGAGAAGC
AGACGCTACAACGAGGAAGCA
Found at i:33180611 original size:43 final size:43
Alignment explanation
Indices: 33180536--33180802 Score: 301
Period size: 43 Copynumber: 6.3 Consensus size: 43
33180526 ACCAAACAAA
*
33180536 TAGCGGCGTTTGTGTAAAAA-CGCCGCTAAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCT-AAAGAACATGACCTT
* * * *
33180579 TAGTGGCGTTTGCGGAACAAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
** * *
33180622 TAGCGGCGTTTGTGGAAAAAGATCCACTAAAGAACATGATCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
* * * * *
33180665 TAGCGGAC-TCTGTGGAAAAAGCGCCGCCAAGGAACATAATCTT
1 TAGCGG-CGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
*
33180708 TAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
* * * *
33180751 TAGCGGCGTTTTTTCG---TAGCACCGCTAAAGAACATGACCTT
1 TAGCGGCG-TTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
33180792 TAGCGGCGTTT
1 TAGCGGCGTTT
33180803 ATAAAAATAA
Statistics
Matches: 191, Mismatches: 29, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
40 3 0.02
41 30 0.16
42 1 0.01
43 144 0.75
44 13 0.07
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:33181940 original size:55 final size:55
Alignment explanation
Indices: 33181881--33181991 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
33181871 CAAGAGAAGT
33181881 CCCAATTACTATACTCACAATGCAAATAGCTTTGTTACTCTAATAACATGGCGTA
1 CCCAATTACTATACTCACAATGCAAATAGCTTTGTTACTCTAATAACATGGCGTA
*
33181936 CCCAATTCCTATACTCACAATGCAAATAGCTTTGTTACTCTAATAACATGGCGTA
1 CCCAATTACTATACTCACAATGCAAATAGCTTTGTTACTCTAATAACATGGCGTA
33181991 C
1 C
33181992 TGCGCCTTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (55 bp):
CCCAATTACTATACTCACAATGCAAATAGCTTTGTTACTCTAATAACATGGCGTA
Found at i:33184035 original size:25 final size:25
Alignment explanation
Indices: 33184007--33184074 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
33183997 AAGCCATTTC
33184007 ATAGCTTGTGTGAGCATTTACAATT
1 ATAGCTTGTGTGAGCATTTACAATT
* * *
33184032 ATAGCTCGTGTGAGCAATTACAGTT
1 ATAGCTTGTGTGAGCATTTACAATT
*
33184057 ATAGCTTGTATGAGCATT
1 ATAGCTTGTGTGAGCATT
33184075 ATTCTCGCGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (25 bp):
ATAGCTTGTGTGAGCATTTACAATT
Found at i:33184169 original size:29 final size:29
Alignment explanation
Indices: 33184133--33184203 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
33184123 ACGAATATAT
*
33184133 AAAATGATTATATGAATCTGTTATATGGA
1 AAAATGATTATATGAATCGGTTATATGGA
*
33184162 AAAATGATTATATGATTCGGTTATATGGA
1 AAAATGATTATATGAATCGGTTATATGGA
*
33184191 AAAATGAATATAT
1 AAAATGATTATAT
33184204 AAAATGAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.37
Consensus pattern (29 bp):
AAAATGATTATATGAATCGGTTATATGGA
Found at i:33184207 original size:13 final size:13
Alignment explanation
Indices: 33184191--33184216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33184181 GTTATATGGA
33184191 AAAATGAATATAT
1 AAAATGAATATAT
33184204 AAAATGAATATAT
1 AAAATGAATATAT
33184217 GAATCGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAATGAATATAT
Found at i:33184251 original size:83 final size:81
Alignment explanation
Indices: 33184162--33184315 Score: 227
Period size: 81 Copynumber: 1.9 Consensus size: 81
33184152 GTTATATGGA
* * *
33184162 AAAATGATTATATGATTCGGTTATATGGAAAAATGAATATATAAAATGAATATATGAATCGGTTA
1 AAAATGATTATATGAATCGGTTATATGGAAAAA-G-ATATACAAAATGAATATATGAATCGATTA
*
33184227 TGTGGAAAATAAATATAT
64 TATGGAAAATAAATATAT
* * *
33184245 AAAATGATTATATGAATCGGTTATATGGAAATAGATATACGAAATGATTATATGAATCGATTATA
1 AAAATGATTATATGAATCGGTTATATGGAAAAAGATATACAAAATGAATATATGAATCGATTATA
33184310 TGGAAA
66 TGGAAA
33184316 TTGTTATATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
