Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 272 of 297
Found at i:92774726 original size:39 final size:39
Alignment explanation
Indices: 92774672--92774751 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
92774662 AGTAACATTA
92774672 TTTTTTGCTTAATAACATCACTTGTATTGTGAAAGAGTG
1 TTTTTTGCTTAATAACATCACTTGTATTGTGAAAGAGTG
92774711 TTTTTTGCTTAATAACATCACTTGTATTGTGAAAGAGTG
1 TTTTTTGCTTAATAACATCACTTGTATTGTGAAAGAGTG
92774750 TT
1 TT
92774752 ACTATCAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (39 bp):
TTTTTTGCTTAATAACATCACTTGTATTGTGAAAGAGTG
Found at i:92776169 original size:61 final size:58
Alignment explanation
Indices: 92776062--92776261 Score: 177
Period size: 61 Copynumber: 3.2 Consensus size: 58
92776052 ATCAATTTAA
* *
92776062 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAATTC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAATTC
* *
92776120 TATTAAATTAATAGAATATTTATTTACAAGATAAATATTAAATTGAATTTAATATTAAGATAATC
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTTAATATT-A-AT--T-
92776185 AC
58 -C
* * * **
92776187 TTTAATATTAAATTAATAAAATAC-TATCAAGATAAATATTTAATTTAATTTAATATTAAAAC
1 -----TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAATTC
*
92776249 TATTAAAATAATA
1 TATTAAATTAATA
92776262 TTATTTTTGG
Statistics
Matches: 117, Mismatches: 11, Indels: 29
0.75 0.07 0.18
Matches are distributed among these distances:
57 12 0.10
58 20 0.17
60 1 0.01
61 28 0.24
62 2 0.02
63 2 0.02
65 1 0.01
66 1 0.01
67 2 0.02
68 28 0.24
69 1 0.01
71 2 0.02
72 17 0.15
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAATTC
Found at i:92779405 original size:42 final size:42
Alignment explanation
Indices: 92779334--92779587 Score: 465
Period size: 42 Copynumber: 6.1 Consensus size: 42
92779324 AATAAAATAT
* * * *
92779334 TATCTAGATCAATAAT-AATTAAATTTAATATCTCATACTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
92779375 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
92779417 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
92779459 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
92779501 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
92779543 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
1 TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
92779585 TAT
1 TAT
92779588 TAATTAATAA
Statistics
Matches: 208, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
41 14 0.07
42 194 0.93
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (42 bp):
TATCTAGATAAATATTAAATTTAATTTAATATCTCATATTAA
Found at i:92781347 original size:28 final size:28
Alignment explanation
Indices: 92781314--92781423 Score: 139
Period size: 28 Copynumber: 3.9 Consensus size: 28
92781304 TGCCAGTTGA
*
92781314 ATACTCGATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
* *
92781342 GTACTCAATATCTCGCACATTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
* * *
92781370 ATTCTCAATGTTTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
* * *
92781398 ATACCCAATTTCTCGCACGCTAAGTG
1 ATACTCAATATCTCGCACACTAAGTG
92781424 TCGTACATAG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCC
Found at i:92781475 original size:40 final size:39
Alignment explanation
Indices: 92781431--92781514 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
92781421 GTGTCGTACA
* *
92781431 TAGCCGAAACTATCTCAAATCGTACACTAAGTGCCATATT
1 TAGCCGAAACTA-CTCAAACCGCACACTAAGTGCCATATT
* * *
92781471 TAGCCGAAGCTAGTCGAACCGCACACTAAGTGCCATATT
1 TAGCCGAAACTACTCAAACCGCACACTAAGTGCCATATT
92781510 TAGCC
1 TAGCC
92781515 AATTTGTCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 28 0.72
40 11 0.28
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (39 bp):
TAGCCGAAACTACTCAAACCGCACACTAAGTGCCATATT
Found at i:92782927 original size:27 final size:27
Alignment explanation
Indices: 92782865--92782927 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
92782855 GTCGGATCAC
*
92782865 TGCCATCGCAACCATTGTGCCTTGTGG
1 TGCCATCGTAACCATTGTGCCTTGTGG
* *
92782892 TGCCATCGTAACCATTTTTCCTTGTGG
1 TGCCATCGTAACCATTGTGCCTTGTGG
92782919 TGCCATCGT
1 TGCCATCGT
92782928 CAGAGCAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.14, C:0.29, G:0.22, T:0.35
Consensus pattern (27 bp):
TGCCATCGTAACCATTGTGCCTTGTGG
Found at i:92788375 original size:13 final size:14
Alignment explanation
Indices: 92788351--92788381 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
92788341 ACTTTAGCCA
92788351 TTTTTATGTTTATT
1 TTTTTATGTTTATT
92788365 TTTTTAT-TTTATT
1 TTTTTATGTTTATT
92788378 TTTT
1 TTTT
92788382 ACTTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (14 bp):
TTTTTATGTTTATT
Found at i:92794696 original size:6 final size:6
Alignment explanation
Indices: 92794685--92794716 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
92794675 AAAATTAAAT
*
92794685 AAAAGA AAAAGA AAAAGA AAAAGA AAACGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
92794717 TAAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:92804235 original size:10 final size:9
Alignment explanation
Indices: 92804220--92804245 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
92804210 TGTATACACA
92804220 TTTTTTTAT
1 TTTTTTTAT
92804229 TTTTTTTAT
1 TTTTTTTAT
92804238 TTTTTTTA
1 TTTTTTTA
92804246 AGAACAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:92805794 original size:30 final size:30
Alignment explanation
Indices: 92805740--92805797 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
92805730 TATACTTCTC
* *
92805740 ATTCCTGCTATCCATCTTATCAAAATAAAG
1 ATTCCTGCTATCCATCTCACCAAAATAAAG
92805770 ATTCCTGCTAT-CATTCTCACCAAAATAA
1 ATTCCTGCTATCCA-TCTCACCAAAATAA
92805798 GTTTTTTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (30 bp):
ATTCCTGCTATCCATCTCACCAAAATAAAG
Found at i:92807785 original size:29 final size:29
Alignment explanation
Indices: 92807752--92807811 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
92807742 GTCGTTTTAG
92807752 TCAGCAGGAAATATTTTAATAGAAATTTT
1 TCAGCAGGAAATATTTTAATAGAAATTTT
92807781 TCAGCAGGAAATATTTTAATAGAAATTTT
1 TCAGCAGGAAATATTTTAATAGAAATTTT
92807810 TC
1 TC
92807812 GGTCATTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (29 bp):
TCAGCAGGAAATATTTTAATAGAAATTTT
Found at i:92811823 original size:19 final size:19
Alignment explanation
Indices: 92811801--92811862 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
92811791 ATTATTACTC
*
92811801 TTATTATTTCTTTATTGTT
1 TTATTATTACTTTATTGTT
*
92811820 TTATT-TTACTTTGTT-TAT
1 TTATTATTACTTTATTGT-T
92811838 TT-TTATTAGCTTTATTG-T
1 TTATTATTA-CTTTATTGTT
92811856 TTATTAT
1 TTATTAT
92811863 CATTGTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 3 0.09
18 17 0.49
19 15 0.43
ACGTcount: A:0.18, C:0.05, G:0.06, T:0.71
Consensus pattern (19 bp):
TTATTATTACTTTATTGTT
Found at i:92813489 original size:17 final size:17
Alignment explanation
Indices: 92813456--92813494 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
92813446 TTTCTTTTTA
* *
92813456 ATTTT-TTTTTAATTTT
1 ATTTTATTTTGAACTTT
92813472 ATTTTATTTTGAACTTT
1 ATTTTATTTTGAACTTT
92813489 ATTTTA
1 ATTTTA
92813495 ATCATTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (17 bp):
ATTTTATTTTGAACTTT
Found at i:92814916 original size:53 final size:53
Alignment explanation
Indices: 92814835--92814985 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
92814825 CTTACACGGT
* *
92814835 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
92814890 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGCAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
92814943 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
92814986 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:92822436 original size:53 final size:53
Alignment explanation
Indices: 92822366--92822505 Score: 192
Period size: 53 Copynumber: 2.6 Consensus size: 53
92822356 CACATATCAT
* * *
92822366 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* * *
92822419 ACTGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
* *
92822472 ACCGATTCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
92822506 GCGCACTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 1 0.01
53 76 0.99
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:92828836 original size:47 final size:48
Alignment explanation
Indices: 92828783--92829103 Score: 218
Period size: 46 Copynumber: 6.8 Consensus size: 48
92828773 GGGTATAATA
92828783 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
* * * *
92828830 TCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATC-AAG
* ** * * *
92828879 CTGACACCATGTCCTAGACATGGTCTTACACTAGCTC-TCACATATCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAC--AT-CAAG
* * * * * **
92828929 CCGATGCCATGTCCTATACATGGTCTTACACTGACACAT-A-TTGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
* * * * *
92828975 CTGATG-CATGTCCCAGACAT-GTCTTACATTGGTTTA-CATC-TCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-CATC-AAG
* * *
92829021 CCGATG-CATGTCCCAGACAT-GTCTTATACTAGCTC-TCGTC-TCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCAA-G
* * *
92829067 CTGAGGCCATGTCCCAAACATGGTCTTACACTGGCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
92829104 TCAGAATGTG
Statistics
Matches: 209, Mismatches: 48, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
44 12 0.06
45 14 0.07
46 48 0.23
47 48 0.23
48 17 0.08
49 33 0.16
50 35 0.17
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCAAG
Found at i:92828908 original size:49 final size:48
Alignment explanation
Indices: 92828784--92828963 Score: 177
Period size: 47 Copynumber: 3.7 Consensus size: 48
