Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 124 of 259
Found at i:40177834 original size:14 final size:14
Alignment explanation
Indices: 40177815--40177844 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
40177805 GTTTCAGCTC
40177815 ATAAATATGTGTTA
1 ATAAATATGTGTTA
*
40177829 ATAAATATGTTTTA
1 ATAAATATGTGTTA
40177843 AT
1 AT
40177845 CTGATTCTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATAAATATGTGTTA
Found at i:40179716 original size:17 final size:19
Alignment explanation
Indices: 40179674--40179717 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
40179664 ATGAAATTTT
*
40179674 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
40179693 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
40179711 AA-TATTA
1 AATTATTA
40179718 CTTTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:40186537 original size:13 final size:13
Alignment explanation
Indices: 40186519--40186543 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40186509 GAATTAACAT
40186519 GTGTGAAAGTTTC
1 GTGTGAAAGTTTC
40186532 GTGTGAAAGTTT
1 GTGTGAAAGTTT
40186544 GATCATTTGT
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:0.24, C:0.04, G:0.32, T:0.40
Consensus pattern (13 bp):
GTGTGAAAGTTTC
Found at i:40186870 original size:911 final size:912
Alignment explanation
Indices: 40185109--40186932 Score: 3425
Period size: 911 Copynumber: 2.0 Consensus size: 912
40185099 CATCCTAAAT
* * *
40185109 TTTGTACGAACAATTCATGTTTATTTGATGCTTGGCCTTTAACTGAGGAAACGAAACTTGAAGAT
1 TTTGTACGAACAATTCATGTTTATTTAATGCTTGGCCTTTAACTAAGGAAACGAAACTTGAAGAC
*
40185174 TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCGGTTATAAAATTATTGATTCA
66 TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCAGTTATAAAATTATTGATTCA
40185239 TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
131 TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
40185304 AAGTTGCTAGTGACATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
196 AAGTTGCTAGTGACATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
*
40185369 TGGTTTTTTGTTGACAATTTCGTTTTAAGTGGAGGCATGAAGAATTGTTTACTTGATCTGTTTTG
261 TGGTTTTTTGTTGACAATTTCGTTTTAAGTGGAGGCATGAAGAATTGTTTACTTGATCTATTTTG
40185434 TGTGTTGAAAAATGTGTTGGTGACGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
326 TGTGTTGAAAAATGTGTTGGTGACGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
40185499 TAACAATCCGGTTTAGACCCTAGTCGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAA
391 TAACAATCCGGTTTAGACCCTAGTCGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAA
40185564 TATTTAAATATTATTTTCCATGTTTATGATATGTGAATTAACATGTGTAAAAGTTTCGTGTGAAA
456 TATTTAAATATTATTTTCCATGTTTATGATATGTGAATTAACATGTGTAAAAGTTTCGTGTGAAA
*
40185629 GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCTG
521 GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCAG
*
40185694 CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATGTGGTTATTATG
586 CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATATGGTTATTATG
*
40185759 CCATTTATATGTATAATGGACACTAATGGTGTAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
651 CCATTTATATGTATAATGGACACTAATGGTATAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
*
40185824 GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTATGATTATTATGAGGCATAGAATATG
716 GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTATGATTATTATAAGGCATAGAATATG
*
40185889 AGTATATGCATGTGTTAAAGTTTCACGAAGAAATTCTAAGTATAACATGTCCAATTGGAAATTAG
781 AGTATATGCATGTGTTAAAGTTTCACGAAGAAATTATAAGTATAACATGTCCAATTGGAAATTAG
*
40185954 GGACTAAGTTGAATAAATTGCAAAACTTGGATTCTAGAAGCAATTTGTATGAAATTGCTATAGAT
846 GGACTAAGTTGAATAAATTGCAAAACTTGAATTCTAGAAGCAATTTGTATGAAATTGCTATAGAT
40186019 TA
911 TA
40186021 TTTGTACGAACAATTCATGTTTATTTAATGCTTGGCCTTTAACTAAGGAAACGAAACTTGAAGAC
1 TTTGTACGAACAATTCATGTTTATTTAATGCTTGGCCTTTAACTAAGGAAACGAAACTTGAAGAC
40186086 TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCAGTTATAAAATTATTGATTCA
66 TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCAGTTATAAAATTATTGATTCA
40186151 TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
131 TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
*
40186216 AAGTTGCTAGTGGCATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
196 AAGTTGCTAGTGACATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
* *
40186281 TGGTTTTTTGTTGACAATTTTGTTTTAAGTGGAGGCATGAAGAGTTGTTTACTTGATCTATTTTG
261 TGGTTTTTTGTTGACAATTTCGTTTTAAGTGGAGGCATGAAGAATTGTTTACTTGATCTATTTTG
*
40186346 TGTGTTGAAAAATGTGTTGGTGATGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
326 TGTGTTGAAAAATGTGTTGGTGACGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
* * * *
40186411 TAACAGTCCTGTTTAGA-CCTAGTCGGAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAT
391 TAACAATCCGGTTTAGACCCTAGTCGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAA
* *
40186475 TATTTAAATATTATTTTCCATGTTTATGATGTGTGAATTAACATGTGTGAAAGTTTCGTGTGAAA
456 TATTTAAATATTATTTTCCATGTTTATGATATGTGAATTAACATGTGTAAAAGTTTCGTGTGAAA
40186540 GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCAG
521 GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCAG
40186605 CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATATGGTTATTATG
586 CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATATGGTTATTATG
40186670 CCATTTATATGTATAATGGACACTAATGGTATAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
651 CCATTTATATGTATAATGGACACTAATGGTATAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
*
40186735 GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTATGATTATTATAAGGCCTAGAATATG
716 GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTATGATTATTATAAGGCATAGAATATG
*
40186800 AGTATATGCATGTGTTAAAGTTTCATGAAGAAATTATAAGTATAACATGTCCAATTGGAAATTAG
781 AGTATATGCATGTGTTAAAGTTTCACGAAGAAATTATAAGTATAACATGTCCAATTGGAAATTAG
*
40186865 GGACTAAGTTGAATAAATTGCAAAACTTGAATTCTAGAATCAATTTGTATGAAATTGCTATAGAT
846 GGACTAAGTTGAATAAATTGCAAAACTTGAATTCTAGAAGCAATTTGTATGAAATTGCTATAGAT
40186930 TA
911 TA
40186932 T
1 T
40186933 GAATTAGAAG
Statistics
Matches: 888, Mismatches: 24, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
911 492 0.55
912 396 0.45
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (912 bp):
TTTGTACGAACAATTCATGTTTATTTAATGCTTGGCCTTTAACTAAGGAAACGAAACTTGAAGAC
TCTAATTATAACTTAAAATCACTCCTTGTTCATTCTATGTTGCCAGTTATAAAATTATTGATTCA
TCATGAAAAGGTAAGACCCATCGATGTTGTTGAATCACGACAATTAATGTTGAATGTTGTTGAGA
AAGTTGCTAGTGACATAGTTTTCAAAAGACCTCCTTATTTTGCTTTGGTTTATTGTCATTTTCTC
TGGTTTTTTGTTGACAATTTCGTTTTAAGTGGAGGCATGAAGAATTGTTTACTTGATCTATTTTG
TGTGTTGAAAAATGTGTTGGTGACGTTGGATTAATTCAACTTGAGCAAACTTTGGAAGTGCATTG
TAACAATCCGGTTTAGACCCTAGTCGAAATAGTGGTTTTAGGACCACAAATCTGAGTCAAAAAAA
TATTTAAATATTATTTTCCATGTTTATGATATGTGAATTAACATGTGTAAAAGTTTCGTGTGAAA
GTTTGATCATTTGTGTGCTTAATTCGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTTGCCAG
CTATATGTTAAAAGTGTCTATTTGATTTGTCTTTGATAATGAGAGGTCCTTATATGGTTATTATG
CCATTTATATGTATAATGGACACTAATGGTATAACATCCCAAAATAGGGCCTAGTCAAAATAGTG
GTTTCGGGACCATAAATCTGACATCAAAATATTTATTTTATGATTATTATAAGGCATAGAATATG
AGTATATGCATGTGTTAAAGTTTCACGAAGAAATTATAAGTATAACATGTCCAATTGGAAATTAG
GGACTAAGTTGAATAAATTGCAAAACTTGAATTCTAGAAGCAATTTGTATGAAATTGCTATAGAT
TA
Found at i:40194072 original size:34 final size:34
Alignment explanation
Indices: 40194029--40194099 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
40194019 CTGAATTAAA
*
40194029 AGAATTAAAGTCTTAGTTGCAAGAGTTGACCGAT
1 AGAATTAAAGTCCTAGTTGCAAGAGTTGACCGAT
40194063 AGAATTAAAGTCCTAGTTGCAAGAGTTGACCGAT
1 AGAATTAAAGTCCTAGTTGCAAGAGTTGACCGAT
40194097 AGA
1 AGA
40194100 GGGTTTGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (34 bp):
AGAATTAAAGTCCTAGTTGCAAGAGTTGACCGAT
Found at i:40196506 original size:20 final size:20
Alignment explanation
Indices: 40196481--40196519 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
40196471 GAACTAGAAA
40196481 AGATTCATGATGTGTTTCAC
1 AGATTCATGATGTGTTTCAC
40196501 AGATTCATGATGTGTTTCA
1 AGATTCATGATGTGTTTCA
40196520 TGTATCGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.41
Consensus pattern (20 bp):
AGATTCATGATGTGTTTCAC
Found at i:40199031 original size:30 final size:30
Alignment explanation
Indices: 40198997--40199056 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
40198987 GTGTGTCTTA
*
40198997 GCCGTGTGTGACACATGACTATGTTGCACG
1 GCCGTGTGTGACACACGACTATGTTGCACG
*
40199027 GCCGTGTGTGACACACGGCTATGTTGCACG
1 GCCGTGTGTGACACACGACTATGTTGCACG
40199057 ATAGTGTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.25
Consensus pattern (30 bp):
GCCGTGTGTGACACACGACTATGTTGCACG
Found at i:40199064 original size:30 final size:30
Alignment explanation
Indices: 40199000--40199065 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
40198990 TGTCTTAGCC
* * *
40199000 GTGTGTGACACATGACTATGTTGCACGGCC
1 GTGTGTGACACACGACTATGTTGCACGACA
* *
40199030 GTGTGTGACACACGGCTATGTTGCACGATA
1 GTGTGTGACACACGACTATGTTGCACGACA
40199060 GTGTGT
1 GTGTGT
40199066 CCCTTGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (30 bp):
GTGTGTGACACACGACTATGTTGCACGACA
Found at i:40208210 original size:49 final size:49
Alignment explanation
Indices: 40208138--40208329 Score: 172
Period size: 50 Copynumber: 3.9 Consensus size: 49
40208128 CGAAGCTATT
* *
40208138 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTC
* * *
40208187 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAGTC
** ** * * * *
40208237 TAATACATGTAGTAGCCTGCACCTAGTACTATACACGTGATC-ACAGTTTTC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TC
* * * *
40208288 GGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
40208330 TCACAATAGA
Statistics
Matches: 113, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 36 0.32
50 38 0.34
51 36 0.32
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTC
Found at i:40213652 original size:26 final size:26
Alignment explanation
Indices: 40213574--40213653 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
