Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 283 of 310
Found at i:93119464 original size:18 final size:18
Alignment explanation
Indices: 93119443--93119531 Score: 56
Period size: 18 Copynumber: 4.6 Consensus size: 18
93119433 ACCAACACCA
93119443 CCTCCACCACCTAATCCT
1 CCTCCACCACCTAATCCT
*
93119461 CCTCCCCCACC-ACCA-CCT
1 CCTCCACCACCTA--ATCCT
* *
93119479 AGGCCTCCACCACCCCCAAGACCT
1 ---CCTCCACCA--CCTAA-TCCT
93119503 CCTCCACCACCTAATCCT
1 CCTCCACCACCTAATCCT
*
93119521 CCTCCCCCACC
1 CCTCCACCACC
93119532 ACCACCTAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
17 1 0.02
18 26 0.46
19 5 0.09
21 17 0.30
22 1 0.02
23 2 0.04
24 4 0.07
ACGTcount: A:0.20, C:0.62, G:0.03, T:0.15
Consensus pattern (18 bp):
CCTCCACCACCTAATCCT
Found at i:93119472 original size:21 final size:21
Alignment explanation
Indices: 93119446--93119534 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 21
93119436 AACACCACCT
93119446 CCACCACCTAATCCTCCTCCC
1 CCACCACCTAATCCTCCTCCC
*
93119467 CCACCACC--A-CCTAGGCCTCCA
1 CCACCACCTAATCCT---CCTCCC
* *
93119488 CCACC-CCCAAGACCTCCT---
1 CCACCACCTAA-TCCTCCTCCC
93119506 CCACCACCTAATCCTCCTCCC
1 CCACCACCTAATCCTCCTCCC
93119527 CCACCACC
1 CCACCACC
93119535 ACCTAGGCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 22
0.68 0.04 0.28
Matches are distributed among these distances:
18 14 0.26
19 5 0.09
20 2 0.04
21 29 0.54
22 1 0.02
24 3 0.06
ACGTcount: A:0.21, C:0.62, G:0.03, T:0.13
Consensus pattern (21 bp):
CCACCACCTAATCCTCCTCCC
Found at i:93119474 original size:60 final size:60
Alignment explanation
Indices: 93119410--93119540 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 60
93119400 ACCACCCAAT
93119410 CCACCACCT-GCACCCCCAACAACACCAACACCACCTCCACCACCTAATCCTCCTCCCCCA
1 CCACCACCTAG-ACCCCCAACAACACCAACACCACCTCCACCACCTAATCCTCCTCCCCCA
* * * * * * *
93119470 CCACCACCTAGGCCTCCACCACCCCCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCA
1 CCACCACCTAGACCCCCAACAACACCAACACCACCTCCACCACCTAATCCTCCTCCCCCA
93119530 CCACCACCTAG
1 CCACCACCTAG
93119541 GCCTCCACCA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
60 62 0.98
61 1 0.02
ACGTcount: A:0.25, C:0.60, G:0.04, T:0.11
Consensus pattern (60 bp):
CCACCACCTAGACCCCCAACAACACCAACACCACCTCCACCACCTAATCCTCCTCCCCCA
Found at i:93119545 original size:21 final size:21
Alignment explanation
Indices: 93119461--93119577 Score: 102
Period size: 21 Copynumber: 5.7 Consensus size: 21
93119451 ACCTAATCCT
*
93119461 CCTCCCCCACCACCACCTAGG
1 CCTCCACCACCACCACCTAGG
* *
93119482 CCTCCACCA-C-CC-CCAAGA
1 CCTCCACCACCACCACCTAGG
*
93119500 CCTCCTCCACCACCTAATCCT---
1 CCTCCACCACCACC--A-CCTAGG
*
93119521 CCTCCCCCACCACCACCTAGG
1 CCTCCACCACCACCACCTAGG
* *
93119542 CCTCCACCACCGCCACCTAGC
1 CCTCCACCACCACCACCTAGG
93119563 CCTCCACCACCACCA
1 CCTCCACCACCACCA
93119578 AAGCCTCCAC
Statistics
Matches: 77, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
18 15 0.19
19 4 0.05
20 3 0.04
21 53 0.69
24 2 0.03
ACGTcount: A:0.21, C:0.62, G:0.06, T:0.11
Consensus pattern (21 bp):
CCTCCACCACCACCACCTAGG
Found at i:93119548 original size:18 final size:18
Alignment explanation
Indices: 93119527--93119589 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
93119517 TCCTCCTCCC
93119527 CCACCACCACCTAGGCCT
1 CCACCACCACCTAGGCCT
*
93119545 CCACCACCGCCACCTAGCCCT
1 CCACCA---CCACCTAGGCCT
* *
93119566 CCACCACCACCAAAGCCT
1 CCACCACCACCTAGGCCT
93119584 CCACCA
1 CCACCA
93119590 GCAGCCCCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 21 0.55
21 17 0.45
ACGTcount: A:0.25, C:0.59, G:0.08, T:0.08
Consensus pattern (18 bp):
CCACCACCACCTAGGCCT
Found at i:93119557 original size:24 final size:24
Alignment explanation
Indices: 93119506--93119577 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
93119496 AAGACCTCCT
** * *
93119506 CCACCACCTAATCCTCCTCCCCCA
1 CCACCACCTAGCCCTCCACCACCA
*
93119530 CCACCACCTAGGCCT---CCACCA
1 CCACCACCTAGCCCTCCACCACCA
*
93119551 CCGCCACCTAGCCCTCCACCACCA
1 CCACCACCTAGCCCTCCACCACCA
93119575 CCA
1 CCA
93119578 AAGCCTCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 18 0.46
24 21 0.54
ACGTcount: A:0.22, C:0.61, G:0.06, T:0.11
Consensus pattern (24 bp):
CCACCACCTAGCCCTCCACCACCA
Found at i:93119573 original size:60 final size:60
Alignment explanation
Indices: 93119434--93119552 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
93119424 CCCAACAACA
* *
93119434 CCAACACCACCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCC
1 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCC
93119494 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACC
1 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACC
93119553 GCCACCTAGC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.23, C:0.61, G:0.04, T:0.13
Consensus pattern (60 bp):
CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCC
Found at i:93119584 original size:39 final size:39
Alignment explanation
Indices: 93119461--93119589 Score: 118
Period size: 39 Copynumber: 3.2 Consensus size: 39
93119451 ACCTAATCCT
* * *
93119461 CCTCCCCCACCACCACCTAGGCCTCCACCACC-CCCAAG
1 CCTCCACCACCACCACCTAGCCCTCCACCACCACCAAAG
* * * * *
93119499 ACCTCCTCCACCACCTAATCCT-CCTCCCCCACCACCACCTAGG
1 -CCTCCACCACCACC--A-CCTAGC-CCTCCACCACCACCAAAG
*
93119542 CCTCCACCACCGCCACCTAGCCCTCCACCACCACCAAAG
1 CCTCCACCACCACCACCTAGCCCTCCACCACCACCAAAG
93119581 CCTCCACCA
1 CCTCCACCA
93119590 GCAGCCCCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
39 40 0.56
40 2 0.03
41 1 0.01
42 25 0.35
43 4 0.06
ACGTcount: A:0.22, C:0.60, G:0.06, T:0.11
Consensus pattern (39 bp):
CCTCCACCACCACCACCTAGCCCTCCACCACCACCAAAG
Found at i:93119585 original size:60 final size:59
Alignment explanation
Indices: 93119446--93119585 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 59
93119436 AACACCACCT
** *
93119446 CCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCCCCAAGACCTCCT
1 CCACCACCTAA-CAGCCTCCCCCACCACCACCTAGGCCTCCACCACCCCCAAGACCTCCA
** * *
93119506 CCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCGCCACCTAGCCCTCCA
1 CCACCACCTAA-CAGCCTCCCCCACCACCACCTAGGCCTCCACCA-C-CC-CCAAGACCTCCA
93119569 CCACCACC-AA-AGCCTCC
1 CCACCACCTAACAGCCTCC
93119586 ACCAGCAGCC
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
60 50 0.69
61 1 0.01
62 4 0.06
63 17 0.24
ACGTcount: A:0.22, C:0.60, G:0.06, T:0.12
Consensus pattern (59 bp):
CCACCACCTAACAGCCTCCCCCACCACCACCTAGGCCTCCACCACCCCCAAGACCTCCA
Found at i:93119643 original size:12 final size:12
Alignment explanation
Indices: 93119628--93119662 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
93119618 CAATACCTCC
93119628 ACCACCACCAAA
1 ACCACCACCAAA
* *
93119640 ACCACCACCTAG
1 ACCACCACCAAA
93119652 ACCACCACCAA
1 ACCACCACCAA
93119663 TGCCATGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.51, G:0.03, T:0.03
Consensus pattern (12 bp):
ACCACCACCAAA
Found at i:93123707 original size:42 final size:42
Alignment explanation
Indices: 93123607--93123719 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 42
93123597 AACGTATAGA
* *
93123607 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACAG-GGTCTTATATGAAATCAAATATCG
*
93123650 ATGCCACTGTCCCAGACAGGGTCTTATATGAAATCATATA-CG
1 ATGCCA-TGTCCCAGACAGGGTCTTATATGAAATCAAATATCG
*
93123692 ATGCCGATGTCCCAGACATGGTCTTATA
1 ATGCC-ATGTCCCAGACAGGGTCTTATA
93123720 CGTAAAATAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
42 28 0.44
43 34 0.54
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACAGGGTCTTATATGAAATCAAATATCG
Found at i:93126751 original size:12 final size:12
Alignment explanation
Indices: 93126732--93126773 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
93126722 TCCTACACGT
93126732 CCGTGTGCTAGA
1 CCGTGTGCTAGA
* *
93126744 CTGTGTGCTAGG
1 CCGTGTGCTAGA
*
93126756 CCGTGTGCTAGG
1 CCGTGTGCTAGA
93126768 CCGTGT
1 CCGTGT
93126774 AACTCACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.10, C:0.24, G:0.38, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGA
Found at i:93127331 original size:40 final size:39
Alignment explanation
Indices: 93127276--93127378 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 39
93127266 ATTATTTGAT
*
93127276 TTAGGGTTACCAAAGTACAAACAGCGGCACGTATGTAAAC
1 TTAGGGGTACCAAAGTACAAACAGCGGCAC-TATGTAAAC
* * * * ** *
93127316 TTAGGGGTACTAAAGTATAAATAGGGGCACTATGTGTAT
1 TTAGGGGTACCAAAGTACAAACAGCGGCACTATGTAAAC
* * *
93127355 TTAGGGGTATCGAAGTAGAAACAG
1 TTAGGGGTACCAAAGTACAAACAG
93127379 GGACACGCAT
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
39 25 0.50
40 25 0.50
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (39 bp):
TTAGGGGTACCAAAGTACAAACAGCGGCACTATGTAAAC
Found at i:93127403 original size:40 final size:40
Alignment explanation
Indices: 93127288--93127517 Score: 182
Period size: 40 Copynumber: 5.8 Consensus size: 40
93127278 AGGGTTACCA
* ** *
93127288 AAGTACAAACAGCGGCACGTATGTAAACTT-AGGGGTACTA-
1 AAGTACAAACAGGGGCACGTATGTGCA-TTCAAGGGTAC-AG
* * * * *
93127328 AAGTATAAATAGGGGCAC-TATGTGTATTTAGGGGTATC-G
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTA-CAG
* * *
93127367 AAGTAGAAACAGGGACACGCATGTGCATTCAAGGGTATC-G
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTA-CAG
* * * *
93127407 AAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTACAG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
* * * *
93127447 AAGTACAAACAGGGGCACATATATGTATTCAAGGGTACTG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
** *
93127487 AAGTACAAACAGGGGCATATATGTGCTTTCA
1 AAGTACAAACAGGGGCACGTATGTGCATTCA
93127518 TACAATAATT
Statistics
Matches: 154, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
38 2 0.01
39 29 0.19
40 123 0.80
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
Found at i:93127457 original size:80 final size:80
Alignment explanation
Indices: 93127320--93127501 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 80
93127310 GTAAACTTAG
* * * * * * *
93127320 GGGTACTAAAGTATAAATAGGGGCAC-TATGTGTATTTAGGGGTATCGAAGTAGAAACAGGGACA
1 GGGTACTGAAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTATCGAAGTACAAACAGGGACA
* *
93127384 CGCATGTGCATTCAA
66 CACATATGCATTCAA
*
93127399 GGGTA-TCGAAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTA-CAGAAGTACAAACAGGGG
