Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 164 of 313
Found at i:51571200 original size:16 final size:16
Alignment explanation
Indices: 51571159--51571202 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
51571149 TTATTAAGAA
*
51571159 TTTGAATCATTTCAAG
1 TTTGAATTATTTCAAG
* * *
51571175 TTTTACTTATTTTAAG
1 TTTGAATTATTTCAAG
51571191 TTTGAATTATTT
1 TTTGAATTATTT
51571203 GATATTTATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (16 bp):
TTTGAATTATTTCAAG
Found at i:51582037 original size:13 final size:13
Alignment explanation
Indices: 51582019--51582043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51582009 TTGTTTTGCC
51582019 CTCTGTTTCTATT
1 CTCTGTTTCTATT
51582032 CTCTGTTTCTAT
1 CTCTGTTTCTAT
51582044 CTTTTATTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.24, G:0.08, T:0.60
Consensus pattern (13 bp):
CTCTGTTTCTATT
Found at i:51586334 original size:15 final size:15
Alignment explanation
Indices: 51586314--51586345 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51586304 CATTTCACTA
*
51586314 TTATGTCTTTTATAT
1 TTATGTCTTTCATAT
51586329 TTATGTCTTTCATAT
1 TTATGTCTTTCATAT
51586344 TT
1 TT
51586346 TGTATGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTCTTTCATAT
Found at i:51597516 original size:9 final size:9
Alignment explanation
Indices: 51597470--51597618 Score: 76
Period size: 9 Copynumber: 16.3 Consensus size: 9
51597460 GTACAATAAA
51597470 TTTAT-ATT
1 TTTATAATT
*
51597478 TTTATAAAT
1 TTTATAATT
51597487 TTTAT-ATT
1 TTTATAATT
51597495 TCTT-TACATT
1 T-TTATA-ATT
51597505 TTTATAATTTT
1 TTTATAA--TT
*
51597516 TTTATGATT
1 TTTATAATT
51597525 TTTATAATT
1 TTTATAATT
*
51597534 TTTATAGTT
1 TTTATAATT
*
51597543 TTTAAATATT
1 TTTATA-ATT
**
51597553 TTTATGTTT
1 TTTATAATT
*
51597562 TTTATTAAAAT
1 TTTA-T-AATT
* *
51597573 ATAATAA-T
1 TTTATAATT
*
51597581 TTTATAAAT
1 TTTATAATT
*
51597590 TTTATTGATT
1 TTTA-TAATT
51597600 TTTAT--TT
1 TTTATAATT
*
51597607 TTTATCATT
1 TTTATAATT
51597616 TTT
1 TTT
51597619 TTCCACATGT
Statistics
Matches: 108, Mismatches: 19, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
7 7 0.06
8 15 0.14
9 54 0.50
10 21 0.19
11 11 0.10
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTATAATT
Found at i:51597526 original size:37 final size:36
Alignment explanation
Indices: 51597473--51597567 Score: 95
Period size: 38 Copynumber: 2.6 Consensus size: 36
51597463 CAATAAATTT
*
51597473 ATATTTTTATAAATTTTATATTTCTTTACA-TTTTTATA
1 ATATTTTTAT-GATTTTATATTT-TTTACAGTTTTTA-A
* * *
51597511 ATTTTTTTATGATTTTTATAATTTTTATAGTTTTTAA
1 ATATTTTTATGA-TTTTATATTTTTTACAGTTTTTAA
*
51597548 ATATTTTTATG-TTTTTTATT
1 ATATTTTTATGATTTTATATT
51597568 AAAATATAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
35 7 0.15
37 17 0.35
38 24 0.50
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.67
Consensus pattern (36 bp):
ATATTTTTATGATTTTATATTTTTTACAGTTTTTAA
Found at i:51597870 original size:10 final size:9
Alignment explanation
Indices: 51597855--51597942 Score: 54
Period size: 10 Copynumber: 9.0 Consensus size: 9
51597845 TTTAAAATAC
51597855 TTTTTTGAAA
1 TTTTTT-AAA
51597865 TTTTTTAAA
1 TTTTTTAAA
*
51597874 -TTTTAAAA
1 TTTTTTAAA
51597882 TATTTTTAAA
1 T-TTTTTAAA
51597892 TTTTTTTTAAAA
1 --TTTTTT-AAA
51597904 TGCTTTTTAAA
1 T--TTTTTAAA
*
51597915 TTTTTTTTAA
1 -TTTTTTAAA
*
51597925 -TTTTAAAA
1 TTTTTTAAA
51597933 TATTTTTAAA
1 T-TTTTTAAA
51597943 ATACTTTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
8 13 0.21
9 3 0.05
10 28 0.45
11 8 0.13
12 10 0.16
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:51597887 original size:18 final size:17
Alignment explanation
Indices: 51597857--51597895 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
51597847 TAAAATACTT
*
51597857 TTTTGAAATTTTTTAAA
1 TTTTAAAATTTTTTAAA
51597874 TTTTAAAATATTTTTAAA
1 TTTTAAAAT-TTTTTAAA
51597892 TTTT
1 TTTT
51597896 TTTTAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAAAATTTTTTAAA
Found at i:51597888 original size:11 final size:11
Alignment explanation
Indices: 51597830--51597951 Score: 75
Period size: 11 Copynumber: 11.6 Consensus size: 11
51597820 TTTATTTTTT
51597830 TATTTTTAAAA
1 TATTTTTAAAA
*
51597841 TACTTTTAAAA
1 TATTTTTAAAA
*
51597852 TACTTTTTTGAAA
1 TA--TTTTTAAAA
51597865 T-TTTTT--AA
1 TATTTTTAAAA
51597873 -A-TTTTAAAA
1 TATTTTTAAAA
*
51597882 TATTTTTAAAT
1 TATTTTTAAAA
*
51597893 TTTTTTTAAAA
1 TATTTTTAAAA
*
51597904 TGCTTTTT-AAA
1 T-ATTTTTAAAA
*
51597915 T-TTTTT---T
1 TATTTTTAAAA
*
51597922 TAATTTTAAAA
1 TATTTTTAAAA
51597933 TATTTTTAAAA
1 TATTTTTAAAA
51597944 TACTTTTT
1 TA-TTTTT
51597952 TAATTTTTGT
Statistics
Matches: 87, Mismatches: 11, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
7 5 0.06
8 6 0.07
9 7 0.08
10 6 0.07
11 45 0.52
12 10 0.11
13 8 0.09
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:51597914 original size:23 final size:22
Alignment explanation
Indices: 51597874--51597924 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
51597864 ATTTTTTAAA
51597874 TTTTAAAATATTTTTAAATTTT
1 TTTTAAAATATTTTTAAATTTT
*
51597896 TTTTAAAATGCTTTTTAAATTTT
1 TTTTAAAAT-ATTTTTAAATTTT
51597919 TTTTAA
1 TTTTAA
51597925 TTTTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAAAATATTTTTAAATTTT
Found at i:51597929 original size:40 final size:42
Alignment explanation
Indices: 51597885--51597977 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 42
51597875 TTTAAAATAT
* * *
51597885 TTTTAAATTTTTTTTAAAATGC-TTTTTAAATTTT-TTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTGTTTTAA
*
51597925 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTGTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTGTTTTAA
51597967 TTTTTAAAATA
1 -TTTTAAAATA
51597978 AATTTTTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 19 0.41
41 11 0.24
42 6 0.13
43 10 0.22
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (42 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAAATTTTGTTTTAA
Found at i:51597930 original size:17 final size:17
Alignment explanation
Indices: 51597908--51597941 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51597898 TTAAAATGCT
* *
51597908 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
51597925 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
51597942 AATACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:51597932 original size:51 final size:52
Alignment explanation
Indices: 51597830--51597950 Score: 174
Period size: 51 Copynumber: 2.3 Consensus size: 52
51597820 TTTATTTTTT
51597830 TATTTTTAAAATACTTTTAAAATACTTTTTTGAAATTTTTTAAATTTTAAAA
1 TATTTTTAAAATACTTTTAAAATACTTTTTTGAAATTTTTTAAATTTTAAAA
* ** * *
51597882 TATTTTTAAATTTTTTTTAAAATGC-TTTTT-AAATTTTTTTTAATTTTAAAA
1 TATTTTTAAAATACTTTTAAAATACTTTTTTGAAA-TTTTTTAAATTTTAAAA
51597933 TATTTTTAAAATACTTTT
1 TATTTTTAAAATACTTTT
51597951 TTAATTTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 3 0.05
51 36 0.60
52 21 0.35
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (52 bp):
TATTTTTAAAATACTTTTAAAATACTTTTTTGAAATTTTTTAAATTTTAAAA
Found at i:51602433 original size:9 final size:9
Alignment explanation
Indices: 51602419--51602462 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
51602409 AAAATCCAAC
51602419 TCTCTCAAT
1 TCTCTCAAT
51602428 TCTCTCTAA-
1 TCTCTC-AAT
*
51602437 ACTCTCAAT
1 TCTCTCAAT
51602446 TCTCTCAAT
1 TCTCTCAAT
*
51602455 TTTCTCAA
1 TCTCTCAA
51602463 GTCTTGTTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 2 0.07
9 26 0.87
10 2 0.07
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (9 bp):
TCTCTCAAT
Found at i:51605330 original size:14 final size:14
Alignment explanation
Indices: 51605311--51605337 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51605301 GTTTACATGT
51605311 AAAAGGTTTTATGG
1 AAAAGGTTTTATGG
51605325 AAAAGGTTTTATG
1 AAAAGGTTTTATG
51605338 TATTTTTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (14 bp):
AAAAGGTTTTATGG
Found at i:51605574 original size:10 final size:10
Alignment explanation
Indices: 51605559--51605584 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
51605549 TATTTTTATT
51605559 TTTAAAAATA
1 TTTAAAAATA
51605569 TTTAAAAATA
1 TTTAAAAATA
51605579 TTTAAA
1 TTTAAA
51605585 TATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:51605685 original size:13 final size:14
Alignment explanation
Indices: 51605669--51605710 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
51605659 TTTCAATTTT
51605669 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
51605682 ATTTTAAAAATGATA
1 ATTTTAATAAT-ATA
51605697 ATTTTAAATAATAT
1 ATTTT-AATAATAT
51605711 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:51608580 original size:110 final size:109
Alignment explanation
Indices: 51608451--51608661 Score: 280
Period size: 110 Copynumber: 1.9 Consensus size: 109
51608441 AACTTTGATC
*
51608451 GGCTCACGATGTTGCTCACACAAGCTACAGAGAATCCGCAACAGATGTAAGATCTTAAGCCATCG
1 GGCTCACGATGTTGCTCACACAAGCTACAGAGAATCCGCAACAGATGCAAGATC-TAAGCCATCG
* * *
51608516 TTACGGCCTGTATCACCGATACACAGTACCTGTTAAAAAACCATT
65 CTACGGCCTATATCACCGATACACAGTACCTGATAAAAAACCATT
* ** * * *
51608561 GGCTCAC-AGTGTTGCTCACACAGGCTGTAGAGAATCTGCAACAGATGCAGGATCTCAGCCATCG
1 GGCTCACGA-TGTTGCTCACACAAGCTACAGAGAATCCGCAACAGATGCAAGATCTAAGCCATCG
* **
51608625 CTACGGTCTATATCACCGATACGTAGTACCTGATAAA
65 CTACGGCCTATATCACCGATACACAGTACCTGATAAA
51608662 TGATCACCAG
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
109 41 0.47
110 46 0.53
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (109 bp):
GGCTCACGATGTTGCTCACACAAGCTACAGAGAATCCGCAACAGATGCAAGATCTAAGCCATCGC
TACGGCCTATATCACCGATACACAGTACCTGATAAAAAACCATT
Found at i:51608750 original size:40 final size:41
Alignment explanation
Indices: 51608675--51608788 Score: 131
Period size: 40 Copynumber: 2.8 Consensus size: 41
51608665 TCACCAGCTT
* * * * * *
51608675 AAAGCCTGATAGACAACATCGACACAAGGCATGCTAGGCAC
1 AAAGCCTGATAAATAACAACGGCACAAAGCCTGCTAGGCAC
* * *
51608716 AAAGCTTGATAAA-CACAATGGCACAAAGCCTGCTAGGCAC
1 AAAGCCTGATAAATAACAACGGCACAAAGCCTGCTAGGCAC
*
51608756 AAAGCCTGATAAATAACACCGGCACAAAGCCTG
1 AAAGCCTGATAAATAACAACGGCACAAAGCCTG
51608789 ATGTTCAGGT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 33 0.55
41 27 0.45
ACGTcount: A:0.40, C:0.26, G:0.20, T:0.13
Consensus pattern (41 bp):
AAAGCCTGATAAATAACAACGGCACAAAGCCTGCTAGGCAC
Found at i:51614207 original size:17 final size:18
Alignment explanation
Indices: 51614185--51614224 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
51614175 GGTACAATGG
51614185 TAAAATATATTGTATTC-
1 TAAAATATATTGTATTCT
51614202 TAAAATATATTGTATTCT
1 TAAAATATATTGTATTCT
51614220 TAAAA
1 TAAAA
51614225 GAGTAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (18 bp):
TAAAATATATTGTATTCT
Found at i:51624424 original size:26 final size:27
Alignment explanation
Indices: 51624295--51624492 Score: 106
Period size: 26 Copynumber: 7.4 Consensus size: 27
51624285 CTATCTTATG
**
51624295 TGGGAAGTCTGCAAGGA-TCATCTATTA
1 TGGGAAGTCCACAAGGACT-ATCTATTA
* *
51624322 TGTGGGAAGTCCACAGGGACTATCTATTG
1 --TGGGAAGTCCACAAGGACTATCTATTA
* ** * *
51624351 T-GGAAATCTGCAAGAACTATCTATTG
1 TGGGAAGTCCACAAGGACTATCTATTA
* * * * *
51624377 T-GGAAATTCATAATGACCATCTATTA
1 TGGGAAGTCCACAAGGACTATCTATTA
51624403 TGGG-AGTCCACAAGGACTATCTA--A
1 TGGGAAGTCCACAAGGACTATCTATTA
* * *
51624427 TGGGGAAATTCCATCAA-GACTATCTAATG
1 T-GGG-AAGTCCA-CAAGGACTATCTATTA
* *
51624456 TGGGAAGTCCGCAAGGACTATCT-TATG
1 TGGGAAGTCCACAAGGACTATCTAT-TA
51624483 TGGGAAGTCC
1 TGGGAAGTCC
51624493 GTCGGAACTA
Statistics
Matches: 132, Mismatches: 27, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
24 2 0.02
25 3 0.02
26 56 0.42
27 42 0.32
28 6 0.05
29 22 0.17
30 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (27 bp):
TGGGAAGTCCACAAGGACTATCTATTA
Found at i:51624477 original size:54 final size:54
Alignment explanation
Indices: 51624215--51624492 Score: 185
Period size: 54 Copynumber: 5.2 Consensus size: 54
51624205 TTGTATATAT
* * * * * * * * *
51624215 GGAAAGTCCGTCAGGACTATCTTATATGAGAAGCCCGCAAGGACTATCCATTGA
1 GGAAAGTCCATCAAGACTATCTAATGTGGGAAGTCCGCAAGGACTATCTAATGG
* ** * *
51624269 AGAAAGTCTGTCAAGACTATCTTATGTGGGAAGTCTGCAAGGA-TCATCTATTATGTG
1 GGAAAGTCCATCAAGACTATCTAATGTGGGAAGTCCGCAAGGACT-ATCTA--ATG-G
* * * * * * *