40213564 ACAGTCTGGA
* *
40213574 ACACGTAGTAGCCTGCACTTAGTACT
1 ACACGTACTAGCCTGCACCTAGTACT
* *
40213600 ACAC--ACGT-GACCT-CACC-ATCTAAT
1 ACACGTAC-TAG-CCTGCACCTA-GTACT
40213624 ACACGTACTAGCCTGCACCTAGTACT
1 ACACGTACTAGCCTGCACCTAGTACT
40213650 ACAC
1 ACAC
40213654 ACGTGATCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
23 1 0.03
24 12 0.30
25 8 0.20
26 18 0.45
27 1 0.03
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.23
Consensus pattern (26 bp):
ACACGTACTAGCCTGCACCTAGTACT
Found at i:40222563 original size:46 final size:46
Alignment explanation
Indices: 40222496--40222668 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
40222486 TGTAACCCGC
*
40222496 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
40222542 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
40222592 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
40222635 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
40222669 AGATGCTCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:40222612 original size:93 final size:93
Alignment explanation
Indices: 40222503--40222674 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
40222493 CGCCCATAAG
* * *
40222503 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
40222568 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
*
40222596 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40222661 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
40222675 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:40230192 original size:93 final size:93
Alignment explanation
Indices: 40230079--40230250 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
40230069 CGCCCATAAG
* *
40230079 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40230144 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
40230172 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40230237 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40230251 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40230247 original size:46 final size:46
Alignment explanation
Indices: 40230072--40230247 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
40230062 TGTAACCCGC
* * *
40230072 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
40230118 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
40230168 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
40230211 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
40230248 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:40232143 original size:27 final size:27
Alignment explanation
Indices: 40232112--40232289 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
40232102 TAAATTGTAC
40232112 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
40232139 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40232165 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40232193 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40232221 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40232248 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40232275 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40232290 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40232253 original size:82 final size:81
Alignment explanation
Indices: 40232113--40232268 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
40232103 AAATTGTACA
* *
40232113 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
40232178 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
40232194 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
40232258 GTGCGAGTTGA
64 GTGCGAATTGA
40232269 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40232280 original size:82 final size:81
Alignment explanation
Indices: 40232109--40232289 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
40232099 GATTAAATTG
* *
40232109 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
40232174 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
40232190 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
40232254 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40232272 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40232290 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40238055 original size:47 final size:47
Alignment explanation
Indices: 40237992--40238484 Score: 700
Period size: 47 Copynumber: 10.3 Consensus size: 47
40237982 CCCTTCGGGA
* *
40237992 CTTATCACATTTATACACTTTCACA-TCTATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATTGGCCATTAGGC
** * * *
40238039 CTTATCACATATATACACCATCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
40238086 CTTATCTCATATATACACTTTCAGATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
40238133 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
40238180 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
40238227 CTTATCACATATATACACTTTCAATTCATCACATACATTCATCCATGGCCATTAGGC
1 CTTATCACATATATACACTTTC-A--CAT-TCAT-CA--CAT---TGGCCATTAGGC
*
40238284 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
40238331 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
40238378 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
40238425 CTTGTCACATATATACACTTTCACATTCATCACACTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
40238472 CTTATCACATATA
1 CTTATCACATATA
40238485 CATATCTTGT
Statistics
Matches: 398, Mismatches: 37, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
47 341 0.86
48 2 0.01
50 6 0.02
51 3 0.01
52 4 0.01
53 3 0.01
54 6 0.02
56 1 0.00
57 32 0.08
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:40238286 original size:57 final size:60
Alignment explanation
Indices: 40238202--40238318 Score: 195
Period size: 57 Copynumber: 2.0 Consensus size: 60
40238192 ATACACTTTC
*
40238202 ACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCA-ATTCATCACAT
1 ACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
40238261 ACATTCATC-CA-TGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACAT
1 ACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
40238319 TGGCCATTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
57 33 0.60
58 13 0.24
59 9 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (60 bp):
ACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
Found at i:40238338 original size:198 final size:201
Alignment explanation
Indices: 40238061--40238458 Score: 658
Period size: 198 Copynumber: 2.0 Consensus size: 201
40238051 ATACACCATC
* * *
40238061 ACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCAGATTCATCACATTGGCC
1 ACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCC
* *
40238126 ATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATA
66 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* *
40238191 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCA-ATTCA
131 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
40238255 TCACAT
196 TCACAT
* *
40238261 ACATTCATC-CAT-GGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCC
1 ACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCC
* * *
40238324 ATTAGGCTTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
66 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
40238389 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCA
131 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
40238454 TCACA
196 TCACA
40238459 CTGGCCATTA
Statistics
Matches: 184, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
198 163 0.89
199 13 0.07
200 8 0.04
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (201 bp):
ACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCC
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACAT
Found at i:40238457 original size:245 final size:245
Alignment explanation
Indices: 40238027--40238484 Score: 810
Period size: 245 Copynumber: 1.9 Consensus size: 245
40238017 TCTATCACAT
*
40238027 TGGCCATTCGGCCTTATCACATATATACACCATCACATCCATCACATCGGCCATTAGGTCTTATC
1 TGGCCATTAGGCCTTATCACATATATACACCATCACATCCATCACATCGGCCATTAGGTCTTATC
* *
40238092 TCATATATACACTTTCAGATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
66 ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
*
40238157 ATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCAT
131 ATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACACTGGCCAT
*
40238222 TCGGCCTTATCACATATATACACTTTCAATTCATCACATACATTCATCCA
196 TAGGCCTTATCACATATATACACTTTCAATTCATCACATACATTCATCCA
* ** * *
40238272 TGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGG-CTTTAT
1 TGGCCATTAGGCCTTATCACATATATACACCATCACATCCATCACATCGGCCATTAGGTC-TTAT
40238336 CACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCA
65 CACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCA
40238401 CATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACACTGGCCA
130 CATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACACTGGCCA
40238466 TTAGGCCTTATCACATATA
195 TTAGGCCTTATCACATATA
40238485 CATATCTTGT
Statistics
Matches: 202, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
244 1 0.00
245 201 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (245 bp):
TGGCCATTAGGCCTTATCACATATATACACCATCACATCCATCACATCGGCCATTAGGTCTTATC
ACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCAC
ATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACACTGGCCAT
TAGGCCTTATCACATATATACACTTTCAATTCATCACATACATTCATCCA
Found at i:40244677 original size:27 final size:27
Alignment explanation
Indices: 40244646--40244823 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
40244636 TAAATTGTAC
40244646 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
40244673 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40244699 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
40244727 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
40244755 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
