Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 124 of 318
Found at i:38143570 original size:40 final size:40
Alignment explanation
Indices: 38143496--38143609 Score: 178
Period size: 40 Copynumber: 2.9 Consensus size: 40
38143486 AACCCAAGTA
* *
38143496 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
38143535 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
38143575 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCAC
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC
38143610 TAATCACCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 13 0.19
40 56 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:38152301 original size:68 final size:68
Alignment explanation
Indices: 38152151--38152308 Score: 169
Period size: 68 Copynumber: 2.3 Consensus size: 68
38152141 CTAGCCAATT
* * *
38152151 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
**
38152216 TTTA
65 CATA
* * *
38152220 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTA
38152282 CTACATA
63 C-ACATA
38152289 GTATCTCGTAGCTCTCTTGT
1 -TATCTCGTAGCTCTCTTGT
38152309 ACACATGATG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
68 37 0.49
69 8 0.11
70 5 0.07
71 25 0.33
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:38156879 original size:2 final size:2
Alignment explanation
Indices: 38156872--38156906 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
38156862 GAGAGGTATT
38156872 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38156907 GTACAAGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38157108 original size:45 final size:45
Alignment explanation
Indices: 38157041--38157156 Score: 189
Period size: 45 Copynumber: 2.6 Consensus size: 45
38157031 AAGTGTACTG
*
38157041 TACTGGCAGCTCTACTGTAAATCACTGATGGCTTTAAGCCTATTA
1 TACTGGCAGCTCTACTGCAAATCACTGATGGCTTTAAGCCTATTA
* *
38157086 TACTGGCAGCTCTGCTACAAATCACTGATGGCTTTAAGCCTATTA
1 TACTGGCAGCTCTACTGCAAATCACTGATGGCTTTAAGCCTATTA
*
38157131 TACTGGCAGATCTACTGCAAAT-ACTG
1 TACTGGCAGCTCTACTGCAAATCACTG
38157157 TTTAGTGCCG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
44 4 0.06
45 61 0.94
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
TACTGGCAGCTCTACTGCAAATCACTGATGGCTTTAAGCCTATTA
Found at i:38160377 original size:29 final size:29
Alignment explanation
Indices: 38160344--38160475 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
38160334 CCTCCGAACT
** * * *
38160344 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
38160373 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38160402 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38160431 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38160460 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38160476 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38163548 original size:43 final size:42
Alignment explanation
Indices: 38163481--38163645 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 42
38163471 ATTGTACCAT
* *
38163481 TGCCATATCCTAGATATGGGCTTACATGTAATCTCGTATCGA
1 TGCCATATCCTAGATATGGTCTTACATGTAATCTCATATCGA
* *
38163523 TGCCAATAGTCC-AGCTATGGTCTTACACG-AAGTCTCATATCGA
1 TGCC-ATA-TCCTAGATATGGTCTTACATGTAA-TCTCATATCGA
* * *
38163566 TGCCATATCCTAGATATGATCTTACATGTAAATCTCATGTTGA
1 TGCCATATCCTAGATATGGTCTTACATGT-AATCTCATATCGA
* * *
38163609 TGTCATAT-CTCAGATATGGTCTTACACGTATTCTCAT
1 TGCCATATCCT-AGATATGGTCTTACATGTAATCTCAT
38163646 TAACCCTAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 3 0.03
42 32 0.31
43 63 0.61
44 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (42 bp):
TGCCATATCCTAGATATGGTCTTACATGTAATCTCATATCGA
Found at i:38163580 original size:85 final size:85
Alignment explanation
Indices: 38163481--38163645 Score: 217
Period size: 85 Copynumber: 1.9 Consensus size: 85
38163471 ATTGTACCAT
* * *
38163481 TGCCATATCCTAGATATGGGCTTACATGT-AATCTCGTATCGATGCCAATAGTC-CAGCTATGGT
1 TGCCATATCCTAGATATGAGCTTACATGTAAATCTCATATCGATGCC-ATA-TCTCAGATATGGT
38163544 CTTACACGAAGTCTCATATCGA
64 CTTACACGAAGTCTCATATCGA
* * * *
38163566 TGCCATATCCTAGATATGATCTTACATGTAAATCTCATGTTGATGTCATATCTCAGATATGGTCT
1 TGCCATATCCTAGATATGAGCTTACATGTAAATCTCATATCGATGCCATATCTCAGATATGGTCT
* *
38163631 TACACGTATTCTCAT
66 TACACGAAGTCTCAT
38163646 TAACCCTAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 2 0.03
85 54 0.78
86 13 0.19
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (85 bp):
TGCCATATCCTAGATATGAGCTTACATGTAAATCTCATATCGATGCCATATCTCAGATATGGTCT
TACACGAAGTCTCATATCGA
Found at i:38165806 original size:95 final size:90
Alignment explanation
Indices: 38165642--38165856 Score: 229
Period size: 95 Copynumber: 2.3 Consensus size: 90
38165632 ACTTGTGTGC
* * * *
38165642 CAGTGTAAGACATGTCTGGGACATGCATCGGCCATAATATGATAGCTAGTGGAAGACTATGTCTT
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCATAAGATGATAGCCAATGGAAGACTATGTCTG
*
38165707 GGACATGGCATCCGCGTAGAGAACG-AGCGG
66 GGACA-CGCATCCGC-TA-AG-A-GTAG-GG
* * * *
38165737 CAGTGTAAGACATGTCTAGGACATGCATCGGCC-TCGACGATGATAGCCAATGTAAGAC-GTGTC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--AAGATGATAGCCAATGGAAGACTATGTC
* *
38165800 TGGGACACGCATCCGCTAAGAGTTGTG
64 TGGGACACGCATCCGCTAAGAGTAGGG
38165827 CTAGTGTAAGACATGTCTGGGACATGCATC
1 C-AGTGTAAGACATGTCTGGGACATGCATC
38165857 AGCACGTATA
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
90 3 0.03
91 29 0.28
92 2 0.02
93 2 0.02
94 9 0.09
95 42 0.40
96 17 0.16
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (90 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCATAAGATGATAGCCAATGGAAGACTATGTCTG
GGACACGCATCCGCTAAGAGTAGGG
Found at i:38165898 original size:49 final size:49
Alignment explanation
Indices: 38165643--38165955 Score: 185
Period size: 49 Copynumber: 6.6 Consensus size: 49
38165633 CTTGTGTGCC
* * ** * *
38165643 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAAT-ATGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATGACGAGAGCT
* * * * *
38165689 AGTGGAAGACTATGTCTTGGACATGGCATCCGCGTA-GA-GAACGAGCGGC-
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-TACGATG-ACGAG-AGCT
* * * * * *
38165738 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCT-CGACGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CTACGATGACGAGAGCT
* * * * * *
38165785 AATGTAAGA-CGTGTCTGGGACA-CGCATCCGCTA--A-GA-GTTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATGACG-AGAGCT
38165829 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-ACGTATAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACG-AT-GACGAGAGCT
* * * *
38165877 AGTATAAGACCATGTCTGGGACATGGCATCAGCTTCGATGATGATAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATGACGAGAGCT
*
38165926 AGTGTAAGACCATGTCCGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
38165956 GGCAACATAT
Statistics
Matches: 209, Mismatches: 35, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
43 2 0.01
44 31 0.15
45 1 0.00
46 13 0.06
47 49 0.23
48 36 0.17
49 63 0.30
50 12 0.06
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCTACGATGACGAGAGCT
Found at i:38174518 original size:29 final size:29
Alignment explanation
Indices: 38174441--38174522 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
38174431 TGTCGAGATC
*
38174441 GGCACTAAGTGTGCGTGCGGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
*
38174470 GGCACTAAGTGTGCGTGCTGGAAATATTT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
38174499 GGCACTAAGTGTGCAAGCTGGAAA
1 GGCACTAAGTGTGCGTGCTGGAAA
38174523 AAAATACGGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:38176323 original size:95 final size:94
Alignment explanation
Indices: 38176160--38176418 Score: 260
Period size: 95 Copynumber: 2.8 Consensus size: 94
38176150 TACTTGTGTG
* *
38176160 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGATAGCTAGTGTAAGATTATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCTAGTGTAAGATCATGTCT
*
38176225 GGGACATGTCATCGGTGTAGAGAATGAGCA
66 GGGACACG-CATCGGTGTAGAGAATGAGCA
* * * *
38176255 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGTTAGTGTAAGA-CGTGTC
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AAGATGATAGCTAGTGTAAGATCATGTC
* * *
38176319 TGGGACACGCATCGG-CTA-AGAGTTGTG--
65 TGGGACACGCATCGGTGTAGAGA-ATGAGCA
* * * * * * *
38176346 CTAGTGTAAGACATGTTTGGGACTTGCATCAG-CACGTATAGATGAGAGCTAGTATAAGACCATG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC--A-AGATGATAGCTAGTGTAAGATCATG
*
38176410 TCTAGGACA
63 TCTGGGACA
38176419 TGGCATCAGC
Statistics
Matches: 137, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
90 2 0.01
91 29 0.21
92 19 0.14
93 16 0.12
94 6 0.04
95 47 0.34
96 18 0.13
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCTAGTGTAAGATCATGTCT
GGGACACGCATCGGTGTAGAGAATGAGCA
Found at i:38176367 original size:44 final size:47
Alignment explanation
Indices: 38176162--38176467 Score: 205
Period size: 47 Copynumber: 6.5 Consensus size: 47
38176152 CTTGTGTGCC
* * **
38176162 AGTGTAAGACATGTCTGGGACATGCATCGGCC-ACAATATGATAGCT
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCTAGACGATGATAGCT
* * ** * *
38176208 AGTGTAAGATTATGTCTGGGACATGTCATCGGTGTAGA-GAATGAGCA-CC
1 AGTGTAAGA-CATGTCTGGGACACG-CATCGGCCTAGACG-ATGA-TAGCT
* * *
38176257 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGTT
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCTAGACGATGATAGCT
* *
38176304 AGTGTAAGACGTGTCTGGGACACGCATCGG-CTAAGA-GTTG-T-GCT
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCT-AGACGATGATAGCT
* ** * * *
38176348 AGTGTAAGACATGTTTGGGACTTGCATCAGCACGTATA-GATGAGAGCT
1 AGTGTAAGACATGTCTGGGACACGCATCGGC-C-TAGACGATGATAGCT
* * * * * * *
38176396 AGTATAAGACCATGTCTAGGACATGGCATCAGCCTCGATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACA-CGCATCGGCCTAGACGATGATAGCT
*
38176445 AGTGTAAGACCACGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