92828774 GGTATAATAC
* * *
92828784 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCAAGG
*
92828831 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGG
** * * * * *
92828879 CTGACACCATGTCCTAGACATGGTCTTACACT-AGCTCTCACATATCCATGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCA-AAAT-CAAGG
* *
92828930 CGATGCCATGTCCTATACATGGTCTTACACTGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC
92828964 ACATATTGTA
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
46 3 0.03
47 34 0.31
48 7 0.06
49 32 0.29
50 31 0.28
51 4 0.04
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCAAGG
Found at i:92829133 original size:140 final size:140
Alignment explanation
Indices: 92828886--92829142 Score: 315
Period size: 140 Copynumber: 1.8 Consensus size: 140
92828876 AGGCTGACAC
* * * * *
92828886 CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCATGCCGATGCCATGTCCTATACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-ACATATCAATGCCGAGGCCATGTCCCAAACATG
* *
92828951 GTCTTACACTGACACATATTGTAGCTGATGCATGTCCCAGACATGTCTTACATTGGTTTACATCT
65 GTCTTACACTGACACAGAATGTAGCTGATGCATGTCCCAGACATGTCTTACATTGGTTTACATCT
92829016 CGAGGCCGATG
130 CGAGGCCGATG
* * * *
92829027 CATGTCCCAGACAT-GTCTTATACTAGCTCT-CGTCTCAATGCTGAGGCCATGTCCCAAACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCCGAGGCCATGTCCCAAACATGG
* * *
92829090 TCTTACACTGGCTCTCAGAATGTGGCCT-ATGCATG-CCCTAGACATGTCTTACA
66 TCTTACACT-G-ACACAGAATGTAG-CTGATGCATGTCCC-AGACATGTCTTACA
92829143 CTGGCACACA
Statistics
Matches: 98, Mismatches: 14, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
138 35 0.36
139 4 0.04
140 44 0.45
141 15 0.15
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTACATATCAATGCCGAGGCCATGTCCCAAACATGG
TCTTACACTGACACAGAATGTAGCTGATGCATGTCCCAGACATGTCTTACATTGGTTTACATCTC
GAGGCCGATG
Found at i:92835151 original size:69 final size:69
Alignment explanation
Indices: 92835064--92835198 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
92835054 TGAAGTGGAT
92835064 ATGGAATGTTATGTGAAATGTGTAAATTGTGTATACTACTACGAGGTTTGAAATGATATGATAAC
1 ATGGAATGTTATGTGAAATGTGTAAATTGTGTATACTACTACGAGGTTTGAAATGATATGATAAC
92835129 GATA
66 GATA
* * *
92835133 ATGGTATGTTATGTGAAATGTGTAAATTGTGTATGCTACTACGGGGTTTGAAATGATATGATAAC
1 ATGGAATGTTATGTGAAATGTGTAAATTGTGTATACTACTACGAGGTTTGAAATGATATGATAAC
92835198 G
66 G
92835199 GTAACGGTGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (69 bp):
ATGGAATGTTATGTGAAATGTGTAAATTGTGTATACTACTACGAGGTTTGAAATGATATGATAAC
GATA
Found at i:92835410 original size:26 final size:26
Alignment explanation
Indices: 92835381--92835502 Score: 93
Period size: 26 Copynumber: 4.5 Consensus size: 26
92835371 ACCCTGATCT
*
92835381 GAAGCTTGAGTGAGCAACCCAAATAC
1 GAAGCTTGTGTGAGCAACCCAAATAC
** ** *
92835407 GAAGGCTTGTGTGAAAAATTTCATAA-GC
1 GAA-GCTTGTGTGAGCAA-CCCA-AATAC
* ** *
92835435 AAAAGCTTGTGTGAGCAACCCTGATAT
1 -GAAGCTTGTGTGAGCAACCCAAATAC
92835462 GAAGCTTGTGTGAGCAACCCAAATAC
1 GAAGCTTGTGTGAGCAACCCAAATAC
*
92835488 AAAGGCTTGTGTGAG
1 GAA-GCTTGTGTGAG
92835503 TCATTCATAA
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
26 28 0.40
27 23 0.33
28 15 0.21
29 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (26 bp):
GAAGCTTGTGTGAGCAACCCAAATAC
Found at i:92835465 original size:81 final size:80
Alignment explanation
Indices: 92835356--92835532 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 80
92835346 AAATCGAACT
* * * *
92835356 AAGCTTCTTTGAGCAACCCTGATCTGAAGCTTGAGTGAGCAACCCAAATACGAAGGCTTGTGTGA
1 AAGCTTATGTGAGCAACCCTGATATGAAGCTTGAGTGAGCAACCCAAATACAAAGGCTTGTGTGA
*
92835421 AAAATTTCATAAGCAA
66 AAAA-TTCATAAACAA
* *
92835437 AAGCTTGTGTGAGCAACCCTGATATGAAGCTTGTGTGAGCAACCCAAATACAAAGGCTTGTGTGA
1 AAGCTTATGTGAGCAACCCTGATATGAAGCTTGAGTGAGCAACCCAAATACAAAGGCTTGTGTGA
***
92835502 GTCATTCATAAACAA
66 AAAATTCATAAACAA
*
92835517 AAGCTTATGTAAGCAA
1 AAGCTTATGTGAGCAA
92835533 AATAGTCCCG
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 24 0.28
81 61 0.72
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (80 bp):
AAGCTTATGTGAGCAACCCTGATATGAAGCTTGAGTGAGCAACCCAAATACAAAGGCTTGTGTGA
AAAATTCATAAACAA
Found at i:92836742 original size:17 final size:18
Alignment explanation
Indices: 92836707--92836744 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
92836697 TGAAATTTAT
*
92836707 TGTGTATTATAATATGAA
1 TGTGTATTATAATAGGAA
*
92836725 TGTGT-TTATGATAGGAA
1 TGTGTATTATAATAGGAA
92836742 TGT
1 TGT
92836745 ATGTTTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.45
Consensus pattern (18 bp):
TGTGTATTATAATAGGAA
Found at i:92848445 original size:21 final size:21
Alignment explanation
Indices: 92848420--92848484 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
92848410 TAGCCTTCGG
*
92848420 GCTTCCGTTTAGCAGTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
92848441 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
92848459 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
92848480 GCTTC
1 GCTTC
92848485 AGCTAGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.09, C:0.25, G:0.26, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:92848448 original size:39 final size:39
Alignment explanation
Indices: 92848402--92848502 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
92848392 ACTCTGATGA
*
92848402 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAGTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
92848441 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
92848480 GCTTCAGCTAGACTTCAGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
92848503 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.12, C:0.26, G:0.26, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:92859774 original size:37 final size:38
Alignment explanation
Indices: 92859723--92859819 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 38
92859713 CAGATAGATT
* *
92859723 CGATGAGGCTTTGGTCGCCAC-TTTGCTTCG-GCTTAGC
1 CGATGAGGCATTGGTCGCCACTTTTGCTTCGAAC-TAGC
* * *
92859760 CGATGAGACATTGGTCGTCACTTATTTGCTTCGAACTATC
1 CGATGAGGCATTGGTCGCCAC-T-TTTGCTTCGAACTAGC
92859800 CGATGAGGCATTGGTCGCCA
1 CGATGAGGCATTGGTCGCCA
92859820 TTCAGGTGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 18 0.37
40 30 0.61
41 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.31
Consensus pattern (38 bp):
CGATGAGGCATTGGTCGCCACTTTTGCTTCGAACTAGC
Found at i:92860174 original size:13 final size:13
Alignment explanation
Indices: 92860151--92860188 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
92860141 ATGTTAGTTT
92860151 TGTATGAATTTATA
1 TGTATG-ATTTATA
*
92860165 TGTATGATTTGTA
1 TGTATGATTTATA
92860178 TGTATGATTTA
1 TGTATGATTTA
92860189 CTAATTGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (13 bp):
TGTATGATTTATA
Found at i:92860765 original size:20 final size:20
Alignment explanation
Indices: 92860716--92860766 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
92860706 CCACGGGAAA
* * *
92860716 GCCACACGGACATGTTCTAG
1 GCCACACGGGCATGTCCCAG
92860736 GCCACACGGGCATGTCCCAG
1 GCCACACGGGCATGTCCCAG
92860756 GCCACACGGGC
1 GCCACACGGGC
92860767 GTGTGCCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.12
Consensus pattern (20 bp):
GCCACACGGGCATGTCCCAG
Found at i:92861742 original size:130 final size:130
Alignment explanation
Indices: 92861509--92861768 Score: 414
Period size: 130 Copynumber: 2.0 Consensus size: 130
92861499 GGGTTTTGGC
* *
92861509 CAAGCTTCCAAGCTCGATTGTAAGTCCGTTTTTGTCTTGTTTTTAATGATTTTTACGTTTTTGTG
1 CAAGCTTCCAAGCTCGATTGTAAGTCCGTTTTTGTCATATTTTTAATGATTTTTACGTTTTTGTG
* *
92861574 AATGATGTGACTTGATTTAGCTATTTCAAAGACTAATTTAAAAGAAAATTAAATTCTAAAATTTT
66 AATGATGTGACTTGATTTAGCTATTTCAAAGACTAATTTAAAAGAAAATCAAAGTCTAAAATTTT
* *
92861639 CAAGCTTCCAAGCTCGATTGTAAGTCTGTTTTTGTCATATTTTTAATTATTTTTACGTTTTTGTG
1 CAAGCTTCCAAGCTCGATTGTAAGTCCGTTTTTGTCATATTTTTAATGATTTTTACGTTTTTGTG
* * * *
92861704 AATGTTGTGAC-TGAATTTAGCTATTTCAAGGACTAATTTGAAAGAAAATCGAAGTCTAAAATTT
66 AATGATGTGACTTG-ATTTAGCTATTTCAAAGACTAATTTAAAAGAAAATCAAAGTCTAAAATTT
92861768 T
130 T
92861769 ACCTATGTTG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
129 2 0.02
130 117 0.98
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (130 bp):
CAAGCTTCCAAGCTCGATTGTAAGTCCGTTTTTGTCATATTTTTAATGATTTTTACGTTTTTGTG
AATGATGTGACTTGATTTAGCTATTTCAAAGACTAATTTAAAAGAAAATCAAAGTCTAAAATTTT
Found at i:92862044 original size:73 final size:73
Alignment explanation
Indices: 92861962--92862099 Score: 258
Period size: 73 Copynumber: 1.9 Consensus size: 73
92861952 TATGTTTGGC
*
92861962 TAGGCTTGGGTGTGATGAAATTGAATGAAAATTATTTTACGAGCCCAGGGACTAAAATGTAAAAA
1 TAGGCTTGGGTGTGATGAAATTGAATGAAAATCATTTTACGAGCCCAGGGACTAAAATGTAAAAA
92862027 TTTGAAAA
66 TTTGAAAA
*
92862035 TAGGCTTGGGTGTGATGAAATTGAATGAAAATCATTTTACGAGCCTAGGGACTAAAATGTAAAAA
1 TAGGCTTGGGTGTGATGAAATTGAATGAAAATCATTTTACGAGCCCAGGGACTAAAATGTAAAAA
92862100 GTTAAAAGGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (73 bp):
TAGGCTTGGGTGTGATGAAATTGAATGAAAATCATTTTACGAGCCCAGGGACTAAAATGTAAAAA
TTTGAAAA
Found at i:92865707 original size:29 final size:30
Alignment explanation
Indices: 92865673--92865743 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
92865663 AATCAAAGTT
*
92865673 TTCATATGTATAATTACAC-TAAATTAAAA
1 TTCATATGTATAATTACACATAAATCAAAA
*
92865702 TTCATATAT-TAAATTACACATTAAATCAAAA
1 TTCATATGTAT-AATTACACA-TAAATCAAAA
92865733 TT--TATGTATAA
1 TTCATATGTATAA
92865744 ATTTAAGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
28 1 0.03
29 22 0.63
30 1 0.03
31 11 0.31
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (30 bp):
TTCATATGTATAATTACACATAAATCAAAA
