Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 33 of 343
Found at i:11175094 original size:19 final size:19
Alignment explanation
Indices: 11175072--11175113 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11175062 AAAAATTCAG
* *
11175072 AATATATATAATTTAGAAA
1 AATACATATAAATTAGAAA
*
11175091 AATACATATAAATTATAAA
1 AATACATATAAATTAGAAA
11175110 AATA
1 AATA
11175114 AAATTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATACATATAAATTAGAAA
Found at i:11175417 original size:43 final size:44
Alignment explanation
Indices: 11175370--11175455 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
11175360 TATAAAAAAA
*
11175370 TTTTAAATTTTT-TTTAAAAATAA-AT-TATATATTATATATAATT
1 TTTTAAATTTTTAATT-AAAATAATATATATATA-TATATATAATT
* *
11175413 TTTTACATTTTTAATTAATATAATATATATATATATATATAAT
1 TTTTAAATTTTTAATTAAAATAATATATATATATATATATAAT
11175456 ACTAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 17 0.46
44 14 0.38
45 6 0.16
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (44 bp):
TTTTAAATTTTTAATTAAAATAATATATATATATATATATAATT
Found at i:11177227 original size:6 final size:6
Alignment explanation
Indices: 11177216--11177241 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11177206 ACTTTATTTA
11177216 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
11177242 ACTAAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:11177805 original size:18 final size:18
Alignment explanation
Indices: 11177784--11177820 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11177774 ACAATTCATA
11177784 TCACGTTCAATTTCAATT
1 TCACGTTCAATTTCAATT
* *
11177802 TCACTTTCACTTTCAATT
1 TCACGTTCAATTTCAATT
11177820 T
1 T
11177821 TGATCACAAA
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:0.24, C:0.24, G:0.03, T:0.49
Consensus pattern (18 bp):
TCACGTTCAATTTCAATT
Found at i:11177897 original size:34 final size:33
Alignment explanation
Indices: 11177832--11177898 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
11177822 GATCACAAAT
* *
11177832 CATTCAAATCAATTCAAATATACTATTAATATC
1 CATTCAAATCAATTCAAATATAATATCAATATC
*
11177865 CATTCACATACAATTCAAAATATAATA-CAATATC
1 CATTCAAAT-CAATTC-AAATATAATATCAATATC
11177899 AACACATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 8 0.28
34 12 0.41
35 9 0.31
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (33 bp):
CATTCAAATCAATTCAAATATAATATCAATATC
Found at i:11182710 original size:60 final size:60
Alignment explanation
Indices: 11182632--11182749 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 60
11182622 AGTATAACTC
* *
11182632 AAATGCTCCACTTACTAGCCTGAAAAAGGATTCATCCATTCTAAAGTTGCGACTCCCCCA
1 AAATGCTCCACTTACTAGCCTGAAAAAAGATTCATCCATTCTAAAGTCGCGACTCCCCCA
* * *
11182692 AAATGTTCCACTTTCTAGCCTGAAAAAAGATTCATCCATTCTAAGGTCGCGACTCCCC
1 AAATGCTCCACTTACTAGCCTGAAAAAAGATTCATCCATTCTAAAGTCGCGACTCCCC
11182750 TATAAATTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (60 bp):
AAATGCTCCACTTACTAGCCTGAAAAAAGATTCATCCATTCTAAAGTCGCGACTCCCCCA
Found at i:11189401 original size:9 final size:9
Alignment explanation
Indices: 11189387--11189436 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
11189377 ATAAGTATAA
11189387 AATTAACCG
1 AATTAACCG
**
11189396 AATTAATTG
1 AATTAACCG
*
11189405 AATTAACTG
1 AATTAACCG
*
11189414 AATTACCCG
1 AATTAACCG
11189423 AATTAACCG
1 AATTAACCG
11189432 AATTA
1 AATTA
11189437 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTAACCG
Found at i:11189471 original size:5 final size:6
Alignment explanation
Indices: 11189456--11189496 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
11189446 AATTATATGT
*
11189456 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
11189497 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:11190899 original size:18 final size:19
Alignment explanation
Indices: 11190850--11190900 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
11190840 AATAAAAGCT
*
11190850 ATAAATATTATTAAATTTTA
1 ATAAAT-TTATTAAATATTA
*
11190870 ATAAAATT-TTAAATATTA
1 ATAAATTTATTAAATATTA
11190888 A-AAATTTATTAAA
1 ATAAATTTATTAAA
11190901 AATAGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 15 0.56
19 2 0.07
20 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAAATTTATTAAATATTA
Found at i:11190957 original size:19 final size:19
Alignment explanation
Indices: 11190888--11190976 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
11190878 TTAAATATTA
*
11190888 AAAATTTATTAAAAATAG-A
1 AAAATTTA-TAAAAATAGTG
** *
11190907 AAAAAGTATAAAAATCA-TA
1 AAAATTTATAAAAAT-AGTG
* *
11190926 ACAAATATA-AAAAATTGTG
1 A-AAATTTATAAAAATAGTG
*
11190945 AAATTTTATAAAAATAGTG
1 AAAATTTATAAAAATAGTG
11190964 AAAATTTATAAAA
1 AAAATTTATAAAA
11190977 TATATAGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
18 12 0.22
19 38 0.69
20 5 0.09
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (19 bp):
AAAATTTATAAAAATAGTG
Found at i:11190986 original size:20 final size:20
Alignment explanation
Indices: 11190944--11191026 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 20
11190934 AAAAAATTGT
*
11190944 GAAATTTTATAAAA-ATAGT-
1 GAAAATTTATAAAATATA-TA
11190963 GAAAATTTATAAAATATATA
1 GAAAATTTATAAAATATATA
* *
11190983 G-AAATATAAAAAAT-TATA
1 GAAAATTTATAAAATATATA
* *
11191001 -AAATTTTATAAAGTCATA-A
1 GAAAATTTATAAAAT-ATATA
11191020 GAAAATT
1 GAAAATT
11191027 ATACAAATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
18 13 0.26
19 26 0.52
20 11 0.22
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (20 bp):
GAAAATTTATAAAATATATA
Found at i:11191029 original size:56 final size:57
Alignment explanation
Indices: 11190886--11191034 Score: 146
Period size: 56 Copynumber: 2.6 Consensus size: 57
11190876 TTTTAAATAT
* ** * * *
11190886 TAAAAATTTATTAAAAATAGA-AAAAAGTATAAAAATCATA-ACAAATATAAAAAATTG
1 TAAAATTTTA-TAAAAATAGAGAAAATTTATACAAAT-ATATAGAAATATAAAAAATTA
* *
11190943 TGAAATTTTATAAAAATAGTGAAAATTTATA-AAATATATAGAAATATAAAAAATTA
1 TAAAATTTTATAAAAATAGAGAAAATTTATACAAATATATAGAAATATAAAAAATTA
*
11190999 TAAAATTTTATAAAGTCATA-AGAAAA-TTATACAAAT
1 TAAAATTTTATAAA--AATAGAGAAAATTTATACAAAT
11191035 GTAAAAAAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
55 3 0.04
56 46 0.60
57 25 0.32
58 3 0.04
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (57 bp):
TAAAATTTTATAAAAATAGAGAAAATTTATACAAATATATAGAAATATAAAAAATTA
Found at i:11191243 original size:19 final size:19
Alignment explanation
Indices: 11191221--11191268 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11191211 TTTTTTATGA
11191221 TTTTATAAAATTTTACAAT
1 TTTTATAAAATTTTACAAT
* ***
11191240 TTTTTTATTTTTTTACAAT
1 TTTTATAAAATTTTACAAT
11191259 TTTTATAAAA
1 TTTTATAAAA
11191269 AAATTCTAAT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATTTTACAAT
Found at i:11191308 original size:26 final size:28
Alignment explanation
Indices: 11191276--11191346 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
11191266 AAAAAATTCT
11191276 AATTTTTAATAAATTTTA-TATTTTT-A
1 AATTTTTAATAAATTTTATTATTTTTAA
* * *
11191302 TATTTTTATTAAAATTTATTATTTTTAA
1 AATTTTTAATAAATTTTATTATTTTTAA
11191330 AATTTTTTAA-AAATTTT
1 AA-TTTTTAATAAATTTT
11191347 CTAATTTCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 15 0.42
27 7 0.19
28 8 0.22
29 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
AATTTTTAATAAATTTTATTATTTTTAA
Found at i:11191316 original size:27 final size:29
Alignment explanation
Indices: 11191276--11191346 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 29
11191266 AAAAAATTCT
*
11191276 AATTTTTAAT-AAATTTTA-TATTTTT-A
1 AATTTTTATTAAAATTTTATTATTTTTAA
*
11191302 TATTTTTATTAAAA-TTTATTATTTTTAA
1 AATTTTTATTAAAATTTTATTATTTTTAA
*
11191330 AATTTTT-TAAAAATTTT
1 AATTTTTATTAAAATTTT
11191347 CTAATTTCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
26 12 0.32
27 15 0.41
28 10 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
AATTTTTATTAAAATTTTATTATTTTTAA
Found at i:11191960 original size:16 final size:17
Alignment explanation
Indices: 11191939--11191972 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
11191929 TTTTTTCTCA
11191939 TTTTTATATT-TAAATT
1 TTTTTATATTCTAAATT
11191955 TTTTTATATTCTAAATT
1 TTTTTATATTCTAAATT
11191972 T
1 T
11191973 GTATTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATATTCTAAATT
Found at i:11202568 original size:86 final size:86
Alignment explanation
Indices: 11202330--11202741 Score: 592
Period size: 86 Copynumber: 4.8 Consensus size: 86
11202320 ATAACCCCCT
* * *
11202330 CAAAAAAACATGTTACTCATCTTGTACGATAAAAATTGTATAATATTATATACAAGCAAGCATTT
1 CAAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTT
*
11202395 AGTCATATTTCAAAAATAATTC
66 AGTCATATTTCAAAAATAA-CC
* * * *
11202417 AAAAAGAAAAATTTTACTCATCTTGTACAATAAGAGTTGTATGATATTATATACAAGCAAGCATT
1 CAAAA-AAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATT
11202482 TAGTCATATTTCAAAAATAACC
65 TAGTCATATTTCAAAAATAACC
* * * *
11202504 CAAAAAAACATGTTACTCATCTTGTACCATAAGAGTTGTATAAAATTATATACAAGTAAGCATTT
1 CAAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTT
* *
11202569 AGTTATATTTCGAAAATAACC
66 AGTCATATTTCAAAAATAACC
*
11202590 CAAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGTAAGCATTT
1 CAAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTT
* * *
11202655 AGTTATATTTCGAACAA-AACT
66 AGTCATATTTC-AAAAATAACC
* * * *
11202676 TAAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATATAAACAAACATTT
1 CAAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTT
11202741 A
66 A
11202742 ATTATACGAT
Statistics
Matches: 295, Mismatches: 28, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
86 210 0.71
87 12 0.04
88 73 0.25
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (86 bp):
CAAAAAAACATGTTACTCATCTTGTACGATAAGAGTTGTATGATATTATATACAAGCAAGCATTT
AGTCATATTTCAAAAATAACC
Found at i:11208200 original size:86 final size:85
Alignment explanation
Indices: 11208044--11208200 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