38176468 TGGCATTGGT
Statistics
Matches: 205, Mismatches: 39, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
44 27 0.13
45 1 0.00
46 21 0.10
47 58 0.28
48 34 0.17
49 55 0.27
50 9 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACACGCATCGGCCTAGACGATGATAGCT
Found at i:38176453 original size:49 final size:48
Alignment explanation
Indices: 38176162--38176473 Score: 243
Period size: 49 Copynumber: 6.6 Consensus size: 48
38176152 CTTGTGTGCC
* *
38176162 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACAAT-ATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
* * ** * * *
38176208 AGTGTAAGATTATGTCTGGGACATGTCATCGGTGTAGA-GAATGAGCA-CC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGATG-ATGA-TAGCT
* *
38176257 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGACGATGATAGTT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
* * * *
38176304 AGTGTAAGACGTGTCTGGGACA-CGCATCGG-CTAAGA-GTTG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGATGATGATAGCT
* * * * *
38176348 AGTGTAAGACATGTTTGGGAC-TTGCATCAG-CACGTATAGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCG-AT-GATGATAGCT
* * * *
38176396 AGTATAAGACCATGTCTAGGACATGGCATCAGCCTCGATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
*
38176445 AGTGTAAGACCACGTCTGGGACATGGCAT
1 AGTGTAAGA-CATGTCTGGGACATGGCAT
38176474 TGGTAACATA
Statistics
Matches: 209, Mismatches: 39, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 1 0.00
46 18 0.09
47 56 0.27
48 32 0.15
49 58 0.28
50 11 0.05
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCT
Found at i:38179873 original size:29 final size:29
Alignment explanation
Indices: 38179840--38179904 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
38179830 GTGACGAGAT
38179840 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38179869 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
38179898 CGGCACT
1 TGGCACT
38179905 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:38180010 original size:2 final size:2
Alignment explanation
Indices: 38180005--38180031 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38179995 GTGCGTACTC
38180005 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
38180032 CTCCGATCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38187838 original size:29 final size:29
Alignment explanation
Indices: 38187805--38187869 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
38187795 GTGACGAGAT
38187805 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38187834 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
38187863 CGGCACT
1 TGGCACT
38187870 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:38187975 original size:2 final size:2
Alignment explanation
Indices: 38187970--38188006 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
38187960 GTGCGTACTC
*
38187970 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38188007 CTCCGATCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38196913 original size:79 final size:80
Alignment explanation
Indices: 38196750--38196973 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 80
38196740 TCGAATGATG
* * * *
38196750 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
38196814 TGTGCGAGTTACTAAA
65 TATGCGAGTTACTAAA
*
38196830 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
*
38196892 TTATGCGAGTTACTAAT
64 TTATGCGAGTTACTAAA
* * * *
38196909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
38196974 GAACGAGTAG
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.54
80 49 0.39
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
ATGCGAGTTACTAAA
Found at i:38196973 original size:119 final size:120
Alignment explanation
Indices: 38196750--38196974 Score: 300
Period size: 119 Copynumber: 1.9 Consensus size: 120
38196740 TCGAATGATG
*
38196750 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
38196815 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
* * **
38196870 TCCGGGCTAAG-CCCGAAGGCATTTATGC-GAGTTACTA-ATTCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACTATA-TCCGGACTAAGAT-CCGAAGGCA
* *
38196931 TTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
63 TTTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
38196975 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
118 3 0.03
119 71 0.76
120 19 0.20
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:38196981 original size:40 final size:39
Alignment explanation
Indices: 38196750--38196974 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 39
38196740 TCGAATGATG
* *
38196750 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
38196790 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-AA
*
38196830 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
38196869 TTCCGGGCTAAG-CCCGAAGGCATTTATGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
38196908 TTCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
38196949 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38196975 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
39 38 0.23
40 120 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:38196996 original size:79 final size:78
Alignment explanation
Indices: 38196757--38197007 Score: 264
Period size: 79 Copynumber: 3.2 Consensus size: 78
38196747 ATGTCCGGGC
* * * *
38196757 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGAGCG
*
38196820 AGTTACTAAATCCGGAC
64 AGTTACT-AATCCGG-T
38196837 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT-ATGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGA-GC
38196898 GAGTTACTAATTCCGGGT
63 GAGTTACTAA-TCC-GGT
* * *
38196916 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
38196981 -TAGCTATATCCGGT
66 TTA-CTA-ATCCGGT
* *
38196995 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
38197008 TACGTGATTT
Statistics
Matches: 148, Mismatches: 10, Indels: 27
0.80 0.05 0.15
Matches are distributed among these distances:
78 3 0.02
79 80 0.54
80 55 0.37
81 10 0.07
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
TTACTAATCCGGT
Found at i:38202784 original size:46 final size:45
Alignment explanation
Indices: 38202687--38202820 Score: 135
Period size: 46 Copynumber: 2.9 Consensus size: 45
38202677 GGACTCACCA
* * * *
38202687 TAGCTCGTAC-GAGCTTACTATTTCAGCTTATTGGAGCTTATCAATT
1 TAGCTCG-ACAGAGCTTACT-TTTCAGCTCAATAGAGCTTACCAATT
* *
38202733 TAGCTCGACAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGATT
1 TAGCTCGACAGAGCTTACTTTTCAGCTCAATAGAGCTTACCAATT
* * *
38202778 TCAGCTCAATAGAGTTTACCGTTTTCAGCTCAATAGAGCTTAC
1 T-AGCTCGACAGAGCTTA-C-TTTTCAGCTCAATAGAGCTTAC
38202821 TGTTCATCAG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 23 0.31
46 29 0.39
47 1 0.01
48 21 0.28
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (45 bp):
TAGCTCGACAGAGCTTACTTTTCAGCTCAATAGAGCTTACCAATT
Found at i:38202785 original size:24 final size:24
Alignment explanation
Indices: 38202697--38202820 Score: 121
Period size: 24 Copynumber: 5.3 Consensus size: 24
38202687 TAGCTCGTAC
* * * *
38202697 GAGCTTA-CTATTTCAGCTTATTG
1 GAGCTTACCGATTTCAGCTCAATA
* * * *
38202720 GAGCTTATCAATTT-AGCTCGACA
1 GAGCTTACCGATTTCAGCTCAATA
*
38202743 GAGCTTACTG--TTCAGCTCAATA
1 GAGCTTACCGATTTCAGCTCAATA
38202765 GAGCTTACCGATTTCAGCTCAATA
1 GAGCTTACCGATTTCAGCTCAATA
* *
38202789 GAGTTTACCGTTTTCAGCTCAATA
1 GAGCTTACCGATTTCAGCTCAATA
38202813 GAGCTTAC
1 GAGCTTAC
38202821 TGTTCATCAG
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.02
22 16 0.20
23 18 0.22
24 46 0.56
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTCAATA
Found at i:38209989 original size:22 final size:23
Alignment explanation
Indices: 38209948--38210000 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
38209938 CAGGTTATTG
*
38209948 GAGCTTATTGATTTATCTCAAAA
1 GAGCTTATTGATTCATCTCAAAA
* *
38209971 GAGCTTCTTG-TTCATCTCAATA
1 GAGCTTATTGATTCATCTCAAAA
*
38209993 GATCTTAT
1 GAGCTTAT
38210001 CATTTTCAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (23 bp):
GAGCTTATTGATTCATCTCAAAA
Found at i:38221554 original size:18 final size:19
Alignment explanation
Indices: 38221505--38221555 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
38221495 GTAGTAGTGG
38221505 CAGTAATCAATGCAGTAAC
1 CAGTAATCAATGCAGTAAC
* *
38221524 CA-TGACCAATGCAGTAA-
1 CAGTAATCAATGCAGTAAC
*
38221541 CAGTAATCAGTGCAG
1 CAGTAATCAATGCAG
38221556 AATGCAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (19 bp):
CAGTAATCAATGCAGTAAC
Found at i:38221995 original size:28 final size:27
Alignment explanation
Indices: 38221907--38222003 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 27
38221897 TAGGGTAAAT
* * *
38221907 CAGTCATTTTACCTTATAGGGGTATTA
1 CAGTCATTCTACCCTACAGGGGTATTA
* * * *
38221934 CAGTCATTTTACCCTACAAGGATATTC
1 CAGTCATTCTACCCTACAGGGGTATTA
* * *
38221961 CGGTCATTCTACCCTACGGGGGGTATTT
1 CAGTCATTCTACCCTAC-AGGGGTATTA
38221989 CAGTCA-TCTTACCCT
1 CAGTCATTC-TACCCT
38222004 GTGAGGGTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
27 39 0.70
28 17 0.30
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
CAGTCATTCTACCCTACAGGGGTATTA
Found at i:38222037 original size:27 final size:26
Alignment explanation
Indices: 38222018--38222361 Score: 348
Period size: 27 Copynumber: 12.8 Consensus size: 26
38222008 GGGTATTTCA
*
38222018 ATCATTTTATCACATAAGGGCAAAATC
1 ATCATTTTATCACATAAGGG-TAAATC
*
38222045 ATCATTTTATCACATAAGGGCAAAATC
1 ATCATTTTATCACATAAGGG-TAAATC
* *
38222072 ATCATTTTATCACATGAGGGCAAAATC
1 ATCATTTTATCACATAAGGG-TAAATC
* * *
38222099 GTCATTTTATCACATAATGGTAAAATG
1 ATCATTTTATCACATAAGGGT-AAATC
*
38222126 ATCATTTTATCACATAAGGGCAAAATC
1 ATCATTTTATCACATAAGGG-TAAATC
* * *
38222153 ATCATTTTATCACAAAAAGGTAAAAAC
1 ATCATTTTATCACATAAGGGT-AAATC
* * *
38222180 GTCATTTTATCATAGAAGGGTAATATC