Found at i:92866306 original size:8 final size:8
Alignment explanation
Indices: 92866293--92866338 Score: 62
Period size: 8 Copynumber: 6.1 Consensus size: 8
92866283 AATAATAATC
92866293 TATTATAT
1 TATTATAT
92866301 TA-T-TA-
1 TATTATAT
92866306 TATTATAT
1 TATTATAT
*
92866314 TATTATAA
1 TATTATAT
92866322 TATTATAT
1 TATTATAT
92866330 TATTATAT
1 TATTATAT
92866338 T
1 T
92866339 GAATAAACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 2 0.06
6 3 0.09
7 3 0.09
8 25 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATAT
Found at i:92866311 original size:13 final size:13
Alignment explanation
Indices: 92866293--92866338 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 13
92866283 AATAATAATC
92866293 TATTATATTATTA
1 TATTATATTATTA
92866306 TATTATATTATTATAA
1 TATTATATTA-T-T-A
92866322 TATTATATTATTA
1 TATTATATTATTA
92866335 TATT
1 TATT
92866339 GAATAAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 15 0.50
14 2 0.07
15 2 0.07
16 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:92866319 original size:16 final size:16
Alignment explanation
Indices: 92866298--92866336 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
92866288 TAATCTATTA
*
92866298 TATTATTATATTATAT
1 TATTATAATATTATAT
92866314 TATTATAATATTATAT
1 TATTATAATATTATAT
92866330 TATTATA
1 TATTATA
92866337 TTGAATAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:92869714 original size:12 final size:12
Alignment explanation
Indices: 92869697--92869722 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92869687 GTCAACAGTC
92869697 TGAGCTTTAGCT
1 TGAGCTTTAGCT
92869709 TGAGCTTTAGCT
1 TGAGCTTTAGCT
92869721 TG
1 TG
92869723 TATCATCTGT
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:0.27, T:0.42
Consensus pattern (12 bp):
TGAGCTTTAGCT
Found at i:92875276 original size:31 final size:31
Alignment explanation
Indices: 92875238--92875396 Score: 300
Period size: 31 Copynumber: 5.1 Consensus size: 31
92875228 ATAAAGAGGG
92875238 TAAGACATTCCCAAATTAAAGGCTTCTTTTT
1 TAAGACATTCCCAAATTAAAGGCTTCTTTTT
92875269 TAAGACATTCCCAAATTAAAGGCTTCTTTTT
1 TAAGACATTCCCAAATTAAAGGCTTCTTTTT
92875300 TAAGACATTCCCAAATTAAAGGCTTCTTTTT
1 TAAGACATTCCCAAATTAAAGGCTTCTTTTT
92875331 TAAGACATTCCCAAATTAAAGGCTTCTTTTT
1 TAAGACATTCCCAAATTAAAGGCTTCTTTTT
92875362 TAAGACATTTTCCCAAATTAAAGGCTTCTTTTT
1 TAAGACA--TTCCCAAATTAAAGGCTTCTTTTT
92875395 TA
1 TA
92875397 CCTTAGGAAA
Statistics
Matches: 126, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
31 100 0.79
33 26 0.21
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (31 bp):
TAAGACATTCCCAAATTAAAGGCTTCTTTTT
Found at i:92876234 original size:34 final size:33
Alignment explanation
Indices: 92876167--92876234 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
92876157 TTTTTTTAAA
* *
92876167 TTTTGAGTTAACTGAATCAAGTTATTCGATTTT
1 TTTTGAATTAACTGAATCAAGTAATTCGATTTT
*
92876200 TTTTGAATTAACTTGAAT-AAGTAATTTGATTTT
1 TTTTGAATTAAC-TGAATCAAGTAATTCGATTTT
92876233 TT
1 TT
92876235 AAGTTTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.51
Consensus pattern (33 bp):
TTTTGAATTAACTGAATCAAGTAATTCGATTTT
Found at i:92881450 original size:21 final size:22
Alignment explanation
Indices: 92881426--92881467 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
92881416 TTAGTCAAGG
92881426 AGCTTG-TGTCTCT-ACAAGAAA
1 AGCTTGAT-TCTCTAACAAGAAA
92881447 AGCTTGATTCTCTAACAAGAA
1 AGCTTGATTCTCTAACAAGAA
92881468 GGTGGACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (22 bp):
AGCTTGATTCTCTAACAAGAAA
Found at i:92882293 original size:90 final size:90
Alignment explanation
Indices: 92882138--92882374 Score: 404
Period size: 90 Copynumber: 2.6 Consensus size: 90
92882128 CCATTTCCAA
* * *
92882138 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACAGTGTAGAGGATGAGAAAAAGATTGACT
1 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGAGATCGACT
92882203 TGTTCAAAGAGTTGCCAGCTGGAGT
66 TGTTCAAAGAGTTGCCAGCTGGAGT
92882228 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGAGATCGACT
1 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGAGATCGACT
92882293 TGTTCAAAGAGTTGCCAGCTGGAGT
66 TGTTCAAAGAGTTGCCAGCTGGAGT
* * *
92882318 AATTGATGAGCATTTACTTGAAGCAAAATCAAACAACGGTGCACG-GGATGAGAAAGA
1 AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTA-GAGGATGAGAAAGA
92882375 AGTAGAGATC
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
90 139 0.99
91 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (90 bp):
AATTGATGAGCATTTACTTGAAGCAGAACCAAACAACGGTGTAGAGGATGAGAAAGAGATCGACT
TGTTCAAAGAGTTGCCAGCTGGAGT
Found at i:92884233 original size:31 final size:32
Alignment explanation
Indices: 92884175--92884234 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
92884165 CCCTAATTTT
*
92884175 TTTAATATTTTCCCTTCAAAATTTTACTCCCC
1 TTTAATATTTTCCCTTCAAAATCTTACTCCCC
* * *
92884207 TTTATTATTTTTCC-TCAAACTCTTACTC
1 TTTAATATTTTCCCTTCAAAATCTTACTC
92884235 TTTAAAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 12 0.50
32 12 0.50
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (32 bp):
TTTAATATTTTCCCTTCAAAATCTTACTCCCC
Found at i:92884817 original size:26 final size:26
Alignment explanation
Indices: 92884781--92884831 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
92884771 ATTCAATTCG
92884781 ATTCGAATTCCATCTCACTCGACTCA
1 ATTCGAATTCCATCTCACTCGACTCA
*
92884807 ATTCGAATTCCGTCTCACTCGACTC
1 ATTCGAATTCCATCTCACTCGACTC
92884832 GATTTGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.35, G:0.10, T:0.31
Consensus pattern (26 bp):
ATTCGAATTCCATCTCACTCGACTCA
Found at i:92889583 original size:224 final size:224
Alignment explanation
Indices: 92889187--92889634 Score: 788
Period size: 224 Copynumber: 2.0 Consensus size: 224
92889177 AGTTGATCAG
* *
92889187 GCTAATGAAAATATAAATAAAAGAACAAGGAAAGTGGAAGAAACCTCTTGAATAAATATAGACGC
1 GCTAACGAAAATATAAATAAAAGAACAAGGAAAGTGGAAGAAACCTCTTAAATAAATATAGACGC
* *
92889252 GACTCTAGAGCAATCTCTGCTCTCGATCGTTTTCATATCGGAACATGAAAAATTTTGACTACACA
66 GACTCTAGAGCAATCTCTGCTCGCAATCGTTTTCATATCGGAACATGAAAAATTTTGACTACACA
92889317 AACATAAAAATAAAACTAAATAAAAACTAAGTAAAATAAAACTATCTAAGTCTAGGTCTAATGTC
131 AACATAAAAATAAAACTAAATAAAAACTAAGTAAAATAAAACTATCTAAGTCTAGGTCTAATGTC
*
92889382 TAACCCCTTATTCCGATGACCCTAAGGTT
196 TAACCCCTTATTCCGATAACCCTAAGGTT
92889411 GCTAACGAAAATATAAATAAAAGAACAAGGAAAGTGGAAGAAACCTCTTAAATAAATATAGACGC
1 GCTAACGAAAATATAAATAAAAGAACAAGGAAAGTGGAAGAAACCTCTTAAATAAATATAGACGC
* * * **
92889476 GACTTTGGAGCAATCTCTGCTCGCAATTGTTTTCATATCGGAACATGAAAAATTTTGACTACATG
66 GACTCTAGAGCAATCTCTGCTCGCAATCGTTTTCATATCGGAACATGAAAAATTTTGACTACACA
*
92889541 AACATGAAAATAAAACTAAATAAAAACTAAGTAAAATAAAACTATCTAAGTCTAGGTCTAATGTC
131 AACATAAAAATAAAACTAAATAAAAACTAAGTAAAATAAAACTATCTAAGTCTAGGTCTAATGTC
*
92889606 TAACCCCTTATTCCGATAACCTTAAGGTT
196 TAACCCCTTATTCCGATAACCCTAAGGTT
92889635 ACTTATATAG
Statistics
Matches: 212, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 212 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (224 bp):
GCTAACGAAAATATAAATAAAAGAACAAGGAAAGTGGAAGAAACCTCTTAAATAAATATAGACGC
GACTCTAGAGCAATCTCTGCTCGCAATCGTTTTCATATCGGAACATGAAAAATTTTGACTACACA
AACATAAAAATAAAACTAAATAAAAACTAAGTAAAATAAAACTATCTAAGTCTAGGTCTAATGTC
TAACCCCTTATTCCGATAACCCTAAGGTT
Found at i:92891183 original size:20 final size:20
Alignment explanation
Indices: 92891160--92891197 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
92891150 TAGCATATTC
92891160 ATGCCCCTAACTGCACTCCG
1 ATGCCCCTAACTGCACTCCG
*
92891180 ATGCCCCTAATTGCACTC
1 ATGCCCCTAACTGCACTC
92891198 TTGTGCTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.42, G:0.13, T:0.24
Consensus pattern (20 bp):
ATGCCCCTAACTGCACTCCG
Found at i:92903223 original size:21 final size:20
Alignment explanation
Indices: 92903185--92903223 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
92903175 ACAATTGGCA
**
92903185 ATAAAAATTAAATGAAAAAC
1 ATAAAAATTAAAACAAAAAC
92903205 ATAAAAATTTAAAACAAAA
1 ATAAAAA-TTAAAACAAAA
92903224 TTTCTATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
ATAAAAATTAAAACAAAAAC
Found at i:92911271 original size:14 final size:14
Alignment explanation
Indices: 92911252--92911278 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92911242 GTATCTTGGG
92911252 TTTCTTTATTCTGA
1 TTTCTTTATTCTGA
92911266 TTTCTTTATTCTG
1 TTTCTTTATTCTG
92911279 GGTTTTTCTA
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:0.11, C:0.15, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTCTTTATTCTGA
Found at i:92913099 original size:209 final size:209
Alignment explanation
Indices: 92912737--92913155 Score: 775
Period size: 209 Copynumber: 2.0 Consensus size: 209
92912727 TAGGGGTCAA
92912737 AATGAAATTTTTTAAAAATATGATTTTTGGACCCGTATGAATAGTGTGACTAATTATTAGGCTAA
1 AATGAAATTTTTTAAAAATATGATTTTTGGACCCGTATGAATAGTGTGACTAATTATTAGGCTAA
92912802 ATGTGATATTATAAATGAAGGAAATCGAGATTCGGGCTTAAATTGGGAAAATACAAGGTTATGGA
66 ATGTGATATTATAAATGAAGGAAATCGAGATTCGGGCTTAAATTGGGAAAATACAAGGTTATGGA
* * *
92912867 CTAAAATGGTAAATTGCTGTTTCTGGATCGAGTATTGGCAGGTCGGCTCGGGGTTGGAAATCGTT
131 CTAAAATGGTAAATTGCTGTTTCTGGATCAAGTATTGGCAGGTCGGCTCGGCGTTGGAAATCGTC
*
92912932 GGAGGGAAAATCAC
196 GGAGGAAAAATCAC
92912946 AATGAAATTTTTTAAAAATATGATTTTTGGACCCGTATGAATAGTGTGACTAATTATTAGGCTAA
1 AATGAAATTTTTTAAAAATATGATTTTTGGACCCGTATGAATAGTGTGACTAATTATTAGGCTAA
92913011 ATGTGATATTATAAATGAAGGAAATCGAGATTCGGGCTTAAATTGGGAAAATACAAGGTTATGGA
66 ATGTGATATTATAAATGAAGGAAATCGAGATTCGGGCTTAAATTGGGAAAATACAAGGTTATGGA
* * *
92913076 CTAAAATGGTAAATTGTTGTTTCTGGATCAAGTATTGGCAGGTCGGCTCGGCGTTGGAGATTGTC
131 CTAAAATGGTAAATTGCTGTTTCTGGATCAAGTATTGGCAGGTCGGCTCGGCGTTGGAAATCGTC
92913141 GGAGGAAAAATCAC