1 GGGTACT-GAAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTATC-GAAGTACAAACAGGGA
* *
93127462 CACATATATGTATTCAA
64 CACACATATGCATTCAA
93127479 GGGTACTGAAGTACAAACAGGGG
1 GGGTACTGAAGTACAAACAGGGG
93127502 CATATATGTG
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 21 0.24
80 64 0.74
81 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (80 bp):
GGGTACTGAAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTATCGAAGTACAAACAGGGACA
CACATATGCATTCAA
Found at i:93127460 original size:20 final size:19
Alignment explanation
Indices: 93127399--93127461 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
93127389 GTGCATTCAA
93127399 GGGTATCGAAGTACAAACAG
1 GGGTA-CGAAGTACAAACAG
* * ***
93127419 GGGTACGTAGGTGCATTTAG
1 GGGTACG-AAGTACAAACAG
93127439 GGGTACAGAAGTACAAACAG
1 GGGTAC-GAAGTACAAACAG
93127459 GGG
1 GGG
93127462 CACATATATG
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.90
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.37, T:0.17
Consensus pattern (19 bp):
GGGTACGAAGTACAAACAG
Found at i:93133673 original size:27 final size:27
Alignment explanation
Indices: 93133627--93133701 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
93133617 ATTACTGAAA
* * *
93133627 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCAAAG
* ****
93133654 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCAAAG
93133681 TACCCTCGATTTATAGAATTA
1 TACCCTCGATTTATAGAATTA
93133702 TCGTTTTACC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCAAAG
Found at i:93133702 original size:27 final size:27
Alignment explanation
Indices: 93133654--93133741 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
93133644 ATTACCAAAG
93133654 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
93133681 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* * * *
93133708 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
93133735 TACCCTC
1 TACCCTC
93133742 AATTGTGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTATCGTTT
Found at i:93133807 original size:27 final size:26
Alignment explanation
Indices: 93133777--93133874 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
93133767 TGTAGGATAG
*
93133777 AATTACCAAAATACCACTGGTTTGAAA
1 AATTACCAAAATACC-CTGATTTGAAA
* * *
93133804 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-GATTTGAAA
93133831 AATTACCAAAATACCCCTGATTT-ACAA
1 AATTACCAAAATA-CCCTGATTTGA-AA
*
93133858 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
93133875 TGACTTTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.10
27 50 0.83
28 4 0.07
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGAAA
Found at i:93136481 original size:27 final size:27
Alignment explanation
Indices: 93136446--93136632 Score: 259
Period size: 27 Copynumber: 7.0 Consensus size: 27
93136436 ATATATACAT
* * * *
93136446 CACAT-AGGGTAAAACATTCATCTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
93136472 CAAATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
93136499 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
93136526 CACATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
93136553 CACATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
93136580 CACATAATGGAAAAACAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
93136607 CACATAAGGGCAAAATGGTCATTTTA
1 CACATAAGGGAAAAATAGTCATTTTA
93136633 TCAATTAGGG
Statistics
Matches: 146, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
26 4 0.03
27 142 0.97
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (27 bp):
CACATAAGGGAAAAATAGTCATTTTAC
Found at i:93141995 original size:27 final size:27
Alignment explanation
Indices: 93141955--93142065 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
93141945 AGGAAGCATC
* * *
93141955 CTGGTAGCTATGCCCCAATTATCTGA-T
1 CTGGTGGCTCTGCCACAATTATCT-ATT
93141982 CTGGTGGCTCTGCCAC-ATATATCTATT
1 CTGGTGGCTCTGCCACAAT-TATCTATT
93142009 CTGGTGGCTCTGCCACAATTATCTATT
1 CTGGTGGCTCTGCCACAATTATCTATT
* * * * *
93142036 TTGGTGACTCTGTCAC-ATTATTTGTT
1 CTGGTGGCTCTGCCACAATTATCTATT
93142062 CTGG
1 CTGG
93142066 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 14 0.19
27 56 0.78
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTATT
Found at i:93144882 original size:20 final size:20
Alignment explanation
Indices: 93144857--93144922 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
93144847 CTTATATACA
*
93144857 CAGGGGCACGTATGTGCACT
1 CAGGGGCACGTATGTGCAAT
* ** * * *
93144877 CAGGGGTACCAAAGTGTAAA
1 CAGGGGCACGTATGTGCAAT
*
93144897 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCAAT
93144917 CAGGGG
1 CAGGGG
93144923 TACCGAGGTA
Statistics
Matches: 32, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.36, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:93144938 original size:40 final size:40
Alignment explanation
Indices: 93144856--93144959 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
93144846 GCTTATATAC
* **
93144856 ACAGGGGCACGTATGTGCACTCAGGGGTACCAAAGTGTAA
1 ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
* *
93144896 ACAGGGGCACGTATGTGCATTCAGGGGTACCGAGGTACAA
1 ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
** *
93144936 ACAAAGGCACGCATGTGCATTCAG
1 ACAGGGGCACGTATGTGCATTCAG
93144960 ACAATAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.30, C:0.21, G:0.32, T:0.17
Consensus pattern (40 bp):
ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
Found at i:93148504 original size:24 final size:24
Alignment explanation
Indices: 93148470--93148520 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
93148460 ACAAACGCAA
*
93148470 CTCTTCATGAG-TGTCCTGATATAGG
1 CTCTTCATGAGCT-TCCTGACAT-GG
93148495 CTCTT-ATGAGCTTCCTGACATGG
1 CTCTTCATGAGCTTCCTGACATGG
93148518 CTC
1 CTC
93148521 ACTTGAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
CTCTTCATGAGCTTCCTGACATGG
Found at i:93158627 original size:46 final size:46
Alignment explanation
Indices: 93158541--93158804 Score: 306
Period size: 46 Copynumber: 5.7 Consensus size: 46
93158531 GTAAGGTGCA
93158541 AATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTA-GCC
1 AATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTCG-AGGCC
93158587 AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
1 AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
* * * * **
93158633 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGTT
1 AATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAGGCC
* * * * *
93158679 GATGCCGTGTCCCAGACATGGTCTTACACTAGCTCACATAAT-GTGGCC
1 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-CTCGAGGCC
93158727 AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
1 AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
*
93158773 GATGCATGTCCCAGACATGTCTTACACTAGCT
1 AATGCATGTCCCAGACATGTCTTACACTAGCT
93158805 CACACAAGTG
Statistics
Matches: 187, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
44 11 0.06
45 17 0.09
46 111 0.59
47 27 0.14
48 20 0.11
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
Found at i:93158732 original size:94 final size:92
Alignment explanation
Indices: 93158541--93158808 Score: 314
Period size: 94 Copynumber: 2.9 Consensus size: 92
93158531 GTAAGGTGCA
* *
93158541 AATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTA-GCCAATGCATGTCCCAGA
1 AATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTC-AAGGCCGATGCATGTCCCAGA
* *
93158602 CATGTCTTACACTAGCTTACATCTCGAGGCC
62 CATGTCTTACACTAGCTCACATATCGAGGCC
* * * ** *
93158633 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGTTGATGCCGTGTCCCAGACA
1 AATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCAAGGCCGATG-CATGTCCCAGACA
*
93158697 TGGTCTTACACTAGCTCACATAAT-GTGGCC
64 T-GTCTTACACTAGCTCACAT-ATCGAGGCC
*
93158727 AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACATG
1 AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAGACATG
93158792 TCTTACACTAGCTCACA
66 TCTTACACTAGCTCACA
93158809 CAAGTGACCC
Statistics
Matches: 150, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
90 11 0.07
91 16 0.11
92 30 0.20
93 27 0.18
94 65 0.43
95 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (92 bp):
AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCTCACATATCGAGGCC
Found at i:93158792 original size:140 final size:138
Alignment explanation
Indices: 93158542--93158805 Score: 458
Period size: 140 Copynumber: 1.9 Consensus size: 138
93158532 TAAGGTGCAA
*
93158542 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGTCCCAGACATGT
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGTAGCCAATGCATGTCCCAGACATGT
93158607 CTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
66 CTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
93158672 CAATGTTG
131 CAATGTTG
* * *
93158680 ATGCCGTGTCCCAGACATGGTCTTACACTAGCTCACATAAT-GTGGCCAATGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCGTAGCCAATGCATGTCCCAGACA
93158744 TGTCTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
63 TGTCTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
93158806 ACACAAGTGA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
138 28 0.24
139 1 0.01
140 89 0.75
141 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (138 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGTAGCCAATGCATGTCCCAGACATGT
CTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
CAATGTTG
Found at i:93160919 original size:48 final size:46
Alignment explanation
Indices: 93160788--93160965 Score: 144
Period size: 48 Copynumber: 3.7 Consensus size: 46
93160778 TTAGGGGATA
* * * *
93160788 CATTGATTTGGATTCGGGCCATGATATTATCTCTTCGAGTGTG-AGTT
1 CATTGATTTGGCTTCAGGCCATGATATTAGCACTTC-AG-GTGCAGTT
* * ** *
93160835 ACATAGATTTAGCTTCAGGCCATGATATCGGTACTTCAGGTGCAAGCTT
1 -CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGC-AG-TT
* * *
93160884 TATTGATTTGGCTTCAGGCCATGATATTAGCACTTCGGGTGCGAGATA
1 CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGC-AG-TT
* *
93160932 CATTGAGTAGGCTTCAGGCCATGAT-TTGAGCACT
1 CATTGATTTGGCTTCAGGCCATGATATT-AGCACT
93160966 CAATGTGCGA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 3 0.03
47 4 0.04
48 95 0.91