1 ATCATTTTATCACATAAGGGTAA-ATC
* * *
38222207 GTCATTTTATCACAGAAGGGCAATATC
1 ATCATTTTATCACATAAGGGTAA-ATC
*
38222234 GTCATTTTATC-CATAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGT-AAATC
* * *
38222260 GTCATTTTAGCATATAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGT-AAATC
*
38222287 ATCATTTTATCACATAAGGGCAATATC
1 ATCATTTTATCACATAAGGGTAA-ATC
*
38222314 GTCATTTTATCACATAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGT-AAATC
* *
38222341 GTCATTATATCACATAAGGGT
1 ATCATTTTATCACATAAGGGT
38222362 TCAGGTATGC
Statistics
Matches: 277, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
26 24 0.09
27 251 0.91
28 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (26 bp):
ATCATTTTATCACATAAGGGTAAATC
Found at i:38222082 original size:54 final size:54
Alignment explanation
Indices: 38222018--38222360 Score: 463
Period size: 54 Copynumber: 6.4 Consensus size: 54
38222008 GGGTATTTCA
* *
38222018 ATCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATC
1 ATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATC
* * *
38222072 ATCATTTTATCACATGAGGGCAAAATCGTCATTTTATCACATAATGGTAAAATG
1 ATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATC
* * * *
38222126 ATCATTTTATCACATAAGGGCAAAATCATCATTTTATCACAAAAAGGTAAAAAC
1 ATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATC
* * * * * * * *
38222180 GTCATTTTATCATAGAAGGGTAATATCGTCATTTTATCACAGAAGGGCAATATC
1 ATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATC
* * * *
38222234 GTCATTTTATC-CATAAGGGTAAAATCGTCATTTTAGCATATAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATC
*
38222287 ATCATTTTATCACATAAGGGCAATATCGTCATTTTATCACATAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATC
* *
38222341 GTCATTATATCACATAAGGG
1 ATCATTTTATCACATAAGGG
38222361 TTCAGGTATG
Statistics
Matches: 251, Mismatches: 37, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
53 44 0.18
54 207 0.82
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (54 bp):
ATCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATC
Found at i:38222106 original size:81 final size:81
Alignment explanation
Indices: 38222019--38222361 Score: 499
Period size: 81 Copynumber: 4.2 Consensus size: 81
38222009 GGTATTTCAA
*
38222019 TCATTTTATCACATAAGGGCAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCA
1 TCATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCA
* *
38222084 CATGAGGGCAAAATCG
66 CATAAGGGTAAAATCG
* *
38222100 TCATTTTATCACATAATGGTAAAATGATCATTTTATCACATAAGGGCAAAATCATCATTTTATCA
1 TCATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCA
* * *
38222165 CAAAAAGGTAAAAACG
66 CATAAGGGTAAAATCG
* * * * * * *
38222181 TCATTTTATCATAGAAGGGTAATATCGTCATTTTATCACAGAAGGGCAATATCGTCATTTTATC-
1 TCATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCA
38222245 CATAAGGGTAAAATCG
66 CATAAGGGTAAAATCG
* * * *
38222261 TCATTTTAGCATATAAGGGTAAAATCATCATTTTATCACATAAGGGCAATATCGTCATTTTATCA
1 TCATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCA
38222326 CATAAGGGTAAAATCG
66 CATAAGGGTAAAATCG
*
38222342 TCATTATATCACATAAGGGT
1 TCATTTTATCACATAAGGGT
38222362 TCAGGTATGC
Statistics
Matches: 233, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
80 72 0.31
81 161 0.69
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (81 bp):
TCATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAAGGGCAAAATCATCATTTTATCA
CATAAGGGTAAAATCG
Found at i:38226509 original size:14 final size:14
Alignment explanation
Indices: 38226469--38226509 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
38226459 ATAAACTCCT
*
38226469 AAAAATAAATAA-A
1 AAAAATAAAGAATA
38226482 AAAAATTAAAGAATA
1 AAAAA-TAAAGAATA
38226497 AAAAATAAAGAAT
1 AAAAATAAAGAAT
38226510 TAATTAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 14 0.56
15 6 0.24
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (14 bp):
AAAAATAAAGAATA
Found at i:38231729 original size:29 final size:29
Alignment explanation
Indices: 38231696--38231826 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
38231686 GTGACGAGAT
38231696 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38231725 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
38231754 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
38231783 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
38231812 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
38231827 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:38239848 original size:29 final size:29
Alignment explanation
Indices: 38239815--38239945 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
38239805 GTGACGAGAT
38239815 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
38239844 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
38239873 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
38239902 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
38239931 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
38239946 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:38246630 original size:23 final size:24
Alignment explanation
Indices: 38246610--38246658 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
38246600 CACTAATATC
*
38246610 GCAGCATAGCCGCCAGAAATAATAAA
1 GCAGCAAAGCCGCCAGAAAT-AT-AA
*
38246636 GCAGCAAAGCTGCCAGAAATATA
1 GCAGCAAAGCCGCCAGAAATATA
38246659 CACGGCTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 2 0.10
26 18 0.86
ACGTcount: A:0.45, C:0.22, G:0.20, T:0.12
Consensus pattern (24 bp):
GCAGCAAAGCCGCCAGAAATATAA
Found at i:38246783 original size:31 final size:32
Alignment explanation
Indices: 38246671--38246831 Score: 236
Period size: 32 Copynumber: 5.1 Consensus size: 32
38246661 CGGCTTACAT
*
38246671 CCATCAGTAGCAGTAATATGATCGGCACAAAG
1 CCATCAGTAGCTGTAATATGATCGGCACAAAG
* *
38246703 CCAACAGTAGCTGTAATATGATTGGCACAAAG
1 CCATCAGTAGCTGTAATATGATCGGCACAAAG
**
38246735 CCATCAGTAGCTGTAATATGATCAACACAAAG
1 CCATCAGTAGCTGTAATATGATCGGCACAAAG
*
38246767 CCATCAGTA-CTGTAATATGATCGGCATAAAG
1 CCATCAGTAGCTGTAATATGATCGGCACAAAG
* *
38246798 CCATCAGTA-CTGTAATATGATCGGTACCAAG
1 CCATCAGTAGCTGTAATATGATCGGCACAAAG
38246829 CCA
1 CCA
38246832 CTGGTAAATA
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 50 0.43
32 66 0.57
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (32 bp):
CCATCAGTAGCTGTAATATGATCGGCACAAAG
Found at i:38247302 original size:27 final size:27
Alignment explanation
Indices: 38247272--38247375 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 27
38247262 TACCATACAA
38247272 GGGTATTTCGATAATTTAACAAATTGG
1 GGGTATTTCGATAATTTAACAAATTGG
* *
38247299 GGGTATTTCGACAATTTTACAAATTGG
1 GGGTATTTCGATAATTTAACAAATTGG
*** * * *
38247326 GGGTATTTTTCTAATTTTACAAATCGA
1 GGGTATTTCGATAATTTAACAAATTGG
* * *
38247353 GGGTATTTTGCTAATCTAACAAA
1 GGGTATTTCGATAATTTAACAAA
38247376 CTGAGGTATT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTAACAAATTGG
Found at i:38250718 original size:31 final size:32
Alignment explanation
Indices: 38250592--38250753 Score: 184
Period size: 32 Copynumber: 5.1 Consensus size: 32
38250582 CACGGCTTAC
*
38250592 AGCCATCAGTAGCGGTAATATGATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* * * * * *
38250624 AGTCAACAGCAGCTGTAACATGATTGACACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* *
38250656 AGCCATCAGTAGCTTTAATATAATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* *
38250688 AGCCGTCAGTA-CTGTAATATGATCGACACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* * *
38250719 AGCCATCAATA-CTGTAATATGATTGGCACCA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
38250750 AGCC
1 AGCC
38250754 GTTGGTAAAT
Statistics
Matches: 106, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
31 47 0.44
32 59 0.56
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (32 bp):
AGCCATCAGTAGCTGTAATATGATCGGCACAA
Found at i:38251219 original size:27 final size:27
Alignment explanation
Indices: 38251181--38251295 Score: 81
Period size: 27 Copynumber: 4.3 Consensus size: 27
38251171 AAAAATAGTC
*
38251181 ATTTTACCCTACAGGGGTATTTTGGTA
1 ATTTTACACTACAGGGGTATTTTGGTA
** * * * *
38251208 ATTTTACACTACAAAGGTATCTCGATG
1 ATTTTACACTACAGGGGTATTTTGGTA
* *
38251235 ATTTTACA-AATCGGGGGTATTTTGGTA
1 ATTTTACACTA-CAGGGGTATTTTGGTA
* ** *
38251262 ATTTTACAATTGA-GGGTATTTTTGTA
1 ATTTTACACTACAGGGGTATTTTGGTA
*
38251288 ATCTTACA
1 ATTTTACA
38251296 AACTAGGGTC
Statistics
Matches: 65, Mismatches: 21, Indels: 5
0.71 0.23 0.05
Matches are distributed among these distances:
26 20 0.31
27 45 0.69
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTTTACACTACAGGGGTATTTTGGTA
Found at i:38251283 original size:26 final size:26
Alignment explanation
Indices: 38251195--38251296 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
38251185 TACCCTACAG
* *
38251195 GGGTATTTTGGTAATTTTACACTACAA
1 GGGTATTTTGGTAATTTTACAAT-CGA
* * * * * *
38251222 AGGTATCTCGATGATTTTACAAATCGG
1 GGGTATTTTGGTAATTTTAC-AATCGA
*
38251249 GGGTATTTTGGTAATTTTACAATTGA
1 GGGTATTTTGGTAATTTTACAATCGA
* *
38251275 GGGTATTTTTGTAATCTTACAA
1 GGGTATTTTGGTAATTTTACAA
38251297 ACTAGGGTCT
Statistics
Matches: 57, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
26 24 0.42
27 31 0.54
28 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCGA
Found at i:38251303 original size:26 final size:26
Alignment explanation
Indices: 38251249--38251304 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
38251239 TACAAATCGG
* *
38251249 GGGTATTTTGGTAATTTTACAATTGA
1 GGGTATTTTGGTAATCTTACAACTGA
*
38251275 GGGTATTTTTGTAATCTTACAAACT-A
1 GGGTATTTTGGTAATCTTAC-AACTGA
38251301 GGGT
1 GGGT
38251305 CTTAAAGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (26 bp):
GGGTATTTTGGTAATCTTACAACTGA
Found at i:38258206 original size:27 final size:27
Alignment explanation
Indices: 38258142--38258234 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