196 GGAGGAAAAATCAC
92913155 A
1 A
92913156 CTATCAAACT
Statistics
Matches: 203, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
209 203 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (209 bp):
AATGAAATTTTTTAAAAATATGATTTTTGGACCCGTATGAATAGTGTGACTAATTATTAGGCTAA
ATGTGATATTATAAATGAAGGAAATCGAGATTCGGGCTTAAATTGGGAAAATACAAGGTTATGGA
CTAAAATGGTAAATTGCTGTTTCTGGATCAAGTATTGGCAGGTCGGCTCGGCGTTGGAAATCGTC
GGAGGAAAAATCAC
Found at i:92918179 original size:155 final size:155
Alignment explanation
Indices: 92917896--92918205 Score: 577
Period size: 155 Copynumber: 2.0 Consensus size: 155
92917886 ATCGGCCCCA
92917896 AAATAGACATGCATATTCGGCCAAGGGGAAAAAATTAGCTAAAATGTTGAGTTTGATTCATGATT
1 AAATAGACATGCATATTCGGCCAAGGGGAAAAAATTAGCTAAAATGTTGAGTTTGATTCATGATT
92917961 CCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTT
66 CCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTT
*
92918026 TGATGC-CTAAATGATGAAATCAATT
131 CGATGCTC-AAATGATGAAATCAATT
92918051 AAATAGACATGCATATTCGGCCAAGGGGAAAAAATTAGCTAAAATGTTGAGTTTGATTCATGATT
1 AAATAGACATGCATATTCGGCCAAGGGGAAAAAATTAGCTAAAATGTTGAGTTTGATTCATGATT
*
92918116 CCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCCTCTTTT
66 CCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTT
*
92918181 CGATGCTCAAATGATTAAATCAATT
131 CGATGCTCAAATGATGAAATCAATT
92918206 TATTTGTTTA
Statistics
Matches: 151, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
155 150 0.99
156 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (155 bp):
AAATAGACATGCATATTCGGCCAAGGGGAAAAAATTAGCTAAAATGTTGAGTTTGATTCATGATT
CCGTACATATGTGACTTTAATGTCTAATGTATAAATATGGGCTAAGTGCCTTGTGTTCATCTTTT
CGATGCTCAAATGATGAAATCAATT
Found at i:92918589 original size:40 final size:40
Alignment explanation
Indices: 92918505--92918690 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
92918495 TTGAATGATG
* * *
92918505 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
92918545 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
92918585 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
92918625 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
92918666 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
92918691 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 114 0.89
41 12 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:92918708 original size:80 final size:79
Alignment explanation
Indices: 92918506--92918723 Score: 212
Period size: 80 Copynumber: 2.7 Consensus size: 79
92918496 TGAATGATGT
** * * * *
92918506 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCATT
*
92918569 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
92918586 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTG
92918651 TGCGA-ATTACT-ATAA
65 TGCGAGA-TACTAAT-A
* * *
92918666 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
92918724 TACGTGATTT
Statistics
Matches: 118, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:92928253 original size:40 final size:40
Alignment explanation
Indices: 92928197--92928399 Score: 252
Period size: 40 Copynumber: 5.1 Consensus size: 40
92928187 CGGAATTCAA
** *
92928197 CCGGATATAGCT-ACTCGCTTGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACGAATGCCTTCGGGACTTAGC
* *
92928237 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
92928277 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
* * *
92928317 CCGGATATAATAACTCGCAC-AATTTCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGACTTAGC
* * *
92928356 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACGAATGCCTTCGGGACTTAGC
92928396 CCGG
1 CCGG
92928400 TTATCATCCG
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 32 0.22
40 110 0.77
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGACTTAGC
Found at i:92933622 original size:15 final size:16
Alignment explanation
Indices: 92933595--92933625 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
92933585 AATTTAATAC
92933595 AAAATTCATACTTTTG
1 AAAATTCATACTTTTG
92933611 AAAATT-ATACTTTTG
1 AAAATTCATACTTTTG
92933626 CTCCTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (16 bp):
AAAATTCATACTTTTG
Found at i:92934799 original size:29 final size:29
Alignment explanation
Indices: 92934766--92934822 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
92934756 AGACTAACCT
92934766 ATTTGGTGAGTGTGCAAGACACCATTCGA
1 ATTTGGTGAGTGTGCAAGACACCATTCGA
92934795 ATTTGGTGAGTGTGCAAGACACCATTCG
1 ATTTGGTGAGTGTGCAAGACACCATTCG
92934823 GAGGCATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (29 bp):
ATTTGGTGAGTGTGCAAGACACCATTCGA
Found at i:92935206 original size:49 final size:49
Alignment explanation
Indices: 92935129--92935230 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
92935119 TTATGCTATG
* * * * *
92935129 CATTTCTAAACTTGGTCTTCTAGTGTCTACAATTTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCACTGTCTACAATCTTATCACTATTTATA
* * *
92935178 CATTGCTAAACTTAGTTTTCCACTGTCTACACTCTTATCACTATTTATC
1 CATTGCTAAACTTAGTCTTCCACTGTCTACAATCTTATCACTATTTATA
92935227 CATT
1 CATT
92935231 CTAGAATGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACTGTCTACAATCTTATCACTATTTATA
Found at i:92941563 original size:47 final size:47
Alignment explanation
Indices: 92941478--92941596 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
92941468 CTTCGGGACT
* * * * *
92941478 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * * *
92941525 TGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
92941572 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
92941597 ACCAACCCTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:92941892 original size:39 final size:40
Alignment explanation
Indices: 92941802--92941962 Score: 179
Period size: 40 Copynumber: 4.0 Consensus size: 40
92941792 CGGAATTTAA
** *
92941802 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
92941842 CCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
92941881 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
92941921 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
92941961 CC
1 CC
92941963 AGACATCATT
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 33 0.32
40 56 0.54
41 12 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:92949474 original size:43 final size:43
Alignment explanation
Indices: 92949381--92949474 Score: 97
Period size: 43 Copynumber: 2.2 Consensus size: 43
92949371 CTATGATGTG
*
92949381 TATATGATGATGTATGAAATGGAAGTTTATTGTGTGATGATAT
1 TATATGATGATGTATGAAATGGAAGTTCATTGTGTGATGATAT
*
92949424 TATTATGATGATG-ATG-AATGTTAAGTTACATATGTGT-AT-ATAT
1 TA-TATGATGATGTATGAAATG-GAAGTT-CAT-TGTGTGATGATAT
92949467 ATATATGA
1 -TATATGA
92949475 GAGTCAAGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
42 4 0.09
43 19 0.43
44 16 0.36
45 5 0.11
ACGTcount: A:0.35, C:0.01, G:0.21, T:0.43
Consensus pattern (43 bp):
TATATGATGATGTATGAAATGGAAGTTCATTGTGTGATGATAT
Found at i:92957502 original size:42 final size:42
Alignment explanation
Indices: 92957441--92957521 Score: 146
Period size: 42 Copynumber: 1.9 Consensus size: 42
92957431 CTCCACTTCT
92957441 CAATCGGCATTCCTCAAAATGATACTTATTACAATGTTTCCA
1 CAATCGGCATTCCTCAAAATGATACTTATTACAATGTTTCCA
92957483 CAATCGGCATTCC-CTAAAATGATACTTATTACAATGTTT
1 CAATCGGCATTCCTC-AAAATGATACTTATTACAATGTTT
92957522 ACACTTTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (42 bp):
CAATCGGCATTCCTCAAAATGATACTTATTACAATGTTTCCA
Found at i:92962237 original size:36 final size:36
Alignment explanation
Indices: 92962190--92962263 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
92962180 GAAGCTAAGC
92962190 ACATACCAAGCATTATGCGAAGCTACCAAACTTTAA
1 ACATACCAAGCATTATGCGAAGCTACCAAACTTTAA
* *
92962226 ACATACCAAGCATTATGCTAAGCTACTAAACTTTAA
1 ACATACCAAGCATTATGCGAAGCTACCAAACTTTAA
92962262 AC
1 AC
92962264 TATCACATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (36 bp):
ACATACCAAGCATTATGCGAAGCTACCAAACTTTAA
Found at i:92973753 original size:28 final size:28
Alignment explanation
Indices: 92973682--92973755 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
92973672 ATAATAAGCC
* *
92973682 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
*
92973710 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
92973738 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
92973756 CAATTTGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 40 0.98
29 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:92981697 original size:28 final size:29
Alignment explanation
Indices: 92981665--92981763 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
92981655 ATAATAAGCC
*
92981665 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
92981693 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
92981721 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
92981750 CGCACACTTAGTGC
1 CGCACACTTAGTGC
92981764 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:92984398 original size:35 final size:35
Alignment explanation
Indices: 92984351--92984417 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
92984341 TCTCAATCGG
92984351 CATTCCTCAAAATGATACTTATTACAATGTTTCCA
1 CATTCCTCAAAATGATACTTATTACAATGTTTCCA
92984386 CATTCC-CTAAAATGATACTTATTACAATGTTT
1 CATTCCTC-AAAATGATACTTATTACAATGTTT
92984418 ACACTTTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 1 0.03
35 30 0.97
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (35 bp):
CATTCCTCAAAATGATACTTATTACAATGTTTCCA
Found at i:92988266 original size:36 final size:36
Alignment explanation
Indices: 92988219--92988292 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
92988209 GAAGCTAAGC
*