49 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (46 bp):
CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCAGTT
Found at i:93169228 original size:43 final size:43
Alignment explanation
Indices: 93169124--93169230 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
93169114 AACCCAGCTT
* * * *
93169124 TGGTCTTACACGA-ACTCAAATAACGATGTCAATGTCCTACAAA
1 TGGTCTTACAC-ATAATCACATAACGATGCCAATGTCCCACAAA
* * *
93169167 TGGCCTTACACATAATCACATAATGATGCCAATGTCCCAGAAA
1 TGGTCTTACACATAATCACATAACGATGCCAATGTCCCACAAA
93169210 TGGTCTTACACATAATCACAT
1 TGGTCTTACACATAATCACAT
93169231 CTCATTACTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (43 bp):
TGGTCTTACACATAATCACATAACGATGCCAATGTCCCACAAA
Found at i:93171942 original size:86 final size:85
Alignment explanation
Indices: 93171794--93171964 Score: 281
Period size: 86 Copynumber: 2.0 Consensus size: 85
93171784 AAATTGACTC
* *
93171794 ACACTGAGTTCATTTTGTTTGAAATTCATTATCAAGTTTTTGAGCTTCACAGATCTGTTGTATAA
1 ACACTGAGTTCATTTTGTTTGAAATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATAA
*
93171859 ACAACGGTCTCGCTTTCCACT
66 ACAACGGTCTAGC-TTCCACT
*
93171880 ACACTGAGTTCATTTTGTTT-ACAATTCATTATCAAGTTTTTGAGCTTCATAGACCTGCTGTATA
1 ACACTGAGTTCATTTTGTTTGA-AATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATA
93171944 AACAACGGTCTAGCTTCCACT
65 AACAACGGTCTAGCTTCCACT
93171965 CAGCTACTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
85 8 0.10
86 72 0.90
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (85 bp):
ACACTGAGTTCATTTTGTTTGAAATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATAA
ACAACGGTCTAGCTTCCACT
Found at i:93174542 original size:46 final size:46
Alignment explanation
Indices: 93174473--93174650 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
93174463 TGTAACCCGC
*
93174473 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTAGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* * * *
93174519 CCATAAGTGAACTCGGACCCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTAGCAT
* *** * ** *
93174565 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* *
93174612 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
93174651 CNNNNNNNNN
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
46 71 0.68
47 34 0.32
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
Found at i:93174588 original size:93 final size:93
Alignment explanation
Indices: 93174481--93174651 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
93174471 GCCCATAAGT
*** *
93174481 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTAGCATCCATAAGTGAACTCGGACCCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCAGACCCAACTCAA
93174546 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* * *
93174574 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCAGACCCAACTCAA
* *
93174639 CGAGTTCGGATGC
66 CAAGCTCGGATGC
93174652 NNNNNNNNNN
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCAGACCCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:93177428 original size:76 final size:76
Alignment explanation
Indices: 93177302--93177457 Score: 294
Period size: 76 Copynumber: 2.1 Consensus size: 76
93177292 CTTATCATAT
*
93177302 GGAAACAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
1 GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
93177367 TCCCTTGAGCG
66 TCCCTTGAGCG
93177378 GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
1 GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
*
93177443 TCCCTTGAGTG
66 TCCCTTGAGCG
93177454 GGAA
1 GGAA
93177458 CTGGCACATT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.31
Consensus pattern (76 bp):
GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
TCCCTTGAGCG
Found at i:93179248 original size:43 final size:43
Alignment explanation
Indices: 93179201--93179351 Score: 194
Period size: 43 Copynumber: 3.5 Consensus size: 43
93179191 TAGCCTAGCT
* * * * *
93179201 ATGGTCTTACACAAAATCAAAGAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
* * * *
93179244 ATGGTCTTACACGTAACCACATAGTGATGCCAATGTCCTAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
* * *
93179287 ATGGTCTTACACGTACTCACATAATGATGCCAATGTCTCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
93179330 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
93179352 CTCATTAATC
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
Found at i:93186443 original size:5 final size:5
Alignment explanation
Indices: 93186433--93186457 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
93186423 GATGGCAACC
93186433 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
93186458 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:93188702 original size:27 final size:27
Alignment explanation
Indices: 93188665--93188736 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
93188655 AGGGCAAAAT
** *
93188665 AGTCATTTTACCTTACAGGGGTATGTC
1 AGTCATTTTACAATACAAGGGTATGTC
* *
93188692 GGTCATTTTACAATACAAGGGTATTTC
1 AGTCATTTTACAATACAAGGGTATGTC
* *
93188719 AGTAATTTTACACTACAA
1 AGTCATTTTACAATACAA
93188737 TGATATTTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (27 bp):
AGTCATTTTACAATACAAGGGTATGTC
Found at i:93188743 original size:27 final size:27
Alignment explanation
Indices: 93188696--93188758 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
93188686 TATGTCGGTC
*
93188696 ATTTTACAATACAAGGGTATTTC-AGTA
1 ATTTTACAATACAAGGATATTTCGA-TA
* *
93188723 ATTTTACACTACAATGATATTTCGATA
1 ATTTTACAATACAAGGATATTTCGATA
93188750 ATTTTACAA
1 ATTTTACAA
93188759 ATTAGGGGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (27 bp):
ATTTTACAATACAAGGATATTTCGATA
Found at i:93188802 original size:27 final size:27
Alignment explanation
Indices: 93188772--93189031 Score: 265
Period size: 27 Copynumber: 9.7 Consensus size: 27
93188762 AGGGGTCTCA
** *
93188772 AGGGTATTTCAATAATTATACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
93188799 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
93188826 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
93188853 AGCGTATTTCGGTAATTTTAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
93188879 AGGGTGTTTCAGTAATTTTACAAATAG
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** * *
93188906 AGGTTATTTTAGTAAATTTGCAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
93188933 AGGGTATTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
* ** *
93188960 GGGGTATTTCAATAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
93188987 GGGGTATTTCGATAATTTTACAAACCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* **
93189014 GGGGTATTTTAGTAATTT
1 AGGGTATTTCGGTAATTT
93189032 CTCTTTATTA
Statistics
Matches: 199, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 23 0.12
27 175 0.88
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:93188967 original size:107 final size:108
Alignment explanation
Indices: 93188772--93189028 Score: 290
Period size: 107 Copynumber: 2.4 Consensus size: 108
93188762 AGGGGTCTCA
* * * * *
93188772 AGGGTATTTCAATAATTATACAAATCGAGGGTA-TTTCGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAG-TAAATTTACAAATCGAGGGTATTTC
** *
93188836 GGTAATTTTACAAATCGAGCGTATTTCGGTAATTTTA-CAATCG
65 GGTAATTTTACAAATCGAGCGTATTTCAATAATTTTATAAATCG
* * * *
93188879 AGGGTGTTTCAGTAATTTTACAAATAGAGGTTATTTTAGTAAATTTGCAAA-CTGAGGGTATTTC
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAAATTTACAAATC-GAGGGTATTTC
* *
93188943 GGTAATTTTACAAA-CTGGGGGTATTTCAATAATTTTATAAATCG
65 GGTAATTTTACAAATC-GAGCGTATTTCAATAATTTTATAAATCG
* * *
93188987 GGGGTATTTC-GATAATTTTACAAACCGGGGGTATTTTAGTAA
1 AGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTTAGTAA
93189029 TTTCTCTTTA
Statistics
Matches: 125, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
106 2 0.02
107 80 0.64
108 43 0.34
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (108 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAAATTTACAAATCGAGGGTATTTCG
GTAATTTTACAAATCGAGCGTATTTCAATAATTTTATAAATCG
Found at i:93189383 original size:28 final size:28
Alignment explanation
Indices: 93189348--93189411 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
93189338 TGGCGCCTTT
93189348 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
* *
93189376 AGGCCCAATCTTGTTCATATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
93189404 AGGCCCAA
1 AGGCCCAA
93189412 CAACTTCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCTCGTTCACATGGCCCATC
Found at i:93201475 original size:377 final size:377
Alignment explanation
Indices: 93200781--93201535 Score: 1510
Period size: 377 Copynumber: 2.0 Consensus size: 377
93200771 TATAATGTTT
93200781 ATTGATATATCTTGAATTAAAATATAGGCATTTATGCATTGATTGTTTAAAATTTAAGACATTAG
1 ATTGATATATCTTGAATTAAAATATAGGCATTTATGCATTGATTGTTTAAAATTTAAGACATTAG
93200846 GGAATCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTAAGATTA
66 GGAATCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTAAGATTA
93200911 GGTATTATCTTGAGTTGGGATTCACAAGTTTGAACATCAAAAAGCCATAATTTTTGTGAGATCTT
131 GGTATTATCTTGAGTTGGGATTCACAAGTTTGAACATCAAAAAGCCATAATTTTTGTGAGATCTT
93200976 GAGCCTTTAGAACATCTATTATTTCTTTCATGCTCACTTTCATTATGAGTGCGTCAGTATCGAAT
196 GAGCCTTTAGAACATCTATTATTTCTTTCATGCTCACTTTCATTATGAGTGCGTCAGTATCGAAT
93201041 TGTTATTCTAGAACTTGCTTGATGATGCATGTCAAGACCAGATCATTTGATTTGATATGTCAAAA
261 TGTTATTCTAGAACTTGCTTGATGATGCATGTCAAGACCAGATCATTTGATTTGATATGTCAAAA
93201106 TGATAAAGGCACTTAGGTTTAACCCACTCACTTCATAAAAGCTTACCTTAAA
326 TGATAAAGGCACTTAGGTTTAACCCACTCACTTCATAAAAGCTTACCTTAAA
93201158 ATTGATATATCTTGAATTAAAATATAGGCATTTATGCATTGATTGTTTAAAATTTAAGACATTAG
1 ATTGATATATCTTGAATTAAAATATAGGCATTTATGCATTGATTGTTTAAAATTTAAGACATTAG
93201223 GGAATCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTAAGATTA
66 GGAATCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTAAGATTA
93201288 GGTATTATCTTGAGTTGGGATTCACAAGTTTGAACATCAAAAAGCCATAATTTTTGTGAGATCTT
131 GGTATTATCTTGAGTTGGGATTCACAAGTTTGAACATCAAAAAGCCATAATTTTTGTGAGATCTT
93201353 GAGCCTTTAGAACATCTATTATTTCTTTCATGCTCACTTTCATTATGAGTGCGTCAGTATCGAAT
196 GAGCCTTTAGAACATCTATTATTTCTTTCATGCTCACTTTCATTATGAGTGCGTCAGTATCGAAT
93201418 TGTTATTCTAGAACTTGCTTGATGATGCATGTCAAGACCAGATCATTTGATTTGATATGTCAAAA