81 32 0.50
82 1 0.02
83 31 0.48
ACGTcount: A:0.46, C:0.03, G:0.18, T:0.33
Consensus pattern (81 bp):
AAAATGATTATATGAATCGGTTATATGGAAAAAGATATACAAAATGAATATATGAATCGATTATA
TGGAAAATAAATATAT
Found at i:33184290 original size:40 final size:40
Alignment explanation
Indices: 33184162--33184316 Score: 211
Period size: 40 Copynumber: 3.8 Consensus size: 40
33184152 GTTATATGGA
* *
33184162 AAAATGATTATATGATTCGGTTATATGGAAAAATGAATATAT
1 AAAATGATTATATGAATCGGTTATATGGAAATA-G-ATATAT
* * *
33184204 AAAATGAATATATGAATCGGTTATGTGGAAAATAAATATAT
1 AAAATGATTATATGAATCGGTTATATGG-AAATAGATATAT
*
33184245 AAAATGATTATATGAATCGGTTATATGGAAATAGATATAC
1 AAAATGATTATATGAATCGGTTATATGGAAATAGATATAT
* *
33184285 GAAATGATTATATGAATCGATTATATGGAAAT
1 AAAATGATTATATGAATCGGTTATATGGAAAT
33184317 TGTTATATGA
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
40 40 0.40
41 32 0.32
42 25 0.25
43 4 0.04
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (40 bp):
AAAATGATTATATGAATCGGTTATATGGAAATAGATATAT
Found at i:33184295 original size:27 final size:24
Alignment explanation
Indices: 33184264--33184360 Score: 86
Period size: 27 Copynumber: 3.7 Consensus size: 24
33184254 ATATGAATCG
33184264 GTTATATGGAAATAGATATACGAAAT
1 GTTATAT-G-AATAGATATACGAAAT
* *
33184290 GATTATATGAATCGATTATATGGAAATT
1 G-TTATATGAATAGA-TATA-CGAAA-T
*
33184318 GTTATATGAATTGTATATACGAAAT
1 GTTATATGAATAG-ATATACGAAAT
*
33184343 GTTTATATGGATAGATAT
1 G-TTATATGAATAGATAT
33184361 GTAAAAAGGG
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
25 11 0.19
26 20 0.34
27 25 0.42
28 3 0.05
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.38
Consensus pattern (24 bp):
GTTATATGAATAGATATACGAAAT
Found at i:33184308 original size:53 final size:53
Alignment explanation
Indices: 33184250--33184351 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 53
33184240 TATATAAAAT
33184250 GATTATAT-G-AATCGGTTATATGGAAATAG-ATATACGAAATGATTATATGAATC
1 GATTATATGGAAAT-GGTTATAT-G-AATAGTATATACGAAATGATTATATGAATC
* * *
33184303 GATTATATGGAAATTGTTATATGAATTGTATATACGAAATGTTTATATG
1 GATTATATGGAAATGGTTATATGAATAGTATATACGAAATGATTATATG
33184352 GATAGATATG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
52 4 0.09
53 28 0.65
54 8 0.19
55 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (53 bp):
GATTATATGGAAATGGTTATATGAATAGTATATACGAAATGATTATATGAATC
Found at i:33188985 original size:28 final size:27
Alignment explanation
Indices: 33188934--33188986 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
33188924 GTTTATCGAT
**
33188934 TTTAGTCATTTGTTATTTTCTTTCTTG
1 TTTAGTCATTTGTTATTTAATTTCTTG
*
33188961 TTTATTCATTTAGTTATTTAATTTCT
1 TTTAGTCATTT-GTTATTTAATTTCT
33188987 CTCAATTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.17, C:0.09, G:0.08, T:0.66
Consensus pattern (27 bp):
TTTAGTCATTTGTTATTTAATTTCTTG
Found at i:33189635 original size:19 final size:19
Alignment explanation
Indices: 33189611--33189647 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33189601 ATAAAATTAA
33189611 ATCCCTAGTAATCAGCTAT
1 ATCCCTAGTAATCAGCTAT
*
33189630 ATCCCTAGTAATTAGCTA
1 ATCCCTAGTAATCAGCTA
33189648 ATTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (19 bp):
ATCCCTAGTAATCAGCTAT
Found at i:33198252 original size:3 final size:3
Alignment explanation
Indices: 33198244--33198277 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
33198234 AATGACCATT
33198244 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
33198278 TTAATAGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:33203094 original size:25 final size:23
Alignment explanation
Indices: 33203035--33203102 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
33203025 GTAACTACTT