11208034 ATAAGCTCAT
* * * * *
11208044 ACAATGCAATATCCCAGATATGGTCTTACATGTTAACACATATCGATGCCACTGTCCCAGATAGG
1 ACAATGCAATATCCCAGACATGGTCTTACACGTTAACACATATCAATGCCAATGTCCCAGACAGG
11208109 GTCTTATACGAAATCGATTA
66 GTCTTATACGAAATCGATTA
* *
11208129 ACAATGCCAATGTCCCAGACATGGTCTTACACG-TAATCTCA-ATACAATGCCAATGTCCCAGAC
1 ACAATG-CAATATCCCAGACATGGTCTTACACGTTAA-CACATAT-CAATGCCAATGTCCCAGAC
*
11208192 ATGGTCTTA
63 AGGGTCTTA
11208201 CATGTAATCA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 11 0.18
86 50 0.82
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (85 bp):
ACAATGCAATATCCCAGACATGGTCTTACACGTTAACACATATCAATGCCAATGTCCCAGACAGG
GTCTTATACGAAATCGATTA
Found at i:11208208 original size:43 final size:42
Alignment explanation
Indices: 11208042--11208209 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 42
11208032 ACATAAGCTC
* * *
11208042 ATACAATG-CAATATCCCAGATATGGTCTTACATGTTAA--CA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACG-TAATCCA
* * * * * * *
11208082 CATATCGATGCCACTGTCCCAGATAGGGTCTTATACGAAATCGA
1 -ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCCA
*
11208126 TTAACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC-CA
*
11208170 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
11208210 ACATCTCGAT
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
41 3 0.03
42 6 0.06
43 90 0.87
44 4 0.04
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCCA
Found at i:11213302 original size:46 final size:47
Alignment explanation
Indices: 11213157--11213370 Score: 156
Period size: 46 Copynumber: 4.6 Consensus size: 47
11213147 GTTGTGTGCT
* * ** *
11213157 AGTGTAAGACATGTTTGGGACAT-GCATCAGCC-ACATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAACCTTGA-GATGTA-AGCC
* * ** * * * *
11213203 AGTGTAAGACCGTGTCTGGGATATGGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCAACCTTGAGATGTAAGCC
** *
11213251 AGTGTAAGACCCGTCTGGGACAT-GCATCAACCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCAACCTTGAGATGTAAGCC
* * *
11213297 AGTGTAAGACATGTATGGAACAT-GCATCAA-CTATGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGGCATCAACCT-TGAGATGTAAGCC
11213341 AGTGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGAC-ATGTCTGGGACATGGCATC
11213371 GTCACGTATA
Statistics
Matches: 133, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
44 12 0.09
45 13 0.10
46 63 0.47
47 22 0.17
48 21 0.16
49 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAACCTTGAGATGTAAGCC
Found at i:11213394 original size:48 final size:48
Alignment explanation
Indices: 11213296--11213518 Score: 169
Period size: 48 Copynumber: 4.7 Consensus size: 48
11213286 AGATGTAAGC
* * * *
11213296 CAGTGTAAGA-CATGTATGGAACAT-GCATC--AAC-TATGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTAT-AGAGGTGT
*
11213340 CAGTGTAAGACTATGTCTGGGACATGGCATCGTCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTATAGAGGTGT
* * * *
11213388 CAGTGTAAGGCCATGTCTGGGACATGGCATCGGCACG-A-AAATGTGTGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTATAGA-G-GTG-T
* * * * *
11213437 CTAGTGAAAGACCATG-CTTGGGACATGGCGTCGGTCTCGATTTCGA--TAGT
1 C-AGTGTAAGACCATGTC-TGGGACATGGCATC-GTCACG-TATAGAGGT-GT
11213487 CAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
11213519 ACTTGATGGA
Statistics
Matches: 142, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
44 10 0.07
45 11 0.08
46 7 0.05
47 2 0.01
48 47 0.33
49 31 0.22
50 28 0.20
51 5 0.04
54 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTATAGAGGTGT
Found at i:11222102 original size:43 final size:43
Alignment explanation
Indices: 11222049--11222167 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
11222039 TGCCATATCT
* * *
11222049 CAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCC
1 CAGACATGGTCTTACATGTAATCACATATCGATGCCAATGTCC
* *
11222092 CAGACATGGTCTTACACGAAATCA-ATTAAT-GATGCCAATGTCC
1 CAGACATGGTCTTACATGTAATCACA-T-ATCGATGCCAATGTCC
*
11222135 CAGACATGGTCTTACATGTAATCACATCTCGAT
1 CAGACATGGTCTTACATGTAATCACATATCGAT
11222168 AACCTAATGT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 59 0.92
44 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
CAGACATGGTCTTACATGTAATCACATATCGATGCCAATGTCC
Found at i:11224540 original size:27 final size:27
Alignment explanation
Indices: 11224509--11224661 Score: 177
Period size: 27 Copynumber: 5.7 Consensus size: 27
11224499 CAAATGATTG
*
11224509 CCACAAAGGCTTTTCTTTCATATTTCA
1 CCACAAAGGCTTTCCTTTCATATTTCA
*
11224536 CCACAAAGGCTTTCCTTTCATGTTTCA
1 CCACAAAGGCTTTCCTTTCATATTTCA
*
11224563 CCACAAAGGCTTTCCTTTCATGTTTCA
1 CCACAAAGGCTTTCCTTTCATATTTCA
* * *
11224590 CTATAAAGGCTTTCCTTTCATGATTT-G
1 CCACAAAGGCTTTCCTTTCAT-ATTTCA
* * *
11224617 CTACAAAGGCTTTTCTTTCATGATTT-G
1 CCACAAAGGCTTTCCTTTCAT-ATTTCA
11224644 CCA-ATAAGGCTTTCCTTT
1 CCACA-AAGGCTTTCCTTT
11224662 TCTAACGTGT
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 110 0.96
28 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.41
Consensus pattern (27 bp):
CCACAAAGGCTTTCCTTTCATATTTCA
Found at i:11224653 original size:81 final size:81
Alignment explanation
Indices: 11224513--11224661 Score: 205
Period size: 81 Copynumber: 1.8 Consensus size: 81
11224503 TGATTGCCAC
*
11224513 AAAGGCTTTTCTTTCATATTTCACCACAAAGGCTTTCCTTTCATGTTTCACCACAAAGGCTTTCC
1 AAAGGCTTTCCTTTCATATTTCACCACAAAGGCTTTCCTTTCATGTTTCACCACAAAGGCTTTCC
11224578 TTTCATGTTTCACTAT
66 TTTCATGTTTCACTAT
* * * *
11224594 AAAGGCTTTCCTTTCATGATTT-GCTACAAAGGCTTTTCTTTCATGATTT-GCCA-ATAAGGCTT
1 AAAGGCTTTCCTTTCAT-ATTTCACCACAAAGGCTTTCCTTTCATG-TTTCACCACA-AAGGCTT
11224656 TCCTTT
63 TCCTTT
11224662 TCTAACGTGT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 1 0.02
81 52 0.87
82 7 0.12
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (81 bp):
AAAGGCTTTCCTTTCATATTTCACCACAAAGGCTTTCCTTTCATGTTTCACCACAAAGGCTTTCC
TTTCATGTTTCACTAT
Found at i:11225609 original size:51 final size:49
Alignment explanation
Indices: 11225550--11225646 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 49
11225540 GAAGACCCCC
*
11225550 TCTTTCTTTATCTGATTATCCATTAATGTAATCTAAGTCTTTATTGGGACT
1 TCTTTCTTTATCTAATTATCCATTAA--TAATCTAAGTCTTTATTGGGACT
11225601 TCTTTCTTTATCTAATTATCCATTAATAATCTAAGTCTTTATTGGG
1 TCTTTCTTTATCTAATTATCCATTAATAATCTAAGTCTTTATTGGG
11225647 CTTAAAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 20 0.44
51 25 0.56
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (49 bp):
TCTTTCTTTATCTAATTATCCATTAATAATCTAAGTCTTTATTGGGACT
Found at i:11225915 original size:17 final size:17
Alignment explanation
Indices: 11225890--11225924 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11225880 AACCTAATTG
*
11225890 ACATGGAACCTTCATTA
1 ACATAGAACCTTCATTA
11225907 ACATAGAACCTTCATTA
1 ACATAGAACCTTCATTA
11225924 A
1 A
11225925 AAGATCACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (17 bp):
ACATAGAACCTTCATTA
Found at i:11234520 original size:18 final size:18
Alignment explanation
Indices: 11234497--11234536 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
11234487 ATTTATTTAA
11234497 TATTTTAATAAGATATTT
1 TATTTTAATAAGATATTT
11234515 TATTTTAATAAGATATTT
1 TATTTTAATAAGATATTT
11234533 TATT
1 TATT
11234537 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTTTAATAAGATATTT
Found at i:11238390 original size:22 final size:22
Alignment explanation
Indices: 11238339--11238404 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
11238329 CTTATTGTTT
* * * *
11238339 TCAGCTCATTGGAGCTTACCGTT
1 TCAGCTCAATAGAGCTTACTG-A
*
11238362 TCAGCTCGTATA-AGCTTACTGA
1 TCAGCTC-AATAGAGCTTACTGA
11238384 TCAGCTCAATAGAGCTTACTG
1 TCAGCTCAATAGAGCTTACTG
11238405 TTCATCAGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.09
22 16 0.46
23 15 0.43
24 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (22 bp):
TCAGCTCAATAGAGCTTACTGA
Found at i:11238435 original size:26 final size:24
Alignment explanation
Indices: 11238374--11238448 Score: 66
Period size: 26 Copynumber: 3.1 Consensus size: 24
11238364 AGCTCGTATA
*
11238374 AGCTTACTGATC--AGCTCA-ATAG
1 AGCTTACCGATCATAGCTCAGA-AG
* *
11238396 AGCTTACTGTTCATCAGCTCAGGAAG
1 AGCTTACCGATCAT-AGCTCA-GAAG
*
11238422 AGCTTACCGATCATGGCTCAGAAG
1 AGCTTACCGATCATAGCTCAGAAG
11238446 AGC
1 AGC
11238449 ATATATGTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 11 0.25
24 7 0.16
25 11 0.25
26 14 0.32
27 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
AGCTTACCGATCATAGCTCAGAAG
Found at i:11241293 original size:45 final size:45
Alignment explanation
Indices: 11241241--11241330 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
11241231 GCAGTGTAGA
11241241 TGGATTGAGCTACTCAAAGATTACGACTACACGATAGAGTACCAT
1 TGGATTGAGCTACTCAAAGATTACGACTACACGATAGAGTACCAT
11241286 TGGATTGAGCTACTCAAAGATTACGACTACACGATAGAGTACCAT
1 TGGATTGAGCTACTCAAAGATTACGACTACACGATAGAGTACCAT
11241331 CCCGGTAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (45 bp):
TGGATTGAGCTACTCAAAGATTACGACTACACGATAGAGTACCAT
Found at i:11244137 original size:16 final size:18
Alignment explanation
Indices: 11244118--11244159 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
11244108 GAGACTGTTT
11244118 TATT-ATGGG-CCAACTG
1 TATTAATGGGCCCAACTG
11244134 TATTGAATGGGCCCAACTG
1 TATT-AATGGGCCCAACTG
*
11244153 TGTTAAT
1 TATTAAT
11244160 ATGGGCAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.18
18 8 0.36
19 10 0.45
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (18 bp):
TATTAATGGGCCCAACTG
Found at i:11252829 original size:38 final size:38
Alignment explanation
Indices: 11252778--11252851 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
11252768 GCCATTGTGG
*
11252778 TCCCCCTTTCTTTTTATTAATCTATAATTAATCTTTAA
1 TCCCCCTTTCTTTTTATTAATCTATAATTAAACTTTAA
11252816 TCCCCCTTTCTTTTTATTAATCTATAATTAAACTTT
1 TCCCCCTTTCTTTTTATTAATCTATAATTAAACTTT
11252852 TACCTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.00, T:0.53
Consensus pattern (38 bp):
TCCCCCTTTCTTTTTATTAATCTATAATTAAACTTTAA