51624326 GG-AAGTCCA-CAGGGACTATCTATTGT-GGAAATCTGCAAGAACTATCTATTGT
1 GGAAAGTCCATCA-AGACTATCTAATGTGGGAAGTCCGCAAGGACTATCTAATGG
* * * * *
51624378 GGAAA-TTCAT-AATGACCATCTATTATGGG-AGTCCACAAGGACTATCTAATGG
1 GGAAAGTCCATCAA-GACTATCTAATGTGGGAAGTCCGCAAGGACTATCTAATGG
* *
51624430 GGAAATTCCATCAAGACTATCTAATGTGGGAAGTCCGCAAGGACTATCTTATGTG
1 GGAAAGTCCATCAAGACTATCTAATGTGGGAAGTCCGCAAGGACTATCTAATG-G
51624485 GG-AAGTCC
1 GGAAAGTCC
51624493 GTCGGAACTA
Statistics
Matches: 173, Mismatches: 37, Indels: 28
0.73 0.16 0.12
Matches are distributed among these distances:
52 39 0.23
53 24 0.14
54 67 0.39
55 23 0.13
56 19 0.11
57 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (54 bp):
GGAAAGTCCATCAAGACTATCTAATGTGGGAAGTCCGCAAGGACTATCTAATGG
Found at i:51624492 original size:27 final size:27
Alignment explanation
Indices: 51624218--51624493 Score: 137
Period size: 27 Copynumber: 10.3 Consensus size: 27
51624208 TATATATGGA
* *
51624218 AAGTCCGTC-AGGACTATCTTATATGAG
1 AAGTCCG-CAAGGACTATCTTATGTGGG
* * *
51624245 AAGCCCGCAAGGACTATC-CAT-TGAAGA
1 AAGTCCGCAAGGACTATCTTATGTG--GG
*
51624272 AAGTCTGTCAA-GACTATCTTATGTGGG
1 AAGTCCG-CAAGGACTATCTTATGTGGG
*
51624299 AAGTCTGCAAGGA-TCATCTATTATGTGGG
1 AAGTCCGCAAGGACT-ATC--TTATGTGGG
* *
51624328 AAGTCCACAGGGACTATC-TAT-TGTGG
1 AAGTCCGCAAGGACTATCTTATGTG-GG
* * *
51624354 AAATCTGCAAGAACTATC-TAT-TGTGG
1 AAGTCCGCAAGGACTATCTTATGTG-GG
* * ** * * *
51624380 AAATTCATAATGACCATC-TATTATGGG
1 AAGTCCGCAAGGACTATCTTA-TGTGGG
* *
51624407 -AGTCCACAAGGACTATCTAATG-GGG
1 AAGTCCGCAAGGACTATCTTATGTGGG
* * *
51624432 AAATTCCATCAA-GACTATCTAATGTGGG
1 -AAGTCC-GCAAGGACTATCTTATGTGGG
51624460 AAGTCCGCAAGGACTATCTTATGTGGG
1 AAGTCCGCAAGGACTATCTTATGTGGG
51624487 AAGTCCG
1 AAGTCCG
51624494 TCGGAACTAT
Statistics
Matches: 194, Mismatches: 35, Indels: 40
0.72 0.13 0.15
Matches are distributed among these distances:
25 7 0.04
26 62 0.32
27 87 0.45
28 13 0.07
29 24 0.12
30 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (27 bp):
AAGTCCGCAAGGACTATCTTATGTGGG
Found at i:51625831 original size:7 final size:7
Alignment explanation
Indices: 51625801--51625838 Score: 55
Period size: 6 Copynumber: 5.9 Consensus size: 7
51625791 TCTATAAAAA
51625801 AAATG-G
1 AAATGAG
51625807 AAATG-G
1 AAATGAG
51625813 AAATGA-
1 AAATGAG
51625819 AAATGAG
1 AAATGAG
51625826 AAATGAG
1 AAATGAG
51625833 AAATGA
1 AAATGA
51625839 TCCATTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:51629969 original size:28 final size:28
Alignment explanation
Indices: 51629930--51629993 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
51629920 CTATACAGTA
* *
51629930 ACAGT-ACAGTGTAGGCCTTAGATCGAT
1 ACAGTAACAGTGTAGGCCTTAGACCAAT
* *
51629957 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTAGGCCTTAGACCAAT
51629985 ACAGTAACA
1 ACAGTAACA
51629994 ATACAATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTAGGCCTTAGACCAAT
Found at i:51630128 original size:26 final size:26
Alignment explanation
Indices: 51630098--51630152 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
51630088 AATACACTAA
* *
51630098 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGACAGTAACAG
51630124 TATCGCAGCAAAGCTGACAGTAACAG
1 TATCGCAGCAAAGCTGACAGTAACAG
51630150 TAT
1 TAT
51630153 ATGTGGCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGACAGTAACAG
Found at i:51630356 original size:27 final size:27
Alignment explanation
Indices: 51630326--51630493 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
51630316 GGGTATAACA
* *
51630326 GTCATTTTATCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
51630353 GTCATTTTACCATATG-GGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
51630379 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
51630406 ATCATTTTACCCT-TCGAAGGTATTTCG
1 GTCATTTTACCCTAT-GAGGGTATTTCG
* *
51630433 GTCATTTTATCCTTTGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
51630460 ATCATTTTACCCT-TCGAAGGTATTTCG
1 GTCATTTTACCCTAT-GAGGGTATTTCG
51630487 GTCATTT
1 GTCATTT
51630494 GCCCACGAAT
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
26 27 0.22
27 95 0.77
28 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:51630454 original size:54 final size:54
Alignment explanation
Indices: 51630326--51630493 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
51630316 GGGTATAACA
* * * *
51630326 GTCATTTTATCCTATGAGGGTATTTTGGTCATTTTACCATAT-G-GGGTATTTTG
1 GTCATTTTATCCTATGAGGGTATTTTGATCATTTTACCCT-TCGAAGGTATTTCG
* *
51630379 GTCATTTTACCCTATGGGGGTATTTTGATCATTTTACCCTTCGAAGGTATTTCG
1 GTCATTTTATCCTATGAGGGTATTTTGATCATTTTACCCTTCGAAGGTATTTCG
* *
51630433 GTCATTTTATCCTTTGAGGGTATTTCGATCATTTTACCCTTCGAAGGTATTTCG
1 GTCATTTTATCCTATGAGGGTATTTTGATCATTTTACCCTTCGAAGGTATTTCG
51630487 GTCATTT
1 GTCATTT
51630494 GCCCACGAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
52 1 0.01
53 37 0.36
54 65 0.63
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (54 bp):
GTCATTTTATCCTATGAGGGTATTTTGATCATTTTACCCTTCGAAGGTATTTCG
Found at i:51637686 original size:26 final size:26
Alignment explanation
Indices: 51637657--51637711 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
51637647 AACACACCAA
* *
51637657 TATCGCAGTAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGCTACCAGTAACAG
* *
51637683 TATCGCCGCGAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
51637709 TAT
1 TAT
51637712 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTAACAG
Found at i:51637916 original size:27 final size:27
Alignment explanation
Indices: 51637889--51638008 Score: 156
Period size: 27 Copynumber: 4.4 Consensus size: 27
51637879 GGCATAACAG
51637889 TCATTTTACCCTATG-GGTGTATTTC-A
1 TCATTTTACCCTATGAGG-GTATTTCGA
*
51637915 GTCATTTTACCCTATGGGGGTATTTCGA
1 -TCATTTTACCCTATGAGGGTATTTCGA
* *
51637943 TCATTTTATCCTTTGAGGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
*
51637970 TCATTTTATCCT-TCGAGGGTATTTCGA
1 TCATTTTACCCTAT-GAGGGTATTTCGA
51637997 TCATTTTACCCT
1 TCATTTTACCCT
51638009 TTAAAGCGAT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
26 1 0.01
27 82 0.95
28 3 0.03
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Found at i:51643689 original size:12 final size:12
Alignment explanation
Indices: 51643672--51643696 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51643662 CACCAATTTA
51643672 TCAAGAATTAAT
1 TCAAGAATTAAT
51643684 TCAAGAATTAAT
1 TCAAGAATTAAT
51643696 T
1 T
51643697 GATTTGAACA
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TCAAGAATTAAT
Found at i:51648898 original size:28 final size:27
Alignment explanation
Indices: 51648865--51648953 Score: 106
Period size: 28 Copynumber: 3.2 Consensus size: 27
51648855 GTTAGATGCA
* *
51648865 AAATCACATTGGTGAATTCATAGATACG
1 AAATCACATAGG-AAATTCATAGATACG
**
51648893 TGATCACATAGGCAAATTCATAGATACG
1 AAATCACATAGG-AAATTCATAGATACG
*
51648921 AAATCACATAGGCAGATTCATAGATACG
1 AAATCACATAGG-AAATTCATAGATACG
51648949 AAATC
1 AAATC
51648954 TTATATGTGA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (27 bp):
AAATCACATAGGAAATTCATAGATACG
Found at i:51648967 original size:28 final size:29
Alignment explanation
Indices: 51648879--51648989 Score: 99
Period size: 28 Copynumber: 3.9 Consensus size: 29
51648869 CACATTGGTG
** *
51648879 AATTCATAGATACGTGATCACATA-G-GC
1 AATTCATAGATACGAAATCATATATGTGC
*
51648906 AAATTCATAGATACGAAATCACATA-G-GC
1 -AATTCATAGATACGAAATCATATATGTGC
*
51648934 AGATTCATAGATACGAAATCTTATATGTG-
1 A-ATTCATAGATACGAAATCATATATGTGC
*
51648963 AATTCATACG-TACGGAATCATATATGT
1 AATTCATA-GATACGAAATCATATATGT
51648990 ATATTTATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.01
28 68 0.93
29 3 0.04
30 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (29 bp):
AATTCATAGATACGAAATCATATATGTGC
Found at i:51649167 original size:37 final size:37
Alignment explanation
Indices: 51649125--51649209 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
51649115 CTGACAAACG
* *
51649125 ATCTTAGCTTGAAACGTAAGGATAAGTCCAACGGACT
1 ATCTTAGCTTGAAACATAAGGACAAGTCCAACGGACT
* * **
51649162 GTCTTAGCTTGAAACATATGGACAAGTCCAGTGGACT
1 ATCTTAGCTTGAAACATAAGGACAAGTCCAACGGACT
*
51649199 ATCTTATCTTG
1 ATCTTAGCTTG
51649210 CGTATGTCCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (37 bp):
ATCTTAGCTTGAAACATAAGGACAAGTCCAACGGACT
Found at i:51651602 original size:13 final size:13
Alignment explanation
Indices: 51651584--51651630 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
51651574 AGTTAATTCC
51651584 ATTTCATTTTCTA
1 ATTTCATTTTCTA
*
51651597 ATTTCA-TTTC-C
1 ATTTCATTTTCTA
51651608 ATTTCATTTTCTA
1 ATTTCATTTTCTA
51651621 ATTTCATTTT
1 ATTTCATTTT
51651631 TCATATCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 6 0.20
12 8 0.27
13 16 0.53
ACGTcount: A:0.21, C:0.17, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTCATTTTCTA
Found at i:51651607 original size:24 final size:24
Alignment explanation
Indices: 51651580--51651629 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
51651570 TGCAAGTTAA
51651580 TTCCATTTCATTTTCTAATTTCAT
1 TTCCATTTCATTTTCTAATTTCAT
51651604 TTCCATTTCATTTTCTAATTTCAT
1 TTCCATTTCATTTTCTAATTTCAT
51651628 TT
1 TT
51651630 TTCATATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCCATTTCATTTTCTAATTTCAT
Found at i:51653880 original size:27 final size:27
Alignment explanation
Indices: 51653850--51653942 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
51653840 GTTACAATGA
* * *
51653850 GCCACTATCACTGAGTTGTACCGAGGT
1 GCCACTATCACTGATTTGCACCGAAGT
* * *
51653877 GCCATTATCATTGATTTGCACTGAAGT
1 GCCACTATCACTGATTTGCACCGAAGT
* * *
51653904 ACCACTATCATTGATTTGCACCGAAAT
1 GCCACTATCACTGATTTGCACCGAAGT
*
51653931 GCCACTGTCACT
1 GCCACTATCACT
51653943 ACGTGCGCTG
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (27 bp):
GCCACTATCACTGATTTGCACCGAAGT
Found at i:51655703 original size:38 final size:38
Alignment explanation
Indices: 51655661--51655747 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
51655651 ATATACTCAG
* *
51655661 TAGATAACCATTTTCATGGTGTCGTTTCGTGGAGATAA
1 TAGATAACCATTTTCATGGTGTCGCTTCGTAGAGATAA
*
51655699 TAGATAACCATTTTCATGGTGTCGCTTCGTAGAGATAG
1 TAGATAACCATTTTCATGGTGTCGCTTCGTAGAGATAA
51655737 TAGATAACCAT
1 TAGATAACCAT
51655748 CTTCTAGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (38 bp):
TAGATAACCATTTTCATGGTGTCGCTTCGTAGAGATAA
Found at i:51658013 original size:18 final size:18
Alignment explanation
Indices: 51657986--51658045 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
51657976 CATTAAAAAG
*
51657986 TTATGGTTTTTATAACTT
1 TTATGATTTTTATAACTT
51658004 TTATGATTTTTTTTATAACTT
1 TTATGA---TTTTTATAACTT
* *
51658025 CTAATGA-TTTTATAAGTT
1 -TTATGATTTTTATAACTT
51658043 TTA
1 TTA
51658046 ATATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.06
18 15 0.44
21 12 0.35
22 5 0.15
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.60
Consensus pattern (18 bp):
TTATGATTTTTATAACTT
Found at i:51658018 original size:21 final size:22
Alignment explanation
Indices: 51657992--51658035 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
51657982 AAAGTTATGG
*
51657992 TTTTTATAACTT-TTATGATTT
1 TTTTTATAACTTCTAATGATTT
51658013 TTTTTATAACTTCTAATGATTT
1 TTTTTATAACTTCTAATGATTT
51658035 T
1 T
51658036 ATAAGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTTATAACTTCTAATGATTT
Found at i:51658047 original size:18 final size:17
Alignment explanation
Indices: 51658014--51658052 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
51658004 TTATGATTTT
51658014 TTTTATAACTTCTAATGA
1 TTTTATAACTTCTAAT-A
* *
51658032 TTTTATAAGTTTTAATA
1 TTTTATAACTTCTAATA
51658049 TTTT
1 TTTT
51658053 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTTATAACTTCTAATA
Found at i:51672234 original size:39 final size:39
Alignment explanation
Indices: 51672180--51672258 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
51672170 CCTAGCTTAT
*
51672180 CAATTGCATACTTCTTGAACAAACAATTTTAGTATTACC
1 CAATTGCATACTTCTTGAACAAACAATTATAGTATTACC
*
51672219 CAATTGCATACTTCTTGAGCAAACAATTATAGTATTACC
1 CAATTGCATACTTCTTGAACAAACAATTATAGTATTACC
51672258 C
1 C
51672259 CCGGGAGACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (39 bp):
CAATTGCATACTTCTTGAACAAACAATTATAGTATTACC
Found at i:51673605 original size:10 final size:10
Alignment explanation