40244782 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
40244809 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
40244824 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:40244760 original size:82 final size:81
Alignment explanation
Indices: 40244647--40244802 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
40244637 AAATTGTACA
* *
40244647 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
40244711 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
40244728 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
40244793 TGCGAGTTGA
65 TGCGAATTGA
40244803 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:40244814 original size:82 final size:81
Alignment explanation
Indices: 40244643--40244823 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
40244633 GATTAAATTG
* *
40244643 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40244708 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
40244724 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
40244788 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
40244806 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
40244824 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:40262776 original size:40 final size:39
Alignment explanation
Indices: 40262692--40262876 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 39
40262682 TTGAATGATG
* * *
40262692 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
40262731 ATCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* *
40262772 TCCGGGCTAAGCCCGAAGGCATTTGTGAGAGTTACTAAAT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AAT
*
40262812 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* *
40262850 AACCGGGCTATGTTCCGAAGGCATTTG
1 -TCCGGGCTAAG-TCCGAAGGCATTTG
40262877 AATGAGTAAC
Statistics
Matches: 120, Mismatches: 17, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 78 0.65
41 11 0.09
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:40262898 original size:79 final size:79
Alignment explanation
Indices: 40262748--40262909 Score: 186
Period size: 79 Copynumber: 2.1 Consensus size: 79
40262738 CTAAGATCCA
* * *
40262748 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGAGAGTTACTAAATT
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTAAGAGTAACTAAATT
*
40262813 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * * *
40262827 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTTCCGAAGGCATTTG-AATGAGTAACTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGTAA-GAGTAACTAA
* *
40262890 A-TCTGGTTAAATTCCG
63 ATTCGGGTTAAATCCCG
40262906 AAGG
1 AAGG
40262910 TACGTGATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.66
80 22 0.31
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTAAGAGTAACTAAATT
CGGGTTAAATCCCG
Found at i:40266548 original size:29 final size:29
Alignment explanation
Indices: 40266514--40266589 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
40266504 GCATGAATAT
*
40266514 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATAGGCCACATA
*
40266543 AATGTGATTTGGGCCTAATAGGCCATATA
1 AATGTGATTTGGGCCTAATAGGCCACATA
40266572 AATGTGATTTGGGCCTAA
1 AATGTGATTTGGGCCTAA
40266590 AGGGTCATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATAGGCCACATA
Found at i:40268636 original size:24 final size:24
Alignment explanation
Indices: 40268573--40268650 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
40268563 TACCGATATA
*
40268573 TCAGCTCGTAAAAGCTTACTGTTC
1 TCAGCTCGTAAAAGCTTACTATTC
* *
40268597 TCAGCTC--AAATGAGCTTAGTATTT
1 TCAGCTCGTAAA--AGCTTACTATTC
*
40268621 TCAGCTCGTAAAAGCTTACAATT-
1 TCAGCTCGTAAAAGCTTACTATTC
40268644 TCAGCTC
1 TCAGCTC
40268651 AATAGAGCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 3 0.07
23 7 0.16
24 32 0.71
26 3 0.07
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (24 bp):
TCAGCTCGTAAAAGCTTACTATTC
Found at i:40276324 original size:24 final size:23
Alignment explanation
Indices: 40276249--40276391 Score: 92
Period size: 24 Copynumber: 6.0 Consensus size: 23
40276239 TACCGATATA
*
40276249 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCATAAGAGCTTACTGTT
* ** * *
40276272 TCTAG-TTAGTTGGAGGTTACTATT
1 TC-AGCTCA-TAAGAGCTTACTGTT
40276296 TCAGCTCATAAGAGCTTACTGTT
1 TCAGCTCATAAGAGCTTACTGTT
* * **
40276319 CTCAGCTCATCAGAACTTACCATT
1 -TCAGCTCATAAGAGCTTACTGTT
*
40276343 TCATCTCA-ATAGAGCTTACTGTT
1 TCAGCTCATA-AGAGCTTACTGTT
* *
40276366 CATCAGCTCAGGAGGAGCTTACTGTT
1 --TCAGCTCA-TAAGAGCTTACTGTT
40276392 CATAGCTCGA
Statistics
Matches: 89, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
23 33 0.37
24 36 0.40
25 7 0.08
26 12 0.13
27 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (23 bp):
TCAGCTCATAAGAGCTTACTGTT
Found at i:40276527 original size:20 final size:20
Alignment explanation
Indices: 40276498--40276548 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
40276488 CAACGGGCAT
40276498 AAATACTGTTTATATGGATG
1 AAATACTGTTTATATGGATG
*
40276518 AAATATTGTTTATATGGATG
1 AAATACTGTTTATATGGATG
**
40276538 AGCTACTGTTT
1 AAATACTGTTT
40276549 GCAAATGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (20 bp):
AAATACTGTTTATATGGATG
Found at i:40280932 original size:27 final size:27
Alignment explanation
Indices: 40280902--40280953 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
40280892 GTACAGTTTG
* *
40280902 GGCCTTAGCCCTATACAGTAATAGTGT
1 GGCCTAAGCCCAATACAGTAATAGTGT
* *
40280929 GGCCTAAGCCCAATATAGTATTAGT
1 GGCCTAAGCCCAATACAGTAATAGT
40280954 ACAGTGTAAT
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:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (27 bp):
GGCCTAAGCCCAATACAGTAATAGTGT
Found at i:40282300 original size:25 final size:25
Alignment explanation
Indices: 40282271--40282320 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
40282261 CATTATATAG
40282271 AAGTAACGATAATCATAGAAAGGAA
1 AAGTAACGATAATCATAGAAAGGAA
*
40282296 AAGTAAGGATAATCATAGAAAGGAA
1 AAGTAACGATAATCATAGAAAGGAA
40282321 GACCGCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.16
Consensus pattern (25 bp):
AAGTAACGATAATCATAGAAAGGAA
Found at i:40293737 original size:15 final size:15
Alignment explanation
Indices: 40293717--40293761 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
40293707 AATTGAAATG
40293717 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
40293732 AAAATAAAAAAT-AA
1 AAAATAAAAAATAAA
40293746 AAAAT-AAAAATAAA
1 AAAATAAAAAATAAA
40293760 AA
1 AA
40293762 GATAGAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.21
14 11 0.38
15 12 0.41
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:40293761 original size:6 final size:7
Alignment explanation
Indices: 40293717--40293761 Score: 74
Period size: 7 Copynumber: 6.4 Consensus size: 7
40293707 AATTGAAATG
40293717 AAAATAA
1 AAAATAA
40293724 AAAATAAA
1 AAAAT-AA
40293732 AAAATAA
1 AAAATAA
40293739 AAAATAA
1 AAAATAA
40293746 AAAAT-A
1 AAAATAA
40293752 AAAATAA
1 AAAATAA
40293759 AAA
1 AAA
40293762 GATAGAAGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.17
7 23 0.64
8 7 0.19
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:40299534 original size:21 final size:21
Alignment explanation
Indices: 40299509--40299552 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
40299499 CCGGGACTCC
40299509 AAAAACTTAAAGAACTTGAAA
1 AAAAACTTAAAGAACTTGAAA
40299530 AAAAACTTAAAGAACTTGAAA
1 AAAAACTTAAAGAACTTGAAA
40299551 AA
1 AA
40299553 CGAGGTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (21 bp):
AAAAACTTAAAGAACTTGAAA
Found at i:40304103 original size:28 final size:28
Alignment explanation
Indices: 40304057--40304110 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
40304047 TAGAACAGAT
* * *
40304057 AGTCTATTAGGCCAGTAAACATGGGGTA
1 AGTCCATTAGGCCAATAAAAATGGGGTA
*
40304085 AGTCCATTAGGGCAATAAAAATGGGG
1 AGTCCATTAGGCCAATAAAAATGGGG
40304111 AAGAAAGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (28 bp):
AGTCCATTAGGCCAATAAAAATGGGGTA
Found at i:40305085 original size:26 final size:26
Alignment explanation
Indices: 40305055--40305106 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
40305045 AAAAGACCAG
40305055 GTGGAGTCCACCATCCCAACAAAGAA
1 GTGGAGTCCACCATCCCAACAAAGAA
*
40305081 GTGGAGTCCACCATCCCGACAAAGAA
1 GTGGAGTCCACCATCCCAACAAAGAA
40305107 ACACTCTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.31, G:0.21, T:0.12
Consensus pattern (26 bp):
GTGGAGTCCACCATCCCAACAAAGAA
Found at i:40307434 original size:40 final size:40
Alignment explanation
Indices: 40307390--40307471 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
40307380 ATAATGGATG
*
40307390 GTTACATGTACTTCTATGGCTAACTTGTTGATGAATGTTT
1 GTTACATCTACTTCTATGGCTAACTTGTTGATGAATGTTT
40307430 GTTACATCTACTTCTATGGCTAACTTGTTGATGAATGTTT
1 GTTACATCTACTTCTATGGCTAACTTGTTGATGAATGTTT
40307470 GT
1 GT
40307472 GTTTAGGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (40 bp):
GTTACATCTACTTCTATGGCTAACTTGTTGATGAATGTTT
Found at i:40315263 original size:39 final size:40
Alignment explanation
Indices: 40315220--40315387 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
40315210 CTCGTTCAAC
* * * *
40315220 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
40315259 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
40315299 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
40315339 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
40315379 TGCCTTCGG
1 TGCCTTCGG
40315388 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:40315371 original size:80 final size:80
Alignment explanation
Indices: 40315255--40315440 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
40315245 AGTAACTCAT
* * *
40315255 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
40315319 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
40315334 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