*
33203035 TTTTATATTAAAATATTTTTTTTA
1 TTTT-TATTAAAATATTTATTTTA
* *
33203059 TTTTAAATAAAATAGTATTATTTTA
1 TTTTTATTAAAATA-T-TTATTTTA
33203084 TTTTTATTAAAAATATTTA
1 TTTTTATT-AAAATATTTA
33203103 AATATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
23 8 0.22
24 8 0.22
25 14 0.39
26 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (23 bp):
TTTTTATTAAAATATTTATTTTA
Found at i:33203437 original size:60 final size:59
Alignment explanation
Indices: 33203345--33203462 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 59
33203335 TATTTTTTTA
*
33203345 TAATTATTTTAAAATAATTTCTTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAATAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
33203404 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAA-TAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
33203463 AGTTTAGTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 14 0.25
60 43 0.75
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (59 bp):
TAATTATTTTAAAATAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
Found at i:33203889 original size:41 final size:41
Alignment explanation
Indices: 33203829--33203987 Score: 155
Period size: 41 Copynumber: 3.8 Consensus size: 41
33203819 CCCATTTTTA
* *
33203829 TTTTAAAAAT-TTTAAAAAATTAAAAAAA-AAATTTTAAAATT
1 TTTTAAAAATATTT-TAAAATTAAAAAAATAAA-TTAAAAATT
* *
33203870 TTTTTAAAATATTTTAAAATTAAAAAAATTAAA--AAAAAGTA
1 TTTTAAAAATATTTTAAAATTAAAAAAA-TAAATTAAAAA-TT
* *
33203911 TTTTAAAAATATTTTAAAATTTAAAAAAAAAAAATTAAAAAAGT
1 TTTTAAAAATATTTTAAAA-TT-AAAAAAATAAATT-AAAAATT
* *
33203955 ATGTAAAAATATTTTAAAATTAAAAAAATAAAT
1 TTTTAAAAATATTTTAAAATTAAAAAAATAAAT
33203988 ATATTTATTA
Statistics
Matches: 98, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
40 4 0.04
41 41 0.42
42 19 0.19
43 12 0.12
44 17 0.17
45 5 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (41 bp):
TTTTAAAAATATTTTAAAATTAAAAAAATAAATTAAAAATT
Found at i:33203962 original size:44 final size:46
Alignment explanation
Indices: 33203842--33203982 Score: 153
Period size: 51 Copynumber: 3.0 Consensus size: 46
33203832 TAAAAATTTT
** * * * *
33203842 AAAAAATTAAAAAAAAAATTTTAAAATTTTTTTAAAATATTTTAAAATTA
1 AAAAAATTAAAAAAAGTATTGTAAAAATATTTT-AAA-A-TTTAAAA-AA
*
33203892 AAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAA
1 AAAAAATT-AAAAAAAGTATTGTAAAAATATTTTAAAATTTAAAAAA
33203939 AAAAAATT-AAAAAAGTA-TGTAAAAATATTTTAAAA-TTAAAAAA
1 AAAAAATTAAAAAAAGTATTGTAAAAATATTTTAAAATTTAAAAAA
33203982 A
1 A
33203983 TAAATATATT
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
43 9 0.11
44 17 0.20
45 9 0.11
47 9 0.11
48 7 0.08
49 1 0.01
50 11 0.13
51 21 0.25
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (46 bp):
AAAAAATTAAAAAAAGTATTGTAAAAATATTTTAAAATTTAAAAAA
Found at i:33204265 original size:21 final size:23
Alignment explanation
Indices: 33204236--33204278 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
33204226 GGGAACCAAT
*
33204236 AAAATAATA-TTTAA-AAAAAAC
1 AAAAAAATATTTTAATAAAAAAC
33204257 AAAAAAATATTTTAATAAAAAA
1 AAAAAAATATTTTAATAAAAAA
33204279 AAGTTGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAAAAATATTTTAATAAAAAAC
Found at i:33205233 original size:22 final size:22
Alignment explanation
Indices: 33205208--33205255 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
33205198 TTTATTCAGG
*
33205208 AATTTAGTCTTCATATATTTGA
1 AATTTAGTCTTCATACATTTGA
*
33205230 AATTTAGTCTTCGTACATTTGA
1 AATTTAGTCTTCATACATTTGA
33205252 AATT
1 AATT
33205256 ATAGAGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (22 bp):
AATTTAGTCTTCATACATTTGA
Found at i:33209533 original size:13 final size:13
Alignment explanation