Indices: 51673589--51673624 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
51673579 AAAATATAAA
51673589 AAAAATCTTT
1 AAAAATCTTT
*
51673599 AACAATCTTT
1 AAAAATCTTT
51673609 AAAAATCTTT
1 AAAAATCTTT
51673619 AAAAAT
1 AAAAAT
51673625 TCAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAATCTTT
Found at i:51673632 original size:20 final size:20
Alignment explanation
Indices: 51673587--51673633 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
51673577 CAAAAATATA
*
51673587 AAAAAAATCTTTAACAATCT
1 AAAAAAATCTTTAAAAATCT
**
51673607 TTAAAAATCTTTAAAAAT-T
1 AAAAAAATCTTTAAAAATCT
*
51673626 CAAAAAAT
1 AAAAAAAT
51673634 TAATTAGGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAAATCTTTAAAAATCT
Found at i:51678389 original size:18 final size:18
Alignment explanation
Indices: 51678354--51678395 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
51678344 TCGTGGTAGT
*
51678354 TGATGGTGGTAGGATGGC
1 TGATGGTGGTACGATGGC
*
51678372 TGATGGTGGTACGCTGGC
1 TGATGGTGGTACGATGGC
*
51678390 AGATGG
1 TGATGG
51678396 GATCATCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.48, T:0.26
Consensus pattern (18 bp):
TGATGGTGGTACGATGGC
Found at i:51688457 original size:18 final size:17
Alignment explanation
Indices: 51688435--51688484 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
51688425 TTCAGATTTC
*
51688435 CTTTTCTTTTTCTTTTT
1 CTTTTTTTTTTCTTTTT
**
51688452 CTTTTTTTTTAATTTTCT
1 CTTTTTTTTTTCTTTT-T
51688470 CTTTTATTTTTTCTT
1 CTTTT-TTTTTTCTT
51688485 CTTCCCCTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.50
18 6 0.23
19 7 0.27
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTTTTTTTTCTTTTT
Found at i:51689897 original size:29 final size:29
Alignment explanation
Indices: 51689860--51689924 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 29
51689850 AATTAACTGA
*
51689860 AATTTTGAAACCT-TTAACTGAACCGAAATT
1 AATTTTGAAAACTATTAACTG-ACCG-AATT
51689890 -ATTTTGAAAACTATTAACTGACCGAATT
1 AATTTTGAAAACTATTAACTGACCGAATT
51689918 AATTTTG
1 AATTTTG
51689925 GTTAATTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 4 0.12
29 21 0.66
30 7 0.22
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (29 bp):
AATTTTGAAAACTATTAACTGACCGAATT
Found at i:51694104 original size:18 final size:18
Alignment explanation
Indices: 51694081--51694117 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51694071 CAACCAGAAC
51694081 ACAAACCCACAAAATCAA
1 ACAAACCCACAAAATCAA
* *
51694099 ACAAACCCTCATAATCAA
1 ACAAACCCACAAAATCAA
51694117 A
1 A
51694118 ATCAACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (18 bp):
ACAAACCCACAAAATCAA
Found at i:51697215 original size:108 final size:108
Alignment explanation
Indices: 51697103--51697297 Score: 259
Period size: 108 Copynumber: 1.8 Consensus size: 108
51697093 TAGGAGGAAT
* * *** *
51697103 TAGTGTTAATTAAAAAAAATATTTTTTTGGGTGCCGCCTACCTGTCA-AGCTGTATCGGTGTCAG
1 TAGTGTCAATTAAAAAAAATATTTTTTTGGATGCCGCCTACCTGTCAGA-CAACATCGATGTCAG
*
51697167 TAAAAATTCAA-TTTTTTTAGGTGCGCCGGTCTATTAGGTGACAC
65 TAAAAATT-AACTGTTTTTAGGTGCGCCGGTCTATTAGGTGACAC
* * * *
51697211 TAGTGTCAGTTAAAAAAAATATTTTTTTGGATTCTGCCTACTTGTCAGACAACATCGATGTCAGT
1 TAGTGTCAATTAAAAAAAATATTTTTTTGGATGCCGCCTACCTGTCAGACAACATCGATGTCAGT
51697276 AAAAATTAACTGTTTTTAGGTG
66 AAAAATTAACTGTTTTTAGGTG
51697298 TTGCTAATTT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
107 2 0.03
108 71 0.96
109 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.37
Consensus pattern (108 bp):
TAGTGTCAATTAAAAAAAATATTTTTTTGGATGCCGCCTACCTGTCAGACAACATCGATGTCAGT
AAAAATTAACTGTTTTTAGGTGCGCCGGTCTATTAGGTGACAC
Found at i:51699834 original size:18 final size:18
Alignment explanation
Indices: 51699797--51699834 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
51699787 TAATTGATGA
51699797 ATTTAAAGTATTAGTTGTT
1 ATTTAAAGTATTA-TTGTT
51699816 ATTTATAAGTATT-TTGTT
1 ATTTA-AAGTATTATTGTT
51699834 A
1 A
51699835 AGTAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (18 bp):
ATTTAAAGTATTATTGTT
Found at i:51700531 original size:21 final size:21
Alignment explanation
Indices: 51700505--51700563 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
51700495 CGAGTGGATC
51700505 AGCTCTTATGAGCTTCTGCTT
1 AGCTCTTATGAGCTTCTGCTT
51700526 AGCTCTTATGAGCTTCTGCTT
1 AGCTCTTATGAGCTTCTGCTT
51700547 AGCTCTTATGAGCTTCT
1 AGCTCTTATGAGCTTCT
51700564 CTTGGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGCTT
Found at i:51703436 original size:9 final size:9
Alignment explanation
Indices: 51703422--51703451 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
51703412 GAAAGAATAA
51703422 GAAAAAAGG
1 GAAAAAAGG
*
51703431 GAAAAAAAG
1 GAAAAAAGG
51703440 GAAAAAAGG
1 GAAAAAAGG
51703449 GAA
1 GAA
51703452 TTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (9 bp):
GAAAAAAGG
Found at i:51710921 original size:43 final size:42
Alignment explanation
Indices: 51710798--51710928 Score: 124
Period size: 43 Copynumber: 3.0 Consensus size: 42
51710788 AACTCGTACA
* * * *
51710798 ATGCCAACGTCCCAGACGTGGTCTTGCATGTAATCACATATCG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAA-CACATATCG
51710841 ATGCC-ACTGTCCCAGAACA-GAGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCA-AACATG-GTCTTACACGT-AACACATA-TCG
* *
51710885 ATGCCAACGTCCCATACATGGTCTTACACGATAACACATCTCG
1 ATGCCAACGTCCCAAACATGGTCTTACACG-TAACACATATCG
51710928 A
1 A
51710929 AAATCCTATG
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
42 2 0.03
43 36 0.49
44 31 0.42
45 4 0.05
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAACACATATCG
Found at i:51719558 original size:24 final size:25
Alignment explanation
Indices: 51719531--51719578 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
51719521 CTATGTTAGA
51719531 TGCA-AGATAATAAACTAGTTATAT
1 TGCACAGATAATAAACTAGTTATAT
*
51719555 TGCACGATATAATAAACTAGTTAT
1 TGCAC-AGATAATAAACTAGTTAT
51719579 TTAACTATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
26 17 0.81
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (25 bp):
TGCACAGATAATAAACTAGTTATAT
Found at i:51719812 original size:12 final size:12
Alignment explanation
Indices: 51719795--51719848 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
51719785 GATAATTACA
51719795 AATGTAAGAAAG
1 AATGTAAGAAAG
51719807 AATGTAAGAAAG
1 AATGTAAGAAAG
*
51719819 AAAT-TACAGAAACA
1 -AATGTA-AGAAA-G
*
51719833 AATGTAAGAAAT
1 AATGTAAGAAAG
51719845 AATG
1 AATG
51719849 GCTATGCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
12 18 0.50
13 16 0.44
14 2 0.06
ACGTcount: A:0.59, C:0.04, G:0.19, T:0.19
Consensus pattern (12 bp):
AATGTAAGAAAG
Found at i:51719842 original size:13 final size:13
Alignment explanation
Indices: 51719792--51719843 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
51719782 AAAGATAATT
51719792 ACAAATGTAAGAA
1 ACAAATGTAAGAA
*
51719805 A-GAATGTAAGAA
1 ACAAATGTAAGAA
*
51719817 AGAAAT-TACAGAA
1 ACAAATGTA-AGAA
51719830 ACAAATGTAAGAA
1 ACAAATGTAAGAA
51719843 A
1 A
51719844 TAATGGCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 13 0.39
13 18 0.55
14 2 0.06
ACGTcount: A:0.62, C:0.06, G:0.17, T:0.15
Consensus pattern (13 bp):
ACAAATGTAAGAA
Found at i:51720956 original size:20 final size:20
Alignment explanation
Indices: 51720931--51720971 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
51720921 CTGTACTGGG
51720931 ATATCAGAGAAAGAAAAAAT
1 ATATCAGAGAAAGAAAAAAT
51720951 ATATCAGAGAAAGAAAAAAT
1 ATATCAGAGAAAGAAAAAAT
51720971 A
1 A
51720972 AAACAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
ATATCAGAGAAAGAAAAAAT
Found at i:51721239 original size:23 final size:23
Alignment explanation
Indices: 51721213--51721261 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
51721203 CAAGTTGGGA
51721213 GTGGGGGGGACGGGAAAAGAAAT
1 GTGGGGGGGACGGGAAAAGAAAT
51721236 GTGGGGGGGACGGGAAAAGAAAT
1 GTGGGGGGGACGGGAAAAGAAAT
51721259 GTG
1 GTG
51721262 TTTAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.53, T:0.10
Consensus pattern (23 bp):
GTGGGGGGGACGGGAAAAGAAAT
Found at i:51722897 original size:42 final size:40
Alignment explanation
Indices: 51722740--51722901 Score: 115
Period size: 37 Copynumber: 4.0 Consensus size: 40
51722730 TGTGTAGGTT
51722740 TTATTTT-TTTGTGTCTTATTTATTTTATTTATT-TGCTTA
1 TTATTTTATTT-TGTCTTATTTATTTTATTTATTATGCTTA
* *
51722779 TCATTTTTATTTTGT-TT-TTT-TTTTATTTAATGATGCTT-
1 TTA-TTTTATTTTGTCTTATTTATTTTATTT-ATTATGCTTA
* * *
51722817 TTATTTTATTTTATTTTATTCTTGGCTTTTATTGTTATTAT-CATTA
1 TTATTTTATTTTGTCTTA-T-TT--ATTTTA-T-TTATTATGC-TTA
51722863 TTATTATTATTTGTGTCTTATTTATTTTATTTATT-TGCT
1 TTATT-TTATTT-TGTCTTATTTATTTTATTTATTATGCT
51722902 AATCCTTCCT
Statistics
Matches: 97, Mismatches: 8, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
37 18 0.19
38 9 0.09
39 9 0.09
40 8 0.08
41 7 0.07
42 6 0.06
43 1 0.01
44 11 0.11
45 7 0.07
46 9 0.09
47 7 0.07
48 5 0.05
ACGTcount: A:0.17, C:0.06, G:0.07, T:0.70
Consensus pattern (40 bp):
TTATTTTATTTTGTCTTATTTATTTTATTTATTATGCTTA
Found at i:51726730 original size:179 final size:179
Alignment explanation
Indices: 51726430--51727506 Score: 1631
Period size: 179 Copynumber: 6.0 Consensus size: 179
51726420 ACAGATTGGT
*
51726430 GAAGCCACAATCCTTATCTCCCTGAAGTTGTAGTGGAGCAGGATAAAAATACACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
*
51726495 CCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGAAGT
66 CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGAAGT
* * *
51726560 AGATCGAAGCTACAAATCTCTTCTCCTTGAAATTACATTGGAGAAGATC
131 AGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATC
* * *
51726609 GAAGCCACAATCCTTATCTCCCTGAGGTTGCATTGGAGCAGGACAAAAATACACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
* * ** *
51726674 CCCTGAAGTTACAGTAGAGCAGGTTGAACTTATAAATTCTTATCTCCTTGAAGTTCCAGC-AGAT
66 CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGA-AG
* * *
51726738 TAAATCGAAGCTTCAAATCTCTTCTCCCTAAAATTACATTGGAGAAGATC
130 TAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATC
* *
51726788 GAAGCCACAATCCTTATCTCCCTGAAGTTGTAATGGAGCAGGATAAAAATACACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
*
51726853 CCTTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCA--GAAGT
66 CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGAA--
* *
51726916 GTAGATCAAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATC
129 GTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATC
51726967 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
** * * *
51727032 TTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTACAGCGGAGT
66 CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGAAGT
* * * * *
51727097 AGATTGATGCTACAAATCTCTTCTCCCTGAAATTATATTGGAGCAGATA
131 AGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATC
*
51727146 GAAGCCACAATCCTTACCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
* *
51727211 CCATGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGTGGAA-
66 CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAG-CGAAG
*
51727275 TAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTAGAGCAGATC
130 TAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATC
* *
51727325 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAAATATACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
* * * * * * * ** *
51727390 CGCTGAAATTGCAGTGGAGGAGGTTGAAATTACCAATTCTTATCTCTTTGGAGTTATAGCGGAGT
66 CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGAAGT
* * * *
51727455 AGATCGAAGCTACAAGTCTGTTCTCCCTAAAATTACATTAGAGCGGATC
131 AGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATC
51727504 GAA
1 GAA
51727507 ACACCAATTC
Statistics
Matches: 816, Mismatches: 74, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
177 1 0.00
178 4 0.00
179 807 0.99
180 2 0.00
181 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (179 bp):
GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGAAGT
AGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAGCAGATC
Found at i:51726849 original size:46 final size:45
Alignment explanation
Indices: 51726793--51727408 Score: 290
Period size: 44 Copynumber: 13.7 Consensus size: 45
51726783 AGATCGAAGC
* ** *
51726793 CACAATCCTTATCTCCCTGAAGTTGTAATGGAGCAGGATAAAAATA
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGAT-AAAATA
* * **
51726839 CACAAACCTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGTTA
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGAT-AAAATA
** * * ** * * * *
51726885 C-CAATTCTTATCTCCTTGAAGTTCCAGAAGTGTA-GATCAAA-G
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGATAAAATA
* * * ** **
51726927 CTACAAATCTCT-TCTCCCTGAAATTACATTGGAGCA-GATCGAAGC
1 C-ACAAACCT-TATCTCCCTGAAGTTACAGTGGAGCAGGATAAAATA
* *
51726972 CACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATA
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGAT-AAAATA
** * * **
51727018 CACAAACCTTATCTTTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGAT-AAAATA
** * * * ** *
51727064 C-CAATTCTTATCTCCTTGAAGTTACAGCGGAGTA-GAT-TGATG
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGATAAAATA
* * * * * **
51727106 CTACAAATCTCT-TCTCCCTGAAATTATATTGGAGCA-GATAGAAGC
1 C-ACAAACCT-TATCTCCCTGAAGTTACAGTGGAGCAGGATAAAATA
* * *
51727151 CACAATCCTTACCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATA
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGAT-AAAATA
* * **
51727197 CACAAACCTTATCTCCATGAAGTTACAGTGGAGCAGGTTGAAGTTA
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGAT-AAAATA
** * * ** ** *
51727243 C-CAATTCTTATCTCCTTGAAGTTCCAGTGGAATA-GATCGAA-G
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGATAAAATA
* * * * * ** **
51727285 CTACAAATCTCT-TCTCCCTAAAATTACATTAGAGCA-GATCGAAGC
1 C-ACAAACCT-TATCTCCCTGAAGTTACAGTGGAGCAGGATAAAATA
* * *
51727330 CACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAAATA
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGAT-AAAATA
* * * *
51727376 TACAAACCTTATCTCGCTGAAATTGCAGTGGAG
1 CACAAACCTTATCTCCCTGAAGTTACAGTGGAG
51727409 GAGGTTGAAA
Statistics
Matches: 423, Mismatches: 126, Indels: 42
0.72 0.21 0.07
Matches are distributed among these distances:
42 5 0.01
43 4 0.01
44 167 0.39
45 94 0.22
46 153 0.36
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (45 bp):
CACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGATAAAATA
Found at i:51728971 original size:12 final size:13
Alignment explanation
Indices: 51728956--51728984 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
51728946 TTTGCTTATC
51728956 ATTTTTATTTTG-
1 ATTTTTATTTTGT
51728968 ATTTTTATTTTGT
1 ATTTTTATTTTGT
51728981 ATTT
1 ATTT
51728985 AATGATGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (13 bp):
ATTTTTATTTTGT
Found at i:51736950 original size:26 final size:26
Alignment explanation
Indices: 51736913--51736964 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
51736903 AAAGGGGCAT
*
51736913 CATCAGTGAAGTCCTCGAGTTCATTC
1 CATCAGTAAAGTCCTCGAGTTCATTC
*
51736939 CATCAGTAAAGTCCTCGGGTTCATTC
1 CATCAGTAAAGTCCTCGAGTTCATTC
51736965 TGAGAGTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (26 bp):
CATCAGTAAAGTCCTCGAGTTCATTC
Found at i:51737987 original size:25 final size:26
Alignment explanation
Indices: 51737936--51737987 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
51737926 AAGTTGTAGA
*
51737936 TAGAAAATTCTCTAAAGAGATTATTC
1 TAGAAAATTCTCTAAAGACATTATTC
* *
51737962 TAGAAAATT-TCTAGAGACATTTTTC
1 TAGAAAATTCTCTAAAGACATTATTC
51737987 T
1 T
51737988 GACTTACAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
TAGAAAATTCTCTAAAGACATTATTC
Found at i:51739037 original size:14 final size:15
Alignment explanation
Indices: 51739018--51739053 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
51739008 CAATTTGTAG
51739018 TAATAATA-GCATAA
1 TAATAATACGCATAA
51739032 TAATAATACGCATAA
1 TAATAATACGCATAA
51739047 TAA-AATA
1 TAATAATA
51739054 TGAACGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (15 bp):
TAATAATACGCATAA
Found at i:51740889 original size:51 final size:48
Alignment explanation
Indices: 51740797--51741254 Score: 280
Period size: 51 Copynumber: 9.7 Consensus size: 48
51740787 ATGTATAAGA
* * * *
51740797 TTGTTGCTTCAATCT-TCTCCACTGCAACTTTAAGGAGATAAGACTTGTAAC
1 TTGTAGCTTCAATCTGT-TCCACTGCAACTTCAGGGAAATAAGA-TTGT--C
* *
51740848 TTGTAGCTTCAATCTGTTCCACTGGAACTTCAGAGAAATAAGA---T-
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGTC
* * * *
51740892 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGC
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAA-GATTGT--C
* * *
51740943 TTGTAGCTTTAATCTGTTCCAGTACAACTTCAGGGAAATAAGATTCG-C
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT-GTC
* * * * *
51740991 --ATA--TTCAATCTGCTCCATTGCAATTTCAGGGAGATAAGATTTGTGGC
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTGT--C
* *
51741038 TT-TAAGCTTTAATCTGTTCTACTGCAACTTCAGGGAAATAAGA---T-
1 TTGT-AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGTC
* * * * *
51741082 TTGCATCTTCAATCTGCTT-CACTACAACTTCAGGGAGATAAGATTTATAAC
1 TTGTAGCTTCAATCTG-TTCCACTGCAACTTCAGGGAAATAAGA-TTGT--C
*
51741133 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA---T-
1 TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGTC
* * * * *
51741177 TTGCTATCTTCAATCTATTCCATTGCAACTTTAGGGAGATAAGA-T-TC
1 TTG-TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGTC
** *
51741224 -ACTATCTTCAATCTGCTT-CACTGCAACTTCA
1 TTGTAGCTTCAATCTG-TTCCACTGCAACTTCA
51741255 TGTAGATAAG
Statistics
Matches: 323, Mismatches: 52, Indels: 70
0.73 0.12 0.16
Matches are distributed among these distances:
44 103 0.32
45 62 0.19
46 5 0.02
47 4 0.01
48 4 0.01
49 1 0.00
50 5 0.02
51 138 0.43
52 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (48 bp):
TTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGTC
Found at i:51740913 original size:44 final size:44
Alignment explanation
Indices: 51740848--51741402 Score: 390
Period size: 44 Copynumber: 12.1 Consensus size: 44
51740838 GACTTGTAAC
* * * *
51740848 TTGTAGCTTCAATCTGTTCCACTGGAACTTCAGAGAAATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
51740892 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-G---AT
* * * * *
51740940 GGCTTGTAGCTTTAATCTGTTCCAGTACAACTTCAGGGAAATAAGAT
1 ---TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * ** * *
51740987 TCGCATATTCAATCTGCTCCATTGCAATTTCAGGGAGATAAGATT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T
* * * *
51741032 TGTGGCTTTAAGCTTTAATCTGTTCTACTGCAACTTCAGGGAAATAAGAT
1 T-T-G---T-AGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
51741082 TTGCATCTTCAATCTGCTTCACTACAACTTCAGGGAGATAAGATTTAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----AT
* * *
51741130 AACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGAT
1 ---TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* ** * *
51741177 TTGCTATCTTCAATCTATTCCATTGCAACTTTAGGGAGATAAGAT
1 TTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** * * * *
51741222 TCACTATCTTCAATCTGCTTCACTGCAACTTCATGTAGATAAGAT
1 T-TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* ** **
51741267 TTGTAGTTTCAATCTGCTCTGCTGCAACTTCAGAAAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
** * * * *
51741311 TCACTATCTTCAATTTGCTCCACTACAACTTCAAGGAGATAAGAT
1 T-TGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * *
51741356 TTGTAGGTTTAATCTGCTCTATTGCAACTTTAGAGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
51741400 TTG
1 TTG
51741403 CTATAAGATT
Statistics
Matches: 393, Mismatches: 94, Indels: 48
0.73 0.18 0.09
Matches are distributed among these distances:
44 171 0.44
45 107 0.27
47 4 0.01
48 4 0.01
49 1 0.00
50 3 0.01
51 103 0.26
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:51740932 original size:95 final size:95
Alignment explanation
Indices: 51740791--51741500 Score: 551
Period size: 95 Copynumber: 7.5 Consensus size: 95
51740781 CTTCACATGT
* * * * *
51740791 ATAAGA-TTGTTGCTTCAATCTTCTCCACTGCAACTTTAAGGAGATAAGACTTGTAACTTGTAGC
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGC
*
51740855 TTCAATCTGTTCCACTGGAACTTCAGAGAA
66 TTCAATCTGTTCCACTGCAACTTCAGAGAA
* * **
51740885 ATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTGTAGC
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGC
* * * *
51740950 TTTAATCTGTTCCAGTACAACTTCAGGGAA
66 TTCAATCTGTTCCACTGCAACTTCAGAGAA
* * ** * * **
51740980 ATAAGATTCGCATATTCAATCTGCTCCATTGCAATTTCAGGGAGATAAGATTTGTGGCTT-TAAG
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGT-AG
* * *
51741044 CTTTAATCTGTTCTACTGCAACTTCAGGGAA
65 CTTCAATCTGTTCCACTGCAACTTCAGAGAA
* * * * *
51741075 ATAAGATTTGCATCTTCAATCTGCTTCACTACAACTTCAGGGAGATAAGATTTATAACTTGTAGC
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGC
* *
51741140 TTTAATCTGTTCCACTGCAACTTCAGGGAA
66 TTCAATCTGTTCCACTGCAACTTCAGAGAA
* ** * * * *
51741170 ATAAGATTTGCTATCTTCAATCTATTCCATTGCAACTTTAGGGAGATAAGA--T-TCAC---TAT
1 ATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAG
51741229 CTTCAATCTGCTT-CACTGCAACTTCATGTAG--
65 CTTCAATCTG-TTCCACTGCAACTTCA-G-AGAA
* ** ** * *
51741260 ATAAGATTTGTAGTTTCAATCTGCTCTGCTGCAACTTCAGAAAGATAAGA--T-TCAC---TATC
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGC
* * * *
51741319 TTCAATTTGCTCCACTACAACTTCA-AGGAG
66 TTCAATCTGTTCCACTGCAACTTCAGA-GAA
* * * * * * *
51741349 ATAAGATTTGTAGGTTTAATCTGCTCTATTGCAACTTTAGAGAGATAAGATTTGCTATAAGATTT
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---T-A-ACTT
* * * * *
51741414 GCTATCTTCAATCTGCTCCACTGTAACTTTA-AGGAG
61 G-TAGCTTCAATCTGTTCCACTGCAACTTCAGA-GAA
* * ** * *
51741450 ATAAGA-TTGTGGCTTTAATCTGCTCCACTATAACTTTAAGGAGATAAGATT
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
51741501 CGCCACGATG
Statistics
Matches: 514, Mismatches: 79, Indels: 40
0.81 0.12 0.06
Matches are distributed among these distances:
86 1 0.00
87 1 0.00
88 1 0.00
89 103 0.20
90 34 0.07
91 4 0.01
92 1 0.00
93 3 0.01
94 8 0.02
95 250 0.49
96 34 0.07
97 1 0.00
100 37 0.07
101 36 0.07
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (95 bp):
ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGC
TTCAATCTGTTCCACTGCAACTTCAGAGAA
Found at i:51741314 original size:89 final size:89
Alignment explanation
Indices: 51741143--51741400 Score: 324
Period size: 89 Copynumber: 2.9 Consensus size: 89
51741133 TTGTAGCTTT
* * ** *
51741143 AATCTG-TTCCACTGCAACTTCAGGGAAATAAGATTTGCTA-TCTTCAATCTATTCCATTGCAAC
1 AATCTGCTT-CACTGCAACTTCAAGGAGATAAGATTTG-TAGT-TTCAATCTGCTCTATTGCAAC
*
51741206 TTTAGGGAGATAAGATTCACTATCTTC
63 TTTAGAGAGATAAGATTCACTATCTTC
* * ** *
51741233 AATCTGCTTCACTGCAACTTCATGTAGATAAGATTTGTAGTTTCAATCTGCTCTGCTGCAACTTC
1 AATCTGCTTCACTGCAACTTCAAGGAGATAAGATTTGTAGTTTCAATCTGCTCTATTGCAACTTT
*
51741298 AGAAAGATAAGATTCACTATCTTC
66 AGAGAGATAAGATTCACTATCTTC
* * *
51741322 AATTTGCTCCACTACAACTTCAAGGAGATAAGATTTGTAGGTTT-AATCTGCTCTATTGCAACTT
1 AATCTGCTTCACTGCAACTTCAAGGAGATAAGATTTGTA-GTTTCAATCTGCTCTATTGCAACTT
51741386 TAGAGAGATAAGATT
65 TAGAGAGATAAGATT
51741401 TGCTATAAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
89 107 0.74
90 36 0.25
91 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (89 bp):
AATCTGCTTCACTGCAACTTCAAGGAGATAAGATTTGTAGTTTCAATCTGCTCTATTGCAACTTT
AGAGAGATAAGATTCACTATCTTC
Found at i:51741319 original size:134 final size:135
Alignment explanation
Indices: 51741058--51741356 Score: 327
Period size: 134 Copynumber: 2.2 Consensus size: 135
51741048 AATCTGTTCT
* **
51741058 ACTGCAACTTCAGGGAAATAAGATTTGCATCTTCAATCTGCTTCACTACAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTCACATCTTCAATCTGCTTCACTACAACTTCAGGGAGATAA
* * **
51741123 GATTTATAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
66 G---TAT-A-TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGATTCACTATCTTC
*
51741188 AATCTATTCC
126 AATCTACTCC
* * * * *
51741198 ATTGCAACTTTAGGGAGATAAGATTCACTATCTTCAATCTGCTTCACTGCAACTTCATGTAGATA
1 ACTGCAACTTCAGGGAGATAAGATTCAC-ATCTTCAATCTGCTTCACTACAACTTCAGGGAGATA
**
51741263 AG-AT-TTGTAG-TTTCAATCTGCTCTGCTGCAACTTCA-GAAAGATAAGATTCACTATCTTCAA
65 AGTATATTGTAGCTTT-AATCTGCTCCACTGCAACTTCAGGAAA-ATAAGATTCACTATCTTCAA
* *
51741324 TTTGCTCC
128 TCTACTCC
* *
51741332 ACTACAACTTCAAGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
51741357 TGTAGGTTTA
Statistics
Matches: 135, Mismatches: 21, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
133 6 0.04
134 69 0.51
137 2 0.01
140 23 0.17
141 35 0.26
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (135 bp):
ACTGCAACTTCAGGGAGATAAGATTCACATCTTCAATCTGCTTCACTACAACTTCAGGGAGATAA
GTATATTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGAAAATAAGATTCACTATCTTCAATCT
ACTCC
