Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 2 of 325
Found at i:437757 original size:123 final size:122
Alignment explanation
Indices: 437183--437736 Score: 625
Period size: 123 Copynumber: 4.5 Consensus size: 122
437173 TGGAGGAGGA
* * ** * * * *
437183 GGTGGCAATGGTGGTGGTGGAGCTAGTGTAGGTGGTGCTTCTGGATATGGTAGTGGAGGT-G-G-
1 GGTGGCAGTGGTGGAGGCAGAGCTAGTGCAGGTGGTGCTTCTGGGTATGGCAATGGAGGTGGCGA
* ** * * * * * *
437245 TGTTGGT--AGTGGTGGCGGGTATGGAGAAGCCGGTGGACATGGAGGTGGTGGTGGC
66 AGGAGGTGGAGTGGTGGTGGTTATGGAGGAGCTGGTGGACATGGAGGTGGTGCTGGT
* ** * * * * *** *
437300 AGTGGTGGTGGGGGAGGTAGTGC-AGGTGGACATGGTGGTGGAGCTTCTGGATATGGTGGTGGAA
1 GGTGGCAGTGGTGGAGGCAGAGCTA-GT-G-CA-GGTGGT---GCTTCTGGGTATGGCAATGGAG
* * *
437364 GTGGTGAAGGAGGTGGAGCTGGTGGTGGTTATGGAGGAGCCGGTGGACAAGGAGGTGGTGCTGGT
59 GTGGCGAAGGAGGTGGAG-TGGTGGTGGTTATGGAGGAGCTGGTGGACATGGAGGTGGTGCTGGT
* *
437429 GGTGGCAGTGGTGGAGGCGGAGCCAGTGCAGGTGGTGCTTCTGGGTATGGCAATGGAGGTGGCGA
1 GGTGGCAGTGGTGGAGGCAGAGCTAGTGCAGGTGGTGCTTCTGGGTATGGCAATGGAGGTGGCGA
* *
437494 AGGAGGTGGAACTGGTAGTGGTTATGGAGGAGCTGGTGGACATGGAGGTGGTGCTGGT
66 AGGAGGTGG-AGTGGTGGTGGTTATGGAGGAGCTGGTGGACATGGAGGTGGTGCTGGT
*
437552 GGTGGCAGTGGTGGAGGAAGAGCTAGTGCAGGTGGTGCTTCTGGGTATGGCAATGGAGGTGGCGA
1 GGTGGCAGTGGTGGAGGCAGAGCTAGTGCAGGTGGTGCTTCTGGGTATGGCAATGGAGGTGGCGA
*
437617 AGGAGGTGGAGCTGGTGGTGGTTATGGAGGAGCTGGTGAACATGGAGGTGGTGCTGGT
66 AGGAGGTGGAG-TGGTGGTGGTTATGGAGGAGCTGGTGGACATGGAGGTGGTGCTGGT
* *
437675 GGTGGCAGTGGTGGAGGCAGAACTAGTGCAGGTGGTGCTTCTAGGTATGGCAATGGAGGTGG
1 GGTGGCAGTGGTGGAGGCAGAGCTAGTGCAGGTGGTGCTTCTGGGTATGGCAATGGAGGTGG
437737 TACTGGTGGC
Statistics
Matches: 375, Mismatches: 46, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
116 1 0.00
117 17 0.05
118 1 0.00
119 1 0.00
120 6 0.02
122 1 0.00
123 271 0.72
124 2 0.01
125 1 0.00
126 10 0.03
127 2 0.01
128 3 0.01
129 58 0.15
130 1 0.00
ACGTcount: A:0.17, C:0.09, G:0.51, T:0.23
Consensus pattern (122 bp):
GGTGGCAGTGGTGGAGGCAGAGCTAGTGCAGGTGGTGCTTCTGGGTATGGCAATGGAGGTGGCGA
AGGAGGTGGAGTGGTGGTGGTTATGGAGGAGCTGGTGGACATGGAGGTGGTGCTGGT
Found at i:437869 original size:192 final size:191
Alignment explanation
Indices: 437535--437901 Score: 424
Period size: 192 Copynumber: 1.9 Consensus size: 191
437525 GCTGGTGGAC
* * * *
437535 ATGGAGGTGGTGCTGGTGGTGGCAGTGGTGGAGGAAGAGCTAGTGCAGGTGGTGCTTCTGGGTAT
1 ATGGAGGTGGTACTGGTGGCGGCAGTGGTGGAGGAAGAGCTAGTGCAAGTGGCGCTTCTGGGTAT
* * * * ** *
437600 GGCAATGGAGGTGGCGAAGGAGGTGGAGCTGGTGGTGGTTATGGAGGAGCTGGTGAACATGGAGG
66 GGCAATGGAGGTGGCGAAGGAGGTGGAACTGGTGGTGGCTATGAAGAAGCTAATGAACA-GCAGG
* *
437665 TGGTGCTGGTGGTGGCAGTGGTGGAGGCA-GAACTAGTGCAGGTGGTGCTTCTAGGTATGGCA
130 TAGTGCTGGTGGTGGCAATGGTGGAGG-AGGAACTAGTGCAGGTGGTGCTTCTAGGTATGGCA
* ** *
437727 ATGGAGGTGGTACTGGTGGCGGTAGTGGTGGAGGCGGAGCTAGTGTAAGTGGCGCTTCTGGGTAT
1 ATGGAGGTGGTACTGGTGGCGGCAGTGGTGGAGGAAGAGCTAGTGCAAGTGGCGCTTCTGGGTAT
*
437792 GGCAATGGAGGTGGC-AACGGAGGTGGAACTGGTAATGGTGGCAGCTATGAAGAAGCTAATGGAC
66 GGCAATGGAGGTGGCGAA-GGAGGTGGAACTGG---TGGT-G--GCTATGAAGAAGCTAATGAAC
* *
437856 A-CA-G-AG-G-TGGTGGTGGCAATGGTGGTGGAGGAGCTAGTGCAGGTGG
124 AGCAGGTAGTGCTGGTGGTGGCAATGGTGGAGGAGGAACTAGTGCAGGTGG
437902 ATATGGTGGT
Statistics
Matches: 147, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
191 3 0.02
192 119 0.81
193 1 0.01
194 1 0.01
195 5 0.03
196 2 0.01
198 16 0.11
ACGTcount: A:0.20, C:0.10, G:0.48, T:0.22
Consensus pattern (191 bp):
ATGGAGGTGGTACTGGTGGCGGCAGTGGTGGAGGAAGAGCTAGTGCAAGTGGCGCTTCTGGGTAT
GGCAATGGAGGTGGCGAAGGAGGTGGAACTGGTGGTGGCTATGAAGAAGCTAATGAACAGCAGGT
AGTGCTGGTGGTGGCAATGGTGGAGGAGGAACTAGTGCAGGTGGTGCTTCTAGGTATGGCA
Found at i:447533 original size:3 final size:3
Alignment explanation
Indices: 447525--447570 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
447515 AAAATTGCAA
447525 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
447571 GAGAATTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:448207 original size:12 final size:12
Alignment explanation
Indices: 448190--448214 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
448180 ACCCAAAACC
448190 CTTAGCCCAAAA
1 CTTAGCCCAAAA
448202 CTTAGCCCAAAA
1 CTTAGCCCAAAA
448214 C
1 C
448215 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:448944 original size:3 final size:3
Alignment explanation
Indices: 448936--449001 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
448926 TGCATTTTAA
448936 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
448984 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
449002 GTACATATAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:449090 original size:3 final size:3
Alignment explanation
Indices: 449082--449108 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
449072 TGTATTTCTA
449082 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
449109 ATGGTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:449232 original size:16 final size:15
Alignment explanation
Indices: 449201--449243 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
449191 CCTTCATTCC
*
449201 ATTATTATTATTACT
1 ATTATTATTTTTACT
449216 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
449232 ATCATTATTTTT
1 ATTATTATTTTT
449244 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:449420 original size:11 final size:13
Alignment explanation
Indices: 449390--449421 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
449380 TTATTATAAT
449390 TTATTATTGTTAC
1 TTATTATTGTTAC
449403 TTATTATT-TTAC
1 TTATTATTGTTAC
449415 -TATTATT
1 TTATTATT
449422 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:449614 original size:22 final size:22
Alignment explanation
Indices: 449585--449649 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
449575 TATGTTATTA
449585 TATATTTTACTATTATTATTGT
1 TATATTTTACTATTATTATTGT
* * * *
449607 TGTATTTTTCTATTATTGTTAT
1 TATATTTTACTATTATTATTGT
* *
449629 TATATTTTCCT-TTATTTTTGT
1 TATATTTTACTATTATTATTGT
449650 ATTTACTTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 8 0.23
22 27 0.77
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.68
Consensus pattern (22 bp):
TATATTTTACTATTATTATTGT
Found at i:449623 original size:3 final size:3
Alignment explanation
Indices: 449378--449604 Score: 96
Period size: 3 Copynumber: 76.3 Consensus size: 3
449368 TTCTCATCAC
* * *
449378 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * *
449424 CTAA TA- TAT CAT TAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * * *
449469 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG CAC TACT T-T TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * ** * * *
449514 TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT CGT CA- TAT TGT TAC
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
449558 TAT TAC TAT TA- TAT TAT TA- TGT TAT TAT ATAT T-T TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
449601 TAT T
1 TAT T
449605 GTTGTATTTT
Statistics
Matches: 163, Mismatches: 43, Indels: 36
0.67 0.18 0.15
Matches are distributed among these distances:
2 16 0.10
3 130 0.80
4 17 0.10
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:453560 original size:15 final size:15
Alignment explanation
Indices: 453540--453570 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
453530 TTTACTTTCC
453540 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
453555 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
453570 A
1 A
453571 AAATCTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:461872 original size:205 final size:205
Alignment explanation
Indices: 461520--462506 Score: 1532
Period size: 205 Copynumber: 4.9 Consensus size: 205
461510 GTAATAGGCC
* * * *
461520 ACACATAGCAGATCTCGCCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
461584 TGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAA
461649 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
461714 ATGGAGAGCAG
195 ATGGAGAGCAG
461725 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
*
461790 GTGTTTACAAGGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
*
461855 TCTAAGATGATTTGTCGTCTCTGTATCGTTAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
461920 TGGAGAGCAG
196 TGGAGAGCAG
461930 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
** *
461995 GTGTTTACAAGGAAAAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
* *
462060 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAA---T---A--TTCGCTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
*
462117 TGGAAAGCAG
196 TGGAGAGCAG
* * * *
462127 ACACATAGCAGATCTCGCCTTCAGACGATTTCACTGAAGCAGATCCAAGATGGTTTGGTATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
* * * *
462192 GTGTTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTATGA-GAAAGAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAA
462256 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTG
462321 ATGGA-ATGCAG
195 ATGGAGA-GCAG
* * *
462332 ACACATAGCAGATCTCACCTTCGGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
* * * * * * *
462396 TATGCTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAA
65 TGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAA
* * * * *
462460 ATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
130 ATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
462507 AAATAGATCT
Statistics
Matches: 723, Mismatches: 46, Indels: 27
0.91 0.06 0.03
Matches are distributed among these distances:
196 1 0.00
197 181 0.25
199 1 0.00
200 1 0.00
202 1 0.00
203 1 0.00
204 79 0.11
205 455 0.63
206 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (205 bp):
ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
TGGAGAGCAG
Found at i:462301 original size:402 final size:405
Alignment explanation
Indices: 461520--462505 Score: 1563
Period size: 402 Copynumber: 2.4 Consensus size: 405
461510 GTAATAGGCC
* *
461520 ACACATAGCAGATCTCGCCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCTTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
461585 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
*
461650 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
131 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAA--TT-G-A-CTTCACTTTGA
* * *
461715 TGGAGAGCAGACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTT
191 TGGAAAGCAGACACATAGCAGATCTCACCTTCAGACGATTTCACTGAAGCAGATCCAAGATGGTT
* *
461780 TGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGATATAGCTGATTTGGCTTTCACGTGATTACG
256 TGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACG
* *
461845 ATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATCGTTAGAGAACGAATCGAAGTTTGGCATC
321 ATGAAGAAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATC
461910 TTCACTTTGATGGAGA-GCAG
386 TTCACTTTGATGGA-ATGCAG
* *
461930 ACACATAGCAGATCTCACCTTCAGATGATTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCT
** *
461994 TGTGTTTACAAGGAAAAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAA
65 TGTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAA
*
462059 ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAA-T-A-TTCGCTTTGATGGA
130 ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAATTGACTTCACTTTGATGGA
* *
462121 AAGCAGACACATAGCAGATCTCGCCTTCAGACGATTTCACTGAAGCAGATCCAAGATGGTTTGGT
195 AAGCAGACACATAGCAGATCTCACCTTCAGACGATTTCACTGAAGCAGATCCAAGATGGTTTGGC
* *
462186 ATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGATTATGA-GA
260 ATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-
462250 AAGAAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTC
324 AAGAAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTC
462315 ACTTTGATGGAATGCAG
389 ACTTTGATGGAATGCAG
*
462332 ACACATAGCAGATCTCACCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
* * * * * * *
462397 ATGCTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAA
66 GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
* * * *
462461 TCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAA
131 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAA
462506 GAAATAGATC
Statistics
Matches: 535, Mismatches: 37, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
401 81 0.15
402 286 0.53
404 1 0.00
407 1 0.00
410 163 0.30
411 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (405 bp):
ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
GTGTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAA
TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAATTGACTTCACTTTGATGGAA
AGCAGACACATAGCAGATCTCACCTTCAGACGATTTCACTGAAGCAGATCCAAGATGGTTTGGCA
TCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAA
GAAAATCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCAC
TTTGATGGAATGCAG
Found at i:462851 original size:12 final size:12
Alignment explanation
Indices: 462834--462858 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
462824 ACCCAAAACC
462834 CTTAGCCCAAAA
1 CTTAGCCCAAAA
462846 CTTAGCCCAAAA
1 CTTAGCCCAAAA
462858 C
1 C
462859 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:463826 original size:16 final size:15
Alignment explanation
Indices: 463795--463837 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
463785 CCTTCATTCC
*
463795 ATTATTATTATTACT
1 ATTATTATTTTTACT
463810 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
463826 ATCATTATTTTT
1 ATTATTATTTTT
463838 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:464014 original size:11 final size:13
Alignment explanation
Indices: 463984--464015 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
463974 TTATTATAAT
463984 TTATTATTGTTAC
1 TTATTATTGTTAC
463997 TTATTATT-TTAC
1 TTATTATTGTTAC
464009 -TATTATT
1 TTATTATT
464016 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:464204 original size:22 final size:22
Alignment explanation
Indices: 464174--464234 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
464164 TTATTATATC
*
464174 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
464196 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
464218 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
464235 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:464208 original size:3 final size:3
Alignment explanation
Indices: 463972--464189 Score: 69
Period size: 3 Copynumber: 73.3 Consensus size: 3
463962 TTCTCATCAC
* * *
463972 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * *
464018 CTAA TA- TAT CAT TAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * * *
464063 TAT TAT TAT TAT TAT TAT TAG CAC TACT T-T TAT TAC TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * ** * * * *
464107 AAT ATAT TAT TTT TAC TAT TAT CGT CA- TAT TGT TAC TAT TAC TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
464152 TA- TAT TAT TA- TGT TAT TA- TAT CTTT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT T
464190 GTTGTATTTT
Statistics
Matches: 152, Mismatches: 45, Indels: 36
0.65 0.19 0.15
Matches are distributed among these distances:
2 16 0.11
3 120 0.79
4 16 0.11
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:470540 original size:135 final size:135
Alignment explanation
Indices: 470358--470717 Score: 587
Period size: 135 Copynumber: 2.7 Consensus size: 135
470348 GAGGTGGCAA
* *
470358 TGGTGGTGGTGAAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGTGGTGGAGGTG
1 TGGTGGTGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAGGTG
* * *
470423 GTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGAATGGTGGAGCGGGTGGA-ATTGGAGGTGGTGG
66 GTGAAGGAGGTGGAGCTGGTGGTGCCGGCGGGAATGGAGGAGCGGGTGGACA-TGGAGGTGGTGG
470487 TGGTAG
130 TGGTAG
* * *
470493 TGGTGGTGGCGGAGCTAGTGCCGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAAGTG
1 TGGTGGTGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAGGTG
* * *
470558 GCGAAGGAGGTGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCTGGTGGACATGGAGGTGGTGGT
66 GTGAAGGAGGTGGAGCTGGTGGTGCCGGCGGGAATGGAGGAGCGGGTGGACATGGAGGTGGTGGT
470623 GGTAG
131 GGTAG
* *
470628 TGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGGGGTG
1 TGGTGGTGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAGGTG
470693 GTGAAGGAGGTGGAGCTGGTGGTGC
66 GTGAAGGAGGTGGAGCTGGTGGTGC
470718 AAGAGGACAT
Statistics
Matches: 207, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
135 206 1.00
136 1 0.00
ACGTcount: A:0.15, C:0.09, G:0.53, T:0.24
Consensus pattern (135 bp):
TGGTGGTGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAGGTG
GTGAAGGAGGTGGAGCTGGTGGTGCCGGCGGGAATGGAGGAGCGGGTGGACATGGAGGTGGTGGT
GGTAG
Found at i:470667 original size:270 final size:268
Alignment explanation
Indices: 470358--471190 Score: 1239
Period size: 270 Copynumber: 3.2 Consensus size: 268
470348 GAGGTGGCAA
* *
470358 TGGTGGTGGTGAAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGTGGTGGAGGTG
1 TGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGTGGTGGAGGTG
*
470423 GTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGAATGGTGGAGCGGGTGGAATTGGAGGTGGTGGT
66 GTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGAATGGAGGAGC-GGTGGAA-TGGAGGTGGTGGT
* *
470488 GGTAGTGGTGGTGGCGGAGCTAGTGCCGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGG
129 GGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGG
* * *
470553 AAGTGGCGAAGGAGGTGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCTGGTGGACATGGAGGTG
194 AGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGTGGACATGGAGGTG
470618 GTGGTGGTAG
259 GTGGTGGTAG
* *
470628 TGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGGGGTG
1 TGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGTGGTGGAGGTG
*
470693 GTGAAGGAGGTGGAGCTGGT-G-G-T-GC---AA--GAGGA-C------ATGGAGGTGGTGGTGG
66 GTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGAATGGAGGAGCGGTGGAATGGAGGTGGTGGTGG
*
470742 TAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAG
131 TAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAG
*
470807 GTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCCGGTGGACATGGAGGTGGT
196 GTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGTGGACATGGAGGTGGT
470872 GGTGGTAG
261 GGTGGTAG
* * *
470880 TGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGCTTCTGGATATGGTGGTGGAGGTG
1 TGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGTGGTGGAGGTG
* * * *
470945 GCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCCGGTGGACATGGAGGTGGTGGT
66 GTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGAATGGAGGAG-CGGTGGA-ATGGAGGTGGTGGT
* * * *
471010 GGTAGTGGTGGCGGCGGAGCTAGTGCTGGTGGATATGGTGGTGGAGCTTCAGGATATGGTGGGGG
129 GGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGG
* *
471075 AGGTGGTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGTATGGAGGAGCCGGTGGACATGGAGGTG
194 AGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGTGGACATGGAGGTG
*
471140 GTGGTGGAAG
259 GTGGTGGTAG
* * * *
471150 TGGTGGTGGAGGAGCAAGTGCAGGAGGATATGGTGGTGGAG
1 TGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAG
471191 GGGCACATGC
Statistics
Matches: 507, Mismatches: 38, Indels: 36
0.87 0.07 0.06
Matches are distributed among these distances:
252 224 0.44
253 2 0.00
254 1 0.00
256 1 0.00
259 1 0.00
260 1 0.00
261 9 0.02
263 3 0.01
266 2 0.00
267 1 0.00
268 1 0.00
269 1 0.00
270 260 0.51
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.22
Consensus pattern (268 bp):
TGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGTGGTGGAGGTG
GTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGAATGGAGGAGCGGTGGAATGGAGGTGGTGGTGG
TAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAG
GTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGTGGACATGGAGGTGGT
GGTGGTAG
Found at i:470718 original size:69 final size:69
Alignment explanation
Indices: 470375--470718 Score: 253
Period size: 69 Copynumber: 5.1 Consensus size: 69
470365 GGTGAAGCTA
* *
470375 GTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGTGGTGGAGGTGGTGAAGGAGGCGGAGCT
1 GTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGAGGTGGAGGTGGTGAAGGAGGTGGAGCT
470440 GGTG
66 GGTG
* * *** * * * *
470444 GTGCTGGCGGGA-A---TGGTGGAGCGGGTGGA-ATTGGAGGTGGTGGTGGT-AGTGGTGGTGGC
1 GTGCAGG-TGGATATGGTGGTGGAGCTTCTGGATA-TGGAGGTGGAGGTGGTGA-AGGAGGTGGA
** * *
470503 GGAGCTA
63 GCTGGTG
* * * *
470510 GTGCCGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAAGTGGCGAAGGAGGTGGAGCT
1 GTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGAGGTGGAGGTGGTGAAGGAGGTGGAGCT
470575 GGTG
66 GGTG
* * * * ** * * * * *
470579 GTGCCGGCGGGTA---TGGAGGAGCTGGTGGACATGGAGGTGGTGGTGGT--A-GTGGTGGCGGT
1 GTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGAGGTGGAGGTGGTGAAGGAGGTGGAGCT
*
470638 GGAGCTA
66 -G-G-TG
* *
470645 GTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGGGGTGGTGAAGGAGGTGGAGCT
1 GTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGAGGTGGAGGTGGTGAAGGAGGTGGAGCT
470710 GGTG
66 GGTG
470714 GTGCA
1 GTGCA
470719 AGAGGACATG
Statistics
Matches: 199, Mismatches: 58, Indels: 36
0.68 0.20 0.12
Matches are distributed among these distances:
63 8 0.04
64 2 0.01
65 6 0.03
66 80 0.40
69 87 0.44
70 6 0.03
71 2 0.01
72 8 0.04
ACGTcount: A:0.15, C:0.09, G:0.53, T:0.23
Consensus pattern (69 bp):
GTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGAGGTGGAGGTGGTGAAGGAGGTGGAGCT
GGTG
Found at i:470775 original size:252 final size:257
Alignment explanation
Indices: 470475--471190 Score: 1055
Period size: 252 Copynumber: 2.8 Consensus size: 257
470465 CGGGTGGAAT
* *
470475 TGGAGGTGGTGGTGGTAGTGGTGGTGGCGGAGCTAGTGCCGGTGGATATGGTGGTGGAGCTTCTG
1 TGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTG
* * *
470540 GATATGGCGGTGGAAGTGGCGAAGGAGGTGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCTGGT
66 GATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGT
*
470605 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
131 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
* * *
470670 TTCTGGATATGGCGGTGGGGGTGGTGAAGGAGGTGGAGCTGGTGGTG-C-A-A-GA-GGACA
196 TTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGAGAGGAGGGACA
*
470727 TGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTG
1 TGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTG
*
470792 GATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCCGGT
66 GATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGT
* * *
470857 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGC
131 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
*
470922 TTCTGGATATGGTGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAG
196 TTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCC-----G-A--GAGGA-
470987 CCGGTGGACA
252 ---G-GGACA
* *
470997 TGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCTGGTGGATATGGTGGTGGAGCTTCAG
1 TGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTG
* * * *
471062 GATATGGTGGGGGAGGTGGTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGTATGGAGGAGCCGGT
66 GATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGT
* * * *
471127 GGACATGGAGGTGGTGGTGGAAGTGGTGGTGGAGGAGCAAGTGCAGGAGGATATGGTGGTGGAG
131 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAG
471191 GGGCACATGC
Statistics
Matches: 417, Mismatches: 29, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
252 228 0.55
253 1 0.00
260 1 0.00
263 1 0.00
264 2 0.00
270 184 0.44
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.22
Consensus pattern (257 bp):
TGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTG
GATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGT
GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
TTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGAGAGGAGGGACA
Found at i:470782 original size:69 final size:69
Alignment explanation
Indices: 470722--471190 Score: 287
Period size: 69 Copynumber: 6.9 Consensus size: 69
470712 TGGTGCAAGA
*
470722 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
***
470787 TTCT
66 CGGT
* * * * * * ** * * * * *
470791 GGATATGGCGGTGGAGGTGG-CGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTA---TGGAGGAG
1 GGACATGGAGGTGGTGGTGGTAG-TGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAG
470852 CCGGT
65 CCGGT
* * *
470857 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGC
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
***
470922 TTCT
66 CGGT
* * * * * * ** * * * * *
470926 GGATATGGTGGTGGAGGTGG-CGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTA---TGGAGGAG
1 GGACATGGAGGTGGTGGTGGTAG-TGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAG
470987 CCGGT
65 CCGGT
* *
470992 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCTGGTGGATATGGTGGTGGAGC
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
****
471057 TTCA
66 CGGT
* * * * * * ** * * * * * *
471061 GGATATGGTGGGGGAGGTGGT-GAAGGAGGCGGAGCTGGTGGTGCTGGCGGGTA---TGGAGGAG
1 GGACATGGAGGTGGTGGTGGTAG-TGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAG
471122 CCGGT
65 CCGGT
* * * *
471127 GGACATGGAGGTGGTGGTGGAAGTGGTGGTGGAGGAGCAAGTGCAGGAGGATATGGTGGTGGAG
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAG
471191 GGGCACATGC
Statistics
Matches: 277, Mismatches: 108, Indels: 30
0.67 0.26 0.07
Matches are distributed among these distances:
66 135 0.49
67 3 0.01
68 3 0.01
69 136 0.49
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.21
Consensus pattern (69 bp):
GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGAGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
CGGT
Found at i:470804 original size:66 final size:66
Alignment explanation
Indices: 470731--471071 Score: 226
Period size: 66 Copynumber: 5.1 Consensus size: 66
470721 AGGACATGGA
*
470731 GGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATA
1 GGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATA
470796 T
66 T
* * * * ** * * * * * ***
470797 GGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTA---TGGAGGAGCCGGTGG
1 GGTGGTGGTGGTAGTGGTGGCGGCGGAGC---TAGTGCAGGTGGATATGGTGGTGGAGCTTCTGG
*
470859 ACAT
63 ATAT
* *
470863 GGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGCTTCTGG
1 ---GGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGG
470928 ATAT
63 ATAT
* * * ** * * * * * ***
470932 GGTGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTA---TGGAGGAGCCGGTGG
1 GGTGGTGGTGGTAGTGGTGGCGGCGGAGC---TAGTGCAGGTGGATATGGTGGTGGAGCTTCTGG
*
470994 ACAT
63 ATAT
* *
470998 GGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCTGGTGGATATGGTGGTGGAGCTTCAGG
1 ---GGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGG
471063 ATAT
63 ATAT
471067 GGTGG
1 GGTGG
471072 GGGAGGTGGT
Statistics
Matches: 193, Mismatches: 64, Indels: 36
0.66 0.22 0.12
Matches are distributed among these distances:
66 99 0.51
69 94 0.49
ACGTcount: A:0.15, C:0.10, G:0.52, T:0.23
Consensus pattern (66 bp):
GGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATA
T
Found at i:470830 original size:135 final size:135
Alignment explanation
Indices: 470722--471190 Score: 803
Period size: 135 Copynumber: 3.5 Consensus size: 135
470712 TGGTGCAAGA
*
470722 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
*
470787 TTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAG
66 TTCTGGATATGGTGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAG
470852 CCGGT
131 CCGGT
* *
470857 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGC
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
470922 TTCTGGATATGGTGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAG
66 TTCTGGATATGGTGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAG
470987 CCGGT
131 CCGGT
*
470992 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCTGGTGGATATGGTGGTGGAGC
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
* * * * *
471057 TTCAGGATATGGTGGGGGAGGTGGTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGTATGGAGGAG
66 TTCTGGATATGGTGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAG
471122 CCGGT
131 CCGGT
* * * * *
471127 GGACATGGAGGTGGTGGTGGAAGTGGTGGTGGAGGAGCAAGTGCAGGAGGATATGGTGGTGGAG
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAG
471191 GGGCACATGC
Statistics
Matches: 316, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 316 1.00
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.21
Consensus pattern (135 bp):
GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
TTCTGGATATGGTGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAG
CCGGT
Found at i:470849 original size:117 final size:117
Alignment explanation
Indices: 470605--470834 Score: 433
Period size: 117 Copynumber: 2.0 Consensus size: 117
470595 AGGAGCTGGT
470605 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
* * *
470670 TTCTGGATATGGCGGTGGGGGTGGTGAAGGAGGTGGAGCTGGTGGTGCAAGA
66 TTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCAAGA
470722 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
1 GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
470787 TTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGC
66 TTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGC
470835 CGGTGGGTAT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.16, C:0.09, G:0.53, T:0.23
Consensus pattern (117 bp):
GGACATGGAGGTGGTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGC
TTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCAAGA
Found at i:470858 original size:117 final size:117
Alignment explanation
Indices: 470620--470993 Score: 401
Period size: 117 Copynumber: 3.0 Consensus size: 117
470610 TGGAGGTGGT
470620 GGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGG
1 GGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGG
* * * ** * ** * **
470685 TGGGGGTGGTGAAGGAGGTGGAGCTGGTGGTGCAAGAGGACATGGAGGTGGT
66 TGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCC
470737 GGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGG
1 GGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGG
470802 TGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCC
66 TGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCC
* * * * *
470854 GGTGGACATGGAGGTGGTGGTGGTAG-TGGTGGC-GGCGGAGCTAATGCAGGTGGATATGGTGGT
1 GGTGG---TAGTGGTGGCGGTGG-AGCTAGT-GCAGG-TG-G---AT--A--TGG---TGGT-G-
*
470917 AGAGCTTCTGGATATGGTGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGG
47 -GAGCTTCTGGATATGGCGGTGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGG
470982 AGGAGCC
111 AGGAGCC
470989 GGTGG
1 GGTGG
470994 ACATGGAGGT
Statistics
Matches: 220, Mismatches: 17, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
117 111 0.50
120 17 0.08
121 5 0.02
122 1 0.00
125 2 0.01
127 1 0.00
129 3 0.01
132 4 0.02
133 1 0.00
135 75 0.34
ACGTcount: A:0.16, C:0.10, G:0.53, T:0.22
Consensus pattern (117 bp):
GGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGG
TGGAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCC
Found at i:470864 original size:18 final size:18
Alignment explanation
Indices: 470833--470867 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
470823 AGCTGGTGGT
**
470833 GCCGGTGGGTATGGAGGA
1 GCCGGTGGACATGGAGGA
470851 GCCGGTGGACATGGAGG
1 GCCGGTGGACATGGAGG
470868 TGGTGGTGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.14, G:0.54, T:0.14
Consensus pattern (18 bp):
GCCGGTGGACATGGAGGA
Found at i:470999 original size:18 final size:18
Alignment explanation
Indices: 470968--471002 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
470958 AGCTGGTGGT
**
470968 GCCGGTGGGTATGGAGGA
1 GCCGGTGGACATGGAGGA
470986 GCCGGTGGACATGGAGG
1 GCCGGTGGACATGGAGG
471003 TGGTGGTGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.14, G:0.54, T:0.14
Consensus pattern (18 bp):
GCCGGTGGACATGGAGGA
Found at i:471119 original size:387 final size:387
Alignment explanation
Indices: 470358--471104 Score: 1255
Period size: 387 Copynumber: 1.9 Consensus size: 387
470348 GAGGTGGCAA
* *
470358 TGGTGGTGGTGAAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGTGGTGGAGGTG
1 TGGTGGCGGTGAAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAGGTG
* * * *
470423 GTGAAGGAGGCGGAGCTGGTGGTGCTGGCGGGAATGGTGGAGCGGGTGGAATTGGAGGTGGTGGT
66 GCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGAATGGAGGAGCCGGTGGAATTGGAGGTGGTGGT
* * * *
470488 GGTAGTGGTGGTGGCGGAGCTAGTGCCGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGG
131 GGTAGTGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGCTTCTGGATATGGCGGTGG
* *
470553 AAGTGGCGAAGGAGGTGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCTGGTGGACATGGAGGTG
196 AAGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGTGGACATGGAGGTG
* *
470618 GTGGTGGTAGTGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGC
261 GTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCAGGATATGGC
*
470683 GGTGGGGGTGGTGAAGGAGGTGGAGCTGGTGGTGCAAGAGGACATGGAGGTGGTGGTGGTAG
326 GGTGGGGGTGGTGAAGGAGGCGGAGCTGGTGGTGCAAGAGGACATGGAGGTGGTGGTGGTAG
*
470745 TGGTGGCGGTGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAGGTG
1 TGGTGGCGGTGAAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAGGTG
* *
470810 GCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCCGGTGGACA-TGGAGGTGGTGG
66 GCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGAATGGAGGAGCCGGTGGA-ATTGGAGGTGGTGG
*
470874 TGGTAGTGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGCTTCTGGATATGGTGGTG
130 TGGTAGTGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGCTTCTGGATATGGCGGTG
* *
470939 GAGGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGTGGGTATGGAGGAGCCGGTGGACATGGAGGT
195 GAAGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGTGGACATGGAGGT
*
471004 GGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCTGGTGGATATGGTGGTGGAGCTTCAGGATATGG
260 GGTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCAGGATATGG
*
471069 TGG-GGGAGGTGGTGAAGGAGGCGGAGCTGGTGGTGC
325 CGGTGGG-GGTGGTGAAGGAGGCGGAGCTGGTGGTGC
471105 TGGCGGGTAT
Statistics
Matches: 335, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
386 3 0.01
387 331 0.99
388 1 0.00
ACGTcount: A:0.15, C:0.09, G:0.53, T:0.22
Consensus pattern (387 bp):
TGGTGGCGGTGAAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCTGGATATGGCGGTGGAGGTG
GCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGAATGGAGGAGCCGGTGGAATTGGAGGTGGTGGT
GGTAGTGGTGGCGGCGGAGCTAATGCAGGTGGATATGGTGGTAGAGCTTCTGGATATGGCGGTGG
AAGTGGCGAAGGAGGCGGAGCTGGTGGTGCCGGCGGGTATGGAGGAGCCGGTGGACATGGAGGTG
GTGGTGGTAGTGGTGGCGGCGGAGCTAGTGCAGGTGGATATGGTGGTGGAGCTTCAGGATATGGC
GGTGGGGGTGGTGAAGGAGGCGGAGCTGGTGGTGCAAGAGGACATGGAGGTGGTGGTGGTAG
Found at i:471147 original size:12 final size:12
Alignment explanation
Indices: 471132--471161 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
471122 CCGGTGGACA
471132 TGGAGGTGGTGG
1 TGGAGGTGGTGG
*
471144 TGGAAGTGGTGG
1 TGGAGGTGGTGG
471156 TGGAGG
1 TGGAGG
471162 AGCAAGTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.63, T:0.23
Consensus pattern (12 bp):
TGGAGGTGGTGG
Found at i:471184 original size:30 final size:30
Alignment explanation
Indices: 471150--471212 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
471140 GTGGTGGAAG
471150 TGGTGGTGGAGGAGCA-AGTGCAGGAGGATA
1 TGGTGGTGGAGGAGCACA-TGCAGGAGGATA
* *
471180 TGGTGGTGGAGGGGCACATGCAGGTGGATA
1 TGGTGGTGGAGGAGCACATGCAGGAGGATA
471210 TGG
1 TGG
471213 CAGTGGAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.08, G:0.51, T:0.19
Consensus pattern (30 bp):