40315398 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
40315415 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
40315441 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:40315400 original size:40 final size:40
Alignment explanation
Indices: 40315257--40315440 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
40315247 TAACTCATAC
* *
40315257 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
40315297 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
40315337 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
40315377 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
40315418 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
40315441 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:40322558 original size:39 final size:40
Alignment explanation
Indices: 40322515--40322682 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
40322505 CTCGTTCAAC
* * * *
40322515 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
40322554 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
40322594 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
40322634 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
40322674 TGCCTTCGG
1 TGCCTTCGG
40322683 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:40322666 original size:80 final size:80
Alignment explanation
Indices: 40322550--40322735 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
40322540 AGTAACTCAT
* * *
40322550 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
40322614 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
40322629 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
40322693 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
40322710 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
40322736 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:40322695 original size:40 final size:40
Alignment explanation
Indices: 40322552--40322735 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
40322542 TAACTCATAC
* *
40322552 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
40322592 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
40322632 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
40322672 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
40322713 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
40322736 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:40326418 original size:46 final size:46
Alignment explanation
Indices: 40326368--40326540 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
40326358 TGGTTGAGCA
* *
40326368 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
40326414 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
40326461 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
40326507 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40326541 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40326524 original size:93 final size:93
Alignment explanation
Indices: 40326365--40326535 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
40326355 GGATGGTTGA
* * * *
40326365 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGCCCGAACTCGTTGAGT
*
40326430 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
40326458 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGCCCGAACTCGTTGAGT
40326523 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40326536 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40326802 original size:19 final size:20
Alignment explanation
Indices: 40326765--40326802 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40326755 ATAAGGTGGT
40326765 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40326785 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40326803 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40346821 original size:24 final size:23
Alignment explanation
Indices: 40346785--40346891 Score: 70
Period size: 23 Copynumber: 4.6 Consensus size: 23
40346775 GATATATCAA
* *
40346785 CTCGTAAGTGCTTACTGTTTTTAG
1 CTCGTTAGAGCTTACT-TTTTTAG
* * *
40346809 CTCGTTGGAGCTTACTATTTCAG
1 CTCGTTAGAGCTTACTTTTTTAG
* * *
40346832 CTCATAAGAGCTTACTCTTCTTAG
1 CTCGTTAGAGCTTACT-TTTTTAG
* * **
40346856 CTCGTTAAAACTTACCATTTTAG
1 CTCGTTAGAGCTTACTTTTTTAG
**
40346879 CTCAATAGAGCTT
1 CTCGTTAGAGCTT
40346892 CCTGTTCATC
Statistics
Matches: 60, Mismatches: 22, Indels: 3
0.71 0.26 0.04
Matches are distributed among these distances:
23 32 0.53
24 28 0.47
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (23 bp):
CTCGTTAGAGCTTACTTTTTTAG
Found at i:40346870 original size:47 final size:47
Alignment explanation
Indices: 40346789--40346891 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 47
40346779 TATCAACTCG
* * * ** * *
40346789 TAAGTGCTTACTGTTTTTAGCTCGTTGGAGCTTACTATTTCAGCTCA
1 TAAGAGCTTACTCTTCTTAGCTCGTTAAAACTTACCATTTCAGCTCA
*
40346836 TAAGAGCTTACTCTTCTTAGCTCGTTAAAACTTACCATTTTAGCTCA
1 TAAGAGCTTACTCTTCTTAGCTCGTTAAAACTTACCATTTCAGCTCA
40346883 -ATAGAGCTT
1 TA-AGAGCTT
40346892 CCTGTTCATC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 1 0.02
47 46 0.98
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (47 bp):
TAAGAGCTTACTCTTCTTAGCTCGTTAAAACTTACCATTTCAGCTCA
Found at i:40354230 original size:27 final size:26
Alignment explanation
Indices: 40354175--40354279 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
40354165 GCTAGAACAA
* * * *
40354175 ATAATGCGACAGAGTCACCAGATACAG
1 ATAATGTGGCAGAGCCACCAGA-ATAG
40354202 ATAATCGTGGCAGAGCCACCAGAATAG
1 ATAAT-GTGGCAGAGCCACCAGAATAG
40354229 ATATATGTGGCAGAGCCACCAG-ATCAG
1 ATA-ATGTGGCAGAGCCACCAGAAT-AG
* *
40354256 ATATTTGTGGCATAGCCACCAGAA
1 ATA-ATGTGGCAGAGCCACCAGAA
40354280 CGCTTCCTCC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.03
27 49 0.72
28 17 0.25
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
ATAATGTGGCAGAGCCACCAGAATAG
Found at i:40355923 original size:26 final size:26
Alignment explanation
Indices: 40355887--40355996 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
40355877 CATGAAATTC
40355887 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
40355913 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
40355939 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
40355965 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
40355991 TTATCA
1 TTATCA
40355997 ATTTGTACCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:40356887 original size:38 final size:38
Alignment explanation
Indices: 40356826--40356944 Score: 152
Period size: 38 Copynumber: 3.1 Consensus size: 38
40356816 ATTTGATGTG
* * *
40356826 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTATGTGCTGGTATTA
40356866 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTAT-GTGCTGGTATTA
*
40356904 TATCCGAGTTAAATCCCGCAGGCCTA-GTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGG-CTATGTGCTGGTATTA
40356942 TAT
1 TAT
40356945 ATGAGTTTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
37 1 0.01
38 56 0.78
39 7 0.10
40 8 0.11
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTATGTGCTGGTATTA
Found at i:40358501 original size:60 final size:60
Alignment explanation
Indices: 40358431--40358550 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
40358421 TCTATGATAT
*
40358431 AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTGCAAATATGA
1 AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTACAAATATGA
40358491 AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTACAAATATGA
1 AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTACAAATATGA
40358551 TATGCTATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (60 bp):
AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTACAAATATGA
Found at i:40358670 original size:43 final size:43
Alignment explanation
Indices: 40358621--40358742 Score: 199
Period size: 43 Copynumber: 2.8 Consensus size: 43
40358611 TACAAAGTAA
*
40358621 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCG
*
40358664 GTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTACCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCG
* * *
40358707 GTGATGTGTATCCGGGTCTTCGTGCCTAGAAGGCTT
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
40358743 AATGGCAGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCG
Found at i:40358981 original size:58 final size:58
Alignment explanation
Indices: 40358884--40359073 Score: 291
Period size: 58 Copynumber: 3.4 Consensus size: 58
40358874 GGATGAATAT
* * *
40358884 GAGCACCATGTGTGCGA-AT-GAT--TAGAGGCACTGTGTGTGCAAATTCCTTTAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
40358938 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
* * *
40358996 GAGCACTATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAGTT-CTTCAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
40359053 GAGCACTATGTGTGCGAGATC
1 GAGCACTATGTGTGCGAGATC
40359074 AGTCAGTGGG
Statistics
Matches: 126, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
54 16 0.13
55 2 0.02
56 3 0.02
57 28 0.22
58 77 0.61
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (58 bp):
GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
Found at i:40359011 original size:29 final size:28
Alignment explanation
Indices: 40358911--40359069 Score: 124
Period size: 29 Copynumber: 5.5 Consensus size: 28
40358901 ATGATTAGAG
* *
40358911 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATT-CTTTAACCGA
** **
40358940 GCACTATGTGTGCGAGA-TCGATAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
40358968 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATT-CTTTAACCGA
** **
40358998 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* * *
40359026 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCGAATTCTTTAACCGA
40359055 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
40359070 GATCAGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
28 27 0.27
29 64 0.65