38258132 AATACTTTAG
* *
38258142 TTTACCAAATTACTGAAA-TACCCTCGA
1 TTTACAAAATTAC-CAAAGTACCCTCGA
* ** *
38258169 CTTGTAAAATTACCAAAGTACCCTTGA
1 TTTACAAAATTACCAAAGTACCCTCGA
* ***
38258196 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAGTACCCTCGA
38258223 TTTACAAAATTA
1 TTTACAAAATTA
38258235 TTGAAATACC
Statistics
Matches: 50, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 3 0.06
27 47 0.94
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACCAAAGTACCCTCGA
Found at i:38258260 original size:27 final size:27
Alignment explanation
Indices: 38258238--38258399 Score: 225
Period size: 27 Copynumber: 6.0 Consensus size: 27
38258228 AAAATTATTG
*
38258238 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCA
*
38258265 AAATACCCCTATAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
*
38258292 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
* * *
38258319 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCA
*
38258346 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCA
* * * *
38258373 AGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
38258400 TTTTGCCCTT
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCA
Found at i:38258408 original size:27 final size:27
Alignment explanation
Indices: 38258378--38258441 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
38258368 TACCGAGATA
* *
38258378 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTCTG
* * *
38258405 CCCTTAG-GGTGTTAAATGACTATTCTG
1 CCCTT-GTGGGGTAAAATGACCATTCTG
38258432 CCCTTGTGGG
1 CCCTTGTGGG
38258442 CAAGTGACTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTCTG
Found at i:38258680 original size:27 final size:26
Alignment explanation
Indices: 38258636--38258707 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
38258626 GGTGGCTATG
38258636 CCACAAATATCTATTCTGGTTG-CTCTA
1 CCAC-AATATCTATTCTGG-TGACTCTA
* *
38258663 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTAT-TCTGGTGACTCTA
*
38258690 TCACAATATCTATTCTGG
1 CCACAATATCTATTCTGG
38258708 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 15 0.38
27 24 0.62
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (26 bp):
CCACAATATCTATTCTGGTGACTCTA
Found at i:38260710 original size:22 final size:22
Alignment explanation
Indices: 38260656--38260700 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38260646 CTGAACTTAG
38260656 TACTACACACGTGACCTAACCA
1 TACTACACACGTGACCTAACCA
38260678 TACTACACACGTGACCTAACCA
1 TACTACACACGTGACCTAACCA
38260700 T
1 T
38260701 CTGATACACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.36, G:0.09, T:0.20
Consensus pattern (22 bp):
TACTACACACGTGACCTAACCA
Found at i:38266356 original size:40 final size:39
Alignment explanation
Indices: 38266211--38266356 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 39
38266201 TAGCTACGTT
* * *
38266211 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTA-CTCGCA
* *
38266251 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTCGCA
* *
38266291 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-AC-TCGCA
38266332 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38266357 CATCATTCGA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.03
40 76 0.84
41 12 0.13
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTCGCA
Found at i:38274272 original size:40 final size:40
Alignment explanation
Indices: 38274228--38274453 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
38274218 GCTACTCGTT
* * *
38274228 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
38274268 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
38274308 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
38274348 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38274388 CAAATGCCTTCAGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
38274429 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
38274454 CATCATTCGA
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.91
41 12 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:38275173 original size:2 final size:2
Alignment explanation
Indices: 38275166--38275191 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38275156 ATGTGCAAAC
38275166 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
38275192 GTGCAAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38278541 original size:30 final size:30
Alignment explanation
Indices: 38278505--38278664 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
38278495 GACAAGATTG
* * * * *
38278505 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
38278535 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
38278563 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38278592 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38278622 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38278651 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38278665 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:38278632 original size:59 final size:57
Alignment explanation
Indices: 38278505--38278664 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
38278495 GACAAGATTG
* * * * * *
38278505 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
38278563 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
38278622 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
38278665 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:38286348 original size:30 final size:30
Alignment explanation
Indices: 38286312--38286471 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
38286302 GACAAGATTG
* * * * *
38286312 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
38286342 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
38286370 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38286399 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38286429 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
38286458 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38286472 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:38286439 original size:59 final size:57
Alignment explanation
Indices: 38286312--38286471 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
38286302 GACAAGATTG
* * * * * *
38286312 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
38286370 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
38286429 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
38286472 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:38288177 original size:27 final size:27
Alignment explanation
Indices: 38288147--38288218 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
38288137 AGCATAGCTG
*
38288147 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
* * *
38288174 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
* *
38288201 CCAGTAATAGTGAATGTG
1 CCAGTAACAGTAAATGTG
38288219 ACATAGTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCAAAGCCA
Found at i:38288223 original size:27 final size:26
Alignment explanation
Indices: 38288131--38288229 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
38288121 CCAGTAATAA
* ** * *
38288131 TAATGTAGCATAGCTGCCAGAAACAG
1 TAATGTGGCATAGCCACCAGTATCAG
*
38288157 TAAATGTGGCAAAGCCACCAGTATCAG
1 T-AATGTGGCATAGCCACCAGTATCAG
38288184 TAATTGTGGCATAGCCACCAGTAAT-AG
1 TAA-TGTGGCATAGCCACCAGT-ATCAG
* *
38288211 TGAATGTGACATAGTCACC
1 T-AATGTGGCATAGCCACC
38288230 TCCATATCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 3 0.05
27 53 0.88
28 4 0.07
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
TAATGTGGCATAGCCACCAGTATCAG
Found at i:38288410 original size:27 final size:27
Alignment explanation
Indices: 38288361--38288495 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
38288351 GGCATAATCA
* * *
38288361 TCATTTTACCCTATAGTGGCATTACAG
1 TCATTTTACCCTACAGGGGCATTACGG
*
38288388 TCATTTTACCCTACAGGGACATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * * *
38288415 TTATTCTACCTTACAGGGGCATTACTG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
38288442 TCATTTTACCCTATAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
38288469 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
38288496 CCAGATAACG
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:38289069 original size:15 final size:15
Alignment explanation
Indices: 38289049--38289080 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38289039 CTTAATCACT
38289049 TAAACCACAACCACC
1 TAAACCACAACCACC
*
38289064 TAAACCATAACCACC
1 TAAACCACAACCACC
38289079 TA
1 TA
38289081 CTTTGCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (15 bp):
TAAACCACAACCACC
Found at i:38306805 original size:27 final size:27
Alignment explanation
Indices: 38306768--38306837 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
38306758 AGCATAGCTG
*
38306768 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
* * * *
38306795 TCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
*
38306822 CCAGTAACAGTGAATG
1 CCAGTAACAGTAAATG
38306838 AGACATAGTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCAAAGCCA
Found at i:38307029 original size:27 final size:27
Alignment explanation
Indices: 38306995--38307187 Score: 194
Period size: 27 Copynumber: 7.1 Consensus size: 27
38306985 GGGCATAATC
38306995 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACA
* * * *
38307022 CTCGTTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACA
* * * **
38307049 GTCATTTTACCTTATAGAGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACA
* *
38307076 GTCTTTTTACCCTACATGGGCATTA-A
1 GTCATTTTACCCTACAGGGGCATTACA
* *
38307102 GGTCATTTTACCTTACAAGGGCATTAC-
1 -GTCATTTTACCCTACAGGGGCATTACA
**
38307129 GTTCATTTTACCCTACAATGGCATTA-A
1 G-TCATTTTACCCTACAGGGGCATTACA
*
38307156 GGTTATTTTACCCTACAGGGGCATTACA