92988219 ACATACGAAGCATTATGCTAAGCTAACAAACTTTAA
1 ACATACCAAGCATTATGCTAAGCTAACAAACTTTAA
*
92988255 ACATACCAAGCATTATGCTAAGCTACCAAACTTTAA
1 ACATACCAAGCATTATGCTAAGCTAACAAACTTTAA
92988291 AC
1 AC
92988293 TATCACATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.24
Consensus pattern (36 bp):
ACATACCAAGCATTATGCTAAGCTAACAAACTTTAA
Found at i:92989173 original size:36 final size:36
Alignment explanation
Indices: 92989126--92989199 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
92989116 GAAGCTAAGC
*
92989126 ACATACGAAGCATTATGCTAAGCTAACAAACTTTAA
1 ACATACCAAGCATTATGCTAAGCTAACAAACTTTAA
*
92989162 ACATACCAAGCATTATGCTAAGCTACCAAACTTTAA
1 ACATACCAAGCATTATGCTAAGCTAACAAACTTTAA
92989198 AC
1 AC
92989200 TATCACATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.24
Consensus pattern (36 bp):
ACATACCAAGCATTATGCTAAGCTAACAAACTTTAA
Found at i:92993760 original size:32 final size:32
Alignment explanation
Indices: 92993719--92993785 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
92993709 GCATGCACTA
92993719 TTTTATTGATGTATGATAGTTTGGTTCTAACT
1 TTTTATTGATGTATGATAGTTTGGTTCTAACT
92993751 TTTTATTGATGTATGATAGTTTGGTTCTAACT
1 TTTTATTGATGTATGATAGTTTGGTTCTAACT
92993783 TTT
1 TTT
92993786 AAATAGGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (32 bp):
TTTTATTGATGTATGATAGTTTGGTTCTAACT
Found at i:92997461 original size:31 final size:31
Alignment explanation
Indices: 92997414--92997492 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
92997404 TTTAACAGTT
92997414 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
92997445 ACTGGGTCGAAACCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
92997476 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
92997493 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:92997563 original size:42 final size:42
Alignment explanation
Indices: 92997516--92997649 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
92997506 TGGCCCTTAG
*
92997516 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
92997558 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
92997600 GCCCATTCCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
92997642 GCCCATTT
1 GCCCATTT
92997650 AGGGAGACTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:92997807 original size:25 final size:25
Alignment explanation
Indices: 92997779--92997848 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
92997769 CTCTTTTAAT
92997779 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
92997804 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
92997829 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
92997849 AGTACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:92998806 original size:27 final size:27
Alignment explanation
Indices: 92998754--92999205 Score: 444
Period size: 27 Copynumber: 16.7 Consensus size: 27
92998744 TTCATCCTAC
* * * * *
92998754 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** *
92998781 AAGGGTATTTCAGTAATTTTTTAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** * *
92998808 AATGGTATTTCTATAATTTTTAGAAAGT
1 AAGGGTATTTCGGTAA-TTTTACAAACT
** **
92998836 CAAGGGTATTTTTGTAATTTTGTAAA-T
1 -AAGGGTATTTCGGTAATTTTACAAACT
* * * *
92998863 CAGGGGTATTTTGGTAATTTTAAAAATT
1 -AAGGGTATTTCGGTAATTTTACAAACT
*
92998891 GAGGGTATTTCGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
92998918 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAACT
*
92998945 AAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTCGGTAATTTTACAAACT
*
92998971 CAGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTCGGTAATTTTACAAACT
* * *
92998999 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAACT
*
92999026 AAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTCGGTAATTTTACAAACT
*
92999052 CAGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTCGGTAATTTTACAAACT
* * *
92999080 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAACT
*
92999107 AAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTCGGTAATTTTACAAACT
*
92999133 CAGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTCGGTAATTTTACAAACT
* *
92999161 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
92999188 AGGGGTATTTTGGTAATT
1 AAGGGTATTTCGGTAATT
92999206 CTATCCTACA
Statistics
Matches: 355, Mismatches: 61, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
26 6 0.02
27 318 0.90
28 18 0.05
29 13 0.04
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:92999224 original size:27 final size:27
Alignment explanation
Indices: 92998839--92999205 Score: 459
Period size: 27 Copynumber: 13.6 Consensus size: 27
92998829 AGAAAGTCAA
* **
92998839 GGGTATTTTTGTAATTTTGTAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
* *
92998866 GGGTATTTTGGTAATTTTA-AAAATTG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
92998892 AGGGTATTTCGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
92998920 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
92998947 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
92998974 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
92999001 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
92999028 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
92999055 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
92999082 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
92999109 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
92999136 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
92999163 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
92999190 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
92999206 CTATCCTACA
Statistics
Matches: 294, Mismatches: 43, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
26 4 0.01
27 285 0.97
28 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:92999233 original size:81 final size:81
Alignment explanation
Indices: 92998756--92999205 Score: 614
Period size: 81 Copynumber: 5.5 Consensus size: 81
92998746 CATCCTACAA
* * * ** * *** * **
92998756 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTTTAAACCAATGGTATTTCTA
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
* * *
92998821 TAATTTTTAGAAAGTCAA
66 TAA-TTTTACAAACT-AG
* ** * * * * * **
92998839 GGGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTAAAAATTGAG-GGTATTTCG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAA-CCAGTGGTATTTCG
92998903 GTAATTTTACAAACTAG
65 GTAATTTTACAAACTAG
92998920 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
92998985 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
92999001 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
92999066 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
92999082 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
92999147 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
* * *
92999163 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATT
92999206 CTATCCTACA
Statistics
Matches: 332, Mismatches: 33, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.01
81 271 0.82
82 9 0.03
83 49 0.15
84 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGG
TAATTTTACAAACTAG
Found at i:92999367 original size:27 final size:27
Alignment explanation
Indices: 92999237--92999378 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
92999227 GTAATTTCAC
* * *
92999237 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
92999264 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
92999291 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
92999318 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* **
92999345 AATCGAGGATAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
92999372 AATCGAG
1 AATCGAG
92999379 TGCATTTCAG
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:93004904 original size:53 final size:54
Alignment explanation
Indices: 93004737--93004932 Score: 200
Period size: 53 Copynumber: 3.6 Consensus size: 54
93004727 TGGATTCTAA
* * * * *
93004737 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGGATACCAT
* * * * *
93004791 GTAAGACCTTGTCAAGACATGG-AATTGATAA-TCTACTATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGACATGGCAA-TGGTAAGT-T-CTATAAGGCAAGGATACCAT
* * * *
93004846 ATAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGGATACCAT
* *
93004899 GTAAGACGATGTCAAGACATGGCAATGGTAAGTT
1 GTAAGACCATGCCAAGACATGGCAATGGTAAGTT
93004933 TAAAAAGGAA
Statistics
Matches: 113, Mismatches: 24, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
53 46 0.41
54 26 0.23
55 38 0.34
56 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
GTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGGATACCAT
Found at i:93012189 original size:55 final size:54
Alignment explanation
Indices: 93012072--93012201 Score: 152
Period size: 55 Copynumber: 2.4 Consensus size: 54
93012062 GGATACCAAG
* * * * * *
93012072 TAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCATG
1 TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCATC
* * * **
93012126 TAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCATC
1 TAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAAACCATC
93012181 TAAGACCATGCCAAGGCATGG
1 TAAGACCATGCCAAGGCATGG
93012202 AAATGGTGAG
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
54 25 0.40
55 37 0.60
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (54 bp):
TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCATC
Found at i:93022060 original size:13 final size:13
Alignment explanation
Indices: 93022042--93022071 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
93022032 GCTGAGCAGG
93022042 GACACGCCCGTGT