30 8 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:40359086 original size:28 final size:27
Alignment explanation
Indices: 40358940--40359094 Score: 78
Period size: 29 Copynumber: 5.4 Consensus size: 27
40358930 CTTTAACCGA
* *
40358940 GCACTATGTGTGCGAGATCGATAATTGAG
1 GCACTATGTGTGCGAGATCG-TCACTG-G
* * * * *
40358969 GCACTGTGTGTGCGA-ATTCCTTTAACCGA
1 GCACTATGTGTGCGAGA-T-C-GTCACTGG
* *
40358998 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATC-GTCACTG-G
* * * * *
40359027 GCACTGTGTGTGCGAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGATCGTC-ACTGG
*
40359055 GCACTATGTGTGCGAGATCAGTCAGTGG
1 GCACTATGTGTGCGAGATC-GTCACTGG
*
40359083 GCACTAAGTGTG
1 GCACTATGTGTG
40359095 TGAAATGAGA
Statistics
Matches: 94, Mismatches: 25, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
28 37 0.39
29 51 0.54
30 6 0.06
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (27 bp):
GCACTATGTGTGCGAGATCGTCACTGG
Found at i:40362722 original size:38 final size:38
Alignment explanation
Indices: 40362680--40362816 Score: 157
Period size: 38 Copynumber: 3.6 Consensus size: 38
40362670 GTAGGCTATA
*
40362680 TGCTGGAATTATATCCGGGTTAAATCCCGTAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCTTCG
* * * *
40362718 TGCTGGTATTATATCCGGGTTAAATCCTGCAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCTTCG
* * *
40362756 TGCTGGTATTATATCTGAGTTTAAAGTCTCGTAGGCTTCG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGTAGGCTTCG
* * *
40362796 TGCTGGTGTTATGTTCGGGTT
1 TGCTGGTATTATATCCGGGTT
40362817 TTATAGCTCA
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
38 49 0.61
39 9 0.11
40 22 0.28
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCTTCG
Found at i:40367226 original size:43 final size:44
Alignment explanation
Indices: 40367147--40367258 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 44
40367137 GATTATAAGT
* * *
40367147 AAGACCATGTCTTGGACATTGGCAT-TGTATTGTGATTACGTGC
1 AAGACCATGTCTAGGACATTGGCATCTGTATTATGATTACGTAC
* * *
40367190 AAGACCATGTCTGGGACATTGGCATCAT-TA-TATGATTTCGTAT
1 AAGACCATGTCTAGGACATTGGCATC-TGTATTATGATTACGTAC
* * *
40367233 AAGACCCTATCTAGGACAGTGGCATC
1 AAGACCATGTCTAGGACATTGGCATC
40367259 GATATGTGAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
43 55 0.95
44 2 0.03
45 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (44 bp):
AAGACCATGTCTAGGACATTGGCATCTGTATTATGATTACGTAC
Found at i:40368336 original size:40 final size:40
Alignment explanation
Indices: 40368281--40368444 Score: 247
Period size: 40 Copynumber: 4.1 Consensus size: 40
40368271 CACCTGCATT
** *
40368281 AAGCCTGCAAGATTTAACCCGGATATCTATTACCAGCTCA
1 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
* * *
40368321 AAGCCTGTGGGATTTAACCTGGATATCTATTACTAGCACA
1 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
*
40368361 AAGCCTGCGAGATTTAACCCGGATATCTATTACCAGCACA
1 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
* *
40368401 AAGCCTGCGGGATTTAACACGGACATCTATTACCAGCACA
1 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
40368441 AAGC
1 AAGC
40368445 TTGCAGACTA
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
Found at i:40369879 original size:46 final size:46
Alignment explanation
Indices: 40369829--40370001 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
40369819 TGGTTGAGCA
* *
40369829 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
40369875 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
40369922 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
40369968 -CCCAAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
40370002 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 55 0.52
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40369985 original size:93 final size:93
Alignment explanation
Indices: 40369826--40369996 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
40369816 GGATGGTTGA
* *
40369826 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
40369891 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
40369919 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
*
40369983 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
40369997 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40370263 original size:19 final size:20
Alignment explanation
Indices: 40370226--40370263 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40370216 ATAAGGTGGT
40370226 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40370246 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40370264 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40377223 original size:46 final size:46
Alignment explanation
Indices: 40377173--40377345 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
40377163 TGGTTGAGCA
* *
40377173 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
40377219 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
40377266 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
40377312 -CCCAAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
40377346 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 55 0.52
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40377329 original size:93 final size:93
Alignment explanation
Indices: 40377170--40377340 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
40377160 GGATGGTTGA
* *
40377170 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
40377235 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
40377263 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
*
40377327 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
40377341 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40377607 original size:19 final size:20
Alignment explanation
Indices: 40377570--40377607 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40377560 ATAAGGTGGT
40377570 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40377590 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40377608 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40384561 original size:46 final size:46
Alignment explanation
Indices: 40384511--40384683 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
40384501 TGGTTGAGCA
* *
40384511 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
40384557 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
40384604 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
40384650 -CCCAAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
40384684 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 55 0.52
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40384667 original size:93 final size:93
Alignment explanation
Indices: 40384508--40384678 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
40384498 GGATGGTTGA
* *
40384508 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
40384573 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
40384601 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTGAG
*
40384665 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
40384679 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40384945 original size:19 final size:20
Alignment explanation
Indices: 40384908--40384945 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40384898 ATAAGGTGGT
40384908 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40384928 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40384946 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40391854 original size:46 final size:46
Alignment explanation
Indices: 40391804--40391976 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
40391794 TGGTTGAGCA
*
40391804 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
40391850 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
40391897 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
40391943 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40391977 GGGGGGGTTA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40391960 original size:93 final size:93
Alignment explanation
Indices: 40391801--40391971 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
40391791 GGATGGTTGA
* *
40391801 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
40391866 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
40391894 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
40391959 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40391972 ACTTAGGGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40392236 original size:19 final size:20
Alignment explanation
Indices: 40392199--40392236 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40392189 ATAAGGTGGT
40392199 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40392219 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40392237 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40413941 original size:13 final size:14
Alignment explanation
Indices: 40413920--40413948 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
40413910 TGAAAAATGG
40413920 ATTAGAAAATATTT
1 ATTAGAAAATATTT
40413934 ATTA-AAAATATTT
1 ATTAGAAAATATTT
40413947 AT
1 AT
40413949 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:40414638 original size:23 final size:23
Alignment explanation
Indices: 40414612--40414657 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
40414602 TATAAGAAAC
40414612 AAAAGAAAGAAACAAAAAGAATA
1 AAAAGAAAGAAACAAAAAGAATA
* * *
40414635 AAAAGAAGGAAAGAAACAGAATA
1 AAAAGAAAGAAACAAAAAGAATA
40414658 GCAGGGGACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.04
Consensus pattern (23 bp):
AAAAGAAAGAAACAAAAAGAATA
Found at i:40416012 original size:23 final size:22
Alignment explanation
Indices: 40415982--40416064 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 22
40415972 GCTATACCGA
* *
40415982 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCG-ATT
* *
40416005 TCAGGCACCTCATGTGTTGA-A
1 TCAGGCACCTCATGTGTCGATT
*