Found at i:11254202 original size:51 final size:52
Alignment explanation
Indices: 11254136--11254242 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 52
11254126 TTCATTTTTG
*
11254136 TTTTCATTTTGGAGAAAACCATATTCATTTCCAAATGATT-CCATTTCTCCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCCATTTCTCCA
* * *
11254187 TTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTTTCCCATTTCTTCA
1 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCCATTTCTCCA
11254239 TTTT
1 TTTT
11254243 TACCATTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 37 0.73
52 14 0.27
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.45
Consensus pattern (52 bp):
TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCCATTTCTCCA
Found at i:11256742 original size:17 final size:18
Alignment explanation
Indices: 11256710--11256743 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11256700 AAAAGTTCTG
*
11256710 ATAATTATACATTTAAAA
1 ATAATTAGACATTTAAAA
11256728 ATAATTAGA-ATTTAAA
1 ATAATTAGACATTTAAA
11256744 TTACAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTAGACATTTAAAA
Found at i:11257664 original size:32 final size:32
Alignment explanation
Indices: 11257628--11257691 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
11257618 TCATAAAATG
11257628 ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
1 ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
11257660 ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
1 ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
11257692 CATTCGAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (32 bp):
ATTGTTCAAAACCCATTAGTTTAAAGCAAAGT
Found at i:11261538 original size:21 final size:23
Alignment explanation
Indices: 11261506--11261569 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 23
11261496 GTACCTGATC
*
11261506 AAAATACAACACATAAAGTGCCT
1 AAAATACGACACATAAAGTGCCT
** *
11261529 -AAA-ACGACACACGAGGTGCCT
1 AAAATACGACACATAAAGTGCCT
11261550 AAAATACGACACATAAAGTG
1 AAAATACGACACATAAAGTG
11261570 TCTGATCGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 14 0.44
22 6 0.19
23 12 0.38
ACGTcount: A:0.48, C:0.22, G:0.16, T:0.14
Consensus pattern (23 bp):
AAAATACGACACATAAAGTGCCT
Found at i:11262748 original size:23 final size:23
Alignment explanation
Indices: 11262720--11262775 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
11262710 ATTAGTTATT
* * *
11262720 TTTATTACAAGTGTACCTATCTA
1 TTTATTACAAATGTACCAATATA
*
11262743 TTTATTACAAATGTACCAATATT
1 TTTATTACAAATGTACCAATATA
11262766 TTTATTACAA
1 TTTATTACAA
11262776 TTGTCATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (23 bp):
TTTATTACAAATGTACCAATATA
Found at i:11263045 original size:12 final size:12
Alignment explanation
Indices: 11263019--11263057 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
11263009 AAAATATGTG
*
11263019 TATTGTTTTAATA
1 TATT-TTTTATTA
11263032 TATTTTTTATTA
1 TATTTTTTATTA
11263044 TA-TTTTTATTA
1 TATTTTTTATTA
11263055 TAT
1 TAT
11263058 AATCAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 11 0.46
12 9 0.38
13 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TATTTTTTATTA
Found at i:11263137 original size:40 final size:39
Alignment explanation
Indices: 11263020--11263151 Score: 115
Period size: 41 Copynumber: 3.3 Consensus size: 39
11263010 AAATATGTGT
* *
11263020 ATTGTTTTAATATATTTTTTATTATATTTTTATTATATAATCA
1 ATTGTTTTAATATATTTTTTATT-TGTTTTTGTT-T-TAA-CA
* * * *
11263063 A-T-TTTTATTATATTTTTCAATTTGTGTATTGTTTTAAGA
1 ATTGTTTTAATATATTTTT-TATTTGT-TTTTGTTTTAACA
*
11263102 ATTGTTTTAATATATTTTTTATTTGTTTCTTGTTTTAATA
1 ATTGTTTTAATATATTTTTTATTTGTTT-TTGTTTTAACA
*
11263142 TTTGTTTTAA
1 ATTGTTTTAA
11263152 ATGTATTTGA
Statistics
Matches: 73, Mismatches: 11, Indels: 13
0.75 0.11 0.13
Matches are distributed among these distances:
39 3 0.04
40 29 0.40
41 31 0.42
42 9 0.12
43 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (39 bp):
ATTGTTTTAATATATTTTTTATTTGTTTTTGTTTTAACA
Found at i:11263466 original size:3 final size:3
Alignment explanation
Indices: 11263458--11263519 Score: 76
Period size: 3 Copynumber: 21.3 Consensus size: 3
11263448 ATATGAAACC
* *
11263458 ATA ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ATC ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11263503 ATTA ATA ATA ATA ATA A
1 A-TA ATA ATA ATA ATA A
11263520 AATCTTAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 5 0.10
3 43 0.84
4 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11263474 original size:36 final size:37
Alignment explanation
Indices: 11263420--11263516 Score: 133
Period size: 36 Copynumber: 2.6 Consensus size: 37
11263410 TTATTTAATA
* * *
11263420 ATAATACTAATTAAATAATTATAACTTAATATGAAACC
1 ATAATAATAATT-AATAATAATAACTTAATATAAAACC
* *
11263458 ATAATAATAA-TAATAATAATAATTTAATATAAAATC
1 ATAATAATAATTAATAATAATAACTTAATATAAAACC
11263494 ATAATAATAATTAATAATAATAA
1 ATAATAATAATTAATAATAATAA
11263517 TAAAATCTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
36 31 0.58
37 13 0.25
38 9 0.17
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (37 bp):
ATAATAATAATTAATAATAATAACTTAATATAAAACC
Found at i:11263498 original size:13 final size:14
Alignment explanation
Indices: 11263467--11263523 Score: 55
Period size: 16 Copynumber: 4.0 Consensus size: 14
11263457 CATAATAATA
11263467 ATAATAATAATAAT-
1 ATAATAATAA-AATC
*
11263481 TTAAT-ATAAAATC
1 ATAATAATAAAATC
*
11263494 ATAATAATAATTAATA
1 ATAATAATAA--AATC
11263510 ATAATAATAAAATC
1 ATAATAATAAAATC
11263524 TTAGAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 3 0.09
13 8 0.23
14 11 0.31
16 13 0.37
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAATAAAATC
Found at i:11263500 original size:24 final size:24
Alignment explanation
Indices: 11263461--11263519 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
11263451 TGAAACCATA
11263461 ATAATAATAATAATAATAATTTAAT
1 ATAATAATAATAATAATAA-TTAAT
*
11263486 ATAA-AATCATAATAATAATTAAT
1 ATAATAATAATAATAATAATTAAT
11263509 AATAATAATAA
1 -ATAATAATAA
11263520 AATCTTAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 5 0.17
24 17 0.57
25 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAATAATAATAATAATAATTAAT
Found at i:11263500 original size:30 final size:30
Alignment explanation
Indices: 11263464--11263523 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
11263454 AACCATAATA
11263464 ATAATAATAA-TAATAATTTAAT-ATAAAATC
1 ATAATAATAATTAATAA--TAATAATAAAATC
11263494 ATAATAATAATTAATAATAATAATAAAATC
1 ATAATAATAATTAATAATAATAATAAAATC
11263524 TTAGAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 4 0.14
30 18 0.64
31 6 0.21
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (30 bp):
ATAATAATAATTAATAATAATAATAAAATC
Found at i:11264364 original size:25 final size:26
Alignment explanation
Indices: 11264308--11264388 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
11264298 TGATACAAAT
11264308 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11264334 TGATAATGGGTTAGGTAAATG-TCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11264359 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11264385 TGAT
1 TGAT
11264389 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
25 25 0.46
26 29 0.54
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11267396 original size:175 final size:177
Alignment explanation
Indices: 11267094--11267421 Score: 536
Period size: 175 Copynumber: 1.9 Consensus size: 177
11267084 TCAATTCTTA
* * * *
11267094 GTAAATGTTTTTGTTGTAATGAATTGTATTTGGATAGATGTAACATTATATTTCTAGATACTCTC
1 GTAAATGTTTTTGTTGTAATGAACTATATTTCGATAAATGTAACATTATATTTCTAGATACTCTC
* * *
11267159 TTTTTTTTTCATTTGATAATGAATCTTTAAATGAAATAGTAAGAAAAATGTTTTAAGTAAAGAGT
66 TTTTTGTTTCATTTGATAATGAATATTTAAATGAAATAGTAAGAAAAATGTTTTAAGTAAAGAAT
11267224 TTTGGTCAACTGTGTGTAAATTTATTTTTTTTATACTCTCTTTTGTT
131 TTTGGTCAACTGTGTGTAAATTTATTTTTTTTATACTCTCTTTTGTT
*
11267271 GTAAATGTTTTTGTTGTAATGAACTATA-TTCGATCAAATGTAATATTATATTTCTAGATACTCT
1 GTAAATGTTTTTGTTGTAATGAACTATATTTCGAT-AAATGTAACATTATATTTCTAGATACTCT
* *
11267335 C-TTTTGTTTC-TTTGATAATGAATATTTAAATGAAATAGTACGCAAAATGTTTTAAGTAAAGAA
65 CTTTTTGTTTCATTTGATAATGAATATTTAAATGAAATAGTAAGAAAAATGTTTTAAGTAAAGAA
11267398 TTTTGGTCAACTGTGTGTAAATTT
130 TTTTGGTCAACTGTGTGTAAATTT
11267422 TGTTTGGTAT
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
175 73 0.52
176 13 0.09
177 54 0.39
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (177 bp):
GTAAATGTTTTTGTTGTAATGAACTATATTTCGATAAATGTAACATTATATTTCTAGATACTCTC
TTTTTGTTTCATTTGATAATGAATATTTAAATGAAATAGTAAGAAAAATGTTTTAAGTAAAGAAT
TTTGGTCAACTGTGTGTAAATTTATTTTTTTTATACTCTCTTTTGTT
Found at i:11268367 original size:6 final size:6
Alignment explanation
Indices: 11268356--11268570 Score: 394
Period size: 6 Copynumber: 35.8 Consensus size: 6
11268346 CAAAAAATAA
11268356 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
11268404 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
11268452 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * *
11268500 TATATG TATATG TATTTG TATATG TATTTG TATATG TATTTG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
11268548 TATTTG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATAT
11268571 ATGTAACATC
Statistics
Matches: 201, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 201 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:11270059 original size:24 final size:24
Alignment explanation
Indices: 11270027--11270109 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 24
11270017 AGAATTAATA
*
11270027 AAGATCATTTATGTATATTCAATC
1 AAGATCATTCATGTATATTCAATC
*
11270051 AAGATCATTCATGTATATTCACTC
1 AAGATCATTCATGTATATTCAATC
*
11270075 AAGATCATTCATGTATATTTAATC
1 AAGATCATTCATGTATATTCAATC
*
11270099 AAAATCATTCA
1 AAGATCATTCA
11270110 AGTGTACTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (24 bp):
AAGATCATTCATGTATATTCAATC
Found at i:11277614 original size:27 final size:27