1 -GTCATTTTACCCTACAGGGGCATTACA
38307184 GTCA
1 GTCA
38307188 GATAACGACC
Statistics
Matches: 134, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.01
27 131 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACA
Found at i:38307127 original size:81 final size:81
Alignment explanation
Indices: 38306998--38307183 Score: 236
Period size: 81 Copynumber: 2.3 Consensus size: 81
38306988 CATAATCGTC
* *
38306998 ATTTTACCCTACAGGGGCATTACACTCGTTTTACCCTACAGGGACATTACGGTCATTTTACCTTA
1 ATTTTACCCTACAGGGGCATTACACTCATTTTACCCTACAGGGACATTACGGTCATTTTACCCTA
* *
38307063 TAGA-GGCATTATGGTCT
66 CA-ATGGCATTAAGGT-T
* * * *
38307080 -TTTTACCCTACATGGGCATTA-AGGTCATTTTACCTTACAAGGG-CATTACGTTCATTTTACCC
1 ATTTTACCCTACAGGGGCATTACA-CTCATTTTACCCTAC-AGGGACATTACGGTCATTTTACCC
38307142 TACAATGGCATTAAGGTT
64 TACAATGGCATTAAGGTT
38307160 ATTTTACCCTACAGGGGCATTACA
1 ATTTTACCCTACAGGGGCATTACA
38307184 GTCAGATAAC
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
80 3 0.03
81 82 0.91
82 5 0.06
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (81 bp):
ATTTTACCCTACAGGGGCATTACACTCATTTTACCCTACAGGGACATTACGGTCATTTTACCCTA
CAATGGCATTAAGGTT
Found at i:38307419 original size:18 final size:19
Alignment explanation
Indices: 38307396--38307432 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38307386 TAACCTGTTG
38307396 GGGCCCAC-GAGCCCATTT
1 GGGCCCACAGAGCCCATTT
*
38307414 GGGCCCACATAGCCCATTT
1 GGGCCCACAGAGCCCATTT
38307433 TGACCCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.38, G:0.24, T:0.19
Consensus pattern (19 bp):
GGGCCCACAGAGCCCATTT
Found at i:38315492 original size:83 final size:83
Alignment explanation
Indices: 38315336--38315493 Score: 192
Period size: 83 Copynumber: 1.9 Consensus size: 83
38315326 CCGATGTGTG
* * * * * *
38315336 ATTCGTGTAAGACTATGTCTGGGACATTGGAATCGAAGTGAGAAAATATGTAAGACCATGTCTGG
1 ATTCGTGTAAGACCATGTCTGGGACAGTGGAATCGAAATGAGAAAACATGTAAGACCATATCGGG
38315401 ACATTGGCATCATATATT
66 ACATTGGCATCATATATT
* * * * *
38315419 ATTCGTGTAAGACCCTGTTTGGGACAGTGGCATCGAAATGTGATAACATGTAAGACCATATCCGG
1 ATTCGTGTAAGACCATGTCTGGGACAGTGGAATCGAAATGAGAAAACATGTAAGACCATAT-CGG
*
38315484 GATA-TGGCAT
65 GACATTGGCAT
38315494 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
83 57 0.92
84 5 0.08
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (83 bp):
ATTCGTGTAAGACCATGTCTGGGACAGTGGAATCGAAATGAGAAAACATGTAAGACCATATCGGG
ACATTGGCATCATATATT
Found at i:38317331 original size:46 final size:46
Alignment explanation
Indices: 38317264--38317352 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
38317254 TATATACACA
* *
38317264 TCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCCG
1 TCTCATACATATCTCACATTAGCCATTCGGCTTCACCACATATCCG
* * *
38317310 TCTCATACATGTTTCACATTAGCCATTCGGCTTCGCCACATAT
1 TCTCATACATATCTCACATTAGCCATTCGGCTTCACCACATAT
38317353 ATACACTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (46 bp):
TCTCATACATATCTCACATTAGCCATTCGGCTTCACCACATATCCG
Found at i:38317399 original size:47 final size:47
Alignment explanation
Indices: 38317323--38317467 Score: 175
Period size: 47 Copynumber: 3.1 Consensus size: 47
38317313 CATACATGTT
* ** * * *
38317323 TCACATTAGCCATTCGG-CTTCGCCACATATATACACTTTCACGTTCA
1 TCACATTGGCCATTCGGCCTT-ATCACATATATGCACATTCACATTCA
* * *
38317370 TCACATTGGTCATTCTGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTCA
**
38317417 TCACATTGGCCATTCGGCCTTATCACATATATGCAGGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTCA
38317464 TCAC
1 TCAC
38317468 CTTAAATCCT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
47 80 0.96
48 3 0.04
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTCA
Found at i:38319081 original size:28 final size:29
Alignment explanation
Indices: 38319050--38319113 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
38319040 TCGCACACCC
*
38319050 AGTGCCGTAT-TTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
38319078 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
38319107 AGTGCCA
1 AGTGCCA
38319114 ATCTCGTCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 9 0.26
29 25 0.74
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:38320339 original size:27 final size:29
Alignment explanation
Indices: 38320283--38320343 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 29
38320273 TTTTTTTCCT
38320283 TTTCTTTGTTTTTCTTCATATTCTCTTTC
1 TTTCTTTGTTTTTCTTCATATTCTCTTTC
*
38320312 TTTCTTT-TTTTT-TTCAT-TTCTTTATTC
1 TTTCTTTGTTTTTCTTCATATTCTCT-TTC
38320339 TTTCT
1 TTTCT
38320344 ACATAATCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 5 0.17
27 13 0.43
28 5 0.17
29 7 0.23
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.74
Consensus pattern (29 bp):
TTTCTTTGTTTTTCTTCATATTCTCTTTC
Found at i:38323092 original size:18 final size:18
Alignment explanation
Indices: 38323069--38323126 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
38323059 GAAATGGGTT
38323069 ATAGGTGTTACAAGTTGG
1 ATAGGTGTTACAAGTTGG
**
38323087 ATAGGTG--A-AAGTTAT
1 ATAGGTGTTACAAGTTGG
38323102 ATAGGTGTTACAAGTTGG
1 ATAGGTGTTACAAGTTGG
38323120 ATAGGTG
1 ATAGGTG
38323127 AAAGCTATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 12 0.36
16 1 0.03
17 1 0.03
18 19 0.58
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.33
Consensus pattern (18 bp):
ATAGGTGTTACAAGTTGG
Found at i:38323106 original size:33 final size:33
Alignment explanation
Indices: 38323068--38323130 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
38323058 GGAAATGGGT
38323068 TATAGGTGTTACAAGTTGGATAGGTGAAAGTTA
1 TATAGGTGTTACAAGTTGGATAGGTGAAAGTTA
38323101 TATAGGTGTTACAAGTTGGATAGGTGAAAG
1 TATAGGTGTTACAAGTTGGATAGGTGAAAG
38323131 CTATCATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.03, G:0.32, T:0.32
Consensus pattern (33 bp):
TATAGGTGTTACAAGTTGGATAGGTGAAAGTTA
Found at i:38325320 original size:46 final size:46
Alignment explanation
Indices: 38325249--38325342 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
38325239 AAGAAGGTAG
**
38325249 ATGCATCAATAATCCCAATTGTCCTAATCAACATTGCAGTTCCTTA
1 ATGCATCAATAATCCCAATTGTCCTAATCAACATTGCAACTCCTTA
* *
38325295 ATGCATCAGTAATCCCAATTTTCCTAATCAACATTGCAACTCCTTA
1 ATGCATCAATAATCCCAATTGTCCTAATCAACATTGCAACTCCTTA
38325341 AT
1 AT
38325343 CTTCTTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (46 bp):
ATGCATCAATAATCCCAATTGTCCTAATCAACATTGCAACTCCTTA
Found at i:38326176 original size:34 final size:32
Alignment explanation
Indices: 38326123--38326218 Score: 133
Period size: 34 Copynumber: 3.0 Consensus size: 32
38326113 GTGACATTCT
* *
38326123 TTCCTTAAAC-TATATGGCATGTTTATCATGC
1 TTCCCTAAACATATATGGCATGTTTATCATAC
*
38326154 TTCCCTAAATTATTATATGGCATGTTTATCATAC
1 TTCCCTAAA-CA-TATATGGCATGTTTATCATAC
38326188 TTCCCTAAACA-ATATGGCATGTTTATCATAC
1 TTCCCTAAACATATATGGCATGTTTATCATAC
38326219 ATATGTATGA
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
31 28 0.48
33 1 0.02
34 29 0.50
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (32 bp):
TTCCCTAAACATATATGGCATGTTTATCATAC
Found at i:38326206 original size:31 final size:31
Alignment explanation
Indices: 38326123--38326218 Score: 129
Period size: 31 Copynumber: 3.0 Consensus size: 31
38326113 GTGACATTCT
* * *
38326123 TTCCTTAAACTATATGGCATGTTTATCATGC
1 TTCCCTAAACAATATGGCATGTTTATCATAC
*
38326154 TTCCCTAAATTATTATATGGCATGTTTATCATAC
1 TTCCCTAAA-CA--ATATGGCATGTTTATCATAC
38326188 TTCCCTAAACAATATGGCATGTTTATCATAC
1 TTCCCTAAACAATATGGCATGTTTATCATAC
38326219 ATATGTATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
31 28 0.49
33 1 0.02
34 28 0.49
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (31 bp):
TTCCCTAAACAATATGGCATGTTTATCATAC
Found at i:38328147 original size:25 final size:26
Alignment explanation
Indices: 38328073--38328147 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 26
38328063 ATAAGGGCAC
* *
38328073 ATAATCAGGAAGCACACTCTCGAGCCAT
1 ATAA-CAGGAAGCTCA-TGTCGAGCCAT
* *
38328101 ATATCAGGATGCTCATGT-GAGCCAT
1 ATAACAGGAAGCTCATGTCGAGCCAT
* *
38328126 GTAACAGGAAGCTTAT-TCGAGC
1 ATAACAGGAAGCTCATGTCGAGC
38328148 TATACTAGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
24 1 0.03
25 23 0.61
26 2 0.05
27 9 0.24
28 3 0.08
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (26 bp):
ATAACAGGAAGCTCATGTCGAGCCAT
Found at i:38331641 original size:27 final size:27
Alignment explanation
Indices: 38331605--38331910 Score: 372
Period size: 27 Copynumber: 11.6 Consensus size: 27
38331595 ATATATACAT
* *
38331605 CACAT-AGGGCAAAACAGCCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
38331631 CAGATAAGGGCAAAACAGTGATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38331658 CACATAAGGGCAAAATAGTC-----AC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
38331680 CACATAAGGGAAAAATAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38331707 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38331734 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
38331761 CACATAAGGACAAAACAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
38331788 CACATAAGGGTAAAACAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
38331815 CATATAAGGGCAAAATAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38331842 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
38331869 CACATAAGGACAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
38331896 CATATAAGGGCAAAA
1 CACATAAGGGCAAAA
38331911 TTGTAACAGC
Statistics
Matches: 244, Mismatches: 30, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
22 21 0.09
26 4 0.02
27 219 0.90
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:38331684 original size:22 final size:22
Alignment explanation
Indices: 38331656--38331700 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38331646 CAGTGATCTT
*
38331656 ACCACATAAGGGCAAAATAGTC