Indices: 33209515--33209541 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33209505 TCCGCATAAG
33209515 TCAGCCTAACTCC
1 TCAGCCTAACTCC
33209528 TCAGCCTAACTCC
1 TCAGCCTAACTCC
33209541 T
1 T
33209542 GAAAGTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.44, G:0.07, T:0.26
Consensus pattern (13 bp):
TCAGCCTAACTCC
Found at i:33210242 original size:11 final size:11
Alignment explanation
Indices: 33210194--33210349 Score: 93
Period size: 11 Copynumber: 14.9 Consensus size: 11
33210184 GGCCCATTTT
33210194 TATTTT-AAAA
1 TATTTTAAAAA
33210204 -ATTTTAAAAA
1 TATTTTAAAAA
**
33210214 -ATTAAAAAAA
1 TATTTTAAAAA
33210224 GTATTTTTAAAAA
1 -TA-TTTTAAAAA
33210237 TATTTTAAAAA
1 TATTTTAAAAA
33210248 TATTTT--AAA
1 TATTTTAAAAA
33210257 -A--TTAAAAA
1 TATTTTAAAAA
* **
33210265 AATTAAAAAAA
1 TATTTTAAAAA
* **
33210276 AATTAAAAAAA
1 TATTTTAAAAA
33210287 TATTTTAAAAA
1 TATTTTAAAAA
33210298 TATTTT--AAA
1 TATTTTAAAAA
*
33210307 -A-TTAAAAAA
1 TATTTTAAAAA
* *
33210316 AATTTAAAAAAA
1 TATTT-TAAAAA
33210328 GTATTTTAAAAA
1 -TATTTTAAAAA
33210340 TATTTTAAAA
1 TATTTTAAAA
33210350 TTTAAAAAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 5 0.04
9 15 0.13
10 13 0.11
11 57 0.48
12 14 0.12
13 11 0.09
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:33210272 original size:8 final size:9
Alignment explanation
Indices: 33210254--33210287 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
33210244 AAAATATTTT
33210254 AAAATTAAA
1 AAAATTAAA
33210263 AAAATTAAAAA
1 AAAATT--AAA
33210274 AAAATTAAA
1 AAAATTAAA
33210283 AAAAT
1 AAAAT
33210288 ATTTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATTAAA
Found at i:33210277 original size:41 final size:41
Alignment explanation
Indices: 33210194--33210399 Score: 134
Period size: 43 Copynumber: 4.7 Consensus size: 41
33210184 GGCCCATTTT
* ***
33210194 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAGTATTTTTAAAAA
1 TATTTTAAAAATATTT-TAAAATTAAAAAAA--ATTAAAAAAAA
33210237 TATTTTAAAAATATTTTAAAATT-AAAAAAATTAAAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATT-AAAAAAAA
*
33210278 TTAAAAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATT-TAAAAAA
1 -T------AT-T-TTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAA
* *
33210327 -AGTATTTTAAAAATATTTTAAAATTTAAAAAAAATT-AAAAAAG
1 TA-TTTT--AAAAATATTTTAAAA-TTAAAAAAAATTAAAAAAAA
* * *
33210370 TATGTAAAAAATATTTTAAATTTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
33210400 TAAATATATT
Statistics
Matches: 135, Mismatches: 11, Indels: 37
0.74 0.06 0.20
Matches are distributed among these distances:
40 14 0.10
41 20 0.15
42 23 0.17
43 37 0.27
44 4 0.03
48 2 0.01
49 7 0.05
50 19 0.14
51 9 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (41 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAA
Found at i:33210313 original size:17 final size:17
Alignment explanation
Indices: 33210291--33210324 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33210281 AAAAAATATT
* *
33210291 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
33210308 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
33210325 AAAGTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:33210315 original size:31 final size:30
Alignment explanation
Indices: 33210274--33210338 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
33210264 AAATTAAAAA
**
33210274 AAAATTAAAAAAATATTTTAAAAA-TATTTT
1 AAAATTAAAAAAAT-TTAAAAAAAGTATTTT
33210304 AAAATTAAAAAAAATTTAAAAAAAGTATTTT
1 AAAATT-AAAAAAATTTAAAAAAAGTATTTT
33210335 AAAA
1 AAAA
33210339 ATATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAATTAAAAAAATTTAAAAAAAGTATTTT
Found at i:33210333 original size:42 final size:41
Alignment explanation