1 GACACGCCCGTGT
*
93022055 GACACGGCCGTGT
1 GACACGCCCGTGT
93022068 GACA
1 GACA
93022072 TGATTGCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.13
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:93024455 original size:15 final size:15
Alignment explanation
Indices: 93024435--93024472 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
93024425 TATATAAGGG
93024435 AGGGCCACACGGCCT
1 AGGGCCACACGGCCT
93024450 AGGGCCACACGGCCT
1 AGGGCCACACGGCCT
*
93024465 AAGGCCAC
1 AGGGCCAC
93024473 GCCCGTGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.39, G:0.32, T:0.05
Consensus pattern (15 bp):
AGGGCCACACGGCCT
Found at i:93030488 original size:93 final size:93
Alignment explanation
Indices: 93030329--93030500 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
93030319 GCCCATAAGC
* *
93030329 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93030394 CGAGCTCGGATGCCTAGTTACATCTCTT
66 CGAGCTCGGATGCCTAGTTACATCTCTT
* * *
93030422 GAACTCGGACTTAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
93030486 ACGAGTTCGGATGCC
65 ACGAGCTCGGATGCC
93030501 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTT
Found at i:93030491 original size:46 final size:46
Alignment explanation
Indices: 93030321--93030496 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
93030311 TGTAACCCGC
* * *
93030321 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCAT
* * *
93030367 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
93030417 CTC-T---TGAACTCGGACTTAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
93030460 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
93030497 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 2 0.02
46 61 0.56
47 28 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:93030515 original size:46 final size:46
Alignment explanation
Indices: 93030329--93030515 Score: 154
Period size: 46 Copynumber: 4.0 Consensus size: 46
93030319 GCCCATAAGC
* * * *
93030329 GAACTCGGACTCAACTCAACGAGCTC--AGGCGT-TCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAT-ACATCC-T-AGT
*
93030375 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--T
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CTAGT
* * * *
93030422 GAACTCGGACTTAACTCAACGAGTTCGGA--CATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T-AGT
* *
93030468 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
93030514 GA
1 GA
93030516 CATGTCACTT
Statistics
Matches: 115, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
42 1 0.01
43 6 0.05
45 2 0.02
46 60 0.52
47 29 0.25
48 10 0.09
50 5 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
Found at i:93032910 original size:14 final size:16
Alignment explanation
Indices: 93032891--93032940 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
93032881 CAAAGATAAC
93032891 AAGAAAAT-C-GAATA
1 AAGAAAATCCAGAATA
93032905 AAG-AAATCCAGAATA
1 AAGAAAATCCAGAATA
* *
93032920 AAG-AGATCCAGGATA
1 AAGAAAATCCAGAATA
93032935 AAGAAA
1 AAGAAA
93032941 CCCAAGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 4 0.13
14 4 0.13
15 21 0.70
16 1 0.03
ACGTcount: A:0.60, C:0.10, G:0.18, T:0.12
Consensus pattern (16 bp):
AAGAAAATCCAGAATA
Found at i:93032920 original size:15 final size:15
Alignment explanation
Indices: 93032900--93032940 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
93032890 CAAGAAAATC
93032900 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
93032915 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
93032930 GGATAAAGAAA
1 GAATAAAGAAA
93032941 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:93032949 original size:15 final size:15
Alignment explanation
Indices: 93032902--93032949 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
93032892 AGAAAATCGA
93032902 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
93032916 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
93032932 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
93032947 ATA
1 ATA
93032950 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:93036254 original size:153 final size:153
Alignment explanation
Indices: 93035976--93036281 Score: 612
Period size: 153 Copynumber: 2.0 Consensus size: 153
93035966 TTGCATCCAT
93035976 AAGTGAACGCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTGACATGTCACTTGTA
1 AAGTGAACGCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTGACATGTCACTTGTA
93036041 TCCTAATCTATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACATCTTTGCCATCTTCCAC
66 TCCTAATCTATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACATCTTTGCCATCTTCCAC
93036106 GGAATATCGAAATTGATACTTCA
131 GGAATATCGAAATTGATACTTCA
93036129 AAGTGAACGCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTGACATGTCACTTGTA
1 AAGTGAACGCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTGACATGTCACTTGTA
93036194 TCCTAATCTATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACATCTTTGCCATCTTCCAC
66 TCCTAATCTATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACATCTTTGCCATCTTCCAC
93036259 GGAATATCGAAATTGATACTTCA
131 GGAATATCGAAATTGATACTTCA
93036282 GTGATAGTTC
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (153 bp):
AAGTGAACGCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGTGACATGTCACTTGTA
TCCTAATCTATTCCTAAGGTTCAAACGGGCATTTTCCTCGATCACACATCTTTGCCATCTTCCAC
GGAATATCGAAATTGATACTTCA
Found at i:93043586 original size:36 final size:36
Alignment explanation
Indices: 93043539--93043611 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
93043529 TTGCCAAGAA
*
93043539 AGATGCTAAGCTGAGGCTGATCCGGTGGGTGCTTCT
1 AGATGCTAAGCTGAGGCTGATCCAGTGGGTGCTTCT
*
93043575 AGATGCTAAGCTGAGGCTGATCTAGTGGGTGCTTCT
1 AGATGCTAAGCTGAGGCTGATCCAGTGGGTGCTTCT
93043611 A
1 A
93043612 CTTCAAGAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (36 bp):
AGATGCTAAGCTGAGGCTGATCCAGTGGGTGCTTCT
Found at i:93046319 original size:25 final size:27
Alignment explanation
Indices: 93046264--93046319 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
93046254 TTCTCTTAAT
* **
93046264 TTTTAATTTTATTCAATTAATTAATTT
1 TTTTAATTTCATTCAATTAATTAATAA
*
93046291 TTTTAA-TTCATTGAATT-ATTAATAA
1 TTTTAATTTCATTCAATTAATTAATAA
93046316 TTTT
1 TTTT
93046320 TATTAAATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.40
26 9 0.36
27 6 0.24
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTAATTTCATTCAATTAATTAATAA
Found at i:93046319 original size:26 final size:28
Alignment explanation
Indices: 93046260--93046321 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
93046250 AGTTTTCTCT
*
93046260 TAATTTTTAATTTTATTCAATTAATTAA
1 TAATTTTTAATTTCATTCAATTAATTAA
* *
93046288 T-TTTTTTAA-TTCATTGAATT-ATTAA
1 TAATTTTTAATTTCATTCAATTAATTAA
93046313 TAATTTTTA
1 TAATTTTTA
93046322 TTAAATCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 6 0.21
26 15 0.52
27 7 0.24
28 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (28 bp):
TAATTTTTAATTTCATTCAATTAATTAA
Found at i:93055571 original size:18 final size:18
Alignment explanation
Indices: 93055550--93055588 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
93055540 AGCATTTAGA
*
93055550 CTTAGATAAGTCTTTAAG
1 CTTAGATAAGTCTTGAAG
93055568 CTTAGATAAGTCTTGAAG
1 CTTAGATAAGTCTTGAAG
93055586 CTT
1 CTT
93055589 TTTGGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (18 bp):
CTTAGATAAGTCTTGAAG
Found at i:93064445 original size:40 final size:39
Alignment explanation
Indices: 93064347--93064569 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
93064337 TCCTCGTTCA
* * ** * *
93064347 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
93064386 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
93064425 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
93064465 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
93064505 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
93064546 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
93064570 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:93064503 original size:80 final size:79
Alignment explanation
Indices: 93064345--93064569 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
93064335 GCTCCTCGTT
* * ** * *
93064345 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
93064410 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
93064424 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
93064489 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
93064504 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
93064567 GGA
63 GGA
93064570 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:93064569 original size:120 final size:119
Alignment explanation
Indices: 93064347--93064569 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
93064337 TCCTCGTTCA
* * *
93064347 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
93064412 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
93064466 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
93064530 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
93064570 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:93072357 original size:40 final size:39
Alignment explanation
Indices: 93072259--93072481 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
93072249 TCCTCGTTCA
* * ** * *
93072259 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
93072298 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
93072337 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
93072377 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
93072417 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