1 ACCACATAAGGGAAAAATAGTC
38331678 ACCACATAAGGGAAAAATAGTC
1 ACCACATAAGGGAAAAATAGTC
38331700 A
1 A
38331701 TTTCACCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.13
Consensus pattern (22 bp):
ACCACATAAGGGAAAAATAGTC
Found at i:38332957 original size:50 final size:48
Alignment explanation
Indices: 38332749--38332959 Score: 170
Period size: 46 Copynumber: 4.5 Consensus size: 48
38332739 GGGTTATTGT
* * * * ** *
38332749 GAGCTAGTGTAAAACCATGTCTGGGATATGGCTTCGGCATTGAGACG-A
1 GAGCTAGTGTAAGA-CATGTCTGGGACATAGCATCGGCACCGAGATGTA
* *
38332797 GTGCTAGTCTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATAGCATCGGCAC-CGAGATGTA
* *
38332844 -AGCTAGTGTAAGACATGTTTGGGACATA-CATCGGCTA-TGAGATGT-
1 GAGCTAGTGTAAGACATGTCTGGGACATAGCATCGGC-ACCGAGATGTA
* * * *
38332889 G-TC-AATGTAAGACCATGTCTGGGACATAGCATCGGCACGGATATGTGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATAGCATCGGCACCGAGATGT-A
38332937 GAGCTAGTGTAAGACAATGTCTG
1 GAGCTAGTGTAAGAC-ATGTCTG
38332960 AGACGTTGCG
Statistics
Matches: 130, Mismatches: 19, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
44 8 0.06
45 16 0.12
46 63 0.48
47 14 0.11
48 12 0.09
49 2 0.02
50 15 0.12
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATAGCATCGGCACCGAGATGTA
Found at i:38335284 original size:27 final size:27
Alignment explanation
Indices: 38335239--38335319 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
38335229 GGGGTGTTAC
* * *
38335239 AAAAATAGTCATTTCACCATATAAGGG
1 AAAAACAGTCATTTTACCACATAAGGG
* * *
38335266 CAAGACAGTCATTTTACCACATAAAGG
1 AAAAACAGTCATTTTACCACATAAGGG
* *
38335293 AAAAACAATCATTTTACGACATAAGGG
1 AAAAACAGTCATTTTACCACATAAGGG
38335320 GTCTAGGTAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.23
Consensus pattern (27 bp):
AAAAACAGTCATTTTACCACATAAGGG
Found at i:38339915 original size:42 final size:42
Alignment explanation
Indices: 38339859--38339980 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
38339849 GTTAACTCAC
* * *
38339859 TTGAGTTTCCGTTTAACCCTAATGGGTTTCCATTTAGCTCTT
1 TTGAGCTTCCGTTTAACCCTTATGGGTTTCCATTTAGCTCCT
* * ** *
38339901 TTGAGCTTCAGTTTAACCCTTATGAGTTTCTGTTCAGCTCCT
1 TTGAGCTTCCGTTTAACCCTTATGGGTTTCCATTTAGCTCCT
* * * *
38339943 ATGAACTTCCGTTTAGCCCTTACGGGTTTCCATTTAGC
1 TTGAGCTTCCGTTTAACCCTTATGGGTTTCCATTTAGC
38339981 ACTTATGTGC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.42
Consensus pattern (42 bp):
TTGAGCTTCCGTTTAACCCTTATGGGTTTCCATTTAGCTCCT
Found at i:38340183 original size:13 final size:13
Alignment explanation
Indices: 38340165--38340189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38340155 GAATAATATA
38340165 TTAAATGAATTAC
1 TTAAATGAATTAC
38340178 TTAAATGAATTA
1 TTAAATGAATTA
38340190 TTTTAGTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
TTAAATGAATTAC
Found at i:38343135 original size:37 final size:37
Alignment explanation
Indices: 38343047--38343117 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
38343037 CGTTGCCTTC
* * * * *
38343047 ATTATAGTCTAATTATGATTTTTATTCCCAATTTTCT
1 ATTATAATGTAATTATGATTTTTATACCAAATTATCT
38343084 ATTATAATGTAATTATGATTTTTATACCAAATTA
1 ATTATAATGTAATTATGATTTTTATACCAAATTA
38343118 ATCTCTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.51
Consensus pattern (37 bp):
ATTATAATGTAATTATGATTTTTATACCAAATTATCT
Found at i:38348852 original size:17 final size:18
Alignment explanation
Indices: 38348772--38348850 Score: 67
Period size: 18 Copynumber: 4.3 Consensus size: 18
38348762 AAATTAATCT
38348772 TTAAAAA-TAAAAATAAAA
1 TTAAAAATTAAAAAT-AAA
*
38348790 TT-AAAATT-ACAAT-AA
1 TTAAAAATTAAAAATAAA
38348805 TTATAAAATTATTTAAAATAAA
1 TTA-AAAATTA---AAAATAAA
*
38348827 TTAAAAATTAAAAATACA
1 TTAAAAATTAAAAATAAA
38348845 TTAAAA
1 TTAAAA
38348851 TTTACTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
15 4 0.08
17 14 0.28
18 16 0.32
21 11 0.22
22 5 0.10
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAAAAATTAAAAATAAA
Found at i:38348877 original size:27 final size:26
Alignment explanation
Indices: 38348847--38348902 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
38348837 AAAATACATT
* *
38348847 AAAATTTACTAAAATTTACTATTTTTAA
1 AAAATATA-TAAAATTTAATA-TTTTAA
*
38348875 AAAATATATATAATTTAATATTTTAA
1 AAAATATATAAAATTTAATATTTTAA
38348901 AA
1 AA
38348903 TTTTTGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.32
27 10 0.40
28 7 0.28
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAATATATAAAATTTAATATTTTAA
Found at i:38349768 original size:51 final size:51
Alignment explanation
Indices: 38349712--38349809 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
38349702 AATTCTGATA
* * *
38349712 ATTTTTATAAATTTTTTACAATATT-TTAGAATTTCTAATATATTTTATAGT
1 ATTTTTATAAATTTTTTACAAT-TTCTTAAAAATTCTAACATATTTTATAGT
* *
38349763 ATTTTTATAATTTTTTTATAATTTCTTAAAAATTCTAACATATTTTA
1 ATTTTTATAAATTTTTTACAATTTCTTAAAAATTCTAACATATTTTA
38349810 AAAAATTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (51 bp):
ATTTTTATAAATTTTTTACAATTTCTTAAAAATTCTAACATATTTTATAGT
Found at i:38351459 original size:18 final size:16
Alignment explanation
Indices: 38351436--38351475 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
38351426 GAATCTTTGT
38351436 TAAAATAAAATACAATAG
1 TAAAATAAAATA-AA-AG
38351454 TAAAATAAAATAAAAG
1 TAAAATAAAATAAAAG
38351470 TAAAAT
1 TAAAAT
38351476 CCATATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 8 0.36
17 2 0.09
18 12 0.55
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (16 bp):
TAAAATAAAATAAAAG
Found at i:38357335 original size:44 final size:43
Alignment explanation
Indices: 38357225--38357348 Score: 137
Period size: 44 Copynumber: 2.9 Consensus size: 43
38357215 AACTCGTGCA
* * *
38357225 ATGCTAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCG
* * *
38357268 ATGCC-ACTATCCTAGACAG-GGTCTTACACGTAAATCACAAATTG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AATCACAAATCG
*
38357312 ATGCCAACGTCCCAGACGTGGTCTTACTCG-AATCACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACA
38357349 TATTGGAATC
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
42 9 0.13
43 23 0.34
44 33 0.49
45 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACAAATCG
Found at i:38358487 original size:13 final size:13
Alignment explanation
Indices: 38358469--38358493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38358459 ACAAATGATA
38358469 AAATTTTCACACG
1 AAATTTTCACACG
38358482 AAATTTTCACAC
1 AAATTTTCACAC
38358494 ATATAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:38358925 original size:25 final size:25
Alignment explanation
Indices: 38358891--38358944 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
38358881 TTGCTTAGTC
38358891 TCTTTGATCAAATCGACCCCGTGTA
1 TCTTTGATCAAATCGACCCCGTGTA
*
38358916 TCTTTGATCAAATCGACCCTGTGTA
1 TCTTTGATCAAATCGACCCCGTGTA
38358941 TCTT
1 TCTT
38358945 ATTCTCACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (25 bp):
TCTTTGATCAAATCGACCCCGTGTA
Found at i:38365340 original size:21 final size:21
Alignment explanation
Indices: 38365316--38365360 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
38365306 ACATTTCAAG
38365316 AATTTGTACTCAAAGATAAAC
1 AATTTGTACTCAAAGATAAAC
38365337 AATTTGTACTCAAAGATAAAC
1 AATTTGTACTCAAAGATAAAC
38365358 AAT
1 AAT
38365361 GATCGTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (21 bp):
AATTTGTACTCAAAGATAAAC
Found at i:38365967 original size:15 final size:15
Alignment explanation
Indices: 38365947--38365986 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
38365937 AAAGCCCAGA
*
38365947 ATAAAGAATTCCAAG
1 ATAAAGAAATCCAAG
*
38365962 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
38365977 ATAAGGAAAT
1 ATAAAGAAAT
38365987 ACAATTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:38375964 original size:46 final size:46
Alignment explanation
Indices: 38375914--38376089 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
38375904 TGGTTGAGCA
38375914 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38375960 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38376005 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38376053 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38376090 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38376070 original size:93 final size:93
Alignment explanation
Indices: 38375911--38376081 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38375901 GGATGGTTGA
* *
38375911 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38375976 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38376004 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38376069 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38376082 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38380567 original size:7 final size:7
Alignment explanation
Indices: 38380555--38380579 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38380545 GTTGTCTTCT
38380555 TGTTTGA
1 TGTTTGA
38380562 TGTTTGA
1 TGTTTGA
38380569 TGTTTGA
1 TGTTTGA
38380576 TGTT
1 TGTT
38380580 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:38381509 original size:27 final size:28
Alignment explanation
Indices: 38381453--38381522 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
38381443 AAATTTGTAC
38381453 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
38381481 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38381508 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38381523 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38402947 original size:15 final size:16
Alignment explanation
Indices: 38402913--38402947 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
38402903 ACAAAATATA
38402913 AGTTGTTCCAAACAAT
1 AGTTGTTCCAAACAAT
38402929 AGTTGTTCCAAAC-AT
1 AGTTGTTCCAAACAAT
38402944 AGTT
1 AGTT