Alignment explanation
Indices: 11277582--11277636 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11277572 TTTGAGATGT
11277582 TAATTTTTCATATCATCTTTCTTGAGG
1 TAATTTTTCATATCATCTTTCTTGAGG
11277609 TAATTTTTCATATCATCTTTCTTGAGG
1 TAATTTTTCATATCATCTTTCTTGAGG
11277636 T
1 T
11277637 TCATTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.11, T:0.53
Consensus pattern (27 bp):
TAATTTTTCATATCATCTTTCTTGAGG
Found at i:11283770 original size:43 final size:42
Alignment explanation
Indices: 11283720--11283826 Score: 123
Period size: 41 Copynumber: 2.6 Consensus size: 42
11283710 TATGTGTTCT
* *
11283720 CGTGTAAGACCGCAT-T-TGGGACGTTGGCATCGATATGTGATTA
1 CGTGTAAGACC-CATGTCTGGGACATCGGCATCG-TAT-TGATTA
* *
11283763 CGTGTAAGA-CCATGTCTGGGACATCGGCATCGTATTTATTT
1 CGTGTAAGACCCATGTCTGGGACATCGGCATCGTATTGATTA
11283804 CGTGTAAGACCC-TGTCTGGGACA
1 CGTGTAAGACCCATGTCTGGGACA
11283827 ATGGCAATGA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
41 27 0.47
42 7 0.12
43 23 0.40
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCCATGTCTGGGACATCGGCATCGTATTGATTA
Found at i:11283820 original size:41 final size:43
Alignment explanation
Indices: 11283709--11283867 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 43
11283699 AGTATTTCCT
* *
11283709 ATATGTG-TTCTCGTGTAAGACCGCAT-T-TGGGACGTTGGCATCG
1 ATATGTGATT-TCGTGTAAGACC-C-TGTCTGGGACATCGGCATCG
* *
11283752 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATCG
1 ATATGTGATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCG
*
11283795 -TAT-TTATTTCGTGTAAGACCCTGTCTGGGACAAT-GGCAAT-G
1 ATATGTGATTTCGTGTAAGACCCTGTCTGGGAC-ATCGGC-ATCG
** *
11283836 ATATGTGATAGCATGTAAGACCAC-GTCTGGGA
1 ATATGTGATTTCGTGTAAGACC-CTGTCTGGGA
11283868 TGTTGGCATT
Statistics
Matches: 97, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
41 30 0.31
42 11 0.11
43 53 0.55
44 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
ATATGTGATTTCGTGTAAGACCCTGTCTGGGACATCGGCATCG
Found at i:11284083 original size:20 final size:21
Alignment explanation
Indices: 11284048--11284086 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11284038 TTGCAAATCA
11284048 TATATGATGTAAATGAAAAAT
1 TATATGATGTAAATGAAAAAT
*
11284069 TATATG-TGTATATGAAAA
1 TATATGATGTAAATGAAAA
11284087 GTACATTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (21 bp):
TATATGATGTAAATGAAAAAT
Found at i:11286246 original size:25 final size:24
Alignment explanation
Indices: 11286146--11286248 Score: 89
Period size: 25 Copynumber: 4.2 Consensus size: 24
11286136 GAGTTCAAGC
* * *
11286146 GAGCCAATATCGGGAAGCTCCGGA
1 GAGCCATTATCGGGAAGCTCAGAA
* *
11286170 GAGCCATTAATCAGGAAGCTCATAA
1 GAGCCATT-ATCGGGAAGCTCAGAA
* * *
11286195 AAGCCAGTTATTGGGAAGCTCCGAA
1 GAGCCA-TTATCGGGAAGCTCAGAA
* *
11286220 GAGCCATATATCGGGACGCTCATAA
1 GAGCCAT-TATCGGGAAGCTCAGAA
11286245 GAGC
1 GAGC
11286249 TGTGGTGTGT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
24 8 0.13
25 51 0.84
26 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.17
Consensus pattern (24 bp):
GAGCCATTATCGGGAAGCTCAGAA
Found at i:11288291 original size:47 final size:47
Alignment explanation
Indices: 11288217--11288315 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
11288207 ACCTAGACAC
* *
11288217 CCCAATTTGTTCGCAGGAATTCAAACACAACACGGCCAATTCGTTTT
1 CCCAATTTCTTCGCAGGAATTCAAACACAACACGGCCAATTCGTCTT
* * *
11288264 CCCAATTTCTTCGCGGGGATTCGAACACAACACGGCCAATTCGTCTT
1 CCCAATTTCTTCGCAGGAATTCAAACACAACACGGCCAATTCGTCTT
11288311 CCCAA
1 CCCAA
11288316 CTATACGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (47 bp):
CCCAATTTCTTCGCAGGAATTCAAACACAACACGGCCAATTCGTCTT
Found at i:11288813 original size:13 final size:13
Alignment explanation
Indices: 11288795--11288827 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
11288785 TTGAATAATT
11288795 CTAAATATTATCA
1 CTAAATATTATCA
11288808 CTAAATATTATCA
1 CTAAATATTATCA
11288821 CTAAATA
1 CTAAATA
11288828 ATTCTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:11293441 original size:7 final size:7
Alignment explanation
Indices: 11293429--11293459 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11293419 TGTGGGAGAA
11293429 TTTTTGT
1 TTTTTGT
11293436 TTTTTGT
1 TTTTTGT
11293443 TTTTT-T
1 TTTTTGT
11293449 TTTTTGT
1 TTTTTGT
11293456 TTTT
1 TTTT
11293460 ATCATACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (7 bp):
TTTTTGT
Found at i:11293451 original size:13 final size:13
Alignment explanation
Indices: 11293429--11293459 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11293419 TGTGGGAGAA
11293429 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
*
11293442 TTTTTTTTTTTTG
1 TTTTTGTTTTTTG
11293455 TTTTT
1 TTTTT
11293460 ATCATACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:11293495 original size:5 final size:5
Alignment explanation
Indices: 11293487--11293517 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
11293477 TATTAAATTA
*
11293487 ATTTT ATTTT ATTTT ATTTT ATTTC ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
11293518 CATGTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:11294054 original size:39 final size:39
Alignment explanation
Indices: 11294001--11294076 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
11293991 CGATCGGCGT
* *
11294001 TGTTTTTGGAGAGAG-ATAAAAATGTGCCCTGTAGGACG
1 TGTTTTTGGAGAGAGAATAAAAACGCGCCCTGTAGGACG
*
11294039 TGTTTTTAGGAGAGAGAATAAAAGCGCGCCCTGTAGGA
1 TGTTTTT-GGAGAGAGAATAAAAACGCGCCCTGTAGGA
11294077 TGCGTTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 7 0.21
39 8 0.24
40 18 0.55
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (39 bp):
TGTTTTTGGAGAGAGAATAAAAACGCGCCCTGTAGGACG
Found at i:11296230 original size:27 final size:26
Alignment explanation
Indices: 11296200--11296251 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
11296190 TATCTGATAT
11296200 TGATTCTG-AATTGGGCTTAGGCCCATC
1 TGATTCTGTAA-TGGGC-TAGGCCCATC
11296227 TGATTCTGTTAATGGGCTAGGCCCA
1 TGATTCTG-TAATGGGCTAGGCCCA
11296252 ACTGTTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 16 0.70
28 5 0.22
29 2 0.09
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (26 bp):
TGATTCTGTAATGGGCTAGGCCCATC
Found at i:11303645 original size:12 final size:12
Alignment explanation
Indices: 11303628--11303653 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11303618 GAAAATAGGG
11303628 TTTTAGCGGCAT
1 TTTTAGCGGCAT
11303640 TTTTAGCGGCAT
1 TTTTAGCGGCAT
11303652 TT
1 TT
11303654 ATTTAAAAAA
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:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCAT
Found at i:11303730 original size:41 final size:41
Alignment explanation
Indices: 11303709--11303929 Score: 370
Period size: 41 Copynumber: 5.4 Consensus size: 41
11303699 CGTTTTACCA
11303709 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
11303750 AAAACGCCGCTAAAAACCAGAACATTAGCGGCGCTTTTGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
11303791 AAAACGCCGCTAAAAACCAGAGCATTAACGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
11303832 AAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
* *
11303873 AAAACGCCGCTATAAACCAGAGCATTAGCGGCGCTTTTTTGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTTGGT
11303915 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
11303930 GTCATATAAC
Statistics
Matches: 166, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 146 0.88
42 20 0.12
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:11303899 original size:123 final size:124
Alignment explanation
Indices: 11303679--11303929 Score: 398
Period size: 123 Copynumber: 2.0 Consensus size: 124
11303669 CAAAAATTGT
11303679 AAAACACAGAGCAATAACGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCT
1 AAAACACAGAGCAATAACGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCT
11303744 TTTGGTAAAACGCCGCTAAAAACCAGAACATTAGCGGCGC-TTTTGATAAAACGCCGCTA
66 TTTGGTAAAACGCCGCTAAAAACCAGAACATTAGCGGCGCTTTTTG-TAAAACGCCGCTA
* **** *
11303803 AAAAC-CAGAGCATTAACGGCGTTTTTGGTAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCT
1 AAAACACAGAGCAATAACGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCT
* *
11303867 TTTGGTAAAACGCCGCTATAAACCAGAGCATTAGCGGCGCTTTTTTGTAAAACGCCGCTA
66 TTTGGTAAAACGCCGCTAAAAACCAGAACATTAGCGGCGC-TTTTTGTAAAACGCCGCTA
11303927 AAA
1 AAA
11303930 GTCATATAAC
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
123 91 0.78
124 21 0.18
125 5 0.04
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (124 bp):
AAAACACAGAGCAATAACGGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCT
TTTGGTAAAACGCCGCTAAAAACCAGAACATTAGCGGCGCTTTTTGTAAAACGCCGCTA
Found at i:11305391 original size:33 final size:34
Alignment explanation
Indices: 11305345--11305416 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
11305335 AGTAGATATT
11305345 GAAGA-GAAGGAGAACGA-GGAAGAAGAAGAAGAA
1 GAAGAGGAAGGAGAA-GACGGAAGAAGAAGAAGAA
* * *
11305378 GAAGAGGAA-GAGAAGACGGGAGAGGAGGAAGAA
1 GAAGAGGAAGGAGAAGACGGAAGAAGAAGAAGAA
11305411 GAAGAG
1 GAAGAG
11305417 AGTGAAGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 2 0.06
33 29 0.85
34 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.44, T:0.00
Consensus pattern (34 bp):
GAAGAGGAAGGAGAAGACGGAAGAAGAAGAAGAA
Found at i:11309731 original size:19 final size:19
Alignment explanation
Indices: 11309709--11309749 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11309699 TTTATTGATA
11309709 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
11309727 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
11309746 TTTT
1 TTTT
11309750 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:11310039 original size:43 final size:43
Alignment explanation
Indices: 11309985--11310148 Score: 220
Period size: 43 Copynumber: 3.8 Consensus size: 43
11309975 ATTTCATGGC
* *
11309985 CTTTAGTGGCGTTTGTAGGAAAAGTGCCGCTAAAGGTCATGAT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
* *