93072458 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
93072482 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:93072415 original size:80 final size:79
Alignment explanation
Indices: 93072257--93072481 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
93072247 GCTCCTCGTT
* * ** * *
93072257 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
93072322 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
93072336 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
93072401 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
93072416 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
93072479 GGA
63 GGA
93072482 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:93072481 original size:120 final size:119
Alignment explanation
Indices: 93072259--93072481 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
93072249 TCCTCGTTCA
* * *
93072259 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
93072324 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
93072378 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
93072442 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
93072482 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:93079378 original size:15 final size:16
Alignment explanation
Indices: 93079358--93079399 Score: 77
Period size: 15 Copynumber: 2.7 Consensus size: 16
93079348 TAGCTTCTTC
93079358 TTTTTTTTTCACG-AA
1 TTTTTTTTTCACGAAA
93079373 TTTTTTTTTCACGAAA
1 TTTTTTTTTCACGAAA
93079389 TTTTTTTTTCA
1 TTTTTTTTTCA
93079400 ACTTGATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTTTTTCACGAAA
Found at i:93079456 original size:12 final size:12
Alignment explanation
Indices: 93079436--93079481 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
93079426 AAAGGAAACC
*
93079436 AATTATTTTTTG
1 AATTTTTTTTTG
93079448 AATTTTTTTTTG
1 AATTTTTTTTTG
*
93079460 AATTTTTTTTTC
1 AATTTTTTTTTG
*
93079472 AAATTTTTTT
1 AATTTTTTTT
93079482 GAAGAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:93079466 original size:13 final size:13
Alignment explanation
Indices: 93079441--93079481 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
93079431 AAACCAATTA
93079441 TTTTTTGAA-TTT
1 TTTTTTGAATTTT
93079453 TTTTTTGAATTTT
1 TTTTTTGAATTTT
**
93079466 TTTTTCAAATTTT
1 TTTTTTGAATTTT
93079479 TTT
1 TTT
93079482 GAAGAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (13 bp):
TTTTTTGAATTTT
Found at i:93079614 original size:15 final size:16
Alignment explanation
Indices: 93079594--93079626 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
93079584 TCGTTAGTGA
93079594 CACG-AATTTTTTTTT
1 CACGAAATTTTTTTTT
93079609 CACGAAATTTTTTTTT
1 CACGAAATTTTTTTTT
93079625 CA
1 CA
93079627 ACTTGATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (16 bp):
CACGAAATTTTTTTTT
Found at i:93079680 original size:12 final size:12
Alignment explanation
Indices: 93079663--93079707 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
93079653 AAAGGAAACC
93079663 AATTTTTTTTTG
1 AATTTTTTTTTG
93079675 AA-TTTTTTTTG
1 AATTTTTTTTTG
*
93079686 AATTTTTTTTTC
1 AATTTTTTTTTG
93079698 AATTTTTTTT
1 AATTTTTTTT
93079708 GAAGAAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.35
12 20 0.65
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:93079682 original size:11 final size:11
Alignment explanation
Indices: 93079666--93079710 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
93079656 GGAAACCAAT
93079666 TTTTTTTTGAA
1 TTTTTTTTGAA
93079677 TTTTTTTTGAA
1 TTTTTTTTGAA
*
93079688 TTTTTTTTTCAA
1 -TTTTTTTTGAA
93079700 TTTTTTTTGAA
1 TTTTTTTTGAA
93079711 GAAACTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:93079693 original size:23 final size:23
Alignment explanation
Indices: 93079663--93079710 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
93079653 AAAGGAAACC
*
93079663 AATTTTTTTTTGAATTTTTTTTG
1 AATTTTTTTTTCAATTTTTTTTG
93079686 AATTTTTTTTTCAATTTTTTTTG
1 AATTTTTTTTTCAATTTTTTTTG
93079709 AA
1 AA
93079711 GAAACTACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.71
Consensus pattern (23 bp):
AATTTTTTTTTCAATTTTTTTTG
Found at i:93079767 original size:226 final size:227
Alignment explanation
Indices: 93079367--93079781 Score: 787
Period size: 226 Copynumber: 1.8 Consensus size: 227
93079357 CTTTTTTTTT
93079367 CACGAATTTTTTTTTCACGAAATTTTTTTTTCAACTTGATATCCAATCTCTTGAGTTTGAAAGGA
1 CACGAATTTTTTTTTCACGAAATTTTTTTTTCAACTTGATATCCAATCTCTTGAGTTTGAAAGGA
93079432 AACCAATTATTTTTTGAATTTTTTTTTGAATTTTTTTTTCAAATTTTTTTGAAGAAACTACTATA
66 AACCAATTATTTTTTGAATTTTTTTTTGAATTTTTTTTTCAAATTTTTTTGAAGAAACTACTATA
93079497 CCGTATTGCCGAAAATGTCAATTCTTACTCCAAATTTGCTAGCTCTGATACCAATTTGATACGAA
131 CCGTATTGCCGAAAATGTCAATTCTTACTCCAAATTTGCTAGCTCTGATACCAATTTGATACGAA
93079562 CTCGTTTCGTGATTGATTCGAGTCGTTAGTGA
196 CTCGTTTCGTGATTGATTCGAGTCGTTAGTGA
93079594 CACGAATTTTTTTTTCACGAAATTTTTTTTTCAACTTGATATCCAATCTCTTGAGTTTGAAAGGA
1 CACGAATTTTTTTTTCACGAAATTTTTTTTTCAACTTGATATCCAATCTCTTGAGTTTGAAAGGA
* *
93079659 AACCAATTTTTTTTTGAA-TTTTTTTTGAATTTTTTTTTCAATTTTTTTTGAAGAAACTACTATA
66 AACCAATTATTTTTTGAATTTTTTTTTGAATTTTTTTTTCAAATTTTTTTGAAGAAACTACTATA
* *
93079723 CCGTATTGCCGACAATGTCGATTCTTACTCCAAATTTGCTAGCTCTGATACCAATTTGA
131 CCGTATTGCCGAAAATGTCAATTCTTACTCCAAATTTGCTAGCTCTGATACCAATTTGA
93079782 GATTCGGGTC
Statistics
Matches: 184, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
226 102 0.55
227 82 0.45
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (227 bp):
CACGAATTTTTTTTTCACGAAATTTTTTTTTCAACTTGATATCCAATCTCTTGAGTTTGAAAGGA
AACCAATTATTTTTTGAATTTTTTTTTGAATTTTTTTTTCAAATTTTTTTGAAGAAACTACTATA
CCGTATTGCCGAAAATGTCAATTCTTACTCCAAATTTGCTAGCTCTGATACCAATTTGATACGAA
CTCGTTTCGTGATTGATTCGAGTCGTTAGTGA
Found at i:93083897 original size:178 final size:178
Alignment explanation
Indices: 93083586--93083932 Score: 597
Period size: 178 Copynumber: 1.9 Consensus size: 178
93083576 GCTTCAATAC
*
93083586 TGATTCCGTTTATTTCTATAGAAACTAGACTCAGAGAGAAATCTATACATATATGGAATGACTCC
1 TGATGCCGTTTATTTCTATAGAAACTAGACTCAGAGAGAAATCTATACATATATGGAATGACTCC
* *
93083651 TAATTATCTCTGGTTAATTTATAATGAATTTCAAAAGTCAGAATAGGGAATCCAGAAACTGTTCT
66 TAATTATCTCTGGTTAATTTATAATGAATTTCAAAAGTCAGAACAGGGAATCCAGAAACCGTTCT
*
93083716 GGCCCTGTTTCACGAAAACCT-AATTATCTCTTAACATACCACTCATAT
131 GGCCCTGTCTCACGAAAACCTGAA-TATCTCTTAACATACCACTCATAT
* * *
93083764 TGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACTCC
1 TGATGCCGTTTATTTCTATAGAAACTAGACTCAGAGAGAAATCTATACATATATGGAATGACTCC
*
93083829 TAATTATCTCTGGTTAATTTATAATGAATTTCAAAAGTCGGAACAGGGAATCCAGAAACCGTTCT
66 TAATTATCTCTGGTTAATTTATAATGAATTTCAAAAGTCAGAACAGGGAATCCAGAAACCGTTCT
*
93083894 GGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATAC
131 GGCCCTGTCTCACGAAAACCTGAATATCTCTTAACATAC
93083933 TGTCCGTATG
Statistics
Matches: 159, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
178 157 0.99
179 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (178 bp):
TGATGCCGTTTATTTCTATAGAAACTAGACTCAGAGAGAAATCTATACATATATGGAATGACTCC
TAATTATCTCTGGTTAATTTATAATGAATTTCAAAAGTCAGAACAGGGAATCCAGAAACCGTTCT
GGCCCTGTCTCACGAAAACCTGAATATCTCTTAACATACCACTCATAT
Found at i:93084517 original size:23 final size:23
Alignment explanation
Indices: 93084491--93084556 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
93084481 TCCAGCACAA
93084491 TAAAAGTATAGCATTCATATAGC
1 TAAAAGTATAGCATTCATATAGC
* **
93084514 TAAACGTCCAGCA--C----AGC
1 TAAAAGTATAGCATTCATATAGC
93084531 -AAAAGTATAGCATTCATATAGC
1 TAAAAGTATAGCATTCATATAGC
93084553 TAAA
1 TAAA
93084557 CGGATAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 14
0.60 0.12 0.28
Matches are distributed among these distances:
16 9 0.30
17 3 0.10
18 1 0.03
21 1 0.03
22 3 0.10
23 13 0.43
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (23 bp):
TAAAAGTATAGCATTCATATAGC
Found at i:93084535 original size:39 final size:39
Alignment explanation
Indices: 93084481--93084558 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
93084471 AGCAAGGAAT
*
93084481 TCCAGCACAATAAAAGTATAGCATTCATATAGCTAAACG
1 TCCAGCACAACAAAAGTATAGCATTCATATAGCTAAACG
*
93084520 TCCAGCACAGCAAAAGTATAGCATTCATATAGCTAAACG
1 TCCAGCACAACAAAAGTATAGCATTCATATAGCTAAACG
93084559 GATAATTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (39 bp):
TCCAGCACAACAAAAGTATAGCATTCATATAGCTAAACG
Found at i:93084878 original size:40 final size:40
Alignment explanation
Indices: 93084834--93085094 Score: 277
Period size: 40 Copynumber: 6.5 Consensus size: 40
93084824 GCTCCTCGTT
*
93084834 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* * **
93084874 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACCTCGTT
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAA-TTCGCA
*
93084915 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
93084955 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
93084995 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
93085034 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
93085075 C-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
93085095 TGGACATCAT
Statistics
Matches: 186, Mismatches: 22, Indels: 27
0.79 0.09 0.11
Matches are distributed among these distances:
38 3 0.02
39 41 0.22
40 99 0.53
41 42 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:93084934 original size:81 final size:81
Alignment explanation
Indices: 93084827--93085046 Score: 358
Period size: 81 Copynumber: 2.7 Consensus size: 81
93084817 GGATATAGCT
93084827 CCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTT
1 CCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTT
93084892 AACCCGGATTTAGTAA
66 AACCCGGATTTAGTAA