TGGTGGTGGAGGAGCACATGCAGGAGGATA
Found at i:471219 original size:30 final size:30
Alignment explanation
Indices: 471155--471220 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
471145 GGAAGTGGTG
**
471155 GTGGAGGAGCAAGTGCAGGAGGATATGGTG
1 GTGGAGGAGCAAGTGCAGGAGGATATGGCA
* *
471185 GTGGAGGGGCACA-TGCAGGTGGATATGGCA
1 GTGGAGGAGCA-AGTGCAGGAGGATATGGCA
471215 GTGGAG
1 GTGGAG
471221 AAGGAGCTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.24, C:0.09, G:0.50, T:0.17
Consensus pattern (30 bp):
GTGGAGGAGCAAGTGCAGGAGGATATGGCA
Found at i:478176 original size:25 final size:25
Alignment explanation
Indices: 478147--478197 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
478137 AAAACTTAAT
478147 AATAGTGAGTTAATGACAATCAAAC
1 AATAGTGAGTTAATGACAATCAAAC
478172 AATAGTGAGTTAATGACAATCAAAC
1 AATAGTGAGTTAATGACAATCAAAC
478197 A
1 A
478198 TTCATTAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.24
Consensus pattern (25 bp):
AATAGTGAGTTAATGACAATCAAAC
Found at i:481271 original size:145 final size:145
Alignment explanation
Indices: 481085--481398 Score: 511
Period size: 145 Copynumber: 2.2 Consensus size: 145
481075 CCCGAAAGGA
* * *
481085 TACACATACACATACACATATACATATAGGATTCACATGGCTGCAAATCATACCATCAACAATAG
1 TACATATACACATACAC--ATACATATAGGATTCACATGGCTGCAAATCATACCACCAACAATAA
* **
481150 CACATTTAGGAAAAGAATCATCTATCCCTCATATCCTTCATGTCCATGACATGGTTAGAATTATG
64 CACATTTACGAAAAGAATCATCTATCCCTCATATCCTTCATGTCCATGACATAATTAGAATTATG
481215 TTGCATTGCAATATACG
129 TTGCATTGCAATATACG
* *
481232 TACATATATACATACACATACATATAGGATTCACTTGGCTGCAAATCATACCACCAACAATAACA
1 TACATATACACATACACATACATATAGGATTCACATGGCTGCAAATCATACCACCAACAATAACA
*
481297 CATTTACGAAAAGAATCATCTATCCCTCATATCCTTCATGTCCATGACATAATTAGACTTATGTT
66 CATTTACGAAAAGAATCATCTATCCCTCATATCCTTCATGTCCATGACATAATTAGAATTATGTT
481362 GCATTGCAATATACG
131 GCATTGCAATATACG
* *
481377 TACTTGTACACATACACATACA
1 TACATATACACATACACATACA
481399 CATACACATA
Statistics
Matches: 155, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
145 140 0.90
147 15 0.10
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (145 bp):
TACATATACACATACACATACATATAGGATTCACATGGCTGCAAATCATACCACCAACAATAACA
CATTTACGAAAAGAATCATCTATCCCTCATATCCTTCATGTCCATGACATAATTAGAATTATGTT
GCATTGCAATATACG
Found at i:481392 original size:6 final size:6
Alignment explanation
Indices: 481383--481417 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
481373 TACGTACTTG
481383 TACACA TACACA TACACA TACACA TACACA TACAC
1 TACACA TACACA TACACA TACACA TACACA TACAC
481418 CAAAGGCGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (6 bp):
TACACA
Found at i:483958 original size:6 final size:6
Alignment explanation
Indices: 483947--484106 Score: 320
Period size: 6 Copynumber: 26.7 Consensus size: 6
483937 AGTTATATAA
483947 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
483995 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
484043 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG
484091 TGTATG TGTATG TGTA
1 TGTATG TGTATG TGTA
484107 ACTACTGGCC
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 154 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:483965 original size:68 final size:67
Alignment explanation
Indices: 483830--483975 Score: 190
Period size: 68 Copynumber: 2.2 Consensus size: 67
483820 TGTATATGTA
*
483830 TGTATGTGTATTTTCTCATTTGTATAACTACTAGCTGTAAGTTATATAATGGAGATGTATGTCTA
1 TGTATGTGTATTCTCTCATTTGTATAACTACTAGCTGTAAGTTATATAATGGAGATGTATGTCTA
483895 TG
66 TG
* * *
483897 TGTATGTGTATTCTCTTATTTGTGTAACTACT-GTTCCT-TAAGTTATATAATGTATG-TGTATG
1 TGTATGTGTATTCTCTCATTTGTATAACTACTAG---CTGTAAGTTATATAATGGA-GATGTATG
*
483959 TGTATG
62 TCTATG
483965 TGTATGTGTAT
1 TGTATGTGTAT
483976 GTGTATGTGT
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
66 1 0.01
67 29 0.41
68 37 0.53
69 3 0.04
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (67 bp):
TGTATGTGTATTCTCTCATTTGTATAACTACTAGCTGTAAGTTATATAATGGAGATGTATGTCTA
TG
Found at i:484246 original size:63 final size:64
Alignment explanation
Indices: 484101--484272 Score: 265
Period size: 65 Copynumber: 2.7 Consensus size: 64
484091 TGTATGTGTA
* * *
484101 TGTGTAACTACTGGCCTTAAGTTATATAATGGAGAGGTATGTGTATGTGTATGTATCCTCTTATT
1 TGTGTAACTACTGGCCCTAAGTTATATAATGGAGATGTATGTGTATATG-ATGTATCCTCTTATT
*
484166 TGTGTAACTACTGGCCCTAAGTTATATAATGGAGATGTATGTGTATATG-TGTATTCTCTTATT
1 TGTGTAACTACTGGCCCTAAGTTATATAATGGAGATGTATGTGTATATGATGTATCCTCTTATT
* *
484229 TGTGTAACTACTGGCCCTTAAGTTATATAATGAAGATGTTTGTG
1 TGTGTAACTACTGGCCC-TAAGTTATATAATGGAGATGTATGTG
484273 GTAAGGGAAA
Statistics
Matches: 100, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
63 30 0.30
64 24 0.24
65 46 0.46
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (64 bp):
TGTGTAACTACTGGCCCTAAGTTATATAATGGAGATGTATGTGTATATGATGTATCCTCTTATT
Found at i:490593 original size:22 final size:22
Alignment explanation
Indices: 490565--490609 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
490555 CATTAGAATG
*
490565 TTAAAATCGTTATTGTATGGCC
1 TTAAAATCGTCATTGTATGGCC
490587 TTAAAATCGTCATTGTATGGCC
1 TTAAAATCGTCATTGTATGGCC
490609 T
1 T
490610 AATCCTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (22 bp):
TTAAAATCGTCATTGTATGGCC
Found at i:490905 original size:31 final size:31
Alignment explanation
Indices: 490869--490934 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
490859 AACAGCCTGG
* * ** *
490869 TGACTTAAATGAAAATTTTTGAATAGTTCAA
1 TGACTTAAATAAAAACTTTCAAATAATTCAA
490900 TGACTTAAATAAAAACTTTCAAATAATTCAA
1 TGACTTAAATAAAAACTTTCAAATAATTCAA
490931 TGAC
1 TGAC
490935 CATATTGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAATTCAA
Found at i:491551 original size:144 final size:143
Alignment explanation
Indices: 491355--491622 Score: 398
Period size: 144 Copynumber: 1.9 Consensus size: 143
491345 AACATATTCG
* * *
491355 TTTTATAAATCAATAAATATTATTTTGAGGGTATTTATACTTTTCTATATTTTGATAAATCGAGA
1 TTTTATAAATCAATAAATATTATTTTAAGGATATTTATACTTTTCTATATTTTAATAAATC--GA
*
491420 AAAAAAACATATGAATTTGA-ATC-GAAAACCTTAAAGTTTACTCTCTCAATTTTATTATTTCAA
64 AAAAAAACATATGAATTT-ATATCTAAAAACCTTAAAGTTTACTCTCTCAATTTTATTATTTCAA
491483 TAAAAATTACGTTTCA
128 TAAAAATTACGTTTCA
* *
491499 TTTTATAAATCAATAAATATTATTTTAAGGATATTTATGTCTTTT-TATATTTTAATAAATCTAA
1 TTTTATAAATCAATAAATATTATTTTAAGGATATTTAT-ACTTTTCTATATTTTAATAAATCGAA
* * *
491563 AAAAAACATATGGATTTATATCTAAAAACCTTATATTTTACTCTCTCAATTTTATTATTT
65 AAAAAACATATGAATTTATATCTAAAAACCTTAAAGTTTACTCTCTCAATTTTATTATTT
491623 GAGCAAAAGC
Statistics
Matches: 112, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
141 1 0.01
142 21 0.19
143 34 0.30
144 51 0.46
145 5 0.04
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (143 bp):
TTTTATAAATCAATAAATATTATTTTAAGGATATTTATACTTTTCTATATTTTAATAAATCGAAA
AAAAACATATGAATTTATATCTAAAAACCTTAAAGTTTACTCTCTCAATTTTATTATTTCAATAA
AAATTACGTTTCA
Found at i:493841 original size:91 final size:92
Alignment explanation
Indices: 493733--493988 Score: 293
Period size: 92 Copynumber: 2.8 Consensus size: 92
493723 TGATAAGTAG
* * *
493733 CTACCTAAAATCAATAGGATAAACAAGCTGGTTATTTATAAGGTTGAGTA-AGAAAAATTGAGAA
1 CTACCTAAAATCAATAGGATAAACAAACTGGTCATTCATAAGGTTGAGTAGA-AAAAATTGAGAA
**
493797 ATTGAAAATCAATTC-AAATTAAGTGTT
65 ATTGAAAATCAATTCAAAACCAAGTGTT
** * * *
493824 CTGTCTAAAATCAATAGGATCAACAAATTGGTCATTCATAGGGTTGAGTAGAAAAAATTGAGAAA
1 CTACCTAAAATCAATAGGATAAACAAACTGGTCATTCATAAGGTTGAGTAGAAAAAATTGAGAAA
493889 TTGAAAATCAATTCAAAACCAAGTGTT
66 TTGAAAATCAATTCAAAACCAAGTGTT
* ** * * * * * * *
493916 CTACCTAAACTCAATAGGACCAATAAATTGGTCGTT-AGTAAGGTTGAGTAGGAGAAATCGAAAA
1 CTACCTAAAATCAATAGGATAAACAAACTGGTCATTCA-TAAGGTTGAGTAGAAAAAATTGAGAA
493980 ATTGAAAAT
65 ATTGAAAAT
493989 GATCTCAAAC
Statistics
Matches: 141, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
91 70 0.50
92 71 0.50
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (92 bp):
CTACCTAAAATCAATAGGATAAACAAACTGGTCATTCATAAGGTTGAGTAGAAAAAATTGAGAAA
TTGAAAATCAATTCAAAACCAAGTGTT
Found at i:493963 original size:92 final size:91
Alignment explanation
Indices: 493733--494006 Score: 302
Period size: 91 Copynumber: 3.0 Consensus size: 91
493723 TGATAAGTAG
** ** * *
493733 CTACCTAAAATCAATAGGATAAACAAGCTGGTTATTTATAAGGTTGAGTA-AGAAAAATTGAGAA
1 CTACCTAAAATCAATAGGACCAACAAATTGGTCATTCATAAGGTTGAGTAGA-AAAAATTGAGAA
**
493797 ATTGAAAATCAATTCAAATTAAGTGTT
65 ATTGAAAATCAATTCAAACCAAGTGTT
** * *
493824 CTGTCTAAAATCAATAGGATCAACAAATTGGTCATTCATAGGGTTGAGTAGAAAAAATTGAGAAA
1 CTACCTAAAATCAATAGGACCAACAAATTGGTCATTCATAAGGTTGAGTAGAAAAAATTGAGAAA
493889 TTGAAAATCAATTCAAAACCAAGTGTT
66 TTGAAAATCAATTC-AAACCAAGTGTT
* * * * * * *
493916 CTACCTAAACTCAATAGGACCAATAAATTGGTCGTT-AGTAAGGTTGAGTAGGAGAAATCGAAAA
1 CTACCTAAAATCAATAGGACCAACAAATTGGTCATTCA-TAAGGTTGAGTAGAAAAAATTGAGAA
* *
493980 ATTGAAAAT-GATCTCAAACTAAGTGTT
65 ATTGAAAATCAAT-TCAAACCAAGTGTT
494007 TTGACATGGG
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
91 83 0.53
92 73 0.47
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (91 bp):
CTACCTAAAATCAATAGGACCAACAAATTGGTCATTCATAAGGTTGAGTAGAAAAAATTGAGAAA
TTGAAAATCAATTCAAACCAAGTGTT
Found at i:502589 original size:21 final size:21
Alignment explanation
Indices: 502550--502597 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 21
502540 CTTAATTTCT
502550 CAATTCAATCGATTTTTTAATC
1 CAATTCAATC-ATTTTTTAATC
502572 CAATTCAAT-ATCTTTTTAATC
1 CAATTCAATCAT-TTTTTAATC
502593 CAATT
1 CAATT
502598 AGTTTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 2 0.08
21 14 0.56
22 9 0.36
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (21 bp):
CAATTCAATCATTTTTTAATC
Found at i:504211 original size:41 final size:41
Alignment explanation
Indices: 504154--504236 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
504144 TGCAACTTGC
504154 AATGCTTTTGTCAATTTATATATACATACACACACGGGTGA
1 AATGCTTTTGTCAATTTATATATACATACACACACGGGTGA
504195 AATGCTTTTGTCAATTTATATATACATACACACACGGGTGA
1 AATGCTTTTGTCAATTTATATATACATACACACACGGGTGA
504236 A
1 A
504237 GTTATTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (41 bp):
AATGCTTTTGTCAATTTATATATACATACACACACGGGTGA
Found at i:504270 original size:22 final size:24
Alignment explanation
Indices: 504245--504296 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
504235 AAGTTATTTT
*
504245 TTTTATAA-AAAAT-AAATTATAA
1 TTTTATAAGAAAATAAAAATATAA
*
504267 TTTT-TAAGATAATAAAAATATAA
1 TTTTATAAGAAAATAAAAATATAA
504290 TTTTATA
1 TTTTATA
504297 TTTTTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
23 12 0.48
24 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTTATAAGAAAATAAAAATATAA
Found at i:510515 original size:16 final size:16
Alignment explanation
Indices: 510491--510530 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
510481 TTTGGATAAA
510491 ATTAATTTTAGTTTGG
1 ATTAATTTTAGTTTGG
* *
510507 ATTATTTTTTGTTTGG
1 ATTAATTTTAGTTTGG
*
510523 GTTAATTT
1 ATTAATTT
510531 AGGTTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.62
Consensus pattern (16 bp):
ATTAATTTTAGTTTGG
Found at i:511560 original size:5 final size:5
Alignment explanation
Indices: 511550--511579 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
511540 ATTGTTCAGA
511550 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
511580 CACATTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:512835 original size:22 final size:22
Alignment explanation
Indices: 512796--512840 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
512786 TATTTGTATT
*
512796 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAACATA
*
512818 TAAATATTAA-TATGAAAACATA
1 TAAAT-TTAATTATAAAAACATA
512840 T
1 T
512841 TTTATTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAACATA
Found at i:513237 original size:31 final size:32
Alignment explanation