11310028 CTTTAGTGGCGTTTGTGGGAAAAGCGCTGCCAAAGGTCATGAT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
* * * * *
11310071 CTTTAGCGGCATTTGTGGGAAAAGTGTCACTAAAGGTCATGAT
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
* * *
11310114 TTTTAGTGGCGTTTTTGGTAAAAGCGCCGCTAAAG
1 CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAG
11310149 ATTTTTCAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
Found at i:11310402 original size:14 final size:14
Alignment explanation
Indices: 11310383--11310416 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11310373 TAAAAATATA
*
11310383 ATTGAGAATTGAGG
1 ATTGAGAATTAAGG
*
11310397 ATTGAGAATTAAGT
1 ATTGAGAATTAAGG
11310411 ATTGAG
1 ATTGAG
11310417 TTGAAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.32
Consensus pattern (14 bp):
ATTGAGAATTAAGG
Found at i:11311011 original size:16 final size:17
Alignment explanation
Indices: 11310989--11311038 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
11310979 TTGCTAAAAA
*
11310989 ATAAATAATAAAATTGC
1 ATAAATAATAAAATTAC
*
11311006 -TAAATATTAAAATATAC
1 ATAAATAATAAAAT-TAC
11311023 ATAAATAATAATAATT
1 ATAAATAATAA-AATT
11311039 CAACCAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 10 0.37
19 3 0.11
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
ATAAATAATAAAATTAC
Found at i:11316808 original size:21 final size:22
Alignment explanation
Indices: 11316782--11316913 Score: 92
Period size: 21 Copynumber: 5.8 Consensus size: 22
11316772 AAAAAAAGAT
11316782 AATTTAAATGAAAT-AAGAAAA
1 AATTTAAATGAAATGAAGAAAA
* * *
11316803 AATTTAAATTTACATGGAATAAAA
1 AATTTAAA-TGAAAT-GAAGAAAA
*
11316827 TAATTTAAATGAAATG-ACAAAA
1 -AATTTAAATGAAATGAAGAAAA
* *
11316849 AA-TTAAATTAAAATAGGAAGATAGAT
1 AATTTAAA-TGAAAT--GAAGA-A-AA
11316875 AATTTAAATGAAATGAA-AAAA
1 AATTTAAATGAAATGAAGAAAA
*
11316896 AATTTAAATTTAAATGAA
1 AATTTAAA-TGAAATGAA
11316914 ATAAGGAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
20 5 0.06
21 24 0.28
22 18 0.21
23 3 0.03
24 15 0.17
25 9 0.10
26 8 0.09
27 5 0.06
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (22 bp):
AATTTAAATGAAATGAAGAAAA
Found at i:11316812 original size:27 final size:26
Alignment explanation
Indices: 11316782--11316938 Score: 97
Period size: 27 Copynumber: 6.4 Consensus size: 26
11316772 AAAAAAAGAT
11316782 AATTTAAATGAAATAAGAAAAAATTTA
1 AATTTAAATGAAATAAGAAAAAA-TTA
* *
11316809 AATTTACATGGAAT-----AAAA-T-
1 AATTTAAATGAAATAAGAAAAAATTA
* *
11316828 AATTTAAATGAAATGACAAAAAATTA
1 AATTTAAATGAAATAAGAAAAAATTA
* ** * *
11316854 AATTAAAAT--AGGAAG-ATAGA-T-
1 AATTTAAATGAAATAAGAAAAAATTA
11316875 AATTTAAATGAAATGAA-AAAAAATTTA
1 AATTTAAATGAAAT-AAGAAAAAA-TTA
11316902 AATTTAAATGAAATAAGGAAAAAATTA
1 AATTTAAATGAAATAA-GAAAAAATTA
*
11316929 AATTAAAATG
1 AATTTAAATG
11316939 GAAAGAAAGG
Statistics
Matches: 97, Mismatches: 17, Indels: 32
0.66 0.12 0.22
Matches are distributed among these distances:
19 12 0.12
20 1 0.01
21 8 0.08
22 5 0.05
23 4 0.04
24 11 0.11
25 1 0.01
26 11 0.11
27 38 0.39
28 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (26 bp):
AATTTAAATGAAATAAGAAAAAATTA
Found at i:11317041 original size:19 final size:20
Alignment explanation
Indices: 11317005--11317045 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11316995 GTATATTAGG
*
11317005 AAAAAAATAAATTTAAATGA
1 AAAAAAATAAATTGAAATGA
*
11317025 AAAAAAATCAA-TGAAATGA
1 AAAAAAATAAATTGAAATGA
11317044 AA
1 AA
11317046 TGTAATTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAAAAATAAATTGAAATGA
Found at i:11317044 original size:5 final size:5
Alignment explanation
Indices: 11317034--11317086 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
11317024 AAAAAAAATC
* *
11317034 AATGA AATGA AATGTA ATTCGT AATGA ATATGA AATGA AATGA AATGA
1 AATGA AATGA AATG-A AAT-GA AATGA A-ATGA AATGA AATGA AATGA
11317082 AATGA
1 AATGA
11317087 TGATTATGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 10 0.24
7 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (5 bp):
AATGA
Found at i:11317209 original size:5 final size:5
Alignment explanation
Indices: 11317199--11317229 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
11317189 ATTTAAATTT
11317199 AAATG AAATG AAATG TAAATG AAATG AAATG
1 AAATG AAATG AAATG -AAATG AAATG AAATG
11317230 GATATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (5 bp):
AAATG
Found at i:11317247 original size:6 final size:6
Alignment explanation
Indices: 11317129--11317251 Score: 58
Period size: 6 Copynumber: 20.5 Consensus size: 6
11317119 AATAAATTAT
* * **
11317129 AAATGA AAATGA AAATGA AAATAA AAACTG- AAATGA TAAATAAA TAAATTT
1 AAATGA AAATGA AAATGA AAATGA AAA-TGA AAATGA -AAAT-GA -AAATGA
** ** *
11317180 AAATAGA AAATTT AAATTT AAATG- AAATG- AAATGT AAATG- AAATG-
1 AAAT-GA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
* * *
11317225 AAATGG ATATTA AAATGA AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA AAA
11317252 AAAAAAGTTG
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
5 22 0.23
6 58 0.61
7 9 0.09
8 6 0.06
ACGTcount: A:0.62, C:0.01, G:0.12, T:0.25
Consensus pattern (6 bp):
AAATGA
Found at i:11328484 original size:12 final size:12
Alignment explanation
Indices: 11328469--11328499 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11328459 TTTTCTTTTA
11328469 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
11328481 TTTTTCTTTCTC
1 TTTTTCTTTCCC
11328493 TTTTTCT
1 TTTTTCT
11328500 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:11328504 original size:23 final size:23
Alignment explanation
Indices: 11328458--11328504 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
11328448 AATCCTTAGT
*
11328458 TTTTTCTTTTATTTTTCTTTCCC
1 TTTTTCTTTTATTTTTCTTCCCC
*
11328481 TTTTTCTTTCTCTTTTTC-TCCCC
1 TTTTTCTTT-TATTTTTCTTCCCC
11328504 T
1 T
11328505 GCTTCCCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTCTTTTATTTTTCTTCCCC
Found at i:11328554 original size:8 final size:8
Alignment explanation
Indices: 11328541--11328571 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
11328531 TTCCCTTTTG
11328541 TTTCTTTA
1 TTTCTTTA
11328549 TTTCTTTA
1 TTTCTTTA
11328557 TTTCTTTA
1 TTTCTTTA
*
11328565 ATTCTTT
1 TTTCTTT
11328572 TATACTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTCTTTA
Found at i:11328573 original size:17 final size:17
Alignment explanation
Indices: 11328535--11328574 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
11328525 TTTCTATTCC
* *
11328535 CTTTTGTTTCTTTATTT
1 CTTTTATTTCTTTAATT
11328552 C-TTTATTTCTTTAATT
1 CTTTTATTTCTTTAATT
11328568 CTTTTAT
1 CTTTTAT
11328575 ACTTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.72
Consensus pattern (17 bp):
CTTTTATTTCTTTAATT
Found at i:11332175 original size:48 final size:49
Alignment explanation
Indices: 11332042--11332186 Score: 168
Period size: 50 Copynumber: 2.9 Consensus size: 49
11332032 TATGGCGTTG
* *
11332042 ATATGAAATCCCATGTAGGACCATGCCTGGGACATGGCATTGGCATCGAC
1 ATATG-AATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
* *
11332092 ATATGAGATCCCATGTAAGACCATGTATGGGACATGTCATTGGCATCGA-
1 ATATGA-ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
* * * * *
11332141 GT-GGTAATCCCATGTAAGACCATATCTGGAACATGGCGTTGGCATC
1 ATATG-AATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
11332187 TTATTATGTG
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
48 36 0.44
49 3 0.04
50 43 0.52
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (49 bp):
ATATGAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAC
Found at i:11333161 original size:30 final size:30
Alignment explanation
Indices: 11333126--11333193 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
11333116 ACACAAAGGC
* *
11333126 AGAGACACGGTCGTGTGTCTCAACCGTGTG
1 AGAGACACGGCCATGTGTCTCAACCGTGTG
* *
11333156 AGAGACACGGCCATGTGTCTCGATCGTGTG
1 AGAGACACGGCCATGTGTCTCAACCGTGTG
11333186 AGAGACAC
1 AGAGACAC
11333194 AGCCTCAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.21
Consensus pattern (30 bp):
AGAGACACGGCCATGTGTCTCAACCGTGTG
Found at i:11336044 original size:20 final size:21
Alignment explanation
Indices: 11335995--11336049 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
11335985 TCAGACACTT
11335995 TATGTGTCGTATTTCAGGCACC
1 TATGTGTCGTA-TTCAGGCACC
*
11336017 TCATGTGTAGTATT-AGGCACC
1 T-ATGTGTCGTATTCAGGCACC
11336038 TATGTGTCGTAT
1 TATGTGTCGTAT
11336050 ACTGATCAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.33
21 8 0.27
22 3 0.10
23 9 0.30
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (21 bp):
TATGTGTCGTATTCAGGCACC
Found at i:11338842 original size:12 final size:12
Alignment explanation
Indices: 11338825--11338849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11338815 ATATCTAGAA
11338825 TTCTCTTCATTT
1 TTCTCTTCATTT
11338837 TTCTCTTCATTT
1 TTCTCTTCATTT
11338849 T
1 T
11338850 CATCAGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTCTTCATTT
Found at i:11341982 original size:16 final size:17
Alignment explanation
Indices: 11341963--11342001 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
11341953 AATCTTTTAA
*
11341963 AAATTATAAAAATTAT-
1 AAATTATAAAAATAATG
*
11341979 AAATTATTAAAATAATG
1 AAATTATAAAAATAATG
11341996 AAATTA
1 AAATTA
11342002 CATTTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATTATAAAAATAATG
Found at i:11344781 original size:12 final size:12
Alignment explanation
Indices: 11344754--11344783 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
11344744 TTATAAAAAA
11344754 ATTAAAAATATT
1 ATTAAAAATATT
11344766 -TTAAAAATATT
1 ATTAAAAATATT
11344777 ATTAAAA
1 ATTAAAA
11344784 CTTCATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAAAAATATT
Found at i:11345923 original size:17 final size:15
Alignment explanation
Indices: 11345898--11345937 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
11345888 ATTTTTTGAA
11345898 TTTTTTATTTCTCATT
1 TTTTTTATTTCT-ATT
11345914 TTTTTATATTTCTATT