93084908 CCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTT
1 CCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTT
93084973 AACCCGGATTTAGTAA
66 AACCCGGATTTAGTAA
** * *
93084989 -CTCGCACAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCACAAATGCCTTCGG
1 CCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAAT-TCGCACAAATGCCTTCGG
93085047 ATCTTAGTCC
Statistics
Matches: 133, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
78 3 0.02
79 31 0.23
80 18 0.14
81 81 0.61
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
CCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTT
AACCCGGATTTAGTAA
Found at i:93085092 original size:79 final size:79
Alignment explanation
Indices: 93084836--93085094 Score: 325
Period size: 81 Copynumber: 3.3 Consensus size: 79
93084826 TCCTCGTTCA
93084836 AATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAT
93084901 TTAGTAACCTCGTTCA-
66 TTAGTAA-CTCG--CAC
93084917 AATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAT
93084982 TTAGTAACTCGCAC
66 TTAGTAACTCGCAC
* * **
93084996 AAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 -AATGCCTTCGGGACATAGCCCGGTTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCC
* *
93085057 GGATATT-GTCACTTAGCAC
62 GGAT-TTAGTAAC-TCGCAC
*
93085076 AA-GCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACATAGCC
93085095 TGGACATCAT
Statistics
Matches: 164, Mismatches: 6, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
78 17 0.10
79 52 0.32
80 23 0.14
81 72 0.44
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
AATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTCGCAC
Found at i:93086675 original size:39 final size:39
Alignment explanation
Indices: 93086621--93086697 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
93086611 GCATAGAATA
93086621 TGGAAATCAATTATTTTTATGACTCGGTTTTGTGGTCCT
1 TGGAAATCAATTATTTTTATGACTCGGTTTTGTGGTCCT
93086660 TGGAAATCAATTATTTTTATGACTCGGTTTTGTGGTCC
1 TGGAAATCAATTATTTTTATGACTCGGTTTTGTGGTCC
93086698 CGAAACCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (39 bp):
TGGAAATCAATTATTTTTATGACTCGGTTTTGTGGTCCT
Found at i:93091205 original size:42 final size:41
Alignment explanation
Indices: 93091092--93091239 Score: 127
Period size: 43 Copynumber: 3.5 Consensus size: 41
93091082 ACATAAGCTC
* * * * *
93091092 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCA-ACATGGTCTTACACGAAATCAT
* * * *
93091134 ATATCGTTGCCACTGTCCCCAACAAGGTCTTACACGAAAGCAT
1 ATA-CGATGCCAATGT-CCCAACATGGTCTTACACGAAATCAT
*
93091177 ATACGATGCCAATATCCCATACATGGTCTTACACGTAAATCAT
1 ATACGATGCCAATGTCCCA-ACATGGTCTTACACG-AAATCAT
*
93091220 A-AGTCGATTCCAATGTCCCA
1 ATA--CGATGCCAATGTCCCA
93091240 GATGTGGTCT
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 4 0.05
42 27 0.32
43 35 0.42
44 18 0.21
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (41 bp):
ATACGATGCCAATGTCCCAACATGGTCTTACACGAAATCAT
Found at i:93097573 original size:30 final size:30
Alignment explanation
Indices: 93097539--93097599 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
93097529 TCCTTAACTC
93097539 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
93097569 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
93097599 A
1 A
93097600 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:93106781 original size:16 final size:16
Alignment explanation
Indices: 93106760--93106791 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93106750 GCTAAAAGAC
93106760 AAAGAAAAGATGAGCA
1 AAAGAAAAGATGAGCA
*
93106776 AAAGAAGAGATGAGCA
1 AAAGAAAAGATGAGCA
93106792 GAGAATTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.28, T:0.06
Consensus pattern (16 bp):
AAAGAAAAGATGAGCA
Found at i:93112415 original size:15 final size:15
Alignment explanation
Indices: 93112387--93112417 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
93112377 CAATCTTTAT
93112387 AAAATTTTGTTTTTG
1 AAAATTTTGTTTTTG
93112402 AAAATCTTTGTTTTTG
1 AAAAT-TTTGTTTTTG
93112418 TAAACCCATT
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:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (15 bp):
AAAATTTTGTTTTTG
Found at i:93113424 original size:27 final size:26
Alignment explanation
Indices: 93113390--93113500 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
93113380 AGCATGGCTG
* *
93113390 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
93113416 CAGATACAGATAATCGTGGCAGAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
*
93113444 TAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
* *
93113471 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGAACAGATAA-TGTGGCAGAGCCAC
93113498 CAG
1 CAG
93113501 GACACTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 5 0.07
27 54 0.72
28 16 0.21
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:93113481 original size:54 final size:54
Alignment explanation
Indices: 93113391--93113497 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
93113381 GCATGGCTGC
*
93113391 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACT
1 AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACT
* * *
93113445 AGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCAC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAC
93113498 CAGGACACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 30 0.62
55 18 0.38
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACT
Found at i:93114713 original size:16 final size:16
Alignment explanation
Indices: 93114688--93114720 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
93114678 CTAAAAGACA
93114688 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
93114704 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
93114720 A
1 A
93114721 GAATTCGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:93123293 original size:93 final size:93
Alignment explanation
Indices: 93123185--93123356 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
93123175 GCCCATAAGT
* * *
93123185 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
93123250 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
93123278 GAACTCAGACTCAACTTAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
93123343 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
93123357 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:93123352 original size:46 final size:46
Alignment explanation
Indices: 93123177--93123352 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
93123167 TGTAACCCGC
* * * *
93123177 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
93123223 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
93123273 CTC-T---CGAACTCAGACTCAACTTAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
93123316 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
93123353 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 62 0.58
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:93125320 original size:30 final size:30
Alignment explanation
Indices: 93125276--93125364 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
93125266 CAAAGATAAC
*
93125276 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
93125305 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
93125335 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
93125365 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:93125324 original size:15 final size:14
Alignment explanation
Indices: 93125276--93125358 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
93125266 CAAAGATAAC
*
93125276 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
93125290 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
93125305 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
93125320 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
93125335 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
93125350 AAGAAACCC
1 AAGAAACCC
93125359 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:93125364 original size:15 final size:15
Alignment explanation
Indices: 93125287--93125364 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
93125277 AGAAAACCGA
93125287 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
93125302 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
93125316 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
93125331 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
93125347 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
93125362 ATA
1 ATA
93125365 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:93127877 original size:40 final size:40
Alignment explanation
Indices: 93127802--93127967 Score: 199
Period size: 40 Copynumber: 4.2 Consensus size: 40
93127792 AACCCAAGTA
* * *
93127802 CCTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * * *
93127841 CCTTCGACACTTAGCCCGGATATAGTAATTCTCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
93127881 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
93127921 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
93127961 CCTTCGG
1 CCTTCGG
93127968 ATCTTAGTCC
Statistics
Matches: 105, Mismatches: 21, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
39 10 0.10
40 95 0.90
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:93129423 original size:14 final size:14
Alignment explanation
Indices: 93129401--93129443 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
93129391 TTTCATTTTG
93129401 TAACATAAAATTAT
1 TAACATAAAATTAT
*
93129415 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
93129428 TAACACAAAATAAT
1 TAACATAAAATTAT
93129442 TA
1 TA
93129444 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Done.