Found at i:51741410 original size:12 final size:12
Alignment explanation
Indices: 51741393--51741418 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51741383 CTTTAGAGAG
51741393 ATAAGATTTGCT
1 ATAAGATTTGCT
51741405 ATAAGATTTGCT
1 ATAAGATTTGCT
51741417 AT
1 AT
51741419 CTTCAATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATAAGATTTGCT
Found at i:51741442 original size:57 final size:56
Alignment explanation
Indices: 51741349--51741457 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 56
51741339 CTTCAAGGAG
* * * *
51741349 ATAAGATTTGTAGGTTTAATCTGCTCTATTGCAACTTT-AGAGAGATAAGATTTGCT
1 ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAAG-GAGATAAGATTTGCT
* *
51741405 ATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTTAAGGAGATAAGATT
1 ATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGATT
51741458 GTGGCTTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 10 0.22
57 33 0.73
58 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (56 bp):
ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAAGGAGATAAGATTTGCT
Found at i:51741969 original size:23 final size:22
Alignment explanation
Indices: 51741937--51741987 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
51741927 TGTACTATTT
*
51741937 AAAAACCTTTCAGAGCAATATGC
1 AAAAATCTTT-AGAGCAATATGC
**
51741960 AAAAATCTTTTTAGCAATATGC
1 AAAAATCTTTAGAGCAATATGC
51741982 AAAAAT
1 AAAAAT
51741988 ATTTTTACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (22 bp):
AAAAATCTTTAGAGCAATATGC
Found at i:51741975 original size:22 final size:22
Alignment explanation
Indices: 51741950--51741994 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
51741940 AACCTTTCAG
*
51741950 AGCAATATGCAAAAATCTTTTT
1 AGCAATATGCAAAAATATTTTT
51741972 AGCAATATGCAAAAATATTTTT
1 AGCAATATGCAAAAATATTTTT
51741994 A
1 A
51741995 CTTGAATATT
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:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (22 bp):
AGCAATATGCAAAAATATTTTT
Found at i:51750505 original size:32 final size:31
Alignment explanation
Indices: 51750450--51750522 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
51750440 TAAACTTATA
* * *
51750450 AATTGATTATTTTAATTTAATAACTCAAGATT
1 AATTAATTAATTTAATTTAATAACT-AAAATT
* *
51750482 AATTAATTAATTTATTTTGATAACTAAAATT
1 AATTAATTAATTTAATTTAATAACTAAAATT
51750513 AATTAATTAA
1 AATTAATTAA
51750523 ACTTTTTAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 15 0.42
32 21 0.58
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (31 bp):
AATTAATTAATTTAATTTAATAACTAAAATT
Found at i:51751365 original size:53 final size:47
Alignment explanation
Indices: 51751297--51751429 Score: 133
Period size: 53 Copynumber: 2.7 Consensus size: 47
51751287 AATGTATTAT
*
51751297 TTATGATAAAGATAAATAATACTTATATTAATAATAAATTTAATATTTAATA
1 TTATCATAAAGATAAATAATA-TTATATTAATAATAAA--TAATATTT-A-A
* *
51751349 CTTATCATAAAGATAAATAATATTATCATAAAT-ATAAATATTATTTAA
1 -TTATCATAAAGATAAATAATATTAT-ATTAATAATAAATAATATTTAA
* * *
51751397 TTATCATAAATATAAATATTATTTATCTTAATA
1 TTATCATAAAGATAAATAATA-TTATATTAATA
51751430 TTTACTTCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
47 23 0.33
48 5 0.07
49 1 0.01
50 7 0.10
52 9 0.13
53 25 0.36
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (47 bp):
TTATCATAAAGATAAATAATATTATATTAATAATAAATAATATTTAA
Found at i:51751372 original size:47 final size:47
Alignment explanation
Indices: 51751321--51751419 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
51751311 AATAATACTT
* *
51751321 ATATTAATAATAAAT-TTAATATT-TAATACTTATCATAAAGATAAATA
1 ATATT-ATAATAAATATAAATATTAT-ATAATTATCATAAAGATAAATA
* * *
51751368 ATATTATCATAAATATAAATATTATTTAATTATCATAAATATAAATA
1 ATATTATAATAAATATAAATATTATATAATTATCATAAAGATAAATA
*
51751415 TTATT
1 ATATT
51751420 TATCTTAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
46 8 0.18
47 35 0.80
48 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (47 bp):
ATATTATAATAAATATAAATATTATATAATTATCATAAAGATAAATA
Found at i:51751375 original size:21 final size:21
Alignment explanation
Indices: 51751344--51751393 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
51751334 ATTTAATATT
51751344 TAATACTTATCATAAAGATAAA
1 TAATA-TTATCATAAAGATAAA
*
51751366 TAATATTATCATAAATATAAA
1 TAATATTATCATAAAGATAAA
*
51751387 TATTATT
1 TAATATT
51751394 TAATTATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATATTATCATAAAGATAAA
Found at i:51751401 original size:26 final size:26
Alignment explanation
Indices: 51751370--51751421 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
51751360 GATAAATAAT
51751370 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAATATAAATATTATTTA
51751396 ATTATCATAAATATAAATATTATTTA
1 ATTATCATAAATATAAATATTATTTA
51751422 TCTTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTATCATAAATATAAATATTATTTA
Found at i:51756241 original size:40 final size:40
Alignment explanation
Indices: 51756191--51756373 Score: 312
Period size: 40 Copynumber: 4.6 Consensus size: 40
51756181 CCTGATTCCG
* *
51756191 TTCACCGGCATGAAGCCTGCTAGATGTATAGTCTGAATAT
1 TTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAT
* *
51756231 TTCACTGGCATTAAACCTGCTAGACGTATAGTCTGAATAT
1 TTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAT
* *
51756271 TTCACTGGCATTAAGCCTGCTAGACGTATAATCTGAATAT
1 TTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAT
51756311 TTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAT
1 TTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAT
51756351 TTCACCGGCATTAAGCCTGCTAG
1 TTCACCGGCATTAAGCCTGCTAG
51756374 GCACAAGCCT
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (40 bp):
TTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAT
Found at i:51765986 original size:231 final size:231
Alignment explanation
Indices: 51765583--51766044 Score: 924
Period size: 231 Copynumber: 2.0 Consensus size: 231
51765573 ACAAAGTAGT
51765583 GGTCTCAACCTCTCTTTGCCTCAATAGAGTTGAAATACATACAATGGAACAGCCAAGGCTGCTTT
1 GGTCTCAACCTCTCTTTGCCTCAATAGAGTTGAAATACATACAATGGAACAGCCAAGGCTGCTTT
51765648 ATGCCTTGGCACTTTGCCTTGCCGTCACAACCGTGGTAGCCACCGATTCTAATTACAAGTATACA
66 ATGCCTTGGCACTTTGCCTTGCCGTCACAACCGTGGTAGCCACCGATTCTAATTACAAGTATACA
51765713 TCTCCCCCACCACCTCTTCAGCATTCACCCCCACCACCATCTAAATCACTATCACCTCCATACAT
131 TCTCCCCCACCACCTCTTCAGCATTCACCCCCACCACCATCTAAATCACTATCACCTCCATACAT
51765778 GTACAAGTCTCCACCACCACCAGTTCACTCTTCACC
196 GTACAAGTCTCCACCACCACCAGTTCACTCTTCACC
51765814 GGTCTCAACCTCTCTTTGCCTCAATAGAGTTGAAATACATACAATGGAACAGCCAAGGCTGCTTT
1 GGTCTCAACCTCTCTTTGCCTCAATAGAGTTGAAATACATACAATGGAACAGCCAAGGCTGCTTT
51765879 ATGCCTTGGCACTTTGCCTTGCCGTCACAACCGTGGTAGCCACCGATTCTAATTACAAGTATACA
66 ATGCCTTGGCACTTTGCCTTGCCGTCACAACCGTGGTAGCCACCGATTCTAATTACAAGTATACA
51765944 TCTCCCCCACCACCTCTTCAGCATTCACCCCCACCACCATCTAAATCACTATCACCTCCATACAT
131 TCTCCCCCACCACCTCTTCAGCATTCACCCCCACCACCATCTAAATCACTATCACCTCCATACAT
51766009 GTACAAGTCTCCACCACCACCAGTTCACTCTTCACC
196 GTACAAGTCTCCACCACCACCAGTTCACTCTTCACC
51766045 CCCACCATAT
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 231 1.00
ACGTcount: A:0.26, C:0.36, G:0.12, T:0.26
Consensus pattern (231 bp):
GGTCTCAACCTCTCTTTGCCTCAATAGAGTTGAAATACATACAATGGAACAGCCAAGGCTGCTTT
ATGCCTTGGCACTTTGCCTTGCCGTCACAACCGTGGTAGCCACCGATTCTAATTACAAGTATACA
TCTCCCCCACCACCTCTTCAGCATTCACCCCCACCACCATCTAAATCACTATCACCTCCATACAT
GTACAAGTCTCCACCACCACCAGTTCACTCTTCACC
Found at i:51766053 original size:48 final size:48
Alignment explanation
Indices: 51766001--51766812 Score: 606
Period size: 48 Copynumber: 16.9 Consensus size: 48
51765991 ACTATCACCT
* * ** *
51766001 CCATACATGTACAAGTCTCCACCACCACCAGTTCACTCTTCACCCCCA
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
** * * * *
51766049 CCATATGTCTACAAGTCTCCACCACCACCAGTCCATTCACCACCACCT
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
* ** * * * *
51766097 CCTTACAAATATAAGTCCCCACCACCACAAGTCCACTCCCCACCTCCT
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
* ** * *
51766145 CCTTATGTAC-ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
1 CCATACAT-CTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
** * * *
51766193 CCATATGTCTACAAGTCTCCACCACCACCAGTCCATTCACCACCACCA
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
* * * *
51766241 CCCTACATCCATAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCA
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
** * * * * * * *
51766289 CCATATGTCCACAAATCTCCACCCCCACCAATCCATTCACCACCTCCT
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
* ** * * *
51766337 CCCTACAAATACAAGTCTCCTCCTCCACCAGTCCATTCCCCACCTCCA
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
** * *
51766385 CCATATGTAC-ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
1 CCATACAT-CTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
** * * * * * * *
51766433 CCATATGTCCACAAATCTCCACCCCCACCAATCCATTCACCACCTCCT
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
* ** * * *
51766481 CCCTACAAATACAAGTCTCCTCCCCCACCAGTCCACTCCCCACCTCCT
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
** * * * * * * * * *
51766529 CCATATGTCCATAAATCTCCCCCCCCACCAGTCCATTCACCACCACCT
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
* ** * * *
51766577 CCTTACAAATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCT
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
** * * * * * * *
51766625 CCATATGTCCATAAATCTCCACCCCCACCAGTCCATTCTCCACCTCCT
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
* ** * *
51766673 CCCTACAAATACAAGTCTCCTCCTCCACCAGTCCACTCCCCACCTCCA
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
** * * *
51766721 CCATATGTCCACAAATCTCCA-C-CCATTCTAGTCCACTCCCCACCTCCA
1 CCATACATCTACAAGTCTCCACCACCA--CCAGTCCACTCCCCACCTCCA
** * *
51766769 CCATATGTCTACAAGTCTCCACCACCACCAGTCCATTCACCACC
1 CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACC
51766813 ACCTCCCTAC
Statistics
Matches: 598, Mismatches: 158, Indels: 16
0.77 0.20 0.02
Matches are distributed among these distances:
46 3 0.01
47 3 0.01
48 588 0.98
49 1 0.00
50 3 0.01
ACGTcount: A:0.26, C:0.50, G:0.04, T:0.20
Consensus pattern (48 bp):
CCATACATCTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCA
Found at i:51766113 original size:96 final size:96
Alignment explanation
Indices: 51765998--51766812 Score: 775
Period size: 96 Copynumber: 8.5 Consensus size: 96
51765988 ATCACTATCA
** * ** * *
51765998 CCTCCATACATGTACAAGTCTCCACCACCACCAGTTCACTCTTCACCCCCACCATATGTCTACAA
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
* * *
51766063 GTCTCCACCACCACCAGTCCATTCACCACCA
66 ATCTCCACCCCCACCAGTCCATTCACCACCT
* * * * * * *
51766094 CCTCCTTACAAATATAAGTCCCCACCACCACAAGTCCACTCCCCACCTCCTCCTTATGTACACAA
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
* *
51766159 ATCTCCACCCCCACCAGTCCACTCCCCACCT
66 ATCTCCACCCCCACCAGTCCATTCACCACCT
* **** * * * * ** *
51766190 CCACCATATGTCTACAAGTCTCCACCACCACCAGTCCATTCACCACCACCACCCTACATCCATAA
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
* * * * *
51766255 GTCCCCACCACCACCAGTCCACTCCCCACCT
66 ATCTCCACCCCCACCAGTCCATTCACCACCT
* ***** * * * * * * * *****
51766286 CCACCATATGTCCACAAATCTCCACCCCCACCAATCCATTCACCACCTCCTCCCTACAAATACAA
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
* * * *
51766351 GTCTCCTCCTCCACCAGTCCATTCCCCACCT
66 ATCTCCACCCCCACCAGTCCATTCACCACCT
* *** * * *
51766382 CCACCATATGTACACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
*
51766447 ATCTCCACCCCCACCAATCCATTCACCACCT
66 ATCTCCACCCCCACCAGTCCATTCACCACCT
* * * * *
51766478 CCTCCCTACAAATACAAGTCTCCTCCCCCACCAGTCCACTCCCCACCTCCTCCATATGTCCATAA
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
* *
51766543 ATCTCCCCCCCCACCAGTCCATTCACCACCA
66 ATCTCCACCCCCACCAGTCCATTCACCACCT
* * * * *
51766574 CCTCCTTACAAATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCTCCATATGTCCATAA
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
*
51766639 ATCTCCACCCCCACCAGTCCATTCTCCACCT
66 ATCTCCACCCCCACCAGTCCATTCACCACCT
* * *
51766670 CCTCCCTACAAATACAAGTCTCCTCCTCCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
*** * * *
51766735 ATCTCCACCCATTCTAGTCCACTCCCCACCT
66 ATCTCCACCCCCACCAGTCCATTCACCACCT
* **** * *
51766766 CCACCATATGTCTACAAGTCTCCACCACCACCAGTCCATTCACCACC
1 CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACC
51766813 ACCTCCCTAC
Statistics
Matches: 609, Mismatches: 110, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 609 1.00
ACGTcount: A:0.26, C:0.50, G:0.04, T:0.20
Consensus pattern (96 bp):
CCTCCATACAAATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCCACAA
ATCTCCACCCCCACCAGTCCATTCACCACCT
Found at i:51766204 original size:144 final size:144
Alignment explanation
Indices: 51766011--51766828 Score: 828
Period size: 144 Copynumber: 5.7 Consensus size: 144
51766001 CCATACATGT
* * * ** *
51766011 ACAAGTCTCCACCACCACCAGTTCACTCTTCACCCCCACCATATGTCTACAAGTCTCCACCACCA
1 ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
* * *
51766076 CCAGTCCATTCACCACCACCTCCTTACAAATATAAGTCCCCACCACCACAAGTCCACTCCCCACC
66 CCAGTCCATTCACCACCACCTCCCTACAAACATAAGTCCCCACCACCACCAGTCCACTCCCCACC
* * *
51766141 TCCTCCTTATGTAC
131 TCCACCATATGTCC
51766155 ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
1 ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
* **
51766220 CCAGTCCATTCACCACCACCACCCTACATCCATAAGTCCCCACCACCACCAGTCCACTCCCCACC
66 CCAGTCCATTCACCACCACCTCCCTACAAACATAAGTCCCCACCACCACCAGTCCACTCCCCACC
51766285 TCCACCATATGTCC
131 TCCACCATATGTCC
* * * * * **** * *
51766299 ACAAATCTCCACCCCCACCAATCCATTCACCACCTCCTCCCTACAAATACAAGTCTCCTCCTCCA
1 ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
* * * * *** * * * *
51766364 CCAGTCCATTCCCCACCTCCACCATATGTACACAAATCTCCACCCCCACCAGTCCACTCCCCACC
66 CCAGTCCATTCACCACCACCTCCCTACAAACATAAGTCCCCACCACCACCAGTCCACTCCCCACC
51766429 TCCACCATATGTCC
131 TCCACCATATGTCC
* * * * * **** * *
51766443 ACAAATCTCCACCCCCACCAATCCATTCACCACCTCCTCCCTACAAATACAAGTCTCCTCCCCCA
1 ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
* * * * **** * * * *
51766508 CCAGTCCACTCCCCACCTCCTCCATATGTCCATAAATCTCCC-CCCCCACCAGTCCATTCACCAC
66 CCAGTCCATTCACCACCACCTCCCTACAAACATAAGTC-CCCACCACCACCAGTCCACTCCCCAC
* * * *****
51766572 CACCTCCTTACAAAT
130 CTCCACCATATGTCC
* * * * * * * * *
51766587 ACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCTCCATATGTCCATAAATCTCCACCCCCA
1 ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
* * * * * * *
51766652 CCAGTCCATTCTCCACCTCCTCCCTACAAATACAAGTCTCCTCCTCCACCAGTCCACTCCCCACC
66 CCAGTCCATTCACCACCACCTCCCTACAAACATAAGTCCCCACCACCACCAGTCCACTCCCCACC
51766717 TCCACCATATGTCC
131 TCCACCATATGTCC
*** *
51766731 ACAAATCTCCACCCATTCTAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
1 ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
51766796 CCAGTCCATTCACCACCACCTCCCTACAAACAT
66 CCAGTCCATTCACCACCACCTCCCTACAAACAT
51766829 TCCACTCCCC
Statistics
Matches: 565, Mismatches: 107, Indels: 4
0.84 0.16 0.01
Matches are distributed among these distances:
143 2 0.00
144 561 0.99
145 2 0.00
ACGTcount: A:0.26, C:0.50, G:0.04, T:0.20
Consensus pattern (144 bp):
ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCA
CCAGTCCATTCACCACCACCTCCCTACAAACATAAGTCCCCACCACCACCAGTCCACTCCCCACC
TCCACCATATGTCC
Found at i:51766298 original size:24 final size:21
Alignment explanation
Indices: 51766112--51766291 Score: 72
Period size: 21 Copynumber: 7.7 Consensus size: 21
51766102 CAAATATAAG
*
51766112 TCCCCACCACCACAAGTCCAC
1 TCCCCACCACCACCAGTCCAC
* * *
51766133 TCCCCACCTCCTCCTTATGTACACAAA
1 TCCCCACCACCACC--A-GT-C-C-AC
* *
51766160 TCTCCACCCCCACCAGTCCAC
1 TCCCCACCACCACCAGTCCAC
* *
51766181 TCCCCACCTCCACCATATGTCTACAAG
1 TCCCCACCACCACC--A-GTC--C-AC
* *
51766208 TCTCCACCACCACCAGTCCAT
1 TCCCCACCACCACCAGTCCAC
* * *
51766229 TCACCACCACCACCCTACATCCATAAG
1 TCCCCACCACCA-CC-A-GTCC---AC
51766256 TCCCCACCACCACCAGTCCAC
1 TCCCCACCACCACCAGTCCAC
*
51766277 TCCCCACCTCCACCA
1 TCCCCACCACCACCA
51766292 TATGTCCACA
Statistics
Matches: 120, Mismatches: 21, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
21 51 0.43
22 4 0.03
23 4 0.03
24 16 0.13
25 4 0.03
26 4 0.03
27 37 0.31
ACGTcount: A:0.26, C:0.53, G:0.04, T:0.17
Consensus pattern (21 bp):
TCCCCACCACCACCAGTCCAC
Found at i:51766384 original size:21 final size:21
Alignment explanation
Indices: 51766358--51766435 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 21
51766348 CAAGTCTCCT
*
51766358 CCTCCACCAGTCCATTCCCCA
1 CCTCCACCAGTCCAATCCCCA
*
51766379 CCTCCACCATATGTACACAAATCTCCA
1 CCTCCACC--A-GT-C-C-AATCCCCA
* *
51766406 CCCCCACCAGTCCACTCCCCA
1 CCTCCACCAGTCCAATCCCCA
51766427 CCTCCACCA
1 CCTCCACCA
51766436 TATGTCCACA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
21 22 0.49
22 1 0.02
23 2 0.04
24 4 0.09
25 2 0.04
26 1 0.02
27 13 0.29
ACGTcount: A:0.24, C:0.55, G:0.04, T:0.17
Consensus pattern (21 bp):
CCTCCACCAGTCCAATCCCCA
Found at i:51766406 original size:27 final size:26
Alignment explanation
Indices: 51766376--51766462 Score: 85
Period size: 27 Copynumber: 3.5 Consensus size: 26
51766366 AGTCCATTCC
*
51766376 CCACCTCCACCATATGTACACAAATCT
1 CCACCCCCACCATATGT-CACAAATCT
* *
51766403 CCACCCCCACC--A-GTC-C-ACTCC
1 CCACCCCCACCATATGTCACAAATCT
*
51766424 CCACCTCCACCATATGTCCACAAATCT
1 CCACCCCCACCATATGT-CACAAATCT
51766451 CCACCCCCACCA
1 CCACCCCCACCA
51766463 ATCCATTCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 13 0.28
22 1 0.02
23 2 0.04
24 4 0.09
25 2 0.04
26 1 0.02
27 24 0.51
ACGTcount: A:0.28, C:0.53, G:0.03, T:0.16
Consensus pattern (26 bp):
CCACCCCCACCATATGTCACAAATCT
Found at i:51766467 original size:24 final size:24
Alignment explanation
Indices: 51766394--51766467 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 24
51766384 ACCATATGTA
*
51766394 CACAAATCTCCACCCCCACCAGTC
1 CACAAATCTCCACCCCCACCAATC
* *
51766418 CAC---TCCCCACCTCCACCATATGTC
1 CACAAATCTCCACCCCCACCA-A--TC
51766442 CACAAATCTCCACCCCCACCAATC
1 CACAAATCTCCACCCCCACCAATC
51766466 CA
1 CA
51766468 TTCACCACCT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
21 13 0.33
24 12 0.31
26 1 0.03
27 13 0.33
ACGTcount: A:0.28, C:0.54, G:0.03, T:0.15
Consensus pattern (24 bp):
CACAAATCTCCACCCCCACCAATC
Found at i:51766730 original size:24 final size:24
Alignment explanation
Indices: 51766703--51766777 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 24
51766693 TCCTCCACCA
51766703 GTCCACTCCCCACCTCCACCATAT
1 GTCCACTCCCCACCTCCACCATAT
* *
51766727 GTCCACAAATCTCCA-C-CCATTC-TA-
1 GTCCAC---TCCCCACCTCCA-CCATAT
51766751 GTCCACTCCCCACCTCCACCATAT
1 GTCCACTCCCCACCTCCACCATAT
51766775 GTC
1 GTC
51766778 TACAAGTCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
21 5 0.13
22 2 0.05
23 5 0.13
24 15 0.38
25 5 0.13
26 2 0.05
27 5 0.13
ACGTcount: A:0.23, C:0.49, G:0.05, T:0.23
Consensus pattern (24 bp):
GTCCACTCCCCACCTCCACCATAT
Found at i:51766742 original size:27 final size:26
Alignment explanation
Indices: 51766712--51766798 Score: 69
Period size: 27 Copynumber: 3.5 Consensus size: 26
51766702 AGTCCACTCC
51766712 CCACCTCCACCATATGTCCACAAATCT
1 CCACCTCCACCATATGTCCAC-AATCT
* *
51766739 CCA-C-CCATTC-TA-GTCCAC--TCC
1 CCACCTCCA-CCATATGTCCACAATCT
*
51766760 CCACCTCCACCATATGTCTACAAGTCT
1 CCACCTCCACCATATGTCCACAA-TCT
*
51766787 CCACCACCACCA
1 CCACCTCCACCA
51766799 GTCCATTCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
21 5 0.11
22 2 0.04
23 5 0.11
24 11 0.24
25 5 0.11
26 2 0.04
27 16 0.35
ACGTcount: A:0.26, C:0.48, G:0.05, T:0.21
Consensus pattern (26 bp):
CCACCTCCACCATATGTCCACAATCT
Found at i:51766860 original size:125 final size:125
Alignment explanation
Indices: 51766704--51766950 Score: 395
Period size: 125 Copynumber: 2.0 Consensus size: 125
51766694 CCTCCACCAG
* ** *
51766704 TCCACTCCCCACCTCCACCATATGTCCACAAATCTCCACCCATTCTAGTCCACTCCCCACCTCCA
1 TCCACTCCCCACCACCACCATATGTCCACAAATCTCCACCCACACCAGTCCACTCCCCACCTCCA
*
51766769 CCATATGTCTACAAGTCTCCACCACCACCAGTCCATTCACCACCACCTCCCTACAAACAT
66 CCATATCTCTACAAGTCTCCACCACCACCAGTCCATTCACCACCACCTCCCTACAAACAT
* * * *
51766829 TCCACTCCCCACCACCTCCATATGTCTACAAATCTCCCCCCCCACCAGTCCACTCCCCACCTCCA
1 TCCACTCCCCACCACCACCATATGTCCACAAATCTCCACCCACACCAGTCCACTCCCCACCTCCA
* *
51766894 CCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAA
66 CCATATCTCTACAAGTCTCCACCACCACCAGTCCATTCACCACCACCTCCCTACAAA
51766951 TACAAGTCCC
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 111 1.00
ACGTcount: A:0.26, C:0.50, G:0.04, T:0.21
Consensus pattern (125 bp):
TCCACTCCCCACCACCACCATATGTCCACAAATCTCCACCCACACCAGTCCACTCCCCACCTCCA
CCATATCTCTACAAGTCTCCACCACCACCAGTCCATTCACCACCACCTCCCTACAAACAT
Found at i:51766955 original size:96 final size:96
Alignment explanation
Indices: 51766855--51767684 Score: 620
Period size: 96 Copynumber: 8.6 Consensus size: 96
51766845 TCCATATGTC
* *
51766855 TACAAATCTCCCCCCCCACCAGTCCACTCCCCACCTCCACCATATCTCTACAAGTCTCCACCACC
1 TACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATCTCTACAAGTCTCCACCACC
* * * * * *
51766920 ACTAGTCCATTCACCACCACCTCCTTACAAA
66 ACCAGTCCATTCCCCACCTCCACCATACATA
* * * * * * *
51766951 TACAAGTCCCCTCCACCACCAGTCCACTTCCCACCTCCACCATATGT-TCACAAATCTCCACCCC
1 TACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATCTCT-ACAAGTCTCCACCAC
* *
51767015 CACCAGTCCACTCCCCACCTCCACCATATC-TC
65 CACCAGTCCATTCCCCACCTCCACCATA-CATA
* * * * * * * ** * *
51767047 TACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTA-CAAATACAAGTCCCCTCCAC
1 TACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATC-TCTACAAGTCTCCACCAC
**
51767111 CACCAGTCCACTT-CCCACCTCCACCATATGTA
65 CACCAGTCCA-TTCCCCACCTCCACCATACATA
* *
51767143 CACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATCTCTACAAGTCTCCACCACC
1 TACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATCTCTACAAGTCTCCACCACC
* * * * * *
51767208 ACTAGTCCATTCACCACCACCTCCTTACAAA
66 ACCAGTCCATTCCCCACCTCCACCATACATA
* * * * * * *
51767239 TACAAGTCCCCTCCACCACCAGTCCACTTCCCACCTCCACCATATGT-TCACAAATCTCCACCCC
1 TACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATCTCT-ACAAGTCTCCACCAC
* * * * * *
51767303 CACCAGTCCATTCTCCACCCCCTCCCTATAAA
65 CACCAGTCCATTCCCCACCTCCACCATACATA
* * * * * * * * * * *
51767335 TACAAGTC-CCCCCCACCCCCAGTCCCCCCCCCCCCTCCTCCATATGTAC-ACAAATCCCCCCCC
1 TACAAGTCTCCACCC-CCACCAGTCCACTCCCCACCTCCACCATATCT-CTACAAGTCTCCACCA
* *
51767398 CCACCAGTCCACTCCCCACCTCCACCATATC-TC
64 CCACCAGTCCATTCCCCACCTCCACCATA-CATA
* * * * * * * ** * *
51767431 TACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTA-CAAATACAAGTCCCCTCCAC
1 TACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATC-TCTACAAGTCTCCACCAC
**
51767495 CACCAGTCCACTT-CCCACCTCCACCATATGT-
65 CACCAGTCCA-TTCCCCACCTCCACCATACATA
* * * * * * *** *
51767526 TCACAAATCTCCACCCCCACCAGTCCATTCTCCACCCCCTCCCTATAAATACAAGTCCCCACCAC
1 T-ACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATCTCTACAAGTCTCCACCAC
* * * **
51767591 CGCCAGTCCACTCCCCACCTCCTCCATATGTA
65 CACCAGTCCATTCCCCACCTCCACCATACATA
* * * *
51767623 CACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAATCTCCACC
1 TACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATCTCTACAAGTCTCCACC
51767685 CCCTCCCTAT
Statistics
Matches: 584, Mismatches: 128, Indels: 44
0.77 0.17 0.06
Matches are distributed among these distances:
95 10 0.02
96 565 0.97
97 9 0.02
ACGTcount: A:0.26, C:0.51, G:0.04, T:0.19
Consensus pattern (96 bp):
TACAAGTCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATCTCTACAAGTCTCCACCACC
ACCAGTCCATTCCCCACCTCCACCATACATA
Found at i:51766992 original size:21 final size:21
Alignment explanation
Indices: 51766966--51767040 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
51766956 GTCCCCTCCA
51766966 CCACCAGTCCACTTCCCACCT
1 CCACCAGTCCACTTCCCACCT
** *
51766987 CCACCATATGTTCACAAATCTCCACCC
1 CCACC--A-G-TC-CACTTC-CCACCT
*
51767014 CCACCAGTCCACTCCCCACCT
1 CCACCAGTCCACTTCCCACCT
51767035 CCACCA
1 CCACCA
51767041 TATCTCTACA
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
21 16 0.39
22 3 0.07
23 3 0.07
24 2 0.05
25 3 0.07
26 4 0.10
27 10 0.24
ACGTcount: A:0.24, C:0.55, G:0.04, T:0.17
Consensus pattern (21 bp):
CCACCAGTCCACTTCCCACCT
Found at i:51767005 original size:144 final size:144
Alignment explanation
Indices: 51766829--51767321 Score: 907
Period size: 144 Copynumber: 3.4 Consensus size: 144
51766819 CTACAAACAT
* * * *
51766829 TCCACTCCCCACCACCTCCATATG-TCTACAAATCTCCCCCCCCACCAGTCCACTCCCCACCTCC
1 TCCACTTCCCACCTCCACCATATGTTC-ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCC
51766893 ACCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGT
65 ACCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGT
51766958 CCCCTCCACCACCAG
130 CCCCTCCACCACCAG
51766973 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
1 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
51767038 CCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGTC
66 CCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGTC
51767103 CCCTCCACCACCAG
131 CCCTCCACCACCAG
*
51767117 TCCACTTCCCACCTCCACCATATGTACACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
1 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
51767182 CCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGTC
66 CCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGTC
51767247 CCCTCCACCACCAG
131 CCCTCCACCACCAG
* *
51767261 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCATTCTCCACC
1 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACC
51767322 CCCTCCCTAT
Statistics
Matches: 340, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
144 338 0.99
145 2 0.01
ACGTcount: A:0.26, C:0.50, G:0.04, T:0.20
Consensus pattern (144 bp):
TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
CCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGTC
CCCTCCACCACCAG
Found at i:51767136 original size:21 final size:21
Alignment explanation
Indices: 51767110--51767184 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
51767100 GTCCCCTCCA
51767110 CCACCAGTCCACTTCCCACCT
1 CCACCAGTCCACTTCCCACCT
** *
51767131 CCACCATATGTACACAAATCTCCACCC
1 CCACC--A-GT-C-CACTTC-CCACCT
*
51767158 CCACCAGTCCACTCCCCACCT
1 CCACCAGTCCACTTCCCACCT
51767179 CCACCA
1 CCACCA
51767185 TATCTCTACA
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
21 16 0.39
22 3 0.07
23 2 0.05
24 4 0.10
25 2 0.05
26 4 0.10
27 10 0.24
ACGTcount: A:0.25, C:0.55, G:0.04, T:0.16
Consensus pattern (21 bp):
CCACCAGTCCACTTCCCACCT
Found at i:51767369 original size:15 final size:16
Alignment explanation
Indices: 51767339--51767369 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51767329 TATAAATACA
51767339 AGTCCCCCCCACCCCC
1 AGTCCCCCCCACCCCC
51767355 AGTCCCCCCC-CCCCC
1 AGTCCCCCCCACCCCC
51767370 TCCTCCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.10, C:0.77, G:0.06, T:0.06
Consensus pattern (16 bp):
AGTCCCCCCCACCCCC
Found at i:51767393 original size:144 final size:144
Alignment explanation
Indices: 51766829--51767669 Score: 781
Period size: 144 Copynumber: 5.8 Consensus size: 144
51766819 CTACAAACAT
* * * *
51766829 TCCACTCCCCACCACCTCCATATG-TCTACAAATCTCCCCCCCCACCAGTCCACTCCCCACCTCC
1 TCCACTTCCCACCTCCACCATATGTTC-ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCC
* * * * * * * * * *** *
51766893 ACCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGT
65 TCCATATATATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGTACACAAGT
*
51766958 CCCCTCCACCACCAG
130 CCCCACCACCACCAG
*
51766973 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
1 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCT
* * * * * * * * *** *
51767038 CCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGTC
66 CCATATATATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGTACACAAGTC
*
51767103 CCCTCCACCACCAG
131 CCCACCACCACCAG
* *
51767117 TCCACTTCCCACCTCCACCATATGTACACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCA
1 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCT
* * * * * * * * *** *
51767182 CCATATCTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACCTCCTTACAAATACAAGTC
66 CCATATATATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGTACACAAGTC
*
51767247 CCCTCCACCACCAG
131 CCCACCACCACCAG
* * *
51767261 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCATTCTCCACCCCCT
1 TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCT
* * * * * * * *
51767326 CCCTATAAATACAAGTCCCCCCCACCCCCAGTCCCCCCCCCCCCTCCTCCATATGTACACAAATC
66 CCATATATATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGTACACAAGTC
* *
51767391 CCCCCCCCCACCAG
131 CCCACCACCACCAG
* * * * * * * *
51767405 TCCACTCCCCACCTCCACCATAT-CTCTACAAGTCTCCACCACCACTAGTCCATTCACCACCACC
1 TCCACTTCCCACCTCCACCATATGTTC-ACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCC
* * * * * * * *
51767469 TCCTTACAAATACAAGTCCCCTCCACCACCAGTCCACTTCCCACCTCCACCATATGTTCACAAAT
65 TCCATATATATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGTACACAAGT
* *
51767534 CTCCACCCCCACCAG
130 CCCCACCACCACCAG
* * * ** * * * *
51767549 TCCA-TTCTCCACCCCCTCCCTATAAAT-ACAAGTCCCCACCACCGCCAGTCCACTCCCCACCTC
1 TCCACTTC-CCACCTCCACCATAT-GTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTC
* * * * * *
51767612 CTCCATATGTACACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGT
64 CTCCATATATATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
51767670 CTACAAATCT
Statistics
Matches: 620, Mismatches: 72, Indels: 10
0.88 0.10 0.01
Matches are distributed among these distances:
143 4 0.01
144 613 0.99
145 2 0.00
146 1 0.00
ACGTcount: A:0.25, C:0.51, G:0.04, T:0.20
Consensus pattern (144 bp):
TCCACTTCCCACCTCCACCATATGTTCACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCT
CCATATATATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGTACACAAGTC
CCCACCACCACCAG
Found at i:51767683 original size:27 final size:26
Alignment explanation
Indices: 51767605--51767684 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
51767595 AGTCCACTCC
*
51767605 CCACCTCCTCCATATGTACACAAATCT
1 CCACCTCCACCATATGT-CACAAATCT
* * *
51767632 CCACCCCCACC--A-GTC-C-ACTCC
1 CCACCTCCACCATATGTCACAAATCT
51767653 CCACCTCCACCATATGTCTACAAATCT
1 CCACCTCCACCATATGTC-ACAAATCT
51767680 CCACC
1 CCACC
51767685 CCCTCCCTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
21 13 0.32
22 1 0.03
23 2 0.05
24 5 0.12
25 1 0.03
26 1 0.03
27 17 0.43
ACGTcount: A:0.26, C:0.50, G:0.04, T:0.20
Consensus pattern (26 bp):
CCACCTCCACCATATGTCACAAATCT
Found at i:51767732 original size:48 final size:48
Alignment explanation
Indices: 51767697--51768389 Score: 704
Period size: 48 Copynumber: 14.4 Consensus size: 48
51767687 CTCCCTATAA
* * *
51767697 ATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCACCATATGT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * * * * **
51767745 CTACAAGTCTCCACCACCACCAGTCCACTCACCACCACCACCCTACAT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
** * * * *
51767793 CCATAAGTCCCCACCACCACCAGTCCACTCTCCTCCTCCTCCATATGT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * *
51767841 CTACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCTCCATATGT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * * *
51767889 CTACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * * * * ***
51767937 CTACAAGTCTCCACCACCACCAGTCCATTCACCACCCCCTCCCTACAA
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* *
51767985 ATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCTCCATATGT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
** * * * * * * **
51768033 CCACAAATCTCCACC-CCTACCAATCCATTCTCCACCCCCTCCCTATAA
1 ATACAAGTCTCCACCACC-ACCAGTCCACTCCCCACCTCCTCCATATGT
*
51768081 ATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * * * * *
51768129 ACACAAATCTCCACCCCCACCACTCCACTCCCCACCTCCACCATATAT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * *
51768177 TTACAAGTCTCCACCACCACCAATCCACTCCTCACCTCCTCCATATGT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * * * *
51768225 ACACAAATCTCCACCCCCACCAGTCAACTCCCCACCTCCACCATATGT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * * * *
51768273 TTATAAGTCTCCACCACCACCAGTCCATTCTCCACCTCCTCCATATAT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* * * * * * * **
51768321 ATACAAGTCCCCTCCACCACCAGTCCATTCACCGCCCCCTCCTTACAT
1 ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
* *
51768369 TTACAAGTCTCCACCCCCACC
1 ATACAAGTCTCCACCACCACC
51768390 TGTACCTTAT
Statistics
Matches: 526, Mismatches: 117, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
47 2 0.00
48 522 0.99
49 2 0.00
ACGTcount: A:0.26, C:0.50, G:0.04, T:0.20
Consensus pattern (48 bp):
ATACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCATATGT
Found at i:51767779 original size:21 final size:21
Alignment explanation
Indices: 51767710--51767786 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 21
51767700 CAAGTCCCCT
*
51767710 CCACCACCAGTCCACTCCCCA
1 CCACCACCAGTCCACTCACCA
* * *
51767731 CCTCCACCATATGTCTACAAGTCTCCA
1 CCACCACC--A-GTC--C-ACTCACCA
51767758 CCACCACCAGTCCACTCACCA
1 CCACCACCAGTCCACTCACCA
51767779 CCACCACC
1 CCACCACC
51767787 CTACATCCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
21 21 0.48
22 1 0.02
23 1 0.02
24 6 0.14
25 1 0.02
26 1 0.02
27 13 0.30
ACGTcount: A:0.26, C:0.55, G:0.05, T:0.14
Consensus pattern (21 bp):
CCACCACCAGTCCACTCACCA
Found at i:51767807 original size:123 final size:123
Alignment explanation
Indices: 51767557--51767807 Score: 360
Period size: 123 Copynumber: 2.0 Consensus size: 123
51767547 AGTCCATTCT
* *
51767557 CCACCCCCTCCCTATAAATACAAGTCCCCACCACCGCCAGTCCACTCCCCACCTCCTCCATATGT
1 CCACCCCCTCCCTATAAATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCACCATATGT
* * * ** * *
51767622 ACACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAATCT
66 ACACAAATCTCCACCACCACCAGTCCACTCACCACCACCACCATACATCCACAAATCC
*
51767680 CCACCCCCTCCCTATAAATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCACCATATGT
1 CCACCCCCTCCCTATAAATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCACCATATGT
* * * *
51767745 -CTACAAGTCTCCACCACCACCAGTCCACTCACCACCACCACCCTACATCCATAAGTCC
66 AC-ACAAATCTCCACCACCACCAGTCCACTCACCACCACCACCATACATCCACAAATCC
51767803 CCACC
1 CCACC
51767808 ACCACCAGTC
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
122 1 0.01
123 112 0.99
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.18
Consensus pattern (123 bp):
CCACCCCCTCCCTATAAATACAAGTCCCCACCACCACCAGTCCACTCCCCACCTCCACCATATGT
ACACAAATCTCCACCACCACCAGTCCACTCACCACCACCACCATACATCCACAAATCC
Found at i:51767819 original size:24 final size:24
Alignment explanation
Indices: 51767701--51767819 Score: 63
Period size: 24 Copynumber: 5.0 Consensus size: 24
51767691 CTATAAATAC
*
51767701 AAGTCCCCTCCACCACCAGTCC--
1 AAGTCCCCACCACCACCAGTCCAT
* * * *
51767723 -ACTCCCCACCTCCACCATATGTCTAC
1 AAGTCCCCACCACCACC--A-GTCCAT
*
51767749 AAGTCTCCACCACCACCAGTCCACT
1 AAGTCCCCACCACCACCAGTCCA-T
*
51767774 CA--CCACCACCACC-CTACA-TCCAT
1 AAGTCC-CCACCACCAC--CAGTCCAT
51767797 AAGTCCCCACCACCACCAGTCCA
1 AAGTCCCCACCACCACCAGTCCA
51767820 CTCTCCTCCT
Statistics
Matches: 71, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
21 13 0.18
23 7 0.10
24 31 0.44
25 7 0.10
27 13 0.18
ACGTcount: A:0.27, C:0.52, G:0.06, T:0.15
Consensus pattern (24 bp):
AAGTCCCCACCACCACCAGTCCAT
Found at i:51767900 original size:75 final size:74
Alignment explanation
Indices: 51767605--51767903 Score: 253
Period size: 75 Copynumber: 4.1 Consensus size: 74
51767595 AGTCCACTCC
* * * *
51767605 CCACCTCCTCCATATGTACACAAATCTCCACCCCCACCAGTCCACTCCCCACCTCCACCATATGT
1 CCACCTCCTCCATATGT-CACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATATGT
51767670 CTACAAATCT
65 CTACAAATCT
* ** * *
51767680 CCACCCCCTCCCTATAAAT-ACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCACCATATG
1 CCACCTCCT-CC-ATATGTCACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATATG
*
51767744 TCTACAAGTCT
64 TCTACAAATCT
* * * * * *
51767755 CCACCACCACC--A-GTC-C-ACTCACCACCACCACCCTACATCCATAAGTCCCCACCACCACC-
1 CCACCTCCTCCATATGTCACAAGTCCCCACCACCA-CC-A-GTCC---ACTCCCCACCACCACCA
*
51767814 -A-GTC--C-ACTCT
60 TATGTCTACAAATCT
* *
51767824 CCTCCTCCTCCATATGTCTACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCTCCATATGT
1 CCACCTCCTCCATATGTC-ACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATATGT
51767889 CTACAAATCT
65 CTACAAATCT
51767899 CCACC
1 CCACC
51767904 CCCACCAGTC
Statistics
Matches: 175, Mismatches: 28, Indels: 42
0.71 0.11 0.17
Matches are distributed among these distances:
69 37 0.21
70 5 0.03
71 4 0.02
72 15 0.09
73 2 0.01
74 6 0.03
75 100 0.57
76 2 0.01
77 4 0.02
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.19
Consensus pattern (74 bp):
CCACCTCCTCCATATGTCACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATATGTC
TACAAATCT
Found at i:51767904 original size:219 final size:219
Alignment explanation
Indices: 51767461--51767906 Score: 653