40416026 TCAGGCACCTCGTGTGTC-ATT
1 TCAGGCACCTCATGTGTCGATT
* * *
40416047 TTAGGCACTTTATGTGTC
1 TCAGGCACCTCATGTGTC
40416065 ATATACTGAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 30 0.62
22 1 0.02
23 16 0.33
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (22 bp):
TCAGGCACCTCATGTGTCGATT
Found at i:40420889 original size:13 final size:14
Alignment explanation
Indices: 40420868--40420896 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
40420858 TGAAAAATGG
40420868 ATTAGAAAATATTT
1 ATTAGAAAATATTT
40420882 ATTA-AAAATATTT
1 ATTAGAAAATATTT
40420895 AT
1 AT
40420897 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:40421442 original size:21 final size:21
Alignment explanation
Indices: 40421403--40421445 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
40421393 TATATTACTT
*
40421403 ATTATATAATTATATTATTAA
1 ATTATATAAATATATTATTAA
40421424 ATTAT-TAAATATATATATTAA
1 ATTATATAAATATAT-TATTAA
40421445 A
1 A
40421446 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTATATAAATATATTATTAA
Found at i:40421568 original size:13 final size:13
Alignment explanation
Indices: 40421550--40421574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40421540 TATATATATA
40421550 AAAGAAACAAAAG
1 AAAGAAACAAAAG
40421563 AAAGAAACAAAA
1 AAAGAAACAAAA
40421575 AGAATAAAAA
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:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:40421578 original size:23 final size:23
Alignment explanation
Indices: 40421549--40421603 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
40421539 ATATATATAT
40421549 AAAAGAA-ACAAAAGAAAGAAACA
1 AAAAGAATA-AAAAGAAAGAAACA
* *
40421572 AAAAGAATAAAAAGAAGGAAAGA
1 AAAAGAATAAAAAGAAAGAAACA
*
40421595 AACAGAATA
1 AAAAGAATA
40421604 GCAGGGGACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAAGAATAAAAAGAAAGAAACA
Found at i:40422166 original size:51 final size:51
Alignment explanation
Indices: 40422069--40422179 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
40422059 AGAACTAAGT
* * * *
40422069 TATCCGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCACTAAAGTAATA
1 TATCCGGATGAAATATAAAGCTCTTGATGAAACCAGAGAACTAAAGTAATA
* * *
40422120 TATCCGGATGAAATATAAAGTTCTTGATGAAGCCAGAATAAC-AAAGTAATA
1 TATCCGGATGAAATATAAAGCTCTTGATGAAACCAG-AGAACTAAAGTAATA
40422171 -ATTCCGGAT
1 TA-TCCGGAT
40422180 AAAGTATGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
50 1 0.02
51 47 0.92
52 3 0.06
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (51 bp):
TATCCGGATGAAATATAAAGCTCTTGATGAAACCAGAGAACTAAAGTAATA
Found at i:40422524 original size:15 final size:15
Alignment explanation
Indices: 40422506--40422555 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
40422496 TTTATTGAGT
40422506 TTATATTGATTGAAA
1 TTATATTGATTGAAA
*
40422521 TTAT-TCTGATTGAAT
1 TTATAT-TGATTGAAA
*
40422536 TTAAATTGATTG-AA
1 TTATATTGATTGAAA
40422550 TTATAT
1 TTATAT
40422556 AATATATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 7 0.24
15 21 0.72
16 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:40425528 original size:24 final size:24
Alignment explanation
Indices: 40425486--40425531 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
40425476 TTATAATATG
* * *
40425486 AAAATGACCGTTTTGCCCTAGGTA
1 AAAATGACCATTATACCCTAGGTA
40425510 AAAATGACCATTATACCCTAGG
1 AAAATGACCATTATACCCTAGG
40425532 GTTTATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCTAGGTA
Found at i:40425593 original size:20 final size:20
Alignment explanation
Indices: 40425568--40425630 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
40425558 ATTTTGATAA
*
40425568 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATGC
*
40425588 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
40425608 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
40425628 ACA
1 ACA
40425631 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:40425763 original size:23 final size:24
Alignment explanation
Indices: 40425684--40425827 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
40425674 GAGGAAGTGC
40425684 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
40425708 AAAAGGGCTTATGCCCTAGTCATT
1 AAAAGGGCTTATGCCCCAGTTATT
40425732 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
40425756 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
40425779 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
40425804 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
40425828 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
23 29 0.27
24 50 0.46
25 21 0.19
26 9 0.08
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:40428298 original size:27 final size:27
Alignment explanation
Indices: 40428266--40428711 Score: 125
Period size: 27 Copynumber: 16.4 Consensus size: 27
40428256 TTAGTTTACC
*
40428266 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * **** * *
40428293 TAATTATCGTTTTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
40428320 AAATTACTAAAATACTGCT-GGTTTGTA
1 AAATTACCAAAATAC-CCTCGATTTATA
*
40428347 AAATTACTAAAATACCCTCGACTTGTA-A
1 AAATTACCAAAATACCCTCGA-TT-TATA
*
40428375 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** * *
40428402 AAACTACTATTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** * *
40428429 GAATTACTATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *** * *
40428456 AGATTACCATTTTACCCTCGA-TTGTG
1 AAATTACCAAAATACCCTCGATTTATA
** * ***
40428482 AAATTACTGAAATACCC-CTATAGGGTA
1 AAATTACCAAAATACCCTCGAT-TTATA
* * * *
40428509 GAATTACCAAAACACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * * *
40428536 AAATTACCAAAGTACCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCGATTTATA
* ** *
40428563 AAATTACCGAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
40428590 AAATTACCAAAGTACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
40428617 AAGTTA-CAGAAATACCCTTGACTTTCTAA
1 AAATTACCA-AAATACCCTCGA-TTTAT-A
*** * * *
40428646 AAATTATGGAAATACCATTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
40428673 AAATTACAAAAATACCCTTGATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
40428700 GATTTACCAAAA
1 AAATTACCAAAA
40428712 CACCATTGTA
Statistics
Matches: 306, Mismatches: 96, Indels: 34
0.70 0.22 0.08
Matches are distributed among these distances:
25 2 0.01
26 21 0.07
27 234 0.76
28 31 0.10
29 18 0.06
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:40428390 original size:28 final size:28
Alignment explanation
Indices: 40428342--40428404 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
40428332 TACTGCTGGT
*
40428342 TTGT-AAAATTACTAAAATACCCTCGAC
1 TTGTAAAAATTACCAAAATACCCTCGAC
* *
40428369 TTGTAAAAATTACCAAAGTACCCTCGAT
1 TTGTAAAAATTACCAAAATACCCTCGAC
*
40428397 TTATAAAA
1 TTGTAAAA
40428405 CTACTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (28 bp):
TTGTAAAAATTACCAAAATACCCTCGAC
Found at i:40428418 original size:55 final size:54
Alignment explanation
Indices: 40428260--40428478 Score: 174
Period size: 54 Copynumber: 4.0 Consensus size: 54
40428250 AATACTTTAG
* * * *
40428260 TTTACCAAATTACCAAAGTACCCTCGATTTATATAATTA-TCGTTTTACCCCCGA
1 TTTACAAAATTACCAAAGTACCCTCGATTTATAAAATTACT-ATTTTACCCTCGA
* * * * * ***
40428314 TTTACAAAATTACTAAAATACTGCT-GGTTTGTAAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACCAAAGTAC-CCTCGATTTATAAAATTACTATTTTACCCTCGA
* *
40428368 CTTGTA-AAAATTACCAAAGTACCCTCGATTTATAAAACTACTATTTTACCCTCAA
1 -TT-TACAAAATTACCAAAGTACCCTCGATTTATAAAATTACTATTTTACCCTCGA
* * *** * * * *
40428423 TTTACAGAATTACTATTTTACCCTTGATTTACAAGATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAGTACCCTCGATTTATAAAATTACTATTTTACCCTCGA
40428477 TT
1 TT
40428479 GTGAAATTAC
Statistics
Matches: 126, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
53 2 0.02
54 81 0.64
55 41 0.33
56 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (54 bp):
TTTACAAAATTACCAAAGTACCCTCGATTTATAAAATTACTATTTTACCCTCGA
Found at i:40428629 original size:54 final size:53
Alignment explanation
Indices: 40428530--40428710 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 53
40428520 ACACCCCTAG
* ** *
40428530 TTTGTAAAATTACCAAAGTACCACTGGTTTGTGAAATTACCGAAATACCCTTAA
1 TTTGTAAAATTACCAAAGTACCACTGATTT-ACAAATTACAGAAATACCCTTAA
* *
40428584 TTTGTAAAATTACCAAAGTACCCCTGATTTACAAAGTTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAGTACCACTGATTTACAAA-TTACAGAAATACCCTT-AA
* ** * * *
40428639 TTTCTAAAAATTATGGAAA-TACCATTGATTTACAAAATTACAAAAATACCCTTGA
1 TTTGT-AAAATTA-CCAAAGTACCACTGATTTAC-AAATTACAGAAATACCCTTAA
* *
40428694 TTTGTAGATTTACCAAA
1 TTTGTAAAATTACCAAA
40428711 ACACCATTGT
Statistics
Matches: 103, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
53 6 0.06
54 48 0.47
55 9 0.09
56 34 0.33
57 6 0.06
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAGTACCACTGATTTACAAATTACAGAAATACCCTTAA
Found at i:40428788 original size:27 final size:27
Alignment explanation
Indices: 40428758--40428809 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
40428748 TAGGTAAAAA
40428758 GACCGTAA-AGCCCTTGTAGGGTAAAGT
1 GACCGTAATA-CCCTTGTAGGGTAAAGT
*
40428785 GACCGTAATACCCTTGTATGGTAAA
1 GACCGTAATACCCTTGTAGGGTAAA
40428810 ATGATGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (27 bp):
GACCGTAATACCCTTGTAGGGTAAAGT
Found at i:40429548 original size:20 final size:20
Alignment explanation
Indices: 40429523--40429587 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
40429513 CATGATTGAT
*
40429523 ATGATATGTATAAAATGCAC
1 ATGATATGTATGAAATGCAC
40429543 ATGATATGTATGAAATGCAC
1 ATGATATGTATGAAATGCAC
40429563 ATGATATGTATGAAATGCAC
1 ATGATATGTATGAAATGCAC
40429583 ATGAT
1 ATGAT
40429588 GTATTCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
ATGATATGTATGAAATGCAC
Found at i:40429730 original size:25 final size:26
Alignment explanation
Indices: 40429633--40429768 Score: 208
Period size: 26 Copynumber: 5.3 Consensus size: 26
40429623 GATGAAGTGC
*