1 TTTTT-TATTTCTATT
11345930 TTTTTTAT
1 TTTTTTAT
11345938 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.13
16 13 0.57
17 7 0.30
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTATTTCTATT
Found at i:11345988 original size:12 final size:12
Alignment explanation
Indices: 11345960--11346002 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
11345950 TACATCTAGG
11345960 ATGAATATGGACAA
1 ATGAATAT-G-CAA
11345974 ATGAATATGCAA
1 ATGAATATGCAA
11345986 ATGCAA-ATGCAA
1 ATG-AATATGCAA
11345998 ATGAA
1 ATGAA
11346003 CTTGGATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.07
12 15 0.54
13 3 0.11
14 8 0.29
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (12 bp):
ATGAATATGCAA
Found at i:11347352 original size:16 final size:16
Alignment explanation
Indices: 11347331--11347362 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11347321 TTGGGTTCAA
11347331 TTATTAGACTTAATTT
1 TTATTAGACTTAATTT
11347347 TTATTAGACTTAATTT
1 TTATTAGACTTAATTT
11347363 GAGTTTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATTAGACTTAATTT
Found at i:11349033 original size:18 final size:21
Alignment explanation
Indices: 11348993--11349040 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
11348983 ATATTTAAAG
11348993 AAAA-AATTAAATAAATCATT
1 AAAATAATTAAATAAATCATT
11349013 AAAATAATTAAA-AAAT-A-T
1 AAAATAATTAAATAAATCATT
*
11349031 AAAATTATTA
1 AAAATAATTA
11349041 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 10 0.38
19 1 0.04
20 8 0.31
21 7 0.27
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATAATTAAATAAATCATT
Found at i:11355262 original size:21 final size:22
Alignment explanation
Indices: 11355222--11355262 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11355212 TTCTAAATAA
* *
11355222 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
11355244 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
11355263 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:11357133 original size:20 final size:20
Alignment explanation
Indices: 11357108--11357152 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
11357098 TTTTATTTAT
11357108 TAAAATAATAAAT-TTATAAA
1 TAAAATAAT-AATCTTATAAA
11357128 TAAAATAATAATCTTATAAA
1 TAAAATAATAATCTTATAAA
11357148 TAAAA
1 TAAAA
11357153 CAAATTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:11358894 original size:20 final size:21
Alignment explanation
Indices: 11358866--11358914 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
11358856 ACTTGACACT
* *
11358866 AAATCATTTGAGAAATAA-AA
1 AAATTATTTGAAAAATAATAA
*
11358886 AAATTATTTTAAAAATAATAA
1 AAATTATTTGAAAAATAATAA
*
11358907 ATATTATT
1 AAATTATT
11358915 ATAAAGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
AAATTATTTGAAAAATAATAA
Found at i:11358914 original size:21 final size:20
Alignment explanation
Indices: 11358878--11358919 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
11358868 ATCATTTGAG
*
11358878 AAATAAAAAAATTATTTTAA
1 AAATAAAAAAATTATTATAA
*
11358898 AAATAATAAATATTATTATAA
1 AAATAA-AAAAATTATTATAA
11358919 A
1 A
11358920 GGTAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATAAAAAAATTATTATAA
Found at i:11363383 original size:31 final size:32
Alignment explanation
Indices: 11363348--11363414 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
11363338 TTTTTAGCTA
*
11363348 AATTTGACTCCCAATCTTTA-AAAAAA-AGTTG
1 AATTTGACTACCAAT-TTTACAAAAAAGAGTTG
**
11363379 AATTTGACTATTAATTTTACAAAAAAGAGTTG
1 AATTTGACTACCAATTTTACAAAAAAGAGTTG
11363411 AATT
1 AATT
11363415 ATTTTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 4 0.13
31 18 0.58
32 9 0.29
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (32 bp):
AATTTGACTACCAATTTTACAAAAAAGAGTTG
Found at i:11363533 original size:22 final size:23
Alignment explanation
Indices: 11363502--11363547 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
11363492 ATATATATTT
11363502 TTTTAATTTTCATGAAC-TTTTTA
1 TTTTAATTTT-ATGAACATTTTTA
*
11363525 TTTT-ATTTTTTGAACATTTTTA
1 TTTTAATTTTATGAACATTTTTA
11363547 T
1 T
11363548 AATTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTAATTTTATGAACATTTTTA
Found at i:11365362 original size:13 final size:13
Alignment explanation
Indices: 11365343--11365374 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
11365333 AAATACTATG
11365343 TTATATAT-TAC-
1 TTATATATATACA
11365354 TTATATATATACA
1 TTATATATATACA
11365367 TTATATAT
1 TTATATAT
11365375 TTTGAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 3 0.16
13 8 0.42
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATATATATACA
Found at i:11371760 original size:178 final size:178
Alignment explanation
Indices: 11371461--11372634 Score: 1497
Period size: 178 Copynumber: 6.6 Consensus size: 178
11371451 GACATCGGTG
* * *
11371461 AAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGGTTGAAAATGGCGAGTCTTATCTC
1 AAATTTACAGATCTTATCTCCATGTATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTC
* * * * * *
11371526 TATGTATCAGCTATGGAGCAGATTTTGGCTACCAGCCTTATCTCTCTAAGGTAGCAAAAGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* *
11371591 GTTGAAGATGCATGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
131 GTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * *
11371639 AAATTTACAGATATTATCTCCATGTATCGGCTATGAAGTAGATTGAAAATGGCGAGTCTTGTCTC
1 AAATTTACAGATCTTATCTCCATGTATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTC
* **
11371704 CATGTATCGGCTGTGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGCAAGAGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* * *
11371769 GTTGAAGATACAGGTCTTATCTTCCTAAGGTAGCAAAGAAGCAGACTG
131 GTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * * *
11371817 AAATTTACAGAT-TTATCTCCATGTATTGGCTATGGAA-TATATCAAAAATGACGAGTCTTATCT
1 AAATTTACAGATCTTATCTCCATGTATCGGCTAT-GAAGCAGATCGAAAATGGCGAGTCTTATCT
* * * * *
11371880 CTATGTATCAGCTATGGAGTAGATTTTAGCCACTAACCTTATTTCTCTAAGGTAGCAAGAGAGCA
65 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
* *
11371945 GGTTGAAGATATAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
130 GGTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* ** *
11371994 AAATTTACAGATCTTATCTCCATGTATCGGCTAT-AGAGTAGATAAAAAATAGCGAGTCTTATCT
1 AAATTTACAGATCTTATCTCCATGTATCGGCTATGA-AGCAGATCGAAAATGGCGAGTCTTATCT
* *
11372058 CCATGTATTGACTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
65 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
* *
11372123 GGTTGAAGATACAGGTCTTCTCTTCCTAAGGTAGCAAGGAAGCAGACTA
130 GGTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * *
11372172 AAATTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCGAAAATGGCGATTCTTATTTC
1 AAATTTACAGATCTTATCTCCATGTATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTC
* * *
11372237 CATGTATCGGCTATGCAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGCAGCAAGAGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
* ** *
11372302 GTTGAAGATATAAATCTTATCTTCCTGAGGTAGCAAGTAAGCAGACTA
131 GTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
11372350 AAATTTACAGATCTTATCTCCATGTATCGGCTATAGAA-CAGATCGAAAATGGCGACTCTTATCT
1 AAATTTACAGATCTTATCTCCATGTATCGGCTAT-GAAGCAGATCGAAAATGGCGAGTCTTATCT
* * * * * * *
11372414 CTATGTATTGGCTATGGAGCAGATTTTGGCCACCAGCCTTATCTCTTTGAGGTAGTAAGAGAGCA
65 CCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCA
* * * * *
11372479 GGTTGAAGATACAAGTCTTAT-TGTCCTGAGTTA-C-AGTGGAGTAGACTG
130 GGTTGAAGATACAGGTCTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTA
* * * * * * * *
11372527 AAAGTTACAGATATTATCTCC-T-TAAGCAG-TA-GTAGAGCAGATCGAAGACGGTGAATCTTAT
1 AAATTTACAGATCTTATCTCCATGT-ATCGGCTATG-A-AGCAGATCGAAAATGGCGAGTCTTAT
* * * * *
11372588 CTCCATGTATCAGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTC
63 CTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTC
11372635 CCTGAAGTTG
Statistics
Matches: 881, Mismatches: 103, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
173 1 0.00
174 1 0.00
175 4 0.00
176 67 0.08
177 185 0.21
178 621 0.70
179 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (178 bp):
AAATTTACAGATCTTATCTCCATGTATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTC
CATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
GTTGAAGATACAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
Found at i:11372125 original size:355 final size:356
Alignment explanation
Indices: 11371459--11372634 Score: 1610
Period size: 355 Copynumber: 3.3 Consensus size: 356
11371449 GCGACATCGG
* *
11371459 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGGTTGAAAATGGCGAGTCTTATC
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * *
11371524 TCTATGTATCAGCTATGGAGCAGATTTTGGCTACCAGCCTTATCTCTCTAAGGTAGCAAAAGAGC
66 TCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGC
** * *
11371589 AGGTTGAAGATGCATGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATATT
131 AGGTTGAAGATATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCTT
* * * *
11371654 ATCTCCATGTATCGGCTAT-GAAGTAGATTGAAAATGGCGAGTCTTGTCTCCATGTATCGGCTGT
196 ATCTCCATGTATCGGCTATAG-AGTAGATAGAAAATGGCGAGTCTTATCTCCATGTATTGGCTAT
*
11371718 GGAGCAGATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGG
260 GGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGG
11371783 TCTTATCTTCCTAAGGTAGCAAAGAAGCAGAC
325 TCTTATCTTCCTAAGGTAGCAAAGAAGCAGAC
* ** * * *
11371815 TGAAATTTACAGAT-TTATCTCCATGTATTGGCTATGGAATATATCAAAAATGACGAGTCTTATC
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * *
11371879 TCTATGTATCAGCTATGGAGTAGATTTTAGCCACTAACCTTATTTCTCTAAGGTAGCAAGAGAGC
66 TCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGC
* *
11371944 AGGTTGAAGATATAGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAATTTACAGATCTT
131 AGGTTGAAGATATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCTT
* * *
11372009 ATCTCCATGTATCGGCTATAGAGTAGATAAAAAATAGCGAGTCTTATCTCCATGTATTGACTATG
196 ATCTCCATGTATCGGCTATAGAGTAGATAGAAAATGGCGAGTCTTATCTCCATGTATTGGCTATG