261 TGTTATTCTAGAACTTGCTTGATGATGCATGTCAAGACCAGATCATTTGATTTGATATGTCAAAA
93201483 TGATAAAGGCACTTAGGTTTAACCCACTCACTTCATAAAAGCTTACCTTAAA
326 TGATAAAGGCACTTAGGTTTAACCCACTCACTTCATAAAAGCTTACCTTAAA
93201535 A
1 A
93201536 AATTAACCCT
Statistics
Matches: 378, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
377 378 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (377 bp):
ATTGATATATCTTGAATTAAAATATAGGCATTTATGCATTGATTGTTTAAAATTTAAGACATTAG
GGAATCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAACTTTTAGGTTGTTTCCCTAAGATTA
GGTATTATCTTGAGTTGGGATTCACAAGTTTGAACATCAAAAAGCCATAATTTTTGTGAGATCTT
GAGCCTTTAGAACATCTATTATTTCTTTCATGCTCACTTTCATTATGAGTGCGTCAGTATCGAAT
TGTTATTCTAGAACTTGCTTGATGATGCATGTCAAGACCAGATCATTTGATTTGATATGTCAAAA
TGATAAAGGCACTTAGGTTTAACCCACTCACTTCATAAAAGCTTACCTTAAA
Found at i:93216500 original size:16 final size:17
Alignment explanation
Indices: 93216479--93216513 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
93216469 GCAGCAACAT
93216479 CAGCCC-CAACTCTGAC
1 CAGCCCACAACTCTGAC
93216495 CAGCCCATCAACTCTGAC
1 CAGCCCA-CAACTCTGAC
93216513 C
1 C
93216514 TTTTTCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.26, C:0.49, G:0.11, T:0.14
Consensus pattern (17 bp):
CAGCCCACAACTCTGAC
Found at i:93219348 original size:46 final size:46
Alignment explanation
Indices: 93219295--93219470 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
93219285 TATTTGGGCA
*
93219295 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
93219341 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
93219388 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
93219434 -CCCAAGCTCGTAGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93219471 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 7 0.07
46 57 0.54
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:93219450 original size:93 final size:93
Alignment explanation
Indices: 93219291--93219462 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
93219281 GGGATATTTG
* * * * *
93219291 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCGTAGAG
*
93219356 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
*
93219384 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCCAAGCTCGTAGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAA-CTCGTAGA
93219448 GTTGAGTCCAAGTTC
65 GTTGAGTCCAAGTTC
93219463 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCCAACTCGTAGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:93224091 original size:46 final size:45
Alignment explanation
Indices: 93224041--93224210 Score: 132
Period size: 46 Copynumber: 3.7 Consensus size: 45
93224031 AGCATCCGAA
93224041 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTTCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG-TCTGAG
* ** * * * * *
93224087 CTCGTTGAGTTTAGTTTGAG-T---TTGTGAGATGTAACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATG---CGAAG--TCTGAG
* *
93224134 CTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCGAACGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCTGAG
**
93224180 CTCGTTGAGTTGAGTCCGAGTTGGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93224211 GCGGGTTACA
Statistics
Matches: 93, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
45 1 0.01
46 51 0.55
47 23 0.25
48 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.33
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCTGAG
Found at i:93224201 original size:93 final size:93
Alignment explanation
Indices: 93224032--93224201 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
93224022 GGATGATTGA
*
93224032 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTTCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCTGAGCTCGTTGAGT
* **
93224097 TTAGTTTGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
*
93224125 GCATCCGAACTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCTGAGCTCGTTGAG
93224189 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
93224202 GGCTTATGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCTGAGCTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:93225927 original size:26 final size:26
Alignment explanation
Indices: 93225898--93225956 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
93225888 TGCTCAATAC
*
93225898 AGTCATACATCTCATAAGGGCATAAT
1 AGTCATACACCTCATAAGGGCATAAT
** *
93225924 AGTCATTTTACCTCATAGGGGCATAAT
1 AGTCA-TACACCTCATAAGGGCATAAT
93225951 AGTCAT
1 AGTCAT
93225957 TTATCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (26 bp):
AGTCATACACCTCATAAGGGCATAAT
Found at i:93237272 original size:16 final size:15
Alignment explanation
Indices: 93237248--93237277 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
93237238 AACTGTTTTA
93237248 TTACAAATTTCACTC
1 TTACAAATTTCACTC
93237263 TTACATAATTTCACT
1 TTACA-AATTTCACT
93237278 TACTCAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:93237705 original size:50 final size:50
Alignment explanation
Indices: 93237475--93237716 Score: 211
Period size: 50 Copynumber: 4.8 Consensus size: 50
93237465 GTAACCAAAG
* *
93237475 CTATCTGGTACATC-TAGTAGCCTACACTTAGTTCTACACATGCGACC-AA
1 CTATCTGGTACA-CGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
** * * * *
93237524 AAATCTGGTACACGTTGTAGCTTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
* ** * * * * *
93237574 CCATCTAATGCACCTAGTAGCCTACACTTAGTACTACACATGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCT-AA
* * * * * * * *
93237624 GTTGTCGGGCACGCATAGTAGCCTGGACTTAGTACTGCACATGCGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
*
93237675 CTATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACATG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATG
93237717 TGAACTAAAA
Statistics
Matches: 145, Mismatches: 43, Indels: 9
0.74 0.22 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.26
50 72 0.50
51 33 0.23
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
Found at i:93244158 original size:16 final size:15
Alignment explanation
Indices: 93244134--93244163 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
93244124 AACTGTTTTA
93244134 TTACAAATTTCACTC
1 TTACAAATTTCACTC
93244149 TTACATAATTTCACT
1 TTACA-AATTTCACT
93244164 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:93244437 original size:49 final size:50
Alignment explanation
Indices: 93244375--93244499 Score: 175
Period size: 50 Copynumber: 2.5 Consensus size: 50
93244365 CTGTTACGCA
*
93244375 TAGTAGCCCGCACTTAGTACTACACAT-TCGACC-AACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGT-GACCTAACAATCTGATACACG
* *
93244424 TAGTAGCCTGCACTTAGTAC-AGAACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTA-CACATGTGACCTAACAATCTGATACACG
*
93244474 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
93244500 CATGATTGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
48 1 0.01
49 27 0.40
50 38 0.57
51 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
Found at i:93244591 original size:33 final size:33
Alignment explanation
Indices: 93244531--93244593 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
93244521 TGCATAGTAA
**
93244531 CCTGCACTTAGTACTACACATGCGACCTAATAG
1 CCTGCACTTAGTACTACACACACGACCTAATAG
*
93244564 CCTGCACTTAGTACTACACACATGACCTAA
1 CCTGCACTTAGTACTACACACACGACCTAA
93244594 AACCATCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.24
Consensus pattern (33 bp):
CCTGCACTTAGTACTACACACACGACCTAATAG
Found at i:93250488 original size:28 final size:28
Alignment explanation
Indices: 93250455--93250557 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
93250445 ATTGCATGAC
*
93250455 TATGAATGTGATTGGGCCTGACGGGCTA
1 TATGAATGTGATTGGGCCTGATGGGCTA
*
93250483 TATGAAAGTGATTGGGCCTGATGGGCTA
1 TATGAATGTGATTGGGCCTGATGGGCTA
* *
93250511 TATGAATGTGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCTA
* *
93250539 TATGAATGAGATTAGGCCT
1 TATGAATGTGATTGGGCCT
93250558 AAATGGGTCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCTA
Found at i:93254037 original size:18 final size:18
Alignment explanation
Indices: 93254001--93254041 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
93253991 AGGCCATTTC
93254001 TGGGCTGTGTGGGCCACA
1 TGGGCTGTGTGGGCCACA
*
93254019 TGGG-TGTGTGGGCTTACA
1 TGGGCTGTGTGGGC-CACA
93254037 TGGGC
1 TGGGC
93254042 CCACATGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.10, C:0.17, G:0.46, T:0.27
Consensus pattern (18 bp):
TGGGCTGTGTGGGCCACA
Found at i:93254047 original size:28 final size:28
Alignment explanation
Indices: 93254010--93254070 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
93254000 CTGGGCTGTG
93254010 TGGG-CCACATGGGTGTGTGGGCTTACA
1 TGGGCCCACATGGGTGTGTGGGCTTACA
*
93254037 TGGGCCCACATGGGTGTGTGGGCTTACG
1 TGGGCCCACATGGGTGTGTGGGCTTACA
93254065 TGGGCC
1 TGGGCC
93254071 TAGTTTCACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.11, C:0.21, G:0.43, T:0.25
Consensus pattern (28 bp):
TGGGCCCACATGGGTGTGTGGGCTTACA
Found at i:93257627 original size:29 final size:29
Alignment explanation
Indices: 93257585--93257738 Score: 247
Period size: 29 Copynumber: 5.3 Consensus size: 29
93257575 AAAAGCATGT
*
93257585 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
93257614 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
93257643 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
93257672 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
93257701 ATATGAATGAGA-TGGGGCGTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
93257729 ATATGCATGT
1 ATATGAATGT
93257739 ATGTAGACTT
Statistics
Matches: 118, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
28 21 0.18
29 97 0.82
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:93261274 original size:79 final size:81
Alignment explanation
Indices: 93261138--93261322 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
93261128 TTGAATGATG
*
93261138 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
93261202 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
93261217 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
93261279 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
93261297 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93261323 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:93261336 original size:40 final size:40