40429633 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
40429659 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
40429685 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
40429711 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
40429736 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
40429759 AAAAGAGGCT
1 AAAAG-GGCT
40429769 AGGCCTCTAG
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.30
26 61 0.59
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:40429966 original size:43 final size:42
Alignment explanation
Indices: 40429900--40429989 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 42
40429890 TAGTCTCCTC
* * ** *
40429900 AAATGGGTTTGCATACATTCATTGGTATTTCATATGATATATG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATAT-TG
*
40429943 AAATGGGCTTGCATACATCCATTGACATTACGTATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
40429985 AAATG
1 AAATG
40429990 AGCCTATGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 7 0.17
43 34 0.83
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:40430051 original size:31 final size:31
Alignment explanation
Indices: 40430016--40430094 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
40430006 CGTTTATAGT
40430016 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
** *
40430047 AAAGGCTTTAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
40430078 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
40430095 AACCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:40431071 original size:40 final size:41
Alignment explanation
Indices: 40431018--40431109 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 41
40431008 TCTTGGTATC
*
40431018 GCACACTTAGTGCC-TCATATAGCCGAAGCTA-TTCCAATTT
1 GCACACTTAGTGCCAT-ATATAGCCGAAGCTATTTCCAATCT
* *
40431058 GCACACTTAGTGCCATTTATAGCCGAAGCTATTTCTAATCT
1 GCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAATCT
40431099 -CACACTTAGTG
1 GCACACTTAGTG
40431110 TCGTACATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
40 39 0.83
41 8 0.17
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (41 bp):
GCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAATCT
Found at i:40431633 original size:7 final size:7
Alignment explanation
Indices: 40431620--40431650 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
40431610 TCTATCACAT
40431620 ATCTTTC
1 ATCTTTC
*
40431627 ATTTTTC
1 ATCTTTC
40431634 ATCTTTC
1 ATCTTTC
40431641 ATCTTTC
1 ATCTTTC
40431648 ATC
1 ATC
40431651 ATTTAACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (7 bp):
ATCTTTC
Found at i:40434243 original size:80 final size:80
Alignment explanation
Indices: 40434127--40434312 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 80
40434117 AGTAACTCAT
* *
40434127 ACAATGCCTTCGGGACTTAACCC-GAATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGAA-TTTAAAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
40434190 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
40434206 ACAAAGGCCTTCGGGACTTAACCCGGAA-TTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
40434270 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
40434287 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
40434313 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
79 11 0.12
80 69 0.73
81 13 0.14
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:40434272 original size:40 final size:40
Alignment explanation
Indices: 40434129--40434312 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
40434119 TAACTCATAC
*
40434129 AATGCCTTCGGGACTTAACCC-GAATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAA--TTAATAACTCGCACA
* *
40434169 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
40434209 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
40434249 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
40434290 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
40434313 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 8 0.06
40 102 0.82
41 14 0.11
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:40443998 original size:47 final size:45
Alignment explanation
Indices: 40443891--40444011 Score: 167
Period size: 47 Copynumber: 2.6 Consensus size: 45
40443881 TCTGTGTCGT
*
40443891 TGCCATGTCCCAGACATGGTCTTACACTGGCACATCTCGTAGCCGA
1 TGCCATGTCCCAGACAT-GTCTTACACTAGCACATCTCGTAGCCGA
40443937 TG-CATGTCCCAGACATGTCTTACACTAGCAC-TCGTC-TCAATGCCGA
1 TGCCATGTCCCAGACATGTCTTACACTAGCACATC-TCGT--A-GCCGA
40443983 TGCCATGTCCCAGACATGTCTTACACTAG
1 TGCCATGTCCCAGACATGTCTTACACTAG
40444012 TTCACACAAG
Statistics
Matches: 69, Mismatches: 1, Indels: 9
0.87 0.01 0.11
Matches are distributed among these distances:
43 3 0.04
44 16 0.23
45 15 0.22
46 9 0.13
47 26 0.38
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (45 bp):
TGCCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGA
Found at i:40453229 original size:20 final size:21
Alignment explanation
Indices: 40453204--40453242 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
40453194 TCTTTGAAAC
40453204 AGGGCA-CACGCCCGTGTGGA
1 AGGGCAGCACGCCCGTGTGGA
40453224 AGGGCAGCACGCCCGTGTG
1 AGGGCAGCACGCCCGTGTG
40453243 AAATTAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.18, C:0.31, G:0.41, T:0.10
Consensus pattern (21 bp):
AGGGCAGCACGCCCGTGTGGA
Found at i:40455924 original size:29 final size:29
Alignment explanation
Indices: 40455858--40455944 Score: 133
Period size: 29 Copynumber: 3.1 Consensus size: 29
40455848 GTGAGCATGA
40455858 ATAT-AATGTGATTTGGGCCTAATG-GCC
1 ATATAAATGTGATTTGGGCCTAATGAGCC
* *
40455885 ATATAAATGTGATTTAGGCCTAAAGAGCC
1 ATATAAATGTGATTTGGGCCTAATGAGCC
*
40455914 ATATAAATGTGATGTGGGCCTAATGAGCC
1 ATATAAATGTGATTTGGGCCTAATGAGCC
40455943 AT
1 AT
40455945 GTGAATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
27 4 0.08
28 18 0.34
29 31 0.58
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGAGCC
Found at i:40457196 original size:16 final size:16
Alignment explanation
Indices: 40457175--40457209 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
40457165 ATGTATCGGC
40457175 AAAAGCAGAAATGCCG
1 AAAAGCAGAAATGCCG
*
40457191 AAAAGCTGAAATGCCG
1 AAAAGCAGAAATGCCG
40457207 AAA
1 AAA
40457210 TGCCAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCAGAAATGCCG
Found at i:40457489 original size:28 final size:29
Alignment explanation
Indices: 40457435--40457548 Score: 101
Period size: 28 Copynumber: 4.0 Consensus size: 29
40457425 GTGAGCATGA
* * *
40457435 ATATGAATGTGAC-TGGACCTAACGGGCT
1 ATATGAATGTGACTTGGGCCTAATGGGCC
* *
40457463 ATAT-AATGTGACTTGGGGCTAATGGGCG
1 ATATGAATGTGACTTGGGCCTAATGGGCC
* * *
40457491 ATAT-ACAGGTGATTTAGGCCTAATGGGCC
1 ATATGA-ATGTGACTTGGGCCTAATGGGCC
* *
40457520 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGACTTGGGCCTAATGGGCC
40457548 A
1 A
40457549 GATACAGGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
27 8 0.11
28 35 0.50
29 26 0.37
30 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGACTTGGGCCTAATGGGCC
Found at i:40462717 original size:145 final size:145
Alignment explanation
Indices: 40462519--40462792 Score: 512
Period size: 145 Copynumber: 1.9 Consensus size: 145
40462509 AACTCGAGGT
* *
40462519 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
40462584 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
40462649 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
40462664 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
40462729 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
40462793 TACTTTAAAC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:40462811 original size:29 final size:30
Alignment explanation
Indices: 40462777--40462848 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
40462767 ATCAACCACG
*
40462777 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
40462806 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
40462835 CACACTTAGTGCCA
1 CACACTTAGTGCCA
40462849 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:40468789 original size:68 final size:68
Alignment explanation
Indices: 40468622--40468797 Score: 159
Period size: 68 Copynumber: 2.6 Consensus size: 68
40468612 TAGTACCACT
* * * *
40468622 CATGCGACCTAGCT-GAT-T-TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAAT
*
40468684 CACT
65 CACA
* * *
40468688 CATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGCGACCTAGCTACATATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGA
40468750 ATCACA
63 ATCACA
*
40468756 CATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CATGCGACCTAGCTAC-ATATA-TATCTCGTAGCTC-TCTTGT
40468798 ACACAAGATG
Statistics
Matches: 91, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
66 14 0.15
67 3 0.03
68 34 0.37
69 8 0.09
70 6 0.07
71 26 0.29
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATC
ACA
Found at i:40476814 original size:21 final size:22
Alignment explanation
Indices: 40476781--40476824 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
40476771 ATAAGATAAT
*
40476781 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
40476803 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
40476824 A
1 A
40476825 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:40476996 original size:16 final size:15
Alignment explanation
Indices: 40476960--40477014 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
40476950 AATAATGTGA
40476960 ATAATAATATACATG
1 ATAATAATATACATG
*
40476975 AAAATATATATA-ATAG
1 ATAATA-ATATACAT-G
*
40476991 ATAATAATA-ATATG
1 ATAATAATATACATG
40477005 A-AATAATATA
1 ATAATAATATA
40477015 TTGTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
13 7 0.21
14 4 0.12
15 12 0.35
16 11 0.32
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
ATAATAATATACATG
Found at i:40477048 original size:13 final size:14
Alignment explanation
Indices: 40477026--40477057 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