Period size: 219 Copynumber: 2.0 Consensus size: 219
51767451 AGTCCATTCA
* * *
51767461 CCACCACCTCCTTACAAATACAAGTCCCCTCCACCACCAGTCCACTTCCCACCTCCACCATATGT
1 CCACCCCCTCCCTACAAATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCACCATATGT
* * * * * * *
51767526 TCACAAATCTCCACCCCCACCAGTCCATTCTCCACCCCCTCCCTATAAATACAAGTCCCCACCAC
66 TCACAAATCTCCACCACCACCAGTCCACTCACCACCACCACCCTACAAACACAAGTCCCCACCAC
* * *
51767591 CGCCAGTCCACTCCCCACCTCCTCCATATGTACACAAATCTCCACCCCCACCAGTCCACTCCCCA
131 CACCAGTCCACTCCCCACCTCCTCCATATGTACACAAATCCCCACCACCACCAGTCCACTCCCCA
*
51767656 CCTCCACCATATGTCTACAAATCT
196 CCACCACCATATGTCTACAAATCT
*
51767680 CCACCCCCTCCCTATAAATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCACCATATG-
1 CCACCCCCTCCCTACAAATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCACCATATGT
* ** *
51767744 TCTACAAGTCTCCACCACCACCAGTCCACTCACCACCACCACCCTACATCCATAAGTCCCCACCA
66 TC-ACAAATCTCCACCACCACCAGTCCACTCACCACCACCACCCTACAAACACAAGTCCCCACCA
* * *
51767809 CCACCAGTCCACTCTCCTCCTCCTCCATATGT-CTACAAGTCCCCACCACCACCAGTCCACTCCC
130 CCACCAGTCCACTCCCCACCTCCTCCATATGTAC-ACAAATCCCCACCACCACCAGTCCACTCCC
*
51767873 CACCACCTCCATATGTCTACAAATCT
194 CACCACCACCATATGTCTACAAATCT
51767899 CCACCCCC
1 CCACCCCC
51767907 ACCAGTCCAC
Statistics
Matches: 202, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
218 3 0.01
219 199 0.99
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.19
Consensus pattern (219 bp):
CCACCCCCTCCCTACAAATACAAGTCCCCTCCACCACCAGTCCACTCCCCACCTCCACCATATGT
TCACAAATCTCCACCACCACCAGTCCACTCACCACCACCACCCTACAAACACAAGTCCCCACCAC
CACCAGTCCACTCCCCACCTCCTCCATATGTACACAAATCCCCACCACCACCAGTCCACTCCCCA
CCACCACCATATGTCTACAAATCT
Found at i:51773159 original size:17 final size:17
Alignment explanation
Indices: 51773112--51773159 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 17
51773102 AATTACTATC
*
51773112 ATATAATAATAATTTTTAT
1 ATATAATAATAA--TATAT
51773131 ATATAA-AA-AATATAT
1 ATATAATAATAATATAT
51773146 ATATAATAATAATA
1 ATATAATAATAATA
51773160 ATGTATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 10 0.38
16 2 0.08
17 6 0.23
18 2 0.08
19 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATAATAATAATATAT
Found at i:51773182 original size:34 final size:33
Alignment explanation
Indices: 51773090--51773182 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 33
51773080 ATATTCATAG
*
51773090 AATAA-AA-ATATAAATTACTATCATATAATAAT
1 AATAATAATATATAAAATACTATCATAT-ATAAT
** * *
51773122 AATTTTTATATATAAAA-AATAT-ATATATAAT
1 AATAATAATATATAAAATACTATCATATATAAT
*
51773153 AATAATAATGTATGAAAATACTATCATATA
1 AATAATAATATAT-AAAATACTATCATATA
51773183 GTTCTTTAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
31 14 0.30
32 11 0.24
33 9 0.20
34 12 0.26
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (33 bp):
AATAATAATATATAAAATACTATCATATATAAT
Found at i:51773369 original size:24 final size:23
Alignment explanation
Indices: 51773307--51773390 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 23
51773297 AAAATAGTAT
* *
51773307 ATGATAAATCTAAATAATGAT--
1 ATGATAAATTTAAATTATGATAC
*
51773328 ATGATAAGTTTAATATTAT-AGTAC
1 ATGATAAATTTAA-ATTATGA-TAC
*
51773352 ATGATAAATTTTAAATTATGATAT
1 ATGATAAA-TTTAAATTATGATAC
51773376 ATGATAAATTTAAAT
1 ATGATAAATTTAAAT
51773391 AGTACTTATG
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
21 12 0.23
22 5 0.10
23 7 0.13
24 22 0.42
25 6 0.12
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (23 bp):
ATGATAAATTTAAATTATGATAC
Found at i:51773403 original size:22 final size:21
Alignment explanation
Indices: 51773375--51773454 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
51773365 AATTATGATA
*
51773375 TATGATAAATTTAAATAGTACT
1 TATGAT-AATTTAAATAATACT
*
51773397 TATGATAATTTAAAATAATAGT
1 TATGATAATTT-AAATAATACT
* *
51773419 ATATGAT-ATTAAAATAAAACT
1 -TATGATAATTTAAATAATACT
*
51773440 AATGATAAATTTAAA
1 TATGAT-AATTTAAA
51773455 ACAATGTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.11
21 13 0.28
22 23 0.49
23 6 0.13
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (21 bp):
TATGATAATTTAAATAATACT
Found at i:51779004 original size:26 final size:24
Alignment explanation
Indices: 51778954--51779004 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
51778944 GATTGGTTAA
* *
51778954 AATATTTTATTAATATTTTTTCAT
1 AATATTTTATTAAGATTTTTGCAT
51778978 AATATTTTATTATAAGATTTTTGCAT
1 AATATTTTA-T-TAAGATTTTTGCAT
51779004 A
1 A
51779005 GAAATATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
AATATTTTATTAAGATTTTTGCAT
Found at i:51780026 original size:12 final size:12
Alignment explanation
Indices: 51780009--51780035 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51779999 TCCTAACTCG
51780009 GTACAAACTCAA
1 GTACAAACTCAA
51780021 GTACAAACTCAA
1 GTACAAACTCAA
51780033 GTA
1 GTA
51780036 AAGGGTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.22, G:0.11, T:0.19
Consensus pattern (12 bp):
GTACAAACTCAA
Found at i:51790296 original size:19 final size:19
Alignment explanation
Indices: 51790261--51790315 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
51790251 CTTTACTTTA
* *
51790261 TATT-ATAATAATATAATT
1 TATTAATAATCATTTAATT
51790279 TATTAATAATCATTTAATT
1 TATTAATAATCATTTAATT
* * *
51790298 AATAAAT-ATCTTTTAATT
1 TATTAATAATCATTTAATT
51790316 ATAACACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATAATCATTTAATT
Found at i:51791784 original size:19 final size:19
Alignment explanation
Indices: 51791749--51791803 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
51791739 CTTTACTTTA
* *
51791749 TATT-ATAATAATATAATT
1 TATTAATAATCATTTAATT
51791767 TATTAATAATCATTTAATT
1 TATTAATAATCATTTAATT
* * *
51791786 AATAAAT-ATCTTTTAATT
1 TATTAATAATCATTTAATT
51791804 ATAACACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATAATCATTTAATT
Found at i:51792976 original size:32 final size:32
Alignment explanation
Indices: 51792917--51792978 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
51792907 TTAATCGGTT
* * *
51792917 TGAGTTATAAAATTGAATTAATTAATTTATCA
1 TGAGTTATAAAATTCAAGTAATCAATTTATCA
* *
51792949 TGAGTTATTAAGTTCAAGTAATCAATTTAT
1 TGAGTTATAAAATTCAAGTAATCAATTTAT
51792979 AAGTTTATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (32 bp):
TGAGTTATAAAATTCAAGTAATCAATTTATCA
Found at i:51800629 original size:14 final size:15
Alignment explanation
Indices: 51800610--51800638 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51800600 ATGCATGATG
51800610 GTTTTTTT-TTTTTT
1 GTTTTTTTCTTTTTT
51800624 GTTTTTTTCTTTTTT
1 GTTTTTTTCTTTTTT
51800639 CTCTCAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (15 bp):
GTTTTTTTCTTTTTT
Found at i:51802682 original size:113 final size:114
Alignment explanation
Indices: 51802478--51802702 Score: 316
Period size: 113 Copynumber: 2.0 Consensus size: 114
51802468 CATTTTCTTC
* *
51802478 AACTTTATACCAAAAAGCAGAATATTTTAACTAAGTGTTAATTTAGGATCATACCTAATCCATTT
1 AACTTTATACCAAAAAG-AG-ATATGTTAACTAAGTGTTAATTTAGGACCATACCTAATCCATTT
*
51802543 AAAAAAAAAAACACTTATTGAGAAAAAAAGTATTGGATCAATTGTTTTATTTA
64 AAAAAAAAAAACACTTATTG-G-AAAAAAGTATTGGATCAATTATTTTATTTA
*
51802596 AACTTTATACCAAAAAG-G-TATGTTAACT-CGTGTTAATTTAGGACCATACCTAATCCATTTAA
1 AACTTTATACCAAAAAGAGATATGTTAACTAAGTGTTAATTTAGGACCATACCTAATCCATTTAA
*
51802658 AAAAAAAAA-ACTTATCAT-GAAAAAAGTATTTGATCAATTATTTTA
66 AAAAAAAAACACTTAT--TGGAAAAAAGTATTGGATCAATTATTTTA
51802703 ATTTTATTTG
Statistics
Matches: 100, Mismatches: 5, Indels: 11
0.86 0.04 0.09
Matches are distributed among these distances:
111 24 0.24
112 7 0.07
113 41 0.41
114 10 0.10
116 1 0.01
118 17 0.17
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (114 bp):
AACTTTATACCAAAAAGAGATATGTTAACTAAGTGTTAATTTAGGACCATACCTAATCCATTTAA
AAAAAAAAACACTTATTGGAAAAAAGTATTGGATCAATTATTTTATTTA
Found at i:51802758 original size:110 final size:111
Alignment explanation
Indices: 51802504--51802826 Score: 303
Period size: 113 Copynumber: 2.9 Consensus size: 111
51802494 GCAGAATATT
* *
51802504 TTAACTAAGTGTTAATTTAGGATCATACCTAATCCATTTAAAAAAAAAAACACTTATTGAGAAAA
1 TTAACTCAGTGTTAATTTAGGATCATACCTAATCCATTTAAAAAAAAAAA-ACTTATTCAGAAAA
*
51802569 AAAGTATTGGATCAATTGTTTTATTTAAACTTTATACCAAAAAGGTATG
65 AAAGTATTGGATCAATTATTTTATTTAAACTTTATACC--AAAGGTATG
*
51802618 TTAACTC-GTGTTAATTTAGGACCATACCTAATCCATTTAAAAAAAAAAAACTTA-TCATG-AAA
1 TTAACTCAGTGTTAATTTAGGATCATACCTAATCCATTTAAAAAAAAAAAACTTATTCA-GAAAA
* * **
51802680 AAAGTATTTGATCAATTATTTTAATTT-TA-TTTGA-A-C-ATTGTATGTG
65 AAAGTATTGGATCAATTATTTT-ATTTAAACTTT-ATACCAAAGGTA--TG
* * * ***
51802726 TTAACTCATGTGTTAATTTAGGATCAAACCTAATTC--TTAAAAAAAAAAAAATTGCAAGGAGAA
1 TTAACTCA-GTGTTAATTTAGGATCATACCTAATCCATTTAAAAAAAAAAAACTT--ATTCAGAA
* * *
51802789 GAATA-TATT--ATCAATTATTTTATTTAAACTTTGTACCA
63 AAAAAGTATTGGATCAATTATTTTATTTAAACTTTATACCA
51802827 TAGAAAAGTA
Statistics
Matches: 175, Mismatches: 18, Indels: 35
0.77 0.08 0.15
Matches are distributed among these distances:
106 4 0.02
107 4 0.02
108 38 0.22
109 5 0.03
110 35 0.20
111 32 0.18
112 10 0.06
113 41 0.23
114 6 0.03
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (111 bp):
TTAACTCAGTGTTAATTTAGGATCATACCTAATCCATTTAAAAAAAAAAAACTTATTCAGAAAAA
AAGTATTGGATCAATTATTTTATTTAAACTTTATACCAAAGGTATG
Found at i:51802806 original size:108 final size:107
Alignment explanation
Indices: 51802616--51802810 Score: 245
Period size: 108 Copynumber: 1.8 Consensus size: 107
51802606 CAAAAAGGTA
* * * *
51802616 TGTTAACTCGTGTTAATTTAGGACCATACCTAATCCATTTAAAAAAAAAAAACTTATCATGAAAA
1 TGTTAACTCGTGTTAATTTAGGACCAAACCTAATCCA-TTAAAAAAAAAAAAATTAGCAGGAAAA
51802681 AAGTATTTGATCAATTATTTTAATTTTATTTGAACATTGTATG
65 AAGTATTTGATCAATTATTTTAATTTTATTTGAACATTGTATG
* *
51802724 TGTTAACTCATGTGTTAATTTAGGATCAAACCTAATTC-TTAAAAAAAAAAAAATT-GCAAGGAG
1 TGTTAACTC--GTGTTAATTTAGGACCAAACCTAATCCATTAAAAAAAAAAAAATTAGC-AGGA-
*
51802787 AAGAA-TATATT-ATCAATTATTTTA
62 AAAAAGTAT-TTGATCAATTATTTTA
51802811 TTTAAACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
107 1 0.01
108 44 0.59
109 6 0.08
110 24 0.32
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (107 bp):
TGTTAACTCGTGTTAATTTAGGACCAAACCTAATCCATTAAAAAAAAAAAAATTAGCAGGAAAAA
AGTATTTGATCAATTATTTTAATTTTATTTGAACATTGTATG
Found at i:51803881 original size:28 final size:29
Alignment explanation
Indices: 51803850--51803909 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
51803840 ATTATATTTG
*
51803850 TAAAAATTTACAAA-TATTT-TTAATAAAA
1 TAAAAATTTAAAAATTATTTATT-ATAAAA
*
51803878 T-AAAATTTAAAAATTATTTATTATAAAT
1 TAAAAATTTAAAAATTATTTATTATAAAA
51803906 TAAA
1 TAAA
51803910 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
27 11 0.41
28 12 0.44
29 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
TAAAAATTTAAAAATTATTTATTATAAAA
Found at i:51803891 original size:27 final size:26
Alignment explanation
Indices: 51803852--51803925 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
51803842 TATATTTGTA
*
51803852 AAAATTTACAAATATTTTTAATAAAAT
1 AAAATTTAAAAATATTTTTAAT-AAAT
51803879 AAAATTTAAAAATTATTTATT-ATAAAT
1 AAAATTTAAAAA-TATTT-TTAATAAAT
*
51803906 TAAA--TAAAAATAATTTTTAA
1 AAAATTTAAAAAT-ATTTTTAA
51803926 AGTTTAAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 3 0.07
25 11 0.27
27 18 0.44
28 7 0.17
29 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAATTTAAAAATATTTTTAATAAAT
Found at i:51806491 original size:38 final size:38
Alignment explanation
Indices: 51806422--51806494 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
51806412 TTTCCATTTC
** **
51806422 TCTCTCTCTTTGCTTTTAACCCTCACCATGCTTTTATG
1 TCTCTCTCAATGCTTTTAACCCTCAAAATGCTTTTATG
* *
51806460 TCTCTCTCAATGCTTTTAACCTTGAAAATGCTTTT
1 TCTCTCTCAATGCTTTTAACCCTCAAAATGCTTTT
51806495 GCTCACTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.18, C:0.27, G:0.08, T:0.47
Consensus pattern (38 bp):
TCTCTCTCAATGCTTTTAACCCTCAAAATGCTTTTATG
Found at i:51807188 original size:18 final size:18
Alignment explanation
Indices: 51807167--51807207 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
51807157 ACCAAAACAA
* * *
51807167 ACAAACTAAAGAAAATTG
1 ACAAACGAAACAAAATAG
51807185 ACAAACGAAACAAAATAG
1 ACAAACGAAACAAAATAG
51807203 ACAAA
1 ACAAA
51807208 AAATCTACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.15, G:0.10, T:0.10
Consensus pattern (18 bp):
ACAAACGAAACAAAATAG
Done.