Indices: 513196--513255 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
513186 AATTATGAAT
513196 TATTTCATATTCATTAATCAAATT-TCTTATCA
1 TATTTCATATT-ATTAATCAAATTATCTTATCA
* *
513228 TATTT-ATATTATTTATTAAATTATCTTA
1 TATTTCATATTATTAATCAAATTATCTTA
513256 CTTCTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 10 0.40
32 5 0.20
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (32 bp):
TATTTCATATTATTAATCAAATTATCTTATCA
Found at i:516537 original size:22 final size:22
Alignment explanation
Indices: 516510--516552 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
516500 ATTCAACCGG
516510 TTTATAAAAATTTAAATATTTT
1 TTTATAAAAATTTAAATATTTT
* *
516532 TTTATAAAATTTTAATTATTT
1 TTTATAAAAATTTAAATATTT
516553 ATATATTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATAAAAATTTAAATATTTT
Found at i:523018 original size:53 final size:53
Alignment explanation
Indices: 522938--523056 Score: 195
Period size: 53 Copynumber: 2.3 Consensus size: 53
522928 ATATCCAGAC
*
522938 ATGGTCTTATAC-GAATCACATTATCACATTATACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
* *
522990 ATGGTCTTATACGGAGTCACATTATCACATTGCACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
*
523043 ATGGTCTTAAACGG
1 ATGGTCTTATACGG
523057 GCGCACTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
52 12 0.19
53 50 0.81
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (53 bp):
ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCCAGCT
Found at i:524543 original size:15 final size:16
Alignment explanation
Indices: 524513--524545 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
524503 TATCTGATAA
524513 ATTAAAAGAATTAAGT
1 ATTAAAAGAATTAAGT
*
524529 ATTAAAA-ATTTAAGT
1 ATTAAAAGAATTAAGT
524544 AT
1 AT
524546 GAAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (16 bp):
ATTAAAAGAATTAAGT
Found at i:531241 original size:43 final size:43
Alignment explanation
Indices: 531180--531266 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
531170 AGAATTTTAG
*
531180 TCTCGTACACCGCATGGCCTTAGGTGATTTTTTAACTTAAAAA
1 TCTCGTACACCGCATGGCCTTAAGTGATTTTTTAACTTAAAAA
*
531223 TCTCGTACACCGCGTGGCCTTAAGTGATTTTTTAACTTAAAAA
1 TCTCGTACACCGCATGGCCTTAAGTGATTTTTTAACTTAAAAA
531266 T
1 T
531267 GGAATCATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (43 bp):
TCTCGTACACCGCATGGCCTTAAGTGATTTTTTAACTTAAAAA
Found at i:533381 original size:13 final size:13
Alignment explanation
Indices: 533363--533393 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
533353 TTAAATTTCA
533363 GGGGCGAAGCCAG
1 GGGGCGAAGCCAG
533376 GGGGCGAAGCCAG
1 GGGGCGAAGCCAG
533389 GGGGC
1 GGGGC
533394 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.23, G:0.58, T:0.00
Consensus pattern (13 bp):
GGGGCGAAGCCAG
Found at i:535940 original size:175 final size:174
Alignment explanation
Indices: 535590--535942 Score: 582
Period size: 175 Copynumber: 2.0 Consensus size: 174
535580 ATAAAAATAA
535590 TATTTTAATATTGTAGAGTTATTTGCATTTTCTTTCCTCTCATTTTCCCACAATTGGGATATTAA
1 TATTTTAATATTGTAGAGTTATTTGCATTTTCTTTCCTCTCATTTTCCCACAATTGGGATATTAA
* * *
535655 ACAATGGAGTAAAACTAAAAAAGCTAGGGATTCTCAATTCCTTTCCTTTCTCTCTCTTTCTAAAA
66 ACAATGGAGTAAAACTAAAAAAGCGAGGGATTCTCAATTACTTTCCTTTCTCTCTCTTTATAAAA
535720 TTCACTTGTCCAAATAAAGAAAAGGAATCTCTTTTCTCTCACTT
131 TTCACTTGTCCAAATAAAGAAAAGGAATCTCTTTTCTCTCACTT
**
535764 TATTTTAATATTGTAGAGTTATTTGCATTTTCTTTCCTCTCATTTTCCCTTAATTGGGATATTAA
1 TATTTTAATATTGTAGAGTTATTTGCATTTTCTTTCCTCTCATTTTCCCACAATTGGGATATTAA
* * *
535829 A-AAGTGGAGTAAAGCTAAATAAAGCGATGGATTCTCAATTATTTTCCTTTCTCTCTCTTTATAA
66 ACAA-TGGAGTAAAACTAAA-AAAGCGAGGGATTCTCAATTACTTTCCTTTCTCTCTCTTTATAA
* * *
535893 AATTCGCTTGTTCAAATAAAGAAAAGGAATCTTTTTTCTCTCACTT
129 AATTCACTTGTCCAAATAAAGAAAAGGAATCTCTTTTCTCTCACTT
535939 TATT
1 TATT
535943 CAACTTTCCC
Statistics
Matches: 166, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
173 2 0.01
174 78 0.47
175 86 0.52
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.42
Consensus pattern (174 bp):
TATTTTAATATTGTAGAGTTATTTGCATTTTCTTTCCTCTCATTTTCCCACAATTGGGATATTAA
ACAATGGAGTAAAACTAAAAAAGCGAGGGATTCTCAATTACTTTCCTTTCTCTCTCTTTATAAAA
TTCACTTGTCCAAATAAAGAAAAGGAATCTCTTTTCTCTCACTT
Found at i:539123 original size:23 final size:23
Alignment explanation
Indices: 539095--539140 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
539085 CTATGATAAC
*
539095 CCCACCAATAAGACATCAAAAAA
1 CCCACCAACAAGACATCAAAAAA
539118 CCCACCAACAAGACATCAAAAAA
1 CCCACCAACAAGACATCAAAAAA
539141 TTGGGGCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.33, G:0.04, T:0.07
Consensus pattern (23 bp):
CCCACCAACAAGACATCAAAAAA
Found at i:539904 original size:18 final size:18
Alignment explanation
Indices: 539881--539915 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
539871 TTATTTTTAC
*
539881 CTAATTAATATTTAGATG
1 CTAATTAATACTTAGATG
*
539899 CTAATTTATACTTAGAT
1 CTAATTAATACTTAGAT
539916 ATTATAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (18 bp):
CTAATTAATACTTAGATG
Found at i:541605 original size:21 final size:21
Alignment explanation
Indices: 541579--541632 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
541569 AAAATTCAAA
*
541579 CACATAATCAGGACATTTAAC
1 CACATAATCAGAACATTTAAC
541600 CACATAATCAGAACATTTAAC
1 CACATAATCAGAACATTTAAC
541621 CAC-TAAATCAGA
1 CACAT-AATCAGA
541633 TCAATTCACT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.22
Consensus pattern (21 bp):
CACATAATCAGAACATTTAAC
Found at i:541679 original size:67 final size:67
Alignment explanation
Indices: 541596--541732 Score: 222
Period size: 67 Copynumber: 2.0 Consensus size: 67
541586 TCAGGACATT
*
541596 TAACCACATAATCAGAACATTTAACCACTAAATCAGATCAATTCACTTTGTCAAAAA-ATTTCAA
1 TAACCACATAATCAGAACATTTAACCACTAAATCAGATCAATTCACTTT-TCAAAAATATTTAAA
541660 ATC
65 ATC
* * *
541663 TAACCACATAATCAGAACATTTAACCACTAAATCAGATCAATTTAGTTTTCAAAAATTTTTAAAA
1 TAACCACATAATCAGAACATTTAACCACTAAATCAGATCAATTCACTTTTCAAAAATATTTAAAA
541728 TC
66 TC
541730 TAA
1 TAA
541733 ACTCATAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
66 7 0.11
67 58 0.89
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (67 bp):
TAACCACATAATCAGAACATTTAACCACTAAATCAGATCAATTCACTTTTCAAAAATATTTAAAA
TC
Found at i:541851 original size:20 final size:20
Alignment explanation
Indices: 541826--541864 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
541816 GAAGTAAATA
541826 TAAATGAAGTAAAATACAAG
1 TAAATGAAGTAAAATACAAG
541846 TAAATGAAGTAAAATACAA
1 TAAATGAAGTAAAATACAA
541865 TCTGAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (20 bp):
TAAATGAAGTAAAATACAAG
Found at i:560885 original size:16 final size:16
Alignment explanation
Indices: 560861--560892 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
560851 GTCCTACTTA
*
560861 GATTCAAACTTGAAAT
1 GATTAAAACTTGAAAT
560877 GATTAAAACTTGAAAT
1 GATTAAAACTTGAAAT
560893 AATTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (16 bp):
GATTAAAACTTGAAAT
Found at i:562447 original size:27 final size:27
Alignment explanation
Indices: 562409--562488 Score: 160
Period size: 27 Copynumber: 3.0 Consensus size: 27
562399 TAAAATAGGG
562409 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
562436 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
562463 GTGGAGGGTACCCCACAGGCGGCACC
1 GTGGAGGGTACCCCACAGGCGGCACC
562489 GGTCTCTCCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.21, C:0.34, G:0.38, T:0.07
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:562546 original size:22 final size:22
Alignment explanation
Indices: 562506--562547 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
562496 CCTCTACACC
* *
562506 GACGGGACTTCGCATTGCCACG
1 GACGGGACTCCGCACTGCCACG
*
562528 GACGGGACTCCTCACTGCCA
1 GACGGGACTCCGCACTGCCA
562548 TTGCTTTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.17
Consensus pattern (22 bp):
GACGGGACTCCGCACTGCCACG
Found at i:562639 original size:6 final size:6
Alignment explanation
Indices: 562630--562686 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
562620 AAGAAAGGGG
* * *
562630 GAAGGA GAA-GA GAAAGA GAA-GA GAA-GA GAA-GA GAAGAA GAAGAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
*
562674 GAAGGA GGAGGA G
1 GAAGGA GAAGGA G
562687 GAGGTGGCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
5 20 0.43
6 26 0.57
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:562651 original size:5 final size:5
Alignment explanation
Indices: 562634--562677 Score: 61
Period size: 5 Copynumber: 8.2 Consensus size: 5
562624 AAGGGGGAAG
562634 GAGAA GAGAAA GAGAA GAGAA GAGAA GAGAA GAAGAA GAAGAA G
1 GAGAA GAG-AA GAGAA GAGAA GAGAA GAGAA G-AGAA G-AGAA G
562678 GAGGAGGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
5 21 0.57
6 16 0.43
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:562655 original size:16 final size:15
Alignment explanation
Indices: 562634--562677 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 15
562624 AAGGGGGAAG
562634 GAGAAGAGAAAGAGAA
1 GAGAAGAG-AAGAGAA
562650 GAGAAGAGAAGAGAA
1 GAGAAGAGAAGAGAA
562665 GAAGAAGAAGAAG
1 G-AGAAG-AGAAG
562678 GAGGAGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.31
16 13 0.50
17 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
GAGAAGAGAAGAGAA
Found at i:562660 original size:21 final size:22
Alignment explanation
Indices: 562634--562677 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
562624 AAGGGGGAAG
562634 GAGAAGAGAA-AGAGAAG-AGAA
1 GAGAAGAGAAGA-AGAAGAAGAA
562655 GAGAAGAGAAGAAGAAGAAGAA
1 GAGAAGAGAAGAAGAAGAAGAA
562677 G
1 G
562678 GAGGAGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (22 bp):
GAGAAGAGAAGAAGAAGAAGAA
Found at i:562742 original size:20 final size:20
Alignment explanation
Indices: 562714--562768 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
562704 GGAAGAAAAA
* *
562714 AGAAAAAGAAAAAGAGAAGG
1 AGAAGAAGAAAAAGAGAAAG
*
562734 AGAAGAAGAAGAAGAGAAAG
1 AGAAGAAGAAAAAGAGAAAG
*
562754 AGAAGGAAAAAAAAG
1 AGAA-GAAGAAAAAG
562769 GTAATATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAAAAAGAGAAAG
Found at i:563759 original size:16 final size:14
Alignment explanation
Indices: 563729--563775 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
563719 GTACTAAAAT
563729 AATATAAAAAATAA
1 AATATAAAAAATAA
563743 AATATGAAAATAATAA
1 AATAT-AAAA-AATAA
* *
563759 ATTTTAAAAAATAA
1 AATATAAAAAATAA
563773 AAT
1 AAT
563776 CCGAAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 12 0.43
15 8 0.29
16 8 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AATATAAAAAATAA
Found at i:563815 original size:141 final size:141
Alignment explanation
Indices: 563202--563910 Score: 925
Period size: 142 Copynumber: 5.0 Consensus size: 141
563192 TATATTTTAA
* *
563202 AAAATCCGAAA-ATAAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAATAT
1 AAAATCCGAAATA-AAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAAAAA
* * *
563266 ACTAAAATAATATATATGAAACATTATGTAATAAAATAATA-AAAAAATAAAATACGAAAATAGT
65 ACTAAAAT-A-ATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAAT
**
563330 ATATTTTGGAAAAT
128 ATATTTTAAAAAAT
* * **
563344 AAAATCCGAAAATAAAATAAAAAACAAACGGCTAAAATCAGA-AATTTTTACTAAATTAATATAA
1 AAAATCCG-AAAT-AAA-AATAAA-AAA-GGCCAAAATCAGAGGTTTTTTACTAAATTAATATAA
*
563408 AAAAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
61 AAAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
*
563473 TAATATATTTT--TAAA-
124 TAATATATTTTAAAAAAT
* *
563488 AAAATCCGAAA-ACAAAATAAAAAAGGCCAAAATCACA-GATTTTTACTAAATTAATATAAAAAA
1 AAAATCCGAAATA-AAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATAT-AAAAA
* * *
563551 AACAAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATATGAAAATAAT
64 AACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAAT
*
563616 ATATCTTAAAAAAT