Indices: 33210263--33210399 Score: 206
Period size: 41 Copynumber: 3.3 Consensus size: 41
33210253 TAAAATTAAA
33210263 AAAATTAAAAAAAAATTAAAAAAA-TATTTTAAAAATATTTT
1 AAAATT-AAAAAAAATTAAAAAAAGTATTTTAAAAATATTTT
33210304 AAAATTAAAAAAAATTTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAA-TTAAAAAAAGTATTTTAAAAATATTTT
* *
33210346 AAAATTTAAAAAAAATT-AAAAAAGTATGTAAAAAATATTTT
1 AAAA-TTAAAAAAAATTAAAAAAAGTATTTTAAAAATATTTT
*
33210387 AAATTTAAAAAAA
1 AAAATTAAAAAAA
33210400 TAAATATATT
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
40 17 0.19
41 40 0.44
42 23 0.26
43 10 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (41 bp):
AAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAATATTTT
Found at i:33210440 original size:15 final size:16
Alignment explanation
Indices: 33210420--33210449 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33210410 TATTAAATCG
33210420 GGCCGGG-CCGGGCCA
1 GGCCGGGCCCGGGCCA
33210435 GGCCGGGCCCGGGCC
1 GGCCGGGCCCGGGCC
33210450 GAAAAAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.43, G:0.53, T:0.00
Consensus pattern (16 bp):
GGCCGGGCCCGGGCCA
Found at i:33211563 original size:60 final size:61
Alignment explanation
Indices: 33211472--33211610 Score: 156
Period size: 61 Copynumber: 2.3 Consensus size: 61
33211462 TGCCACGAAA
* * * * * *
33211472 GCTTACCCTTCAAGAGTTTTACGACAAAGGCACTCTTT-ACATCCAATACTCGCCACTAAG
1 GCTTTCCCTTCTAGAGTTGTACCACAAAGGCACTCTTTAACATCCAATACTCACCACCAAG
* * * * *
33211532 G-TTTCCCTGTCTGGAGTTGTACCACAAAGGCATTCTTTAATATTCAATACTTACCACCAAG
1 GCTTTCCCT-TCTAGAGTTGTACCACAAAGGCACTCTTTAACATCCAATACTCACCACCAAG
33211593 GCTTTCCCTTCTAGAGTT
1 GCTTTCCCTTCTAGAGTT
33211611 TTTCCATAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
59 6 0.09
60 25 0.39
61 26 0.41
62 7 0.11
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (61 bp):
GCTTTCCCTTCTAGAGTTGTACCACAAAGGCACTCTTTAACATCCAATACTCACCACCAAG
Found at i:33218003 original size:33 final size:33
Alignment explanation
Indices: 33217928--33218011 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
33217918 GGTAGAAAGG
* *
33217928 AGCGGAGTACTAAGGTGTATACGAGCTGGAAGA
1 AGCGGAGTACTGAGGTGGATACGAGCTGGAAGA
* *
33217961 AGCGTAGTACTGAGGTGGATACGAGCTAGGATG-
1 AGCGGAGTACTGAGGTGGATACGAGCT-GGAAGA
33217994 A-CTGGAGTACTGAGGTGG
1 AGC-GGAGTACTGAGGTGG
33218012 TAGTGGGTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
32 1 0.02
33 39 0.89
34 4 0.09
ACGTcount: A:0.29, C:0.12, G:0.39, T:0.20
Consensus pattern (33 bp):
AGCGGAGTACTGAGGTGGATACGAGCTGGAAGA
Found at i:33220990 original size:60 final size:60
Alignment explanation
Indices: 33220923--33221041 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
33220913 ATACTAAACT
* *
33220923 AAACACAACA-ATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAGA-TTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
33220983 AAACACAATAGATTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAGATTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
33221042 TAAAAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 54 0.98
61 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAACAGATTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:33231613 original size:20 final size:21
Alignment explanation
Indices: 33231580--33231621 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
33231570 TGATAACGTT
33231580 TAACATAAAATTT-AAAAGAA
1 TAACATAAAATTTAAAAAGAA
33231600 TAAC-TAAAATTTTAAAAAGAA
1 TAACATAAAA-TTTAAAAAGAA
33231621 T
1 T
33231622 GATTAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
21 8 0.40
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
TAACATAAAATTTAAAAAGAA
Found at i:33235485 original size:18 final size:19