38402948 ATTCTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (16 bp):
AGTTGTTCCAAACAAT
Found at i:38406473 original size:41 final size:41
Alignment explanation
Indices: 38406416--38406538 Score: 165
Period size: 41 Copynumber: 3.0 Consensus size: 41
38406406 TAAAAGCTAC
* * *
38406416 CGGTGGATCCATGGTCGTCAAGCAACCATGCCATCCTTAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAAT
* * * *
38406457 CGGTGGATCCACGGTCGTTAAGAAACCATGCGACCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAAT
* *
38406498 CAGTGGATCCACGATCGTCAAGCAACCATGCAATCCTCAAT
1 CGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAAT
38406539 TTCTTCCTCC
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAAT
Found at i:38406807 original size:27 final size:27
Alignment explanation
Indices: 38406777--38406828 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38406767 TTCACCTTAT
* *
38406777 AAGGGTGTTTTGGTAAATTTACAAACC
1 AAGGGTATTTTAGTAAATTTACAAACC
* *
38406804 AAGGGTATTTTAGTAATTTTGCAAA
1 AAGGGTATTTTAGTAAATTTACAAA
38406829 TTAATGGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTTAGTAAATTTACAAACC
Found at i:38406870 original size:27 final size:27
Alignment explanation
Indices: 38406803--38407138 Score: 123
Period size: 27 Copynumber: 12.4 Consensus size: 27
38406793 ATTTACAAAC
*
38406803 CAAGGGTATTT-TAGTAATTTTGCAAAT
1 CAAGGGTATTTCTA-TAATTTTGTAAAT
* * * * * *
38406830 TAATGGTATTTTTCTACTTTTTTGAAAGT
1 CAAGGGTATTTCTATAATTTTGT-AAA-T
38406859 CAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTTCTATAATTTTGTAAAT
* *
38406886 CAGGGGTATTTCTGTAATTTT-TCAAAT
1 CAAGGGTATTTCTATAATTTTGT-AAAT
* ** **
38406913 AAAGGGTATTTCGGTAATTTTCCAAAT
1 CAAGGGTATTTCTATAATTTTGTAAAT
** *
38406940 C-AGGGATATTT-TGATAATTTTACAAGT
1 CAAGGG-TATTTCT-ATAATTTTGTAAAT
* * ** **
38406967 CGAGGGTATTTCGATAATTTTACAGGT
1 CAAGGGTATTTCTATAATTTTGTAAAT
* * ** *
38406994 CGAGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTCTATAATTTTGTAAAT
* ** ** **
38407021 CGAGGGTATTTTCGGTAATTTTACAGGT
1 CAAGGGTA-TTTCTATAATTTTGTAAAT
** ***
38407049 CAAGGG-ATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTCTATAATTTTGTAAAT
* ** * *
38407075 CAGGGGTATTT-TGGGAGTTTTGTAAAC
1 CAAGGGTATTTCT-ATAATTTTGTAAAT
38407102 CAA-GGTA-TTC-AGTAATTTTGTAAAT
1 CAAGGGTATTTCTA-TAATTTTGTAAAT
38407127 CAAGGGTATTTC
1 CAAGGGTATTTC
38407139 AGTAATTATA
Statistics
Matches: 248, Mismatches: 45, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
25 15 0.06
26 34 0.14
27 148 0.60
28 33 0.13
29 18 0.07
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCTATAATTTTGTAAAT
Found at i:38406894 original size:56 final size:54
Alignment explanation
Indices: 38406798--38406987 Score: 166
Period size: 54 Copynumber: 3.5 Consensus size: 54
38406788 GGTAAATTTA
* * ** *
38406798 CAAACCAAGGGTATTT-TAGTAATTTTGCAAATTAATGGTATTTTTCTACTTTTTT
1 CAAATCAAGGGTATTTCTA-TAATTTTGCAAATCAGGGGTATTTTTCTA-ATTTTT
* * * *
38406853 GAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTCTGTAATTTTT
1 CAAA-TCAAGGGTATTTCTATAATTTTGCAAATCAGGGGTATTTTTCTAATTTTT
* ** * * ** *
38406908 CAAATAAAGGGTATTTCGGTAATTTTCCAAATCAGGGATATTTTGATAATTTTA
1 CAAATCAAGGGTATTTCTATAATTTTGCAAATCAGGGGTATTTTTCTAATTTTT
* * *
38406962 CAAGTCGAGGGTATTTCGATAATTTT
1 CAAATCAAGGGTATTTCTATAATTTT
38406988 ACAGGTCGAG
Statistics
Matches: 109, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
54 62 0.57
55 11 0.10
56 34 0.31
57 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (54 bp):
CAAATCAAGGGTATTTCTATAATTTTGCAAATCAGGGGTATTTTTCTAATTTTT
Found at i:38406924 original size:54 final size:54
Alignment explanation
Indices: 38406860--38407042 Score: 172
Period size: 54 Copynumber: 3.4 Consensus size: 54
38406850 TTTGAAAGTC
* ** * *
38406860 AAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTCTG-TAATTTTTCAAATA
1 AAGGGTATTTCGATAATTTTCCAAATCAGGGATATTT-TGATAATTTTACAAATA
* * *
38406914 AAGGGTATTTCGGTAATTTTCCAAATCAGGGATATTTTGATAATTTTACAAGTC
1 AAGGGTATTTCGATAATTTTCCAAATCAGGGATATTTTGATAATTTTACAAATA
* * ** * * *
38406968 GAGGGTATTTCGATAATTTTACAGGTCGAGGG-TATTTCGATAATTTTACAAGTC
1 AAGGGTATTTCGATAATTTTCCAAATC-AGGGATATTTTGATAATTTTACAAATA
* *
38407022 GAGGGTATTTTCGGTAATTTT
1 AAGGGTA-TTTCGATAATTTT
38407043 ACAGGTCAAG
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.02
54 93 0.84
55 16 0.14
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTCGATAATTTTCCAAATCAGGGATATTTTGATAATTTTACAAATA
Found at i:38406985 original size:81 final size:81
Alignment explanation
Indices: 38406861--38407085 Score: 224
Period size: 81 Copynumber: 2.8 Consensus size: 81
38406851 TTGAAAGTCA
* ** * * * *
38406861 AGGGTA-TTTCTATAATTTTGTAAATCAGGGGTATTTCTGTAATTTTTCAAATAAAGGGTATTTC
1 AGGGTATTTTCGATAATTTTACAAGTCAAGGGTATTTC-GTAATTTTACAAATCAAGGGTATTTC
* *
38406925 GGTAATTTTCCAAATC-
65 GATAATTTTACAAATCG
* ** *
38406941 AGGGATATTTT-GATAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAGGTCGAGGGTATTT
1 AGGG-TATTTTCGATAATTTTACAAGTCAAGGGTATTTCG-TAATTTTACAAATCAAGGGTATTT
*
38407005 CGATAATTTTACAAGTCG
64 CGATAATTTTACAAATCG
* * * *
38407023 AGGGTATTTTCGGTAATTTTACAGGTCAAGGG-ATTTCGGTAATTTCACAAATCAGGGGTATTT
1 AGGGTATTTTCGATAATTTTACAAGTCAAGGGTATTTC-GTAATTTTACAAATCAAGGGTATTT
38407086 TGGGAGTTTT
Statistics
Matches: 117, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
80 5 0.04
81 86 0.74
82 26 0.22
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
AGGGTATTTTCGATAATTTTACAAGTCAAGGGTATTTCGTAATTTTACAAATCAAGGGTATTTCG
ATAATTTTACAAATCG
Found at i:38407059 original size:54 final size:53
Alignment explanation
Indices: 38406889--38407085 Score: 211
Period size: 54 Copynumber: 3.7 Consensus size: 53
38406879 TGTAAATCAG
* * ** * **
38406889 GGGTATTTCTG-TAATTTTTCAAATAAAGGGTATTTCGGTAATTTTCCAAATCA
1 GGGTATTTC-GATAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAGGTCA
* *
38406942 GGGATATTTTGATAATTTTACAAGTCGAGGGTATTTCGATAATTTTACAGGTCGA
1 GGG-TATTTCGATAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAGGTC-A
38406997 GGGTATTTCGATAATTTTACAAGTCGAGGGTATTTTCGGTAATTTTACAGGTCAA
1 GGGTATTTCGATAATTTTACAAGTCGAGGGTA-TTTCGGTAATTTTACAGGTC-A
* * *
38407052 GGG-ATTTCGGTAATTTCACAAATC-AGGGGTATTT
1 GGGTATTTCGATAATTTTACAAGTCGA-GGGTATTT
38407086 TGGGAGTTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
53 8 0.06
54 89 0.72
55 27 0.22
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (53 bp):
GGGTATTTCGATAATTTTACAAGTCGAGGGTATTTCGGTAATTTTACAGGTCA
Found at i:38407122 original size:25 final size:27
Alignment explanation
Indices: 38407092--38407145 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
38407082 ATTTTGGGAG
38407092 TTTTGTAAACCAA-GGTA-TTCAGTAA
1 TTTTGTAAACCAAGGGTATTTCAGTAA
*
38407117 TTTTGTAAATCAAGGGTATTTCAGTAA
1 TTTTGTAAACCAAGGGTATTTCAGTAA
38407144 TT
1 TT
38407146 ATACCTTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 12 0.46
26 4 0.15
27 10 0.38
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
TTTTGTAAACCAAGGGTATTTCAGTAA
Found at i:38407164 original size:27 final size:27
Alignment explanation
Indices: 38407127--38407198 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
38407117 TTTTGTAAAT
* *
38407127 CAAGGGTATTTCAGTAATTATACCTTA
1 CAAGGGCATTTCAGTAATTATACCATA
* * * *
38407154 CAGGGGCATTTCAATAATTCTATCATA
1 CAAGGGCATTTCAGTAATTATACCATA
*
38407181 CAAGGGTATTTCAGTAAT
1 CAAGGGCATTTCAGTAAT
38407199 ACTAGCCTAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (27 bp):
CAAGGGCATTTCAGTAATTATACCATA
Found at i:38407209 original size:27 final size:26
Alignment explanation
Indices: 38407127--38407209 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 26
38407117 TTTTGTAAAT
38407127 CAAGGGTATTTCAGTAATTA-TACCTTA
1 CAAGGGTATTTCAGTAA-TACTACC-TA
* * * * *
38407154 CAGGGGCATTTCAATAATTCTATCATA
1 CAAGGGTATTTCAGTAATACTA-CCTA
38407181 CAAGGGTATTTCAGTAATACTAGCCTA
1 CAAGGGTATTTCAGTAATACTA-CCTA
38407208 CA
1 CA
38407210 GATATGAGAT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (26 bp):
CAAGGGTATTTCAGTAATACTACCTA
Found at i:38415122 original size:29 final size:29
Alignment explanation
Indices: 38415060--38415162 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
38415050 GTGACGAGAT
* * *
38415060 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
38415089 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
38415118 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
38415147 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38415163 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:38423141 original size:29 final size:29
Alignment explanation
Indices: 38423079--38423181 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
38423069 GTGACGAGAT
* * *
38423079 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
38423108 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
38423137 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
38423166 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38423182 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:38428343 original size:2 final size:2
Alignment explanation
Indices: 38428336--38428361 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38428326 ACTAGAATAG
38428336 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
38428362 GTATGTGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38435091 original size:21 final size:21
Alignment explanation
Indices: 38435065--38435114 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
38435055 CAGGGCACAC
38435065 GCCCGTGTGGAAGGATAACAT
1 GCCCGTGTGGAAGGATAACAT
* *
38435086 GCCCGTGTTGAAGGGTAACAT
1 GCCCGTGTGGAAGGATAACAT
*
38435107 GCCTGTGT
1 GCCCGTGT
38435115 CCCACACTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (21 bp):
GCCCGTGTGGAAGGATAACAT
Found at i:38436328 original size:46 final size:45
Alignment explanation