128 ATATTTTAAAAAAT
* * *
563630 AAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAG-GGTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCC-GAAATAAAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAAAAA
* *
563694 ACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAATAA
65 ACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATAT
563759 ATTTTAAAAAAT
130 ATTTTAAAAAAT
* * *
563771 AAAATCCGAAATAAAAATAAAAAAGGCCAAAACCAGAGTTTTTTTTCTAAATTAATAT-AAAAAA
1 AAAATCCGAAATAAAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAAAAAA
* * *
563835 CTAAAATAATACATTTGAAACATTATATACTAAAGTAATATAAAAGAATAAAATACGAAAATAGT
66 CTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAAT
563900 ATATTTTAAAA
128 ATATTTTAAAA
563911 TTTTAAAATC
Statistics
Matches: 507, Mismatches: 38, Indels: 43
0.86 0.06 0.07
Matches are distributed among these distances:
138 26 0.05
139 57 0.11
140 67 0.13
141 70 0.14
142 90 0.18
143 75 0.15
144 15 0.03
145 10 0.02
146 56 0.11
147 41 0.08
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (141 bp):
AAAATCCGAAATAAAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAAAAAA
CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAATATA
TTTTAAAAAAT
Found at i:570146 original size:22 final size:25
Alignment explanation
Indices: 570120--570164 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
570110 TAAATTACCT
570120 TTTCTTT-TTT-T-TCTTCTTCTCC
1 TTTCTTTCTTTCTATCTTCTTCTCC
570142 TTTCTTTCTTTCTATCTTCTTCT
1 TTTCTTTCTTTCTATCTTCTTCT
570165 TCTGTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 1 0.05
25 9 0.45
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTCTTTCTTTCTATCTTCTTCTCC
Found at i:570282 original size:27 final size:27
Alignment explanation
Indices: 570252--570310 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
570242 GAGAAAGGCA
570252 CCACCGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
570279 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
570306 TCACC
1 CCACC
570311 CCTATTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.08, C:0.41, G:0.31, T:0.20
Consensus pattern (27 bp):
CCACCGGTGCCGCCTGTGGGGTACCCT
Found at i:571595 original size:15 final size:15
Alignment explanation
Indices: 571575--571604 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
571565 CTAAAAACAC
571575 CACCACAACCAACTT
1 CACCACAACCAACTT
571590 CACCACAACCAACTT
1 CACCACAACCAACTT
571605 TATATGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.13
Consensus pattern (15 bp):
CACCACAACCAACTT
Found at i:573927 original size:29 final size:29
Alignment explanation
Indices: 573895--573951 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
573885 AATAGTTAAT
*
573895 TGACCAATTTGTAACTTTTAATAGTTGGA
1 TGACCAATTTCTAACTTTTAATAGTTGGA
* *
573924 TGACCATTTTCTAACTTTTTATAGTTGG
1 TGACCAATTTCTAACTTTTAATAGTTGG
573952 GTGAGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (29 bp):
TGACCAATTTCTAACTTTTAATAGTTGGA
Found at i:576184 original size:16 final size:16
Alignment explanation
Indices: 576159--576189 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
576149 TGAGTTACTT
*
576159 GTTCAGATTATTTTGA
1 GTTCAAATTATTTTGA
576175 GTTCAAATTATTTTG
1 GTTCAAATTATTTTG
576190 CATTTAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (16 bp):
GTTCAAATTATTTTGA
Found at i:576835 original size:49 final size:49
Alignment explanation
Indices: 576778--576875 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
576768 AAAATACTTA
576778 GTTTCCCAAGTACCTAAATGCAGAAACTAATGGCAATCCAATTTCCTTT
1 GTTTCCCAAGTACCTAAATGCAGAAACTAATGGCAATCCAATTTCCTTT
576827 GTTTCCCAAGTACCTAAATGCAGAAACTAATGGCAATCCAATTTCCTTT
1 GTTTCCCAAGTACCTAAATGCAGAAACTAATGGCAATCCAATTTCCTTT
576876 AAATAATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (49 bp):
GTTTCCCAAGTACCTAAATGCAGAAACTAATGGCAATCCAATTTCCTTT
Found at i:577809 original size:3 final size:3
Alignment explanation
Indices: 577801--577826 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
577791 AGGGTTAACT
577801 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
577827 GGTCTGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:579513 original size:15 final size:14
Alignment explanation
Indices: 579473--579502 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
579463 ATCTCTCATC
579473 TATCTATCTATTTTT
1 TATCTAT-TATTTTT
579488 TATCTATTATTTTT
1 TATCTATTATTTTT
579502 T
1 T
579503 CTTTAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (14 bp):
TATCTATTATTTTT
Found at i:583521 original size:37 final size:37
Alignment explanation
Indices: 583450--583521 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
583440 AAATATATAT
* *
583450 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
583487 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
583522 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:585179 original size:88 final size:86
Alignment explanation
Indices: 585076--585303 Score: 273
Period size: 88 Copynumber: 2.6 Consensus size: 86
585066 TGAGCAAAGA
* * * * * * *
585076 CTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAAACAGAATTTGCCAAACAGATT-TTGGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG-AAAAAACATTATTGAA
**
585140 AATACCTTGGCATGTGACC-CGAGG
65 AATACCTCAG-A-GTG-CCTCGAGG
* *
585164 CTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAATTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CAGAAATTGAAAAAACATT-ATTGA
585229 AAATACCTCAGAGTGCCTCGAGG
64 AAATACCTCAGAGTGCCTCGAGG
585252 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAATTGAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAA
585304 GACCTTAGCA
Statistics
Matches: 122, Mismatches: 13, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
87 20 0.16
88 82 0.67
89 8 0.07
90 12 0.10
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (86 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAAACATTATTGAAA
ATACCTCAGAGTGCCTCGAGG
Found at i:585335 original size:74 final size:71
Alignment explanation
Indices: 585223--585431 Score: 256
Period size: 74 Copynumber: 2.9 Consensus size: 71
585213 AAAAAACATT
* * *
585223 AATTGAAAATACCTCAGAGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAC
1 AATTGAAAAGACCTCAGCGTGGC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAC
* *
585288 AAACAGA
65 AAAAAAA
* **
585295 AATTGAAAAGACCTTAGCATGTGAGCCGAGGCTCAACTCACCTCTCGTGATATGAGTTGATTTTT
1 AATTGAAAAGACCTCAGC--GTG-GCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
585360 GACAAAAAAA
62 GACAAAAAAA
** * *
585370 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AATTGAAAAGACCTCAGCGTGGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
585432 TTTGAAAAGC
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
72 21 0.18
73 33 0.28
74 35 0.30
75 28 0.24
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (71 bp):
AATTGAAAAGACCTCAGCGTGGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACA
AAAAAA
Found at i:585421 original size:73 final size:72
Alignment explanation
Indices: 585223--585432 Score: 271
Period size: 73 Copynumber: 2.9 Consensus size: 72
585213 AAAAAACATT
*
585223 AATTGAAAATACCTCAGAGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGA
1 AATTGAAAATACCTCAGCGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* *
585287 CAAACAGA
65 CAAAAAAA
* * **
585295 AATTGAAAAGACCTTAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGTGATATGAGTTGATTTT
1 AATTGAAAATACCTCAGC--GT--GCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
585359 TGACAAAAAAA
62 TGACAAAAAAA
* *
585370 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
585433 TTGAAAAGCA
Statistics
Matches: 118, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
71 1 0.01
72 17 0.14
73 37 0.31
74 33 0.28
75 27 0.23
76 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (72 bp):
AATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
AAAAAAA
Found at i:585650 original size:241 final size:237
Alignment explanation
Indices: 585160--585762 Score: 729
Period size: 241 Copynumber: 2.5 Consensus size: 237
585150 CATGTGACCC
* * **
585160 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAGAAAACAGAAA
* *
585225 TTGAAAATACCTCAGAGTGCCTCGAGGCTCAACTCACCTCTCGCAAT-A--TGA-GTTGATTTTG
66 TTGAAAATACCTCAGAGTGCCT-GAGGCTCAACTCACCTCTCGCAATGAGTTGATTTTTATTTTG
* **
585286 ACAAACAGAAATTGAAAAGACCTTAGCATGTGAGCCGAGGCTCAACTCACCTCTCGTGATATGAG
130 ACAAACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
585351 TTGATTTTTGACAAAAAAAAATTGAAATTACCTCAGCGTGTCCT
194 TTGATTTTTGACAAAAAAAAATCGAAAATACCTCAGCGTGCCCT
* * *
585395 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAGCAGAAATTG-GAAAGCAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGCATAAATTGAGAAAACAGA
* * * *
585459 AATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATGAGTTAATTTTTTTTT
64 AATTGAAAATACCTCAGAGTG-CCTGAGGCTCAACTCACCTCTCGCAATGAGTTGATTTTTATTT
* ** * *
585524 TGACAAACATAAATTGAAATTACCTCAGC-GTG-TCTTGAGGCTCAACTCACCTCTCGCAATATG
128 TGACAAACAGAAATTGAAAAGACCTCAGCAGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATG
* * *
585587 AGTTAAGTTTTTTTGA-AAAGCAGAAATCGAAAATACCTCAGCGTGCCCT
192 AGTT--G-ATTTTTGACAAA-AAAAAATCGAAAATACCTCAGCGTGCCCT
* *
585636 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAACATAAATTGAAGAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTG-AGAAAACAGAA
* *
585701 ATTGAAATTACCTCAGCA-TGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
65 ATTGAAAATACCTCAG-AGTG-CCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTGATTTTT
585763 GAAAAACAGA
Statistics
Matches: 313, Mismatches: 38, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
235 31 0.10
236 48 0.15
237 24 0.08
238 32 0.10
239 20 0.06
240 34 0.11
241 110 0.35
242 1 0.00
243 13 0.04
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (237 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAATTGAGAAAACAGAAA
TTGAAAATACCTCAGAGTGCCTGAGGCTCAACTCACCTCTCGCAATGAGTTGATTTTTATTTTGA
CAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGACAAAAAAAAATCGAAAATACCTCAGCGTGCCCT
Found at i:585660 original size:76 final size:78
Alignment explanation
Indices: 585451--585664 Score: 321
Period size: 76 Copynumber: 2.8 Consensus size: 78
585441 CAGAAATTGG
*
585451 AAAGCAGAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGC-A-ATGAGTTA
1 AAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
*
585514 ATTTTTTTTTTGAC
66 A-TGTTTTTTTGAC
* * * * *
585528 AAA-CATAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
585592 A-GTTTTTTTGA-
66 ATGTTTTTTTGAC
585603 AAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
585665 CTGATTTTTG
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
75 3 0.02
76 106 0.87
77 4 0.03
78 9 0.07
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (78 bp):
AAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
ATGTTTTTTTGAC
Found at i:585695 original size:76 final size:73
Alignment explanation
Indices: 585458--585690 Score: 286
Period size: 76 Copynumber: 3.1 Consensus size: 73
585448 TGGAAAGCAG
* * * * *
585458 AAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATGAGTTAATTTTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAAT-A--TGAGTTGTTTT
*
585523 TTGACAAACAT
63 TTGAAAAACAT
* * *
585534 AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTAAGTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT--G-TTTT
* *
585599 TTGAAAAGCAG
63 TTGAAAAACAT
* * *
585610 AAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTG
585675 AAAAACAT
66 AAAAACAT
585683 AAATTGAA
1 AAATTGAA
585691 GAAAACAGAA
Statistics
Matches: 134, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
73 23 0.17
74 1 0.01
75 1 0.01
76 109 0.81