Alignment explanation
Indices: 93261139--93261322 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
93261129 TGAATGATGT
* * * *
93261139 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
93261179 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
93261219 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
93261257 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
93261298 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
93261323 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:93261344 original size:79 final size:79
Alignment explanation
Indices: 93261191--93261355 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
93261181 GGACTAAGAT
* **
93261191 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
93261256 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
93261270 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
93261333 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
93261349 CCGAAGG
1 CCGAAGG
93261356 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:93269249 original size:79 final size:81
Alignment explanation
Indices: 93269113--93269297 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
93269103 TTGAATGATG
*
93269113 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
93269177 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
93269192 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
93269254 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
93269272 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93269298 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:93269311 original size:40 final size:40
Alignment explanation
Indices: 93269114--93269297 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
93269104 TGAATGATGT
* * * *
93269114 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
93269154 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
93269194 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
93269232 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
93269273 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
93269298 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:93269319 original size:79 final size:79
Alignment explanation
Indices: 93269166--93269330 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
93269156 GGACTAAGAT
* **
93269166 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
93269231 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
93269245 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
93269308 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
93269324 CCGAAGG
1 CCGAAGG
93269331 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:93275296 original size:13 final size:13
Alignment explanation
Indices: 93275287--93275319 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
93275277 GGGCACACGG
93275287 CCATGGCACATGC
1 CCATGGCACATGC
93275300 CCATGGCACATGC
1 CCATGGCACATGC
93275313 CCATGGC
1 CCATGGC
93275320 CAGAGGCCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.39, G:0.24, T:0.15
Consensus pattern (13 bp):
CCATGGCACATGC
Found at i:93276611 original size:15 final size:16
Alignment explanation
Indices: 93276586--93276615 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
93276576 AGATTATGAT
93276586 ACATAATAAAAATAAA
1 ACATAATAAAAATAAA
93276602 ACAT-ATAAAAATAA
1 ACATAATAAAAATAA
93276616 GCTACAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
ACATAATAAAAATAAA
Found at i:93288064 original size:40 final size:40
Alignment explanation
Indices: 93288018--93288249 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
93288008 TATAACCACA
* * * *
93288018 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACT
* * *
93288058 CGCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACT
* * *
93288098 CGCACAAATGCCTTCAGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
*
93288138 AGCACAAATGCCTTCGGGTTTTAACCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
*
93288178 AGCATAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
* *
93288218 AGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATA
93288250 TCATTCAAAT
Statistics
Matches: 175, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 171 0.98
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACT
Found at i:93292923 original size:40 final size:40
Alignment explanation
Indices: 93292829--93293053 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
93292819 TATTCGAATG
*
93292829 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
93292870 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
93292910 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * * *
93292950 ATATCCGAGCTAAAACCCGAAGGCATTTGTGCTAGAGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
93292990 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
93293030 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
93293054 CTTGTGCAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.80
41 29 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:93293009 original size:80 final size:79
Alignment explanation
Indices: 93292829--93293089 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 79
93292819 TATTCGAATG
* * *
93292829 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGG-CTAAGACCCGAAGGC
* * *
93292894 ATTCGTGCGAGTTGCT
64 ATTTGTGCAAGTAGCT
* * * *
93292910 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGAGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCG-GCTAAGACCCGAAGGCA
*
93292975 TTTGTGCTAG-AGACT
65 TTTGTGCAAGTAG-CT
* * *
93292990 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGACCCGAAGGCA
* *
93293054 CTTGTGCAAGTAGTT
65 TTTGTGCAAGTAGCT
*
93293069 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
93293090 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 14 0.09
79 16 0.10
80 91 0.59
81 34 0.22
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGACCCGAAGGCAT
TTGTGCAAGTAGCT
Found at i:93293043 original size:120 final size:119
Alignment explanation
Indices: 93292829--93293089 Score: 314
Period size: 120 Copynumber: 2.2 Consensus size: 119
93292819 TATTCGAATG
* * *
93292829 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCC-GGCTAAATCCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
93292894 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
65 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
93292950 ATATCCGAGCTAAAACCCGAAGGCATTTGTGCTA-GAGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCG-GCTAAATCCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGAT-CCGAAGG
* * *
93293013 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
64 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
93293069 ATATCCGGCTAAATCCCGAAG
1 ATATCCGGCTAAATCCCGAAG
93293090 ATTACTTGAG
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
118 14 0.12
119 20 0.17
120 58 0.48
121 29 0.24
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (119 bp):
ATATCCGGCTAAATCCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGCA
TTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:93294290 original size:40 final size:40
Alignment explanation
Indices: 93294245--93294325 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
93294235 ATTTGTAGAT
93294245 GAACATATGAGTCTAGTTTCAGGAAAAATTTACGGAACTG
1 GAACATATGAGTCTAGTTTCAGGAAAAATTTACGGAACTG
93294285 GAACATATGAGTCTAGTTTCAGGAAAAATTTACGGAACTG
1 GAACATATGAGTCTAGTTTCAGGAAAAATTTACGGAACTG
93294325 G
1 G
93294326 TTTTCGAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (40 bp):
GAACATATGAGTCTAGTTTCAGGAAAAATTTACGGAACTG
Found at i:93297653 original size:40 final size:40
Alignment explanation
Indices: 93297559--93297783 Score: 233
Period size: 40 Copynumber: 5.6 Consensus size: 40
93297549 TATTCGAATG
*
93297559 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
93297600 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
93297640 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
93297680 ATATCCGAGCTAA-AACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
* *
93297720 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
93297760 ACATCCGAGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
93297784 CTTGTGCAAG
Statistics
Matches: 154, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 4 0.03
40 118 0.77
41 31 0.20
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:93297739 original size:80 final size:79
Alignment explanation
Indices: 93297559--93297819 Score: 278
Period size: 80 Copynumber: 3.3 Consensus size: 79
93297549 TATTCGAATG
* * *
93297559 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCG-GACTAAGATCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGAG-CTAA-AACCGAAGG
*
93297623 CATTCGTGCGAGTTGCT
63 CATTCGTGCGAGTCGCT
* * *
93297640 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGAGCTAAAACCTGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGAGCTAAAACC-GAAGGCA
* *
93297705 TTTGTGCTAG-CGACT
65 TTCGTGCGAGTCG-CT
* * * * *
93297720 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGAGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGAGCTAA-AACCGAAGGCA
* * *
93297785 TT-GTGCAAGTAGTT
65 TTCGTGCGAGTCGCT
*
93297799 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
93297820 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 14 0.09
79 17 0.11
80 87 0.56
81 36 0.23
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGAGCTAAAACCGAAGGCAT
TCGTGCGAGTCGCT
Found at i:93297773 original size:120 final size:121
Alignment explanation
Indices: 93297559--93297819 Score: 291
Period size: 120 Copynumber: 2.2 Consensus size: 121
93297549 TATTCGAATG
* ** * *
93297559 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGAGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * *
93297624 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* * *
93297680 ATATCCGAGCTAAAACCTGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGAGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * * * *
93297743 CATTTATGCTAG-TGACCACATCCGAGCTAAGACCCGAAGGC-CTTGTGCAAG-TAGTT