Indices: 38436225--38436436 Score: 173
Period size: 46 Copynumber: 4.6 Consensus size: 45
38436215 GCATATCCGT
* * * *
38436225 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTTGTA-
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTCATCTCG-AG
* *
38436271 GCCGTTGCATGTCCCAAACATGTCCTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTT-CATCTCGAG
* * *
38436317 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCGTCTC-AG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGC-TTCATCTCGAG
* * * *
38436362 TGCCAATGCCATGTCCC-AGCATGGTCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCAT-CTCGAG
*
38436410 GCTGATGCATGTCCCAAACATGTCTTA
1 GCCGATGCATGTCCCAAACATGTCTTA
38436437 TACTAGCTCA
Statistics
Matches: 134, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 71 0.53
47 34 0.25
48 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTCATCTCGAG
Found at i:38436394 original size:93 final size:90
Alignment explanation
Indices: 38436225--38436436 Score: 218
Period size: 93 Copynumber: 2.3 Consensus size: 90
38436215 GCATATCCGT
**
38436225 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCCGTTGCATGTCCCAAAC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCAAAC
*
38436290 ATGTCCTACACTGGCT-TACAT-CTCGAG
64 ATGTCCTACACTGGCTCT-CATAAT-GAG
*
38436317 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC-TCGTCTCAGT-GCCAATGCCATGTCCC-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACACATC-T-T--GTAGCCAATG-CATGTCCCA
* * *
38436379 AGCATGGTCTTACACTGGCTCTCATAATGTG
61 AACAT-GTCCTACACTGGCTCTCATAATGAG
* *
38436410 GCTGATGCATGTCCCAAACATGTCTTA
1 GCCGATGCATGTCCCAGACATGTCTTA
38436437 TACTAGCTCA
Statistics
Matches: 103, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
89 2 0.02
90 15 0.15
91 15 0.15
92 16 0.16
93 53 0.51
94 2 0.02
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCAAACAT
GTCCTACACTGGCTCTCATAATGAG
Found at i:38440392 original size:20 final size:18
Alignment explanation
Indices: 38440367--38440411 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
38440357 AGGGGTGTGC
38440367 AAAATTCAAGTAAAACCGAA
1 AAAATTC-AGT-AAACCGAA
* *
38440387 AAAATTCAGTTAACCGAC
1 AAAATTCAGTAAACCGAA
38440405 AAAATTC
1 AAAATTC
38440412 GGTTAACCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 13 0.57
19 3 0.13
20 7 0.30
ACGTcount: A:0.53, C:0.18, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAATTCAGTAAACCGAA
Found at i:38440401 original size:18 final size:18
Alignment explanation
Indices: 38440380--38440420 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
38440370 ATTCAAGTAA
38440380 AACCGAAAAAATTCAGTT
1 AACCGAAAAAATTCAGTT
* *
38440398 AACCGACAAAATTCGGTT
1 AACCGAAAAAATTCAGTT
38440416 AACCG
1 AACCG
38440421 GCCACTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.20
Consensus pattern (18 bp):
AACCGAAAAAATTCAGTT
Found at i:38440674 original size:5 final size:6
Alignment explanation
Indices: 38440661--38440719 Score: 100
Period size: 6 Copynumber: 9.5 Consensus size: 6
38440651 ATAATTTAAT
38440661 AAATAA AAATAA AAATTGAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA-T-AA AAATAA AAATAA AAATAA AAATAA AAATAA
38440711 AAATAA AAA
1 AAATAA AAA
38440720 ACATATAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
6 44 0.86
7 2 0.04
8 5 0.10
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:38440757 original size:9 final size:9
Alignment explanation
Indices: 38440739--38440813 Score: 71
Period size: 9 Copynumber: 8.3 Consensus size: 9
38440729 TTTATACAAA
38440739 TAATTCGGT
1 TAATTCGGT
*
38440748 TAATTTGGT
1 TAATTCGGT
38440757 TAATTCGGT
1 TAATTCGGT
* *
38440766 TAATTTGGG
1 TAATTCGGT
38440775 TAATTCAGG-
1 TAATTC-GGT
**
38440784 TAATTCAAT
1 TAATTCGGT
* *
38440793 TACTCCGGT
1 TAATTCGGT
38440802 TAATTCGGT
1 TAATTCGGT
38440811 TAA
1 TAA
38440814 ATTTATGCTT
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
9 49 0.96
10 2 0.04
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:38444155 original size:10 final size:11
Alignment explanation
Indices: 38444130--38444158 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
38444120 AGACGACACT
38444130 GAAAGGAAATG
1 GAAAGGAAATG
38444141 GAAAGGAAA-G
1 GAAAGGAAATG
38444151 GAAAGGAA
1 GAAAGGAA
38444159 GTAAGCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (11 bp):
GAAAGGAAATG
Found at i:38444597 original size:46 final size:45
Alignment explanation
Indices: 38444543--38444668 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 45
38444533 TCTCCTAACT
* *
38444543 AATGCATGTCCCAGACATGTCCTACACTGGCTTACGTCCCGAGGCC
1 AATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCCCAAGGCC
* * * * *
38444589 GATGCATGTCCCAGACATGTCTTACACTGCCACTCGTCTCAATGCC
1 AATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCCCAAGGCC
38444635 AATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 AATG-CATGTCCCAGACAT-GTCTTACACTGGCT
38444669 CTTATAATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 40 0.60
47 15 0.22
48 12 0.18
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (45 bp):
AATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCCCAAGGCC
Found at i:38444683 original size:94 final size:91
Alignment explanation
Indices: 38444448--38444710 Score: 234
Period size: 94 Copynumber: 2.8 Consensus size: 91
38444438 TGAGGTGTCG
* * **
38444448 ATGCCATGTCCCTGACATGGTCTTACACTAGCTCTTGCATATCCGT-GCCGATGCCATGTCATAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTT--ATAT--GTGGCCGATG-CATGTCCCAG
* *
38444512 ACATGGTCTTACATTGACACATCTCCTAACTA
61 ACAT-GTCTTACACTGACACATCTCCTAACCA
* ** *
38444544 ATG-CATGTCCCAGACAT-GTCCTACACTGG--CTTACGTCCCGAGGCCGATGCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTA--T-ATGTGGCCGATGCATGTCCCAGAC
*
38444605 ATGTCTTACACTGCCAC-TCGT-CTCAATGCCA
63 ATGTCTTACACTGACACATC-TCCT-AA--CCA
* *
38444636 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGGCCGATGCATATCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTAT-ATGTGGCCGATGCATGTCCCAGACAT
38444701 GTCTTACACT
65 GTCTTACACT
38444711 AGCTCACCCA
Statistics
Matches: 137, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
89 4 0.03
90 17 0.12
91 13 0.09
92 16 0.12
93 14 0.10
94 53 0.39
95 13 0.09
96 7 0.05
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (91 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATATGTGGCCGATGCATGTCCCAGACATG
TCTTACACTGACACATCTCCTAACCA
Found at i:38444695 original size:47 final size:45
Alignment explanation
Indices: 38444544--38444715 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 45
38444534 CTCCTAACTA
* ** *
38444544 ATGCATGTCCCAGACATGTCCTACACTGGCTTACGTCCCGA-GGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-T-CGTATCAATGGCCG
* * *
38444590 ATGCATGTCCCAGACATGTCTTACACTGCCACTCGTCTCAAT-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTG--GCTCGTATCAATGGCCG
*
38444636 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTAT-AATGTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTATCAA--TGGCCG
* * *
38444684 ATGCATATCCCAAACATGTCTTACACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTGGCTC
38444716 ACCCAAATGA
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
45 2 0.02
46 58 0.55
47 28 0.26
48 18 0.17
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCGTATCAATGGCCG
Found at i:38448355 original size:29 final size:29
Alignment explanation
Indices: 38448293--38448395 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
38448283 GTGACGAGAT
* * *
38448293 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
38448322 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
38448351 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
38448380 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38448396 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:38453328 original size:46 final size:46
Alignment explanation
Indices: 38453267--38453447 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
38453257 TAGGATGGTT
38453267 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
38453313 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
38453359 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
38453406 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38453448 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:38453428 original size:93 final size:93
Alignment explanation
Indices: 38453269--38453439 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38453259 GGATGGTTGA
* *
38453269 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38453334 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38453362 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38453427 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38453440 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38459149 original size:29 final size:29
Alignment explanation
Indices: 38459087--38459189 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
38459077 GTGACGAGAT
* * *
38459087 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
38459116 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
38459145 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
38459174 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38459190 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:38461448 original size:38 final size:38
Alignment explanation
Indices: 38461396--38461473 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
38461386 TGCTATATGA
* *
38461396 AAGCATGATGCTTTGGATAGGTGATATGTTGACATTAC
1 AAGCATAATACTTTGGATAGGTGATATGTTGACATTAC
38461434 AAGCATAATACTTTGGATAGGTGATATGTTGACATTAC
1 AAGCATAATACTTTGGATAGGTGATATGTTGACATTAC
38461472 AA
1 AA
38461474 AGTCATGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (38 bp):
AAGCATAATACTTTGGATAGGTGATATGTTGACATTAC
Done.