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (73 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTTTTTTG
AAAAACAT
Found at i:585697 original size:16 final size:16
Alignment explanation
Indices: 585676--585706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
585666 TGATTTTTGA
*
585676 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
585692 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
585707 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:585759 original size:89 final size:90
Alignment explanation
Indices: 585601--585775 Score: 280
Period size: 89 Copynumber: 2.0 Consensus size: 90
585591 AAGTTTTTTT
* *
585601 GAAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 GAAAAGCAGAAATCGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCACAATATGAGC
*
585666 TGATTTTTGAAAAACATAAATTGAA
66 TGATTTTTGAAAAACAGAAATTGAA
* * * *
585691 GAAAA-CAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGAGT
1 GAAAAGCAGAAATCGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCACAATATGAGC
585755 TGATTTTTGAAAAACAGAAAT
66 TGATTTTTGAAAAACAGAAAT
585776 AAAACATCAG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 73 0.94
90 5 0.06
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (90 bp):
GAAAAGCAGAAATCGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCACAATATGAGC
TGATTTTTGAAAAACAGAAATTGAA
Found at i:600317 original size:31 final size:31
Alignment explanation
Indices: 600274--600336 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
600264 TATATGAAAG
*
600274 ATATATACACAATATGGTA-TTAAGAATATAT
1 ATATATACACAATATAGTATTTAA-AATATAT
*
600305 ATATATATACAATATAGTATTTAAAATATAT
1 ATATATACACAATATAGTATTTAAAATATAT
600336 A
1 A
600337 CATAAGATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (31 bp):
ATATATACACAATATAGTATTTAAAATATAT
Found at i:600557 original size:43 final size:43
Alignment explanation
Indices: 600505--600601 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
600495 ATATATATAA
* *
600505 ATAATAGTATTAGCAATATACAA-T-ATAATATAGAAATATACAT
1 ATAATAGTATAAGAAATATACAACTAATAATAT-GAAA-ATACAT
* *
600548 ATAATAGTATAAGAAATATATAACTAATAATATTAAAATACAT
1 ATAATAGTATAAGAAATATACAACTAATAATATGAAAATACAT
*
600591 ATAATAATATA
1 ATAATAGTATA
600602 TATAATATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 36 0.77
44 4 0.09
45 7 0.15
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (43 bp):
ATAATAGTATAAGAAATATACAACTAATAATATGAAAATACAT
Found at i:600613 original size:14 final size:13
Alignment explanation
Indices: 600526--600613 Score: 51
Period size: 14 Copynumber: 6.7 Consensus size: 13
600516 AGCAATATAC
600526 AATATAATATAGA-
1 AATATAATATA-AT
600539 AATATACATATAAT
1 AATATA-ATATAAT
* *
600553 AGTATAAGA-AAT
1 AATATAATATAAT
*
600565 -ATATAA-CTAAT
1 AATATAATATAAT
*
600576 AATATTAAAATACAT
1 AATA-TAATATA-AT
600591 -ATAATAATATATAT
1 AAT-ATAATATA-AT
600605 AATATAATA
1 AATATAATA
600614 CTAAAAATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
11 8 0.14
12 6 0.10
13 12 0.20
14 28 0.47
15 5 0.08
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (13 bp):
AATATAATATAAT
Found at i:600770 original size:21 final size:21
Alignment explanation
Indices: 600746--600786 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
600736 AAAAATACAC
* *
600746 TTATATATATATATATTAAAG
1 TTATATACATATATAGTAAAG
*
600767 TTATGTACATATATAGTAAA
1 TTATATACATATATAGTAAA
600787 ATACATGAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
TTATATACATATATAGTAAAG
Found at i:601102 original size:3 final size:3
Alignment explanation
Indices: 601023--601084 Score: 88
Period size: 3 Copynumber: 20.3 Consensus size: 3
601013 GAATATATAC
* *
601023 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAC
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
601069 TAA TAA TAC TAA TAA T
1 TAA TAA TAA TAA TAA T
601085 TCAAAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:601608 original size:22 final size:22
Alignment explanation
Indices: 601551--601608 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
601541 TACGAGGACT
* * *
601551 GTGGAGGTATGGGACTGTTGTA
1 GTGGAGGTATGGGGCCGCTGTA
601573 GTAGG-GGTATGGGGCCGCTGTA
1 GT-GGAGGTATGGGGCCGCTGTA
601595 GTGGAGGTATGGGG
1 GTGGAGGTATGGGG
601609 TTGCTTCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.16, C:0.07, G:0.52, T:0.26
Consensus pattern (22 bp):
GTGGAGGTATGGGGCCGCTGTA
Found at i:602152 original size:15 final size:15
Alignment explanation
Indices: 602128--602160 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
602118 TTGATCTTTG
*
602128 AAAAATATAAATTGA
1 AAAAACATAAATTGA
602143 AAAAACATAAATTGA
1 AAAAACATAAATTGA
602158 AAA
1 AAA
602161 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (15 bp):
AAAAACATAAATTGA
Found at i:602347 original size:89 final size:89
Alignment explanation
Indices: 602082--602500 Score: 469
Period size: 89 Copynumber: 4.7 Consensus size: 89
602072 TACTCGGTGT
* ** * * * *
602082 GTGATCCTGA-GCTCAACTCATTTCTCGCAATATGAATTGATCTTTGAAAAATATAAATTGAAAA
1 GTGAGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAA
*
602146 AACATAAATTGAAAATACCTCAGCA
65 AACAGAAATTGAAAATACCTCAGCA
* * * ** *
602171 TGTGAGCC-GAGGCTCAACTCACCTCTCTCAATATGAGTT-TTTTTTTATAACTGCGGAAATTGA
1 -GTGAGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AA-AACAGAAATTGA
602234 AAAACAGAAATTGAAAATACCTCAGC-
63 AAAACAGAAATTGAAAATACCTCAGCA
* * * *
602260 GTG-CCCTGAGGCTCAACTCACTTCTCGCAATATGAGCTGATTTTTGAAAAACATAAATTGGAGA
1 GTGAGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-GA-A
*
602324 AAACAGAAATTGAAATTACCTCAGCA
64 AAACAGAAATTGAAAATACCTCAGCA
* *
602350 -TG-TCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTGAAAAACAGAAATT-AAAA
1 GTGAGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
* *
602412 ATAGAAATTGAAAAGACCTCAGCA
66 ACAGAAATTGAAAATACCTCAGCA
* * *
602436 TGTGAGCC-GAGGCTCATCTCACCTCTCGCGATATGAGTTGATTTTTTGACAAACAGAAATTGAA
1 -GTGAGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAA
602500 A
64 A
602501 TTACCTTAGC
Statistics
Matches: 278, Mismatches: 38, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
86 24 0.09
87 9 0.03
88 67 0.24
89 111 0.40
90 61 0.22
91 6 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (89 bp):
GTGAGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
ACAGAAATTGAAAATACCTCAGCA
Found at i:602417 original size:13 final size:14
Alignment explanation
Indices: 602392--602425 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
602382 GAGTTGATTT
602392 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
602406 TT-AAAAATAGAAA
1 TTGAAAAACAGAAA
602419 TTGAAAA
1 TTGAAAA
602426 GACCTCAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:602537 original size:74 final size:73
Alignment explanation
Indices: 602409--602644 Score: 278
Period size: 72 Copynumber: 3.2 Consensus size: 73
602399 ACAGAAATTA
* ** * * *
602409 AAAATAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCATCTCACCTCTCGCGATATGAG
1 AAAACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
602473 TTGATTTTTTG
63 TTGATTTTTTG
* *
602484 ACAAACAGAAATTGAAATTACCTTAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
602549 GA-TTTTCG
65 GATTTTTTG
* * **
602557 AAAACGGAGATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
602622 ATTATTTTG
66 ATT-TTTTG
*
602631 AAAGACAAAAATTG
1 AAA-ACAGAAATTG
602645 GAAAGCAGAA
Statistics
Matches: 135, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
72 59 0.44
73 8 0.06
74 41 0.30
75 6 0.04
76 21 0.16
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (73 bp):
AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:602779 original size:164 final size:164
Alignment explanation
Indices: 602489--603234 Score: 1079
Period size: 164 Copynumber: 4.5 Consensus size: 164
602479 TTTTGACAAA
* * * * *
602489 CAGAAATTGAAATTACCTTAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
1 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* ** * **
602552 TTTCGA-AAACGGAGATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
602616 GAGTTGATTATTTTGAA-AGACAAAAATTGGAAAG
131 GAGTTGATTTTTTTGAAGAG-CAAAAATTGGAAAG
602650 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
602715 TTTTGACCAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
602780 GAGTTGATTTTTTTTGAAGAGCAAAAATTGGAAAG
131 GAGTTGA-TTTTTTTGAAGAGCAAAAATTGGAAAG
* * * * *
602815 AATAAAACGAAAATACTTCAGTGTGCCCTGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAG
1 CAGAAATCGAAAATACCTCA----G--C-GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
602880 TTGATTTTTTTGACCAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
59 TTGATTTTTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
602945 GCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAG
124 GCAATATGAGTTGATTTTTTTGAAGAGCAAAAATTGGAAAG
* *
602986 CAAAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
603051 TTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
* * *
603116 GAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAG
131 GAGTTGATTTTTTTGAAGAGCAAAAATTGGAAAG
* * *
603150 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGA-TT
1 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
603214 TTTTGAAAAATATAAATTGAA
66 TTTTGACAAACATAAATTGAA
603235 GAAAACAGAA
Statistics
Matches: 534, Mismatches: 39, Indels: 22
0.90 0.07 0.04
Matches are distributed among these distances:
161 57 0.11
163 27 0.05
164 251 0.47
165 39 0.07
166 2 0.00
167 1 0.00
169 1 0.00
171 43 0.08
172 113 0.21
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (164 bp):
CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTGAAGAGCAAAAATTGGAAAG
Found at i:602786 original size:75 final size:75
Alignment explanation
Indices: 602648--602793 Score: 247
Period size: 75 Copynumber: 1.9 Consensus size: 75
602638 AAAATTGGAA
602648 AGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
602713 TTTTTTGACC
66 TTTTTTGACC
* * * * *
602723 AGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
602788 TTTTTT
66 TTTTTT
602794 TGAAGAGCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (75 bp):
AGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGACC
Found at i:602968 original size:336 final size:327
Alignment explanation
Indices: 602497--603222 Score: 1064
Period size: 336 Copynumber: 2.2 Consensus size: 327
602487 AACAGAAATT
* * * *
602497 GAAATTACCTTAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTCGAAA
1 GAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCGAAA
* *
602560 ACGGAGATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
66 ACAGAAATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
602625 ATTTTGAA-AGACAAAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
131 ATTTTGAAGAG-CAAAAATTGGAAAGCAAAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
* *
602689 TCACCTCTCGCAATATGAGTTGATTTTTTTGACCAGCATAAATTGAAATTACCTCAGCGTGTCCT
195 TCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCT
* * * *
602754 GAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAGAGCAAAAATTGGAAAGAATA
260 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAGCAAAAATTGAAAAGAAGA
602819 AAAC
324 AAAC
* *
602823 GAAAATACTTCAGTGTGCCCTGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
1 GAAAATACCTCA----G--C-GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * * **
602888 TTTGACCAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
59 TTCGA-AAACAGAAATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
602953 AGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAAAAATCGAAAATACCTCAGTGTGCCCTGAG
123 AGTTGATTATTTTGAAGAGCAAAAATTGGAAAGCAAAAATCGAAAATACCTCAGCGTGCCCTGAG
603018 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCAGC
188 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCAGC
*