65 CATTCATGCGAGTTG-CCACATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
*
93297799 ATATCCG-GCTAAATCCCGAAG
1 ATATCCGAGCTAAAACCCGAAG
93297820 ATTACTTGAG
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
118 13 0.11
119 20 0.17
120 56 0.47
121 29 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (121 bp):
ATATCCGAGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGAGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:93307605 original size:24 final size:24
Alignment explanation
Indices: 93307578--93307623 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
93307568 TATAATATGG
* * *
93307578 AAATGACTATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
93307602 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
93307624 GTTTAATTAT
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:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:93307685 original size:20 final size:20
Alignment explanation
Indices: 93307660--93307746 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
93307650 ATTCTGATAT
93307660 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
93307680 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
93307700 AGATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
93307720 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
93307740 ACATGAT
1 ACATGAT
93307747 GTATTCATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:93307687 original size:11 final size:11
Alignment explanation
Indices: 93307671--93307746 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
93307661 CATGATATGT
93307671 ATGATATGCAC
1 ATGATATGCAC
*
93307682 ATGATATG--T
1 ATGATATGCAC
*
93307691 ATGATATGCAG
1 ATGATATGCAC
*
93307702 ATGATATG--T
1 ATGATATGCAC
93307711 ATGATATGCAC
1 ATGATATGCAC
*
93307722 ATGATATG--T
1 ATGATATGCAC
93307731 ATGATATGCAC
1 ATGATATGCAC
93307742 ATGAT
1 ATGAT
93307747 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:93307694 original size:9 final size:9
Alignment explanation
Indices: 93307662--93307738 Score: 73
Period size: 9 Copynumber: 7.9 Consensus size: 9
93307652 TCTGATATAC
93307662 ATGATATGT
1 ATGATATGT
*
93307671 ATGATATGCAC
1 ATGATATG--T
93307682 ATGATATGT
1 ATGATATGT
*
93307691 ATGATATGCAG
1 ATGATATG--T
93307702 ATGATATGT
1 ATGATATGT
*
93307711 ATGATATGCAC
1 ATGATATG--T
93307722 ATGATATGT
1 ATGATATGT
93307731 ATGATATG
1 ATGATATG
93307739 CACATGATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:93307760 original size:40 final size:39
Alignment explanation
Indices: 93307660--93307760 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 39
93307650 ATTCTGATAT
*
93307660 ACATGATATGTATGATATGCACATGATATGTATGATATGC
1 ACATGA-ATGTATCATATGCACATGATATGTATGATATGC
* *
93307700 AGATGATATGTATGATATGCACATGATATGTATGATATGC
1 ACATGA-ATGTATCATATGCACATGATATGTATGATATGC
93307740 ACATG-ATGTATTCATAATGCA
1 ACATGAATGTA-TCAT-ATGCA
93307761 TTGGGATGGG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
38 5 0.09
39 3 0.05
40 48 0.86
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.35
Consensus pattern (39 bp):
ACATGAATGTATCATATGCACATGATATGTATGATATGC
Found at i:93307863 original size:24 final size:24
Alignment explanation
Indices: 93307793--93307877 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 24
93307783 GAGGAAGTGC
93307793 AAAAAGGGCTTTTGCCCCAGTTTACT
1 AAAAAGGGC-TTTGCCCCAGTTTA-T
*
93307819 AAAAAGGGTTTGTGCCCCAGTTTAT
1 AAAAAGGGCTT-TGCCCCAGTTTAT
*
93307844 CAAAAGGGCTTTGCCCCAG-TTAT
1 AAAAAGGGCTTTGCCCCAGTTTAT
*
93307867 TAAAAGAGGCT
1 AAAAAG-GGCT
93307878 AGGCCTCTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 9 0.17
24 12 0.23
25 12 0.23
26 20 0.38
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAAGGGCTTTGCCCCAGTTTAT
Found at i:93308125 original size:31 final size:31
Alignment explanation
Indices: 93308089--93308148 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
93308079 TATAGTGGAG
* *
93308089 GCTTCGGCCTAGTAATATGAAATATGAAAAT
1 GCTTCGGCCCACTAATATGAAATATGAAAAT
**
93308120 GCTTCGGCCCACTGTTATGAAATATGAAA
1 GCTTCGGCCCACTAATATGAAATATGAAA
93308149 TATGAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (31 bp):
GCTTCGGCCCACTAATATGAAATATGAAAAT
Found at i:93316807 original size:40 final size:40
Alignment explanation
Indices: 93316752--93317278 Score: 973
Period size: 40 Copynumber: 13.2 Consensus size: 40
93316742 CATTTGAATG
93316752 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
93316792 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
93316832 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
93316872 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
93316912 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
93316952 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
93316992 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
93317032 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
* * *
93317072 TATATCCGGGCTAAGACCTGAAGGCATTTGTACGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
*
93317112 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
* * *
93317152 TATATCCGGGCTAAGACCTGAAGGCATTTGTACGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
*
93317192 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
*
93317232 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA
1 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
93317272 TATATCC
1 TATATCC
93317279 NNNNNNNNNN
Statistics
Matches: 478, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 478 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (40 bp):
TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGA
Found at i:93323093 original size:40 final size:40
Alignment explanation
Indices: 93323042--93324026 Score: 1846
Period size: 40 Copynumber: 24.6 Consensus size: 40
93323032 CATTTGAATG
93323042 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323082 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323122 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323162 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323202 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323242 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323282 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323322 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323362 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323402 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323442 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323482 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323522 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323562 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323602 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323642 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323682 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323722 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323762 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
93323802 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
93323842 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
93323882 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
93323922 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * * *
93323962 ATATTCGGGCTATGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
93324002 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
93324027 ATTGAGCTTG
Statistics
Matches: 924, Mismatches: 19, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
39 2 0.00
40 921 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:93327809 original size:47 final size:45
Alignment explanation
Indices: 93327740--93327857 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 45
93327730 TGTGTGTGCT
* * *
93327740 AGTGTAAGACATGTCTGAGACATGTATCAACCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATG--GCAACCACATTAACGAGAGCC
* * *
93327786 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAAACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCAACCACATT--AACGAGAGCC
93327834 AGTGTAAGACATGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
93327858 CATCGGCCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
45 8 0.13
46 9 0.15
47 29 0.47
48 16 0.26
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCAACCACATTAACGAGAGCC
Found at i:93327888 original size:46 final size:47
Alignment explanation
Indices: 93327780--93327996 Score: 232
Period size: 46 Copynumber: 4.6 Consensus size: 47
93327770 CCACATTATG
* * * *
93327780 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAAACG-
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGT
*
93327828 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGT
* *
93327875 A-AGCCAATGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATGT
* * *
93327921 ---GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAC-GGATATGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTTGAGATGT
*
93327965 GAGAGCCAGTGTAATACCATGTCTGGGACATG
1 -AGAGCCAGTGTAAGA-CATGTCTGGGACATG
93327997 GCATTGGCAT
Statistics
Matches: 146, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
44 37 0.25
45 2 0.01
46 53 0.36
47 15 0.10
48 24 0.16
49 15 0.10
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGT
Found at i:93331897 original size:40 final size:40
Alignment explanation
Indices: 93331849--93332115 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
93331839 GCAAACACAT
* *
93331849 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
93331889 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
93331929 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
93331969 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
93332009 TTGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
93332049 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
93332089 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
93332116 ATCCAATGCT
Statistics
Matches: 214, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:93340388 original size:40 final size:40
Alignment explanation
Indices: 93340340--93340686 Score: 640