40477016 TGTTAAAATG
40477026 TAAA-ATAATATAA
1 TAAATATAATATAA
40477039 -AAATATAATATAA
1 TAAATATAATATAA
40477052 TAAATA
1 TAAATA
40477058 ATAAGTACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATATAATATAA
Found at i:40477116 original size:25 final size:24
Alignment explanation
Indices: 40477076--40477194 Score: 90
Period size: 25 Copynumber: 5.0 Consensus size: 24
40477066 TGATATATGT
*
40477076 TAAAATATATATTAATATGAA-ATAGA
1 TAAAATATA-AGTAATAT-AATATA-A
40477102 -AAAATATGAAGTAATATAATATAA
1 TAAAATAT-AAGTAATATAATATAA
40477126 TAAAATATAAGTAA-ATAATAATATA
1 TAAAATATAAGTAATATAAT-ATA-A
* *
40477151 TAATATATAA-TACATAT-ATATAT
1 TAAAATATAAGTA-ATATAATATAA
*
40477174 TAAAATA-AAATAATAT-ATATA
1 TAAAATATAAGTAATATAATATA
40477195 CAATTTAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
22 11 0.14
23 13 0.16
24 17 0.21
25 37 0.46
26 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (24 bp):
TAAAATATAAGTAATATAATATAA
Found at i:40477145 original size:18 final size:17
Alignment explanation
Indices: 40477114--40477185 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
40477104 AATATGAAGT
40477114 AATATAAT--ATAATAA
1 AATATAATAAATAATAA
40477129 AATATAAGTAAATAATAA
1 AATATAA-TAAATAATAA
* *
40477147 TATATAATATATAATACA
1 AATATAATAAATAATA-A
* *
40477165 TATATATATTAA-AATAA
1 AATATA-ATAAATAATAA
40477182 AATA
1 AATA
40477186 ATATATATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
15 7 0.15
16 1 0.02
17 12 0.26
18 24 0.51
19 3 0.06
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (17 bp):
AATATAATAAATAATAA
Found at i:40477186 original size:26 final size:26
Alignment explanation
Indices: 40477157--40477208 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
40477147 TATATAATAT
*
40477157 ATAATACATATA-TATATTAAAATAAA
1 ATAATACATATACAAT-TTAAAATAAA
*
40477183 ATAATATATATACAATTTAAAATAAA
1 ATAATACATATACAATTTAAAATAAA
40477209 TAAGTTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATACATATACAATTTAAAATAAA
Found at i:40477224 original size:25 final size:27
Alignment explanation
Indices: 40477173--40477230 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
40477163 CATATATATA
*
40477173 TTAAAATAAAATAATATATATACAA-T
1 TTAAAATAAAATAATATATAAACAATT
*
40477199 TTAAAAT-AAATAAGT-TATAAATAATT
1 TTAAAATAAAATAA-TATATAAACAATT
40477225 TTAAAA
1 TTAAAA
40477231 GGGATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAAATAAAATAATATATAAACAATT
Found at i:40479197 original size:206 final size:205
Alignment explanation
Indices: 40478836--40479213 Score: 569
Period size: 206 Copynumber: 1.8 Consensus size: 205
40478826 AAGTCTGCTT
*
40478836 CTTCAATTTGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGATTTGCTTCAGCATAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGACTTGCTTCAGCATAAGCAC
* *
40478901 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGGATACCAAACCATCTT
* * **
40478966 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCAAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCT-CTATGTGTCTGCCCTCCGTCAAATATG
40479031 GAGACGCCAAA
195 GAGACGCCAAA
* * *
40479042 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGACTTGCTTCAGCATAAGCAC
* * * * * * * *
40479107 GTGAAAGCTAAATTAGCTATGAT-TTCAATTTGTTCCTTGTAAATACAAGGATGCCAAATCATCT
66 GCGAAAACCAAATCAGCTATG-TCTTCAATTTGCTCCTTGTAAACACAAGGATACCAAACCATCT
40479171 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTCTATG
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTCTATG
40479214 CTGCGGTCAT
Statistics
Matches: 153, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
205 5 0.03
206 147 0.96
207 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (205 bp):
CTTCAATTTGTTCTCTGACAATACAGAAATGCCAAATCATCTTAGACTTGCTTCAGCATAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAACACAAGGATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTCTATGTGTCTGCCCTCCGTCAAATATGG
AGACGCCAAA
Found at i:40480115 original size:15 final size:15
Alignment explanation
Indices: 40480095--40480143 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
40480085 CTCTCTCTTT
* *
40480095 TTTTTTTGTTTTTTG
1 TTTTTTTCTTTTCTG
40480110 TTTTTTTCTTTTCTG
1 TTTTTTTCTTTTCTG
*
40480125 TTTGTTT-TTTTCT-
1 TTTTTTTCTTTTCTG
40480138 TTTTTT
1 TTTTTT
40480144 GATTTTCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 5 0.17
14 6 0.20
15 19 0.63
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (15 bp):
TTTTTTTCTTTTCTG
Found at i:40480119 original size:26 final size:27
Alignment explanation
Indices: 40480090--40480143 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
40480080 CTCTTCTCTC
* * *
40480090 TCTTTTTTTTTTG-TTTTTTGTTTTTT
1 TCTTTTCTGTTTGTTTTTTTCTTTTTT
40480116 TCTTTTCTGTTTGTTTTTTTCTTTTTT
1 TCTTTTCTGTTTGTTTTTTTCTTTTTT
40480143 T
1 T
40480144 GATTTTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (27 bp):
TCTTTTCTGTTTGTTTTTTTCTTTTTT
Found at i:40488070 original size:27 final size:27
Alignment explanation
Indices: 40488040--40488169 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
40488030 ATTACCAAAG
* *
40488040 TACCATTGATTTATAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACCGTTT
* *
40488067 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTTGATTTACAGAATTACCGTTT
* **
40488094 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACCGTTT
* *
40488121 TACCCTTGATTTACACAATTACTGTTT
1 TACCCTTGATTTACAGAATTACCGTTT
* *
40488148 TACCCTCGATTTACAAAATTAC
1 TACCCTTGATTTACAGAATTAC
40488170 TAAAATACCC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACCGTTT
Found at i:40488148 original size:54 final size:54
Alignment explanation
Indices: 40488040--40488195 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 54
40488030 ATTACCAAAG
* ** *
40488040 TACCATTGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACACAATTATCGTTT
*
40488094 TACCCTTGATTTATAGAATTACTATTTTACCCTTGATTTACACAATTA-CTGTTT
1 TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACACAATTATC-GTTT
* * * *** * *
40488148 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTA
1 TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACACAATTA
40488196 CCAAAATACC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 86 0.99
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTACACAATTATCGTTT
Found at i:40488178 original size:27 final size:27
Alignment explanation
Indices: 40488094--40488394 Score: 187
Period size: 27 Copynumber: 11.2 Consensus size: 27
40488084 ATTATCGTTT
* * ***
40488094 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ****
40488121 TACCCTTGATTTACACAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
40488148 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
40488175 TACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
40488202 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAA
* * *
40488229 TACCCTAG-TCTATAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
40488255 TACCCTTGGTTTGTAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
40488282 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
40488309 TACTCCTAG-TTTGTAAAATTACCAAAA
1 TAC-CCTCGATTTATAAAATTACTAAAA
* * * **
40488336 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACTAAAA
* * * *
40488363 TACCCTCAATTTGTAAAATTACCAGAA
1 TACCCTCGATTTATAAAATTACTAAAA
40488390 TACCC
1 TACCC
40488395 CTAATTTACA
Statistics
Matches: 229, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 25 0.11
27 201 0.88
28 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:40488206 original size:54 final size:54
Alignment explanation
Indices: 40488148--40488505 Score: 240
Period size: 54 Copynumber: 6.6 Consensus size: 54
40488138 ATTACTGTTT
** * *
40488148 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTCAGTTTACAAAATTACCAAAA
** * * * *
40488202 TACCCTCGATCAGTAAAATTACCAAAATACCCT-AGTCTATAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTCAGTTTACAAAATTACCAAAA
* * ** * **
40488255 TACCCTTGGTTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTCAGTTTACAAAATTACCAAAA
* * *** *
40488309 TACTCCTAG-TTTGTAAAATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAA
1 TAC-CCTCGATTTGTAAAATTACCAAAATACC-CTCAGTTTACAAAATTACCAAAA
* * * *
40488363 TACCCTCAATTTGTAAAATTACCAGAATACCC-CTAATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTC-AGTTTACAAAATTACCA-AAA
* * *** * ** **
40488417 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTCAGTTTACAAAATTACCAAAA
* * * * * *
40488473 TACCATTGGTTTGTAGATTTACCAAAACACCCT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCT
40488506 TGTAGGATGA
Statistics
Matches: 231, Mismatches: 62, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
53 47 0.20
54 136 0.59
55 14 0.06
56 34 0.15
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTCAGTTTACAAAATTACCAAAA
Found at i:40488206 original size:81 final size:80
Alignment explanation
Indices: 40487995--40488207 Score: 203
Period size: 81 Copynumber: 2.6 Consensus size: 80
40487985 AATACTTTAG
* * * * * * * *
40487995 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCATTGATTTATAGAATT
1 TTTACAAAATTACT-AAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTACACAATT
40488060 ACCGTTTTACCCTCGA
65 ACCGTTTTACCCTCGA
* ** * * * ***
40488076 TTTACAGAATTATCGT-TTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTTACACAAT
1 TTTACAAAATTA-C-TAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTACACAAT
*
40488140 TACTGTTTTACCCTCGA
64 TACCGTTTTACCCTCGA
* *
40488157 TTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCT
1 TTTACAAAATTACT-AAATACCCTCGATTTATAAAATTACCAAAATACCCT
40488208 CGATCAGTAA
Statistics
Matches: 100, Mismatches: 28, Indels: 8
0.74 0.21 0.06
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 96 0.96
82 1 0.01
83 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (80 bp):
TTTACAAAATTACTAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTACACAATTA
CCGTTTTACCCTCGA
Done.