*
11372074 GAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
261 GAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
* *
11372139 CTTCTCTTCCTAAGGTAGCAAGGAAGCAGAC
326 CTTATCTTCCTAAGGTAGCAAAGAAGCAGAC
* * * *
11372170 TAAAATTTACAGATCTTATCTCCATATATCGGCTATGGAGCAGATCGAAAATGGCGATTCTTATT
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * * *
11372235 TCCATGTATCGGCTATGCAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGCAGCAAGAGAGC
66 TCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGC
* *
11372300 AGGTTGAAGATATAAATCTTATCTTCCTGAGGTAGCAAGTAAGCAGACTAAAATTTACAGATCTT
131 AGGTTGAAGATATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCTT
** * * *
11372365 ATCTCCATGTATCGGCTATAGAACAGATCGAAAATGGCGACTCTTATCTCTATGTATTGGCTATG
196 ATCTCCATGTATCGGCTATAGAGTAGATAGAAAATGGCGAGTCTTATCTCCATGTATTGGCTATG
* * * * *
11372430 GAGCAGATTTTGGCCACCAGCCTTATCTCTTTGAGGTAGTAAGAGAGCAGGTTGAAGATACAAGT
261 GAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
* * ** * *
11372495 CTTAT-TGTCCTGAGTTA-CAGTGGAGTAGAC
326 CTTATCT-TCCTAAGGTAGCAAAGAAGCAGAC
* * * * * * * * *
11372525 TGAAAGTTACAGATATTATCTCC-T-TAAGCAG-TAGTAGAGCAGATCGAAGACGGTGAATCTTA
1 TGAAATTTACAGATCTTATCTCCATGT-ATCGGCTA-TGGAGCAGATCGAAAATGGCGAGTCTTA
* * * * *
11372587 TCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTC
64 TCTCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTC
11372635 CCTGAAGTTG
Statistics
Matches: 724, Mismatches: 91, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
353 3 0.00
354 68 0.09
355 351 0.48
356 302 0.42
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (356 bp):
TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
TCTATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGC
AGGTTGAAGATATAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCTT
ATCTCCATGTATCGGCTATAGAGTAGATAGAAAATGGCGAGTCTTATCTCCATGTATTGGCTATG
GAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
CTTATCTTCCTAAGGTAGCAAAGAAGCAGAC
Found at i:11372527 original size:533 final size:533
Alignment explanation
Indices: 11371459--11372634 Score: 1585
Period size: 533 Copynumber: 2.2 Consensus size: 533
11371449 GCGACATCGG
* * ** *
11371459 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGGTTGAAAATGGCGAGTCTTATC
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATAAAAAATAGCGAGTCTTATC
* * * *
11371524 TCTATGTATCAGCTATGGAGCAGATTTTGGCTACCAGCCTTATCTCTCTAAGGTAGCAAAAGAGC
66 TCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAAAGAGC
* * *
11371589 AGGTTGAAGATGCATGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTTACAGATATT
131 AGGTTGAAGATACAGGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTAAAATTTACAGATATT
* * * * *
11371654 ATCTCCATGTATCGGCTATGAAGTAGATTGAAAATGGCGAGTCTTGTCTCCATGTATCGGCTGTG
196 ATCTCCATATATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
* ** * **
11371719 GAGCAGATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAGGT
261 CAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGCAGCAAGAGAGCAGGTTGAAGATACAAAT
* *
11371784 CTTATCTTCCTAAGGTAGCAAAGAAGCAGACTGAAATTTACAGATTTATCTCCATGTATTGGCTA
326 CTTATCTTCCTAAGGTAGCAAAGAAGCAGACTAAAATTTACAGATTTATCTCCATGTATCGGCTA
* * * * * *
11371849 TGGAATATATCAAAAATGACGAGTCTTATCTCTATGTATCAGCTATGGAGTAGATTTTAGCCACT
391 TAGAACAGATCAAAAATGACGACTCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAGCCACC
* * *
11371914 AACCTTATTTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATATAGGTCTTATCTTCCTGAGGTAG
456 AACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
11371979 CAAGGAAGCAGAC
521 CAAGGAAGCAGAC
*
11371992 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATAGAGTAGATAAAAAATAGCGAGTCTTATC
1 TGAAATTTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATAAAAAATAGCGAGTCTTATC
* *
11372057 TCCATGTAT-TGACTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAG
66 TCCATGTATCAG-CTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAAAGAG
* *
11372121 CAGGTTGAAGATACAGGTCTTCTCTTCCTAAGGTAGCAAGGAAGCAGACTAAAATTTACAGATCT
130 CAGGTTGAAGATACAGGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTAAAATTTACAGATAT
* * *
11372186 TATCTCCATATATCGGCTATGGAGCAGATCGAAAATGGCGATTCTTATTTCCATGTATCGGCTAT
195 TATCTCCATATATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTAT
* *
11372251 GCAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGCAGCAAGAGAGCAGGTTGAAGATATAAA
260 GCAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGCAGCAAGAGAGCAGGTTGAAGATACAAA
*
11372316 TCTTATCTTCCTGAGGTAGC-AAGTAAGCAGACTAAAATTTACAGATCTTATCTCCATGTATCGG
325 TCTTATCTTCCTAAGGTAGCAAAG-AAGCAGACTAAAATTTACAGAT-TTATCTCCATGTATCGG
* * ** *
11372380 CTATAGAACAGATCGAAAATGGCGACTCTTATCTCTATGTATTGGCTATGGAGCAGATTTTGGCC
388 CTATAGAACAGATCAAAAATGACGACTCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAGCC
* * * *
11372445 ACCAGCCTTATCTCTTTGAGGTAGTAAGAGAGCAGGTTGAAGATACAAGTCTTAT-TGTCCTGAG
453 ACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCT-TCCTGAG
* * *
11372509 TTA-C-AGTGGAGTAGAC
517 GTAGCAAG-GAAGCAGAC
* * * * ** * ** * *
11372525 TGAAAGTTACAGATATTATCTCC-T-TAAGCAG-TAGTAGAGCAGATCGAAGACGGTGAATCTTA
1 TGAAATTTACAGATCTTATCTCCATGT-ATCGGCTA-TAGAGCAGATAAAAAATAGCGAGTCTTA
* * * *
11372587 TCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTC
64 TCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTC
11372635 CCTGAAGTTG
Statistics
Matches: 561, Mismatches: 74, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
531 3 0.01
532 71 0.13
533 360 0.64
534 127 0.23
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (533 bp):
TGAAATTTACAGATCTTATCTCCATGTATCGGCTATAGAGCAGATAAAAAATAGCGAGTCTTATC
TCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAAAGAGC
AGGTTGAAGATACAGGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTAAAATTTACAGATATT
ATCTCCATATATCGGCTATGAAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCTATG
CAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGCAGCAAGAGAGCAGGTTGAAGATACAAAT
CTTATCTTCCTAAGGTAGCAAAGAAGCAGACTAAAATTTACAGATTTATCTCCATGTATCGGCTA
TAGAACAGATCAAAAATGACGACTCTTATCTCTATGTATCAGCTATGGAGCAGATTTTAGCCACC
AACCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG
CAAGGAAGCAGAC
Found at i:11378856 original size:44 final size:45
Alignment explanation
Indices: 11378803--11378904 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 45
11378793 TGTCTTTGAC
* * *
11378803 ATGGACTTACATAAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATAAATCAATCCTGTCTCCAAAGCCATATTATAAT
*** *
11378847 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATAAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
11378893 ATGGACTTACAT
1 ATGGACTTACAT
11378905 GGCTCATTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 32 0.65
46 17 0.35
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATAAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:11378907 original size:46 final size:44
Alignment explanation
Indices: 11378822--11378910 Score: 142
Period size: 46 Copynumber: 2.0 Consensus size: 44
11378812 CATAAATTAT
*
11378822 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
*
11378866 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
11378911 TTTCTGTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.44
46 23 0.56
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
Found at i:11381004 original size:16 final size:16
Alignment explanation
Indices: 11380983--11381020 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11380973 TTAGGGTTAA
11380983 GGTTTTGAGAATTTT-G
1 GGTTTTGA-AATTTTAG
*
11380999 GGTTTTTAAATTTTAG
1 GGTTTTGAAATTTTAG
11381015 GGTTTT
1 GGTTTT
11381021 AAGGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.55
Consensus pattern (16 bp):
GGTTTTGAAATTTTAG
Found at i:11381137 original size:96 final size:99
Alignment explanation
Indices: 11381017--11381194 Score: 231
Period size: 96 Copynumber: 1.8 Consensus size: 99
11381007 AATTTTAGGG
* * ** *
11381017 TTTTAAGGAAAAAAATATAATAAATTAAGGTTTAGTATTTGTTAATTAAATTAATTACT-AA-TT
1 TTTTAAAGAAAAAAATATAATAAATTAAGGTTTAGGATTACTTAAGTAAATTAATTA-TAAATTT
11381080 T-AAAAAAATTAGATTATGGCTTAGTGTTTATGGT
65 TAAAAAAAATTAGATTATGGCTTAGTGTTTATGGT
* *
11381114 TTTTAAAG-AAAAAATCA-AATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTT
1 TTTTAAAGAAAAAAAT-ATAATAAATTAAGGTTTAGGATTACTTAAGTAAATTAATTATAAATTT
11381177 TAAAAAAAAATTAGATTA
65 T-AAAAAAAATTAGATTA
11381195 GGATTTTAGG
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
95 1 0.01
96 42 0.61
97 11 0.16
99 15 0.22
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (99 bp):
TTTTAAAGAAAAAAATATAATAAATTAAGGTTTAGGATTACTTAAGTAAATTAATTATAAATTTT
AAAAAAAATTAGATTATGGCTTAGTGTTTATGGT
Found at i:11381212 original size:15 final size:15
Alignment explanation
Indices: 11381192--11381221 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11381182 AAAAATTAGA
11381192 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
11381207 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
11381222 ATTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:11381748 original size:251 final size:251
Alignment explanation
Indices: 11381293--11381824 Score: 832
Period size: 251 Copynumber: 2.1 Consensus size: 251
11381283 TAATATAAAA
* *
11381293 AAGCTTCTACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
* *
11381358 CTACGCAAATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGC
66 CTACGCAAATAGTGGTAAAAACGCTTAAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGC
* **
11381423 TCCCACGTGGATGCTCTTTTCCTACAGTATATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTG
131 TCCCACGTGGATGCTCTTCTCCTACAGTATATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCA
*
11381488 CAAATAGTGTAAAAAATGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
196 CAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
11381544 AAGCTTCCACGTGAACGCTCTTTTGCTACAATAGTCTCTG-AAAAATAATTTTGAGAAGACGTTT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