Period size: 40 Copynumber: 8.7 Consensus size: 40
93340330 GCAAACACAT
* * *
93340340 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
93340380 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
93340420 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
93340460 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
93340500 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
*
93340540 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
* *
93340580 TTGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
93340620 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
93340660 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
93340687 ATCCAATGCT
Statistics
Matches: 300, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 300 1.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAG
Found at i:93345160 original size:16 final size:17
Alignment explanation
Indices: 93345129--93345161 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
93345119 GATTAATACA
*
93345129 AAGCAACACTCAAAAAG
1 AAGCAAAACTCAAAAAG
93345146 AAGCAAAAC-CAAAAAG
1 AAGCAAAACTCAAAAAG
93345162 GGAAAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.21, G:0.12, T:0.03
Consensus pattern (17 bp):
AAGCAAAACTCAAAAAG
Found at i:93346672 original size:40 final size:39
Alignment explanation
Indices: 93346614--93346753 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 39
93346604 ATCGTCACAC
*
93346614 ACTAAGTGACAATACATAGCCGAAGCTATTTTAATCTCCAA
1 ACTAAGTG-CCATACATAGCCGAAGCTATTTTAATCT-CAA
*
93346655 ACTAAGTGCCATACATAGCCGAAGCTATTTTGAATCTCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATTTT-AATCTCAA
* * ** * *
93346695 ACTAAGTGCCATCCATA-CCTAAAGCTATCTCGAATCGCAT
1 ACTAAGTGCCATACATAGCC-GAAGCTAT-TTTAATCTCAA
93346735 ACTAAGTGCCATACATAGC
1 ACTAAGTGCCATACATAGC
93346754 TGTTGTTGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
39 2 0.02
40 69 0.80
41 15 0.17
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (39 bp):
ACTAAGTGCCATACATAGCCGAAGCTATTTTAATCTCAA
Found at i:93353710 original size:64 final size:64
Alignment explanation
Indices: 93353629--93353812 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
93353619 AGACATTATG
* *
93353629 ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
93353693 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAACAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-T-ATGTACACCATGTAGACAAGAGAGCTACGAGAT
93353758 AA
63 AA
* * *
93353760 ACTG--GCTAGGTCACATGGGTGGTACTA-AGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATA-TGTACACCATGTAG-ACAAGAGAGC
93353813 CGAACTATAT
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
62 2 0.02
63 18 0.19
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:93355426 original size:40 final size:40
Alignment explanation
Indices: 93355356--93355573 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
93355346 AAACCAAGTA
* * * *
93355356 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
93355395 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
93355435 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
93355475 CCTTCGAGACTTAGCCCGGATATAATAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
93355515 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
93355555 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
93355574 TTATCATCCT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 14 0.09
40 148 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:93360072 original size:43 final size:43
Alignment explanation
Indices: 93360024--93360110 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
93360014 TGTGACTTAA
93360024 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGAAAAATAAGGT
1 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGAAAAATAAGGT
*
93360067 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGGAAAATAAGGT
1 TCGTATAAAAAGTTTCTAACCTTTTCCACAAGAAAAATAAGGT
93360110 T
1 T
93360111 TTCTCCATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (43 bp):
TCGTATAAAAAGTTTCTAACCTTTTCCACAAGAAAAATAAGGT
Found at i:93366189 original size:14 final size:14
Alignment explanation
Indices: 93366156--93366182 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93366146 TTGGGGATTA
93366156 AGTGTTAATAAGAG
1 AGTGTTAATAAGAG
93366170 AGTGTTAATAAGA
1 AGTGTTAATAAGA
93366183 AGGTGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (14 bp):
AGTGTTAATAAGAG
Found at i:93366807 original size:27 final size:27
Alignment explanation
Indices: 93366777--93367202 Score: 407
Period size: 27 Copynumber: 16.0 Consensus size: 27
93366767 CCCCACAGGG
*
93366777 TAAAATGACTATTTTACCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
93366804 TAAAGTGACAATTTTGCCC--ATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
*
93366829 TAAAATGACTATTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGT
** ** * *
93366856 TAAAATGACGGTTTT-ATCGTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
93366882 CAAAATGACTATTTTACCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
93366909 CAAAATGACTTTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
93366936 TAAAATTACAATTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGT
* *
93366963 TAAAATGAC-AGTTTTGCCCTTATGGGG
1 TAAAATGACTA-TTTTGCCCTTATGTGT
* * *
93366990 CAAAATGACTGTTTTGCGC-T-TGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
93367015 CAAAATGGCTGTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
* * *
93367042 TAAAATGACAATTTTGCCCTCATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGT
* * * *
93367069 TAAAATGA-TAGTTTTGCCTTTTTATGG
1 TAAAATGACTA-TTTTGCCCTTATGTGT
* * *
93367096 AAAAATGAATGTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGT
** *
93367123 TAAAATGACGGTTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGT
* * * *
93367150 TAAAATGACAATTTTTCCCTTATGAGG
1 TAAAATGACTATTTTGCCCTTATGTGT
93367177 TAAAATGACTATTTTGCCCTTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
93367203 GTAGGATGAT
Statistics
Matches: 325, Mismatches: 65, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
25 43 0.13
26 23 0.07
27 258 0.79
28 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGT
Found at i:93367613 original size:18 final size:18
Alignment explanation
Indices: 93367552--93367626 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
93367542 AGGACTTGCA
*
93367552 TACTGTTTACTGTTATTG
1 TACTGTTTACTGTTACTG
* * *
93367570 CATAATG-TTACTGCTGCTG
1 --TACTGTTTACTGTTACTG
* * *
93367589 CACTGTTTAGTGTTATTG
1 TACTGTTTACTGTTACTG
93367607 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
93367625 TA
1 TA
93367627 ATGGGCCAAG
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
17 3 0.07
18 25 0.61
19 9 0.22
20 4 0.10
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:93370405 original size:24 final size:24
Alignment explanation
Indices: 93370337--93370406 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
93370327 GTGAAACTGC
* *
93370337 AAAGGCTGAAAAGCTGAAAACCCG
1 AAAGGCTGAAAAGCCGAAAAGCCG
* *
93370361 AACGGCTGAAAAGCCGAAAAGTCG
1 AAAGGCTGAAAAGCCGAAAAGCCG
*
93370385 AAAGGTTGAAAAGCCGAAAAGC
1 AAAGGCTGAAAAGCCGAAAAGC
93370407 GGGTTGTAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.46, C:0.19, G:0.27, T:0.09
Consensus pattern (24 bp):
AAAGGCTGAAAAGCCGAAAAGCCG
Found at i:93370851 original size:27 final size:27
Alignment explanation
Indices: 93370821--93371324 Score: 365
Period size: 27 Copynumber: 19.0 Consensus size: 27
93370811 TCCCATAGGG
*
93370821 TAAAATGACTGTTTTGCCCTTATATGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
93370848 TAAAATGAC-GATTTT-CCCTTATGTGT
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* *
93370874 TAAAATGA-TGATTTTGCCCGTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* *
93370901 TAAAATGA-TGGTTT-CACC--ATGTGG
1 TAAAATGACTGTTTTGC-CCTTATGTGT
* * *
93370925 CAAAATGACTGTCTTT-CCCTTATATTT
1 TAAAATGACTGT-TTTGCCCTTATGTGT
*
93370952 TAAAATGA-TGATTTTGCCCTTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* * * *
93370979 TAAAATGACGGTTTTTCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
93371006 CAAAATGAATGTTTTACCCTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
*
93371033 CAAAATGACTGTTTTTG-CCTTATGTGT
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* * *
93371060 TAACAT-AATGATTTTGCCCTTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGT
** * *
93371087 TAAAATGACAATTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
93371114 CAAAATGATTGTTTTG-CCTT-GGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
93371139 TAAAATGACGGATTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGT
** * *
93371166 TAAAATGACAATTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
93371193 CAAAATGATTGTTTTG-CCTT-GGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
93371218 TAAAATGACGGATTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGT
** * * *
93371245 TAAAATGACAATTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* *
93371272 TAAAATGACTAATTTT-CCCTTATGTGG
1 TAAAATGACT-GTTTTGCCCTTATGTGT
** * *
93371299 TAGGATGACTATTTTGCCCCTATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
93371325 ATGTATGTTT
Statistics
Matches: 378, Mismatches: 79, Indels: 40
0.76 0.16 0.08
Matches are distributed among these distances:
24 12 0.03
25 35 0.09
26 68 0.18
27 252 0.67
28 11 0.03
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGT
Found at i:93371174 original size:79 final size:79
Alignment explanation
Indices: 93370821--93371279 Score: 427
Period size: 79 Copynumber: 5.8 Consensus size: 79
93370811 TCCCATAGGG
* * * * * **
93370821 TAAAATGACTGTTTTGCCCTTATATGTTAAAATGACGA-TTTTCCCTTATGTGTTAAAATGATGA
1 TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGGCAAAATGATGA
*
93370885 TTTTGCCCGTAT-GTGA
66 TTTTG-CC-T-TGGTGT
* ** ** * * ***
93370901 TAAAATGATGG-TTT-CACC--ATGTGGCAAAATGACTGTCTTTCCCTTATATTTTAAAATGATG
1 TAAAATGACGGATTTGC-CCTTATGTGATAAAATGACAATTTTTCCCTTATGTGGCAAAATGATG
* *
93370962 ATTTTGCCCTTATGTGA
65 ATTTTG-CCTT-GGTGT
* * * ** *
93370979 TAAAATGACGGTTTTTCCCTTATATGGCAAAATG--AATGTTTTACCCTTATGTGTCAAAATGAC
1 TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAAT-TTTT-CCCTTATGTGGCAAAATGA-