Alignment explanation
Indices: 33235462--33235506 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
33235452 AACTAACTAT
*
33235462 ATACCAAAATATA-ATTAA
1 ATACCAAAATATACATCAA
*
33235480 ATACC-ATATATACATCAA
1 ATACCAAAATATACATCAA
33235498 A-ACCAAAAT
1 ATACCAAAAT
33235507 CCAATAGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (19 bp):
ATACCAAAATATACATCAA
Found at i:33235663 original size:2 final size:2
Alignment explanation
Indices: 33235651--33235683 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
33235641 CATGGTTAAA
33235651 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33235684 TGCAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33240441 original size:20 final size:20
Alignment explanation
Indices: 33240416--33240462 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
33240406 TTCTCAGGGT
*
33240416 ATTTTTCATAAAATTTCAAA
1 ATTTTTCACAAAATTTCAAA
33240436 ATTTTTCACAAAATTTCAAA
1 ATTTTTCACAAAATTTCAAA
33240456 ATTTTTC
1 ATTTTTC
33240463 CAAGGTGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTTTCACAAAATTTCAAA
Found at i:33241804 original size:26 final size:25
Alignment explanation
Indices: 33241745--33241810 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
33241735 AAGCGATCAC
* *
33241745 TAACGGGAAGCTCACAAATAGCCTT
1 TAACGGGAAGCTCACAAAGAGCCTA
*
33241770 TAATTGGGAAGCTCACAAAGAGCCATA
1 TAA-CGGGAAGCTCACAAAGAGCC-TA
*
33241797 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
33241811 TAAGAGCTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 27 0.79
27 4 0.12
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAGCCTA
Found at i:33247715 original size:24 final size:24
Alignment explanation
Indices: 33247688--33247735 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33247678 TGCGAACCAA
* *
33247688 TAACGGGTAGCTCTGTAGAGCCAT
1 TAACGGGAAGCTCTGGAGAGCCAT
*
33247712 TAACGGGAAGCTCTGGATAGCCAT
1 TAACGGGAAGCTCTGGAGAGCCAT
33247736 ATATCGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (24 bp):
TAACGGGAAGCTCTGGAGAGCCAT
Found at i:33247784 original size:49 final size:50
Alignment explanation
Indices: 33247704--33247842 Score: 131
Period size: 49 Copynumber: 2.8 Consensus size: 50
33247694 GTAGCTCTGT
* ** * * *
33247704 AGAGCCATTAACGGGAAGCTCTGGATAGCCATATATCGAGAAGTTCA-AG
1 AGAGCCAATAACGGGAAGCTCCAGAAAGCCATATATCGAGAAGCTCACAA
* * *
33247753 CGAGCTAATAACGGGAAGCTCCAGAAAGCCAT-TAATCAAGAAGCTCACAA
1 AGAGCCAATAACGGGAAGCTCCAGAAAGCCATAT-ATCGAGAAGCTCACAA
*
33247803 AGAGCCAATCAACGGGAAG-TTCATGAAGAGCCATATATCG
1 AGAGCCAAT-AACGGGAAGCTCCA-GAA-AGCCATATATCG
33247843 GGACGCTTAT
Statistics
Matches: 71, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
48 1 0.01
49 37 0.52
50 11 0.15
51 12 0.17
52 9 0.13
53 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (50 bp):
AGAGCCAATAACGGGAAGCTCCAGAAAGCCATATATCGAGAAGCTCACAA
Found at i:33251536 original size:18 final size:18
Alignment explanation
Indices: 33251501--33251536 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33251491 TATGTTTTAC
*
33251501 TTATATATTATATTATTT
1 TTATATATTATATAATTT
*
33251519 TTATATATTATGTAATTT
1 TTATATATTATATAATTT
33251537 ATTTCACATA
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:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTATATATTATATAATTT
Found at i:33252338 original size:62 final size:62
Alignment explanation
Indices: 33252241--33252364 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
33252231 AACACACATG
*
33252241 TTTTCCTTTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
1 TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
* *
33252303 TTTTCCTCTATTGTTGGAATATAGTTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