* * * *
11381608 CTGCGCAAATAGTGGTAAAAACGCTTAAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGC
66 CTACGCAAATAGTGGTAAAAACGCTTAAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGC
* * * *
11381673 TCCCACGTGGATGCTCTTCTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGATGTGTCTGC
131 TCCCACGTGGATGCTCTTCTCCTACAGT-ATATCTGAAAAAATAATTTTGAGAAGACGTGTCTGC
* * * *
11381738 ATAAATAGTGTTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTGCTGAAAG
195 ACAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
*
11381795 AAGCTCCCACGTGGACGCTCTTTTGCTACA
1 AAGCTTCCACGTGGACGCTCTTTTGCTACA
11381825 GTGGTTTCTG
Statistics
Matches: 255, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
250 107 0.42
251 148 0.58
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (251 bp):
AAGCTTCCACGTGGACGCTCTTTTGCTACAATAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
CTACGCAAATAGTGGTAAAAACGCTTAAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGC
TCCCACGTGGATGCTCTTCTCCTACAGTATATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCA
CAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:11381773 original size:126 final size:126
Alignment explanation
Indices: 11381301--11381837 Score: 817
Period size: 125 Copynumber: 4.3 Consensus size: 126
11381291 AAAAGCTTCT
* *
11381301 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTACGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
11381366 ATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
11381427 ACGTGGATGCTCTTTTCCTACAGTA-TATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
11381491 ATAGTGTAAAAAATGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
11381552 ACGTGAACGCTCTTTTGCTACAATAGTCTCTG-AAAAATAATTTTGAGAAGACGTTTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * *
11381616 ATAGTGGTAAAAACGCTTAAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * **
11381677 ACGTGGATGCTCTTCTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGATGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
11381742 ATAGTGTTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTGCTGAAAGAAGCTCCC
66 ATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
11381803 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
11381838 TAACTTGGGC
Statistics
Matches: 368, Mismatches: 41, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
125 224 0.61
126 144 0.39
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:11385283 original size:18 final size:18
Alignment explanation
Indices: 11385257--11385299 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11385247 GACTAGAAAA
* *
11385257 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
11385275 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
11385293 AGGATAC
1 AGGATAC
11385300 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:11387127 original size:20 final size:20
Alignment explanation
Indices: 11387094--11387144 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
11387084 TAACGAGAGT
11387094 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGA-G-ATTTAAGAGAAA
* *
11387116 TTTGAGAGATTTGAGAGGAA
1 TTTGAGAGATTTAAGAGAAA
11387136 TTTGAGAGA
1 TTTGAGAGA
11387145 ATATTGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 19 0.70
21 1 0.04
22 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:11387151 original size:11 final size:10
Alignment explanation
Indices: 11387094--11387151 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
11387084 TAACGAGAGT
11387094 TTTGAGAGGAA
1 TTTGAGA-GAA
*
11387105 TTTAAGAGAAA
1 TTTGAGAG-AA
11387116 TTTGAGAG-A
1 TTTGAGAGAA
11387125 TTTGAGAGGAA
1 TTTGAGA-GAA
11387136 TTTGAGAGAA
1 TTTGAGAGAA
11387146 TATTGA
1 T-TTGA
11387152 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 27 0.66
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:11387157 original size:31 final size:31
Alignment explanation
Indices: 11387094--11387157 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
11387084 TAACGAGAGT
*
11387094 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
*
11387125 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
11387156 TT
1 TT
11387158 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:11393947 original size:4 final size:4
Alignment explanation
Indices: 11393938--11393962 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11393928 GGGATATTAT
11393938 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
11393963 CAGGCGTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:11396679 original size:78 final size:77
Alignment explanation
Indices: 11396526--11396784 Score: 313
Period size: 78 Copynumber: 3.3 Consensus size: 77
11396516 CAACAAGAGA
** * * * *
11396526 TTGTTTGATTTCTGTTTCAAACAGAAAGCCAATTAAACATTCCTGTTTTAGGATTTTACTCTTGC
1 TTGTTTGATTTCTGTTTCAAACAGAAAATCAATTGAACACTCCTGTTTCAGGA-TTTATTCTTGC
* *
11396591 CATTTTACAGGAT
65 CGTTTAACAGGAT
* * * *
11396604 TTGTTTGATTTCTGTTTCAAACAGAAAATCAATTGAACACTCTTGTTTCAAGACTCTATTCCTGC
1 TTGTTTGATTTCTGTTTCAAACAGAAAATCAATTGAACACTCCTGTTTCAGGA-TTTATTCTTGC
11396669 CGTTTAACAGGAT
65 CGTTTAACAGGAT
* * * * *
11396682 TTGTTTGACTTCTATTTCAAAACA-AGAATTAATTGAACACTCCTGTTTCAGGATTTTTTCTTGC
1 TTGTTTGATTTCTGTTTC-AAACAGAAAATCAATTGAACACTCCTGTTTCAGGATTTATTCTTGC
*
11396746 CGTTTAATAGGAT
65 CGTTTAACAGGAT
*
11396759 TTGTTTGATTTTTGTTTCAAACAGAA
1 TTGTTTGATTTCTGTTTCAAACAGAA
11396785 TCTCTATTGT
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
76 5 0.03
77 36 0.24
78 106 0.70
79 5 0.03
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (77 bp):
TTGTTTGATTTCTGTTTCAAACAGAAAATCAATTGAACACTCCTGTTTCAGGATTTATTCTTGCC
GTTTAACAGGAT
Found at i:11401175 original size:30 final size:30
Alignment explanation
Indices: 11401141--11401200 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
11401131 ACTTAACAAG
*
11401141 CAAATGCCTCTAAAATAATAACAGAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
11401171 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
11401201 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:11401258 original size:22 final size:22
Alignment explanation
Indices: 11401232--11401280 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11401222 ATATCCAAAC
11401232 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * * *
11401254 CATAATAGTAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
11401276 AATAA
1 AATAA
11401281 GGAGAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:11401288 original size:22 final size:22
Alignment explanation
Indices: 11401240--11401290 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11401230 ACAATAACAA
* *
11401240 TAAAATAGTAGCAACATAATAG
1 TAAAATAGTAGCAAAATAAGAG
*
11401262 TAAAATGGTAGCAAAATAAGGAG
1 TAAAATAGTAGCAAAATAA-GAG
11401285 -AAAATA
1 TAAAATA
11401291 ACAAGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.57, C:0.06, G:0.18, T:0.20
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAAGAG
Found at i:11411269 original size:24 final size:23
Alignment explanation
Indices: 11411237--11411287 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11411227 ATTTAATAGT
* *
11411237 TTTTTTTCTGAAAATAAACTAAGA
1 TTTTCTTCT-AAAATAAACAAAGA
*
11411261 TTTTCTTCTAAAATAAACAAATA
1 TTTTCTTCTAAAATAAACAAAGA
11411284 TTTT
1 TTTT
11411288 AAAATGACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (23 bp):
TTTTCTTCTAAAATAAACAAAGA
Found at i:11411412 original size:22 final size:22
Alignment explanation
Indices: 11411381--11411425 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11411371 AGGCCGGGTT
*
11411381 GGGGAAGTTACACTTTCACACG
1 GGGGAAGTTACACTCTCACACG
*
11411403 GGGGAGGTTACACTCTCACACG
1 GGGGAAGTTACACTCTCACACG
11411425 G
1 G
11411426 AAACCATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.20
Consensus pattern (22 bp):
GGGGAAGTTACACTCTCACACG
Found at i:11418840 original size:18 final size:18
Alignment explanation
Indices: 11418805--11418839 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11418795 TTTCCTGTTA
11418805 ATTTCTCACTCAAATTTT
1 ATTTCTCACTCAAATTTT
*
11418823 ATTTCTCTCTC-AATTTT
1 ATTTCTCACTCAAATTTT
11418840 TTTATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTCTCACTCAAATTTT
Found at i:11421279 original size:28 final size:29
Alignment explanation
Indices: 11421243--11421307 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
11421233 TAAGTGATTT
*
11421243 TTGACAAAAATGTCAAA-T-AGGGATTAAA
1 TTGAGAAAAATGT-AAATTGAGGGATTAAA
* *
11421271 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
11421300 TTGTGAAA
1 TTGAGAAA
11421308 TAAATAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 12 0.39
29 16 0.52
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.28
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:11421829 original size:43 final size:43
Alignment explanation
Indices: 11421771--11421936 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
11421761 GTTATCGAGA
* * * *
11421771 TGTGGTTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
11421814 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *** * *
11421857 TATGATTTTGTGTAAGACCCTATCTGGGACAATGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
11421899 ATGTGATAACATGTAAGACCATATTTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
11421937 TGTACGAGAT
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 8 0.08
43 96 0.92
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:11424702 original size:24 final size:24
Alignment explanation
Indices: 11424675--11424728 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
11424665 AGTATAGTGG
* *
11424675 TGCTGTACAGATTTTAAGTCATGA
1 TGCTATACAAATTTTAAGTCATGA
*
11424699 TGCTATACAAATTTTGAGTCATGA
1 TGCTATACAAATTTTAAGTCATGA
*
11424723 AGCTAT
1 TGCTAT
11424729 GTTTAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (24 bp):
TGCTATACAAATTTTAAGTCATGA
Done.