603083 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAA
253 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAAAAATTGAAA
* **
603148 AGCAGAAATT
318 AGAAGAAAAC
* *
603158 GAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGATTTTTT-GAAA
1 GAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCGAAA
603222 A
66 A
603223 ATATAAATTG
Statistics
Matches: 355, Mismatches: 34, Indels: 22
0.86 0.08 0.05
Matches are distributed among these distances:
326 10 0.03
327 2 0.01
328 43 0.12
329 1 0.00
330 1 0.00
331 1 0.00
332 1 0.00
333 37 0.10
335 45 0.13
336 212 0.60
337 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (327 bp):
GAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTCGAAA
ACAGAAATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
ATTTTGAAGAGCAAAAATTGGAAAGCAAAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAAAAATTGAAAAGAAGAAA
AC
Found at i:603068 original size:89 final size:89
Alignment explanation
Indices: 602895--603069 Score: 271
Period size: 89 Copynumber: 2.0 Consensus size: 89
602885 TTTTTTGACC
* * * *
602895 AGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGCAAAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
602960 TTTTTTGAAGAGCAGAAATTGGAA
66 TTTTTTGAAGAACAGAAATTGGAA
*
602984 AGCAAAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AGCAAAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
603049 TTTTTTGACA-AACATAAATTG
66 TTTTTTGA-AGAACAGAAATTG
603070 AAATTACCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
89 77 0.99
90 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (89 bp):
AGCAAAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAAGAACAGAAATTGGAA
Found at i:603122 original size:75 final size:75
Alignment explanation
Indices: 602982--603148 Score: 264
Period size: 75 Copynumber: 2.2 Consensus size: 75
602972 CAGAAATTGG
* * *
602982 AAAGCAAAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
603047 ATTTTTTTGA
66 ATTTTTTTGA
* * *
603057 CAAA-CATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
603121 GATTTTTTTGA
65 GATTTTTTTGA
603132 AAAGCAGAAATTGAAAA
1 AAAGCAGAAATTGAAAA
603149 GCAGAAATTG
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
74 3 0.04
75 77 0.93
76 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
AAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGA
Found at i:603147 original size:14 final size:14
Alignment explanation
Indices: 603128--603162 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
603118 GTTGATTTTT
603128 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
603142 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
603156 TTGAAAA
1 TTGAAAA
603163 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:603215 original size:89 final size:90
Alignment explanation
Indices: 603058--603319 Score: 386
Period size: 89 Copynumber: 2.9 Consensus size: 90
603048 TTTTTTTGAC
*
603058 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
603123 TTTTTTTGAAAAGCAGAAATTG-A-A
66 -TTTTTTGAAAAACAGAAATTGAAGA
* * * * *
603147 AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
603212 TTTTTTGAAAAATATAAATTGAAGA
66 TTTTTTGAAAAACAGAAATTGAAGA
* * *
603237 AAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCCCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
603302 -TTTTTGAAAAACAGAAAT
66 TTTTTTGAAAAACAGAAAT
603320 AAAACATCAG
Statistics
Matches: 152, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
88 18 0.12
89 76 0.50
90 58 0.38
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (90 bp):
AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTGAAAAACAGAAATTGAAGA
Found at i:606228 original size:22 final size:22
Alignment explanation
Indices: 606171--606228 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
606161 TACGAGGACT
* * *
606171 GTGGAGGTATGGGACTGTTGTA
1 GTGGAGGTATGGGGCCGCTGTA
*
606193 GTGGGGGTATGGGGCCGCTGTA
1 GTGGAGGTATGGGGCCGCTGTA
606215 GTGGAGGTATGGGG
1 GTGGAGGTATGGGG
606229 TTGCTTCATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.14, C:0.07, G:0.53, T:0.26
Consensus pattern (22 bp):
GTGGAGGTATGGGGCCGCTGTA
Found at i:608108 original size:27 final size:27
Alignment explanation
Indices: 608070--608124 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
608060 TGATTCTGTA
608070 TAAAATATTTTCAGTTATTTGAAAAAT
1 TAAAATATTTTCAGTTATTTGAAAAAT
* *
608097 TAAAATATTTTCCGTTGTTTGAAAAAT
1 TAAAATATTTTCAGTTATTTGAAAAAT
608124 T
1 T
608125 TTCCTAAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.45
Consensus pattern (27 bp):
TAAAATATTTTCAGTTATTTGAAAAAT
Found at i:611746 original size:13 final size:14
Alignment explanation
Indices: 611717--611749 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
611707 CAATATTAGT
611717 TTTTATAAAATAATA
1 TTTT-TAAAATAATA
611732 TTTTTAAAA-AATA
1 TTTTTAAAATAATA
611745 TTTTT
1 TTTTT
611750 CACCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 5 0.28
15 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTTAAAATAATA
Found at i:613142 original size:2 final size:2
Alignment explanation
Indices: 613135--613162 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
613125 CTTTAATCTA
613135 AT 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
613163 CTTCTACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:620952 original size:131 final size:131
Alignment explanation
Indices: 620741--621065 Score: 494
Period size: 131 Copynumber: 2.5 Consensus size: 131
620731 TAATTATCCA
* * ** * * * *
620741 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGGTGTTTGGAAATTC-AGAAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
*
620805 GTGCTGGGTTGTGA-TTTCTCGTTTGTTCAAAAC-AATCGAACATTCCTTTGGAATTTCACTCAT
66 GTGCTGGGTTGCGATTTTCT-GTTTGTTC-AAACTAATCGAACATTCCTTTGGAATTTCACTCAT
620868 GAC
129 GAC
*
620871 TTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* *
620936 GTGCTGGGTTGCGATTTTCTGTTTGTTCAAACTAATCGAATATTCCTTTGGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTTCTGTTTGTTCAAACTAATCGAACATTCCTTTGGAATTTCACTCATGA
621001 C
131 C
*
621002 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCTATGTTTGGCAATTCGGGGAATCGTGCCCTAT
1 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
621066 TGATACGAGT
Statistics
Matches: 178, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
130 44 0.25
131 129 0.72
132 5 0.03
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTTCTGTTTGTTCAAACTAATCGAACATTCCTTTGGAATTTCACTCATGA
C
Found at i:628417 original size:127 final size:130
Alignment explanation
Indices: 628118--628419 Score: 314
Period size: 131 Copynumber: 2.3 Consensus size: 130
628108 ACCTTTATCA
* * * ** * *
628118 CCTATCGTGCTGGGTTGCGATTTTCTGTTTGTTCAAAATAATCGAATATTCTTTTGGAATTTCAC
1 CCTATCGTGCTGGGTTGTGATTTCCTGTTCGGACAAAATAATCGAATATTCCTTTAGAATTTCAC
* * * * * * *
628183 TCATGTCTTTAAAAATTCTTCAAAACGAAGGTAATGTTCTATGTTTGGCAATTCAGGGAATCGTG
66 TCATGTCTCT-AAAATTCTTCAAAACGAAGGCAATGTCCGATGTCTAGAAATTCAGGGAATCGTG
628248 C
130 C
* **
628249 CCTATCGTGCTGGGTTGTGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCAC
1 CCTATCGTGCTGGGTTGTGATTTCCTGTTCGGACAAAATAATCGAATATTCCTTTAGAATTTCAC
*
628314 TCATGTTCTCT-AAATTC-T-AAAAC-AAGGCAATGTCCGATGTCTAGAAATTC-GAGGAGTCGT
66 TCATG-TCTCTAAAATTCTTCAAAACGAAGGCAATGTCCGATGTCTAGAAATTCAG-GGAATCGT
628374 GC
129 GC
* *
628376 CCTA-CTGTGCTGGGTT-TCGATTTTCTCG-TCGGACTAAATAATCG
1 CCTATC-GTGCTGGGTTGT-GATTTCCT-GTTCGGACAAAATAATCG
628420 TGCATCCTTT
Statistics
Matches: 149, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
126 3 0.02
127 63 0.42
128 6 0.04
129 1 0.01
130 6 0.04
131 66 0.44
132 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (130 bp):
CCTATCGTGCTGGGTTGTGATTTCCTGTTCGGACAAAATAATCGAATATTCCTTTAGAATTTCAC
TCATGTCTCTAAAATTCTTCAAAACGAAGGCAATGTCCGATGTCTAGAAATTCAGGGAATCGTGC
Found at i:630689 original size:20 final size:22
Alignment explanation
Indices: 630649--630691 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
630639 TTATAAATAA
*
630649 AATAATAAATATGTAATTATAT
1 AATAATAAATATATAATTATAT
630671 AATAA-AAATATAT-ATTATAT
1 AATAATAAATATATAATTATAT
630691 A
1 A
630692 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 7 0.35
22 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATAATAAATATATAATTATAT
Found at i:639297 original size:24 final size:24
Alignment explanation
Indices: 639234--639284 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
639224 TTTCTAGAAG
* * *
639234 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
639258 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
639282 ATT
1 ATT
639285 ACACTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:639454 original size:5 final size:5
Alignment explanation
Indices: 639434--639466 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
639424 TTGTGTGTTC
639434 TTTAT TTT-T CTTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTT
639467 CACAATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:640993 original size:7 final size:6
Alignment explanation
Indices: 640957--640990 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
640947 TACTATGACT
* *
640957 AAAATG AAAATG AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
640991 ATATTGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:642450 original size:25 final size:24
Alignment explanation
Indices: 642384--642529 Score: 78
Period size: 25 Copynumber: 5.7 Consensus size: 24
642374 TTAATTTTTT
*
642384 AAAATTATAAATTTTTAAACTTACAATA
1 AAAATTATAAA-TTTT-AACTT--TATA
* * *
642412 AAATTTTTATATTTTAACTCTTATA
1 AAAATTATAAATTTTAACT-TTATA
* * *
642437 AAAATTATAAATTTTTA-TTTTTT
1 AAAATTATAAATTTTAACTTTATA
*
642460 AAAATTATAAAATTTTAAACTTACAATA
1 AAAATTAT-AAATTTT-AACTT--TATA
* * * * *
642488 AAATTTTTACATTTTAACCCTCATA
1 AAAATTATAAATTTTAA-CTTTATA
642513 AAAATTATAAATTTTAA
1 AAAATTATAAATTTTAA
642530 AATAAATTCT
Statistics
Matches: 89, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
23 11 0.12
24 8 0.09
25 34 0.38
26 8 0.09
27 13 0.15
28 15 0.17
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAATTATAAATTTTAACTTTATA
Found at i:642476 original size:76 final size:76
Alignment explanation
Indices: 642377--642527 Score: 266
Period size: 76 Copynumber: 2.0 Consensus size: 76
642367 TTGTAATTTA
* * * *
642377 ATTTTTTAAAATTATAAATTTTTAAACTTACAATAAAATTTTTATATTTTAACTCTTATAAAAAT
1 ATTTTTTAAAATTATAAAATTTTAAACTTACAATAAAATTTTTACATTTTAACCCTCATAAAAAT
642442 TATAAATTTTT
66 TATAAATTTTT
642453 ATTTTTTAAAATTATAAAATTTTAAACTTACAATAAAATTTTTACATTTTAACCCTCATAAAAAT
1 ATTTTTTAAAATTATAAAATTTTAAACTTACAATAAAATTTTTACATTTTAACCCTCATAAAAAT
642518 TATAAATTTT
66 TATAAATTTT
642528 AAAATAAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (76 bp):
ATTTTTTAAAATTATAAAATTTTAAACTTACAATAAAATTTTTACATTTTAACCCTCATAAAAAT
TATAAATTTTT
Found at i:644837 original size:3 final size:3
Alignment explanation
Indices: 644829--644884 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
644819 AATAAATAGG
* * *
644829 TAA TAA TAA TAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
644877 TAA TAA TA
1 TAA TAA TA
644885 GTAGGACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:645914 original size:15 final size:15
Alignment explanation
Indices: 645894--645961 Score: 127
Period size: 15 Copynumber: 4.5 Consensus size: 15
645884 GGGCATGGTA
645894 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
645909 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
645924 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
*
645939 ATTGGGTTGGTGGGT
1 ATTGGGTTTGTGGGT
645954 ATTGGGTT
1 ATTGGGTT
645962 CTTTTGTTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 52 1.00
ACGTcount: A:0.07, C:0.00, G:0.47, T:0.46
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Done.