1 TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
33252365 GGACATTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (62 bp):
TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
Found at i:33253721 original size:28 final size:28
Alignment explanation
Indices: 33253653--33253716 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
33253643 TATTGACATG
*
33253653 TTTTAATAAAT-TTTTAAAATTTAAAAA
1 TTTTAAAAAATATTTTAAAATTTAAAAA
*
33253680 TTTTAAAAAATATTTTATAAA-TTAAAAC
1 TTTTAAAAAATATTTTA-AAATTTAAAAA
33253708 TTATTAAAA
1 TT-TTAAAA
33253717 TTATTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 10 0.31
28 13 0.41
29 9 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TTTTAAAAAATATTTTAAAATTTAAAAA
Found at i:33254808 original size:27 final size:27
Alignment explanation
Indices: 33254773--33254836 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
33254763 ATCTTTAACA
*
33254773 TTTAT-TTTATAATTAA-TTATT-ATT
1 TTTATATTTATAATAAAGTTATTAATT
33254797 TAATTATATTTA-AATAAAGTTATTAATT
1 T--TTATATTTATAATAAAGTTATTAATT
33254825 TTT-TATTTATAA
1 TTTATATTTATAA
33254837 GTCGTCCACT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
24 1 0.03
25 6 0.18
26 13 0.39
27 9 0.27
28 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTATATTTATAATAAAGTTATTAATT
Found at i:33256383 original size:20 final size:20
Alignment explanation
Indices: 33256337--33256404 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 20
33256327 GAAATTTAAT
33256337 TTTTATATTTTTAATTTTAAGAA
1 TTTTA-ATTTTT-ATTTTAA-AA
33256360 -TTTAATTTTTATTTTAAAA
1 TTTTAATTTTTATTTTAAAA
** *
33256379 TTTTAAAATTTATGTTAAAA
1 TTTTAATTTTTATTTTAAAA
33256399 TTTTAA
1 TTTTAA
33256405 AAATATTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.05
20 29 0.71
21 6 0.15
22 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTAATTTTTATTTTAAAA
Found at i:33257841 original size:52 final size:52
Alignment explanation
Indices: 33257773--33257878 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
33257763 GGTTGTTTTC
33257773 TTAATATGTTAGATCAACTTATTCATATAGTAAGTACACACGTGTTTATAAT
1 TTAATATGTTAGATCAACTTATTCATATAGTAAGTACACACGTGTTTATAAT
33257825 TTAATATGTTAGATCAACTTATTCATATAGTAAGTACACACGTGTTTATAAT
1 TTAATATGTTAGATCAACTTATTCATATAGTAAGTACACACGTGTTTATAAT
33257877 TT
1 TT
33257879 GATCTACGTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (52 bp):
TTAATATGTTAGATCAACTTATTCATATAGTAAGTACACACGTGTTTATAAT
Found at i:33263777 original size:12 final size:12
Alignment explanation
Indices: 33263762--33263799 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33263752 CTTGTGGCAA
33263762 AAATAAAAAAAG
1 AAATAAAAAAAG
*
33263774 AAATAGAAAAAG
1 AAATAAAAAAAG
*
33263786 AAA-AAGAAAAG
1 AAATAAAAAAAG
33263797 AAA
1 AAA
33263800 GAGATGGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (12 bp):
AAATAAAAAAAG
Found at i:33264111 original size:18 final size:18
Alignment explanation
Indices: 33264088--33264124 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33264078 ATCCAATAAC
33264088 TCATTCTTGATATAATTT
1 TCATTCTTGATATAATTT
33264106 TCATTCTTGATATAATTT
1 TCATTCTTGATATAATTT
33264124 T
1 T
33264125 GAAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (18 bp):
TCATTCTTGATATAATTT
Found at i:33265948 original size:24 final size:23
Alignment explanation
Indices: 33265921--33265970 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
33265911 TGATAACAGT
*
33265921 ATGCAGAAAATTCTGCCAATAAAA
1 ATGCAGAAAA-GCTGCCAATAAAA
* *
33265945 ATGCAGACAAGCTGCCAGTAAAA
1 ATGCAGAAAAGCTGCCAATAAAA
33265968 ATG
1 ATG
33265971 TGATAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (23 bp):
ATGCAGAAAAGCTGCCAATAAAA
Done.