* *
93371042 TGTTTTTGCCTTATGTGT
63 TGATTTTGCCTT-GGTGT
* **
93371060 TAACAT-AATGATTTTGCCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGGCAAAATGATT
1 TAAAATGACGGA-TTTGCCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGGCAAAATGA-T
93371124 G-TTTTGCCTTGGTGT
64 GATTTTGCCTTGGTGT
93371139 TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGGCAAAATGATTG
1 TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGGCAAAATGA-TG
93371204 -TTTTGCCTTGGTGT
65 ATTTTGCCTTGGTGT
* *
93371218 TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAATTTTTCCCTTATGAGGTAAAATGA
1 TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGGCAAAATGA
93371280 CTAATTTTCC
Statistics
Matches: 328, Mismatches: 36, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
76 1 0.00
77 13 0.04
78 46 0.14
79 147 0.45
80 27 0.08
81 80 0.24
82 11 0.03
83 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (79 bp):
TAAAATGACGGATTTGCCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGGCAAAATGATGA
TTTTGCCTTGGTGT
Found at i:93372071 original size:16 final size:16
Alignment explanation
Indices: 93372050--93372080 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93372040 AATTTTTTAA
93372050 ATTATAAGTAATTTTT
1 ATTATAAGTAATTTTT
*
93372066 ATTATAAGTAGTTTT
1 ATTATAAGTAATTTT
93372081 ATTCGGGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
ATTATAAGTAATTTTT
Found at i:93374028 original size:180 final size:180
Alignment explanation
Indices: 93373721--93374080 Score: 612
Period size: 180 Copynumber: 2.0 Consensus size: 180
93373711 AAATCATATT
** * *
93373721 CTTGTATTTAAAGTACATTTTCATAATAATTTGTCCCGAGTTCAGACTATTTCATGTCAGAAGTT
1 CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
* * *
93373786 TGCCCATTAAATCATTTGAAATGTTAGTGTCACACAGGTAGTACGCTAAAGGTGTTCAAATCTAT
66 TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
93373851 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
131 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
*
93373901 CTTGTATTTAAAGTACATTTTCATAATAATTCATCTCGAGTTCAAACTATTTCATGTCAGAACTT
1 CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
* * *
93373966 TTCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACATTCAAGGTGTACAAATCTAT
66 TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
*
93374031 GATCATGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
131 GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
93374081 ATCTCATATT
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
180 168 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (180 bp):
CTTGTATTTAAAGTACATTTTCATAATAATTCATCCCGAGTTCAAACTATTTCATGTCAGAACTT
TGCCCATTAAATCATTTGAAATGTCAGTGTCACACAGGTAGTACACTAAAGGTGTACAAATCTAT
GATCACGGATGACCATATTCATCAAGTAAATTCCATGTTCATATATCATC
Found at i:93374332 original size:25 final size:25
Alignment explanation
Indices: 93374304--93374351 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
93374294 AACCCTCTCT
93374304 TGAGCC-TAATAACAGGAAGCTCAGG
1 TGAGCCAT-ATAACAGGAAGCTCAGG
* *
93374329 TGAGCCATGTAACGGGAAGCTCA
1 TGAGCCATATAACAGGAAGCTCA
93374352 TAGGAGCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
TGAGCCATATAACAGGAAGCTCAGG
Found at i:93374482 original size:23 final size:23
Alignment explanation
Indices: 93374437--93374487 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
93374427 CAGATAACCA
*
93374437 AATATCGGGAAGTTCAAGCGAGC
1 AATATCGGGAAGTTCAAGAGAGC
*
93374460 AATATCTGGAAGCTTC-AGAGAGC
1 AATATCGGGAAG-TTCAAGAGAGC
*
93374483 CATAT
1 AATAT
93374488 AATAAGGCGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (23 bp):
AATATCGGGAAGTTCAAGAGAGC
Found at i:93381108 original size:25 final size:25
Alignment explanation
Indices: 93381080--93381172 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
93381070 AACCCTCTCT
*
93381080 TGAGCCATATAATAGGAAGCTCATG
1 TGAGCCATATAATAGGAAGCTCATA
* *
93381105 TGAGCCATGTAATAGGAAGC-CTATC
1 TGAGCCATATAATAGGAAGCTC-ATA
* * * *
93381130 TGGGCTATATAATGGGAAGCTTATA
1 TGAGCCATATAATAGGAAGCTCATA
* *
93381155 AGAGCCATA-ATTAGGAAG
1 TGAGCCATATAATAGGAAG
93381173 TTCACAAAGA
Statistics
Matches: 53, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
24 8 0.15
25 45 0.85
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (25 bp):
TGAGCCATATAATAGGAAGCTCATA
Found at i:93381411 original size:64 final size:64
Alignment explanation
Indices: 93381305--93381424 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
93381295 TCTGGAGAGC
* * ** * *
93381305 CATATAATAGGATGCTCATAAAGAGTTACGGTATGCCCGCAACACATGCATGATCACTACCAAT
1 CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCACTACCAAT
* * *
93381369 CATATAATAGAATGCTTAAAAAGACCTACGGTATGTCTGCAACACATCCAGGATCA
1 CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCA
93381425 ATAGTGATCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (64 bp):
CATATAATAGAATGCTCAAAAAGACCTACGGTATGCCCGCAACACATCCAGGATCACTACCAAT
Found at i:93390160 original size:21 final size:21
Alignment explanation
Indices: 93390112--93390160 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
93390102 AATAATTTTC
*
93390112 ATTTTTT-TTTCATGTTCAAG
1 ATTTTTTATTTCATGTACAAG
*
93390132 TTTTTTTATTTCAT-TACAAG
1 ATTTTTTATTTCATGTACAAG
93390152 ATTTCTTTA
1 ATTT-TTTA
93390161 CTCCATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTTTTTATTTCATGTACAAG
Found at i:93396238 original size:34 final size:34
Alignment explanation
Indices: 93396190--93396262 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
93396180 TCATTTGACA
*
93396190 AAAAGTTAACCATATTAAATTTATTATTAATTTT
1 AAAACTTAACCATATTAAATTTATTATTAATTTT
93396224 AAAACTTAACCATATTAAATTTATTATTAATTTT
1 AAAACTTAACCATATTAAATTTATTATTAATTTT
93396258 AAAAC
1 AAAAC
93396263 AATATATCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (34 bp):
AAAACTTAACCATATTAAATTTATTATTAATTTT
Found at i:93404667 original size:41 final size:43
Alignment explanation
Indices: 93404618--93404711 Score: 104
Period size: 41 Copynumber: 2.2 Consensus size: 43
93404608 TGTGGTTACG
* * *
93404618 TGTAAGACCATGTTTAGGACA-TCGACATCG-TATTTGAT-TCA
1 TGTAAGACCATGTCTAGGACAGT-GACATCGATATGTGATAGCA
* * *
93404659 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAGCA
1 TGTAAGACCATGTCTAGGACAGTGACATCGATATGTGATAGCA
93404702 TGTAAGACCA
1 TGTAAGACCA
93404712 CATCTAAGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 24 0.56
42 8 0.19
43 11 0.26
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGACATCGATATGTGATAGCA
Found at i:93408047 original size:46 final size:47
Alignment explanation
Indices: 93407997--93408124 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 47
93407987 GATTGAGCAT
*
93407997 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG-TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATGCAACAGGATC
* * * *
93408043 CGAACTCGTTCAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCAAC-AGG-ATC
93408090 CGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
93408125 GCGGGTTACA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 26 0.39
47 28 0.42
48 2 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCAACAGGATC
Found at i:93413753 original size:29 final size:28
Alignment explanation
Indices: 93413717--93413794 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
93413707 TCATGAGATT
*
93413717 GGCACTAAGTGTGCGGGTTTAATTTGTACA
1 GGCACTAAGTGTGCGGGTTTAA--AGTACA
*
93413747 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
93413774 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
93413795 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:93414069 original size:173 final size:174
Alignment explanation
Indices: 93413747--93414073 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
93413737 AATTTGTACA
* *
93413747 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
93413812 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGTGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
93413877 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
93413921 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
93413986 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
93414050 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
93414074 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 79 0.55
174 64 0.45
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:93418702 original size:46 final size:45
Alignment explanation
Indices: 93418652--93418827 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 45
93418642 TGATTGAGCA
93418652 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
93418698 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
93418743 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAATG
* *
93418791 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93418828 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:93418808 original size:93 final size:93
Alignment explanation
Indices: 93418649--93418820 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
93418639 GGATGATTGA
*
93418649 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
93418714 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
93418742 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
93418806 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
93418821 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93431455 original size:46 final size:47
Alignment explanation
Indices: 93431395--93431568 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 47
93431385 GGATTATTGT
* * *
93431395 GAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCATATTATAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TATGATAA
* * *
93431441 GAGCCAGTGTAAGACCATGTCTGCGACATGGCATCGGCGT-TGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTAT--GATAA
* * * * * *
93431489 GTGCTACTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTATGAGAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTATGATAA
*
93431533 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
93431569 ACACAGATAT
Statistics
Matches: 103, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
44 14 0.14
45 14 0.14
46 28 0.27
47 25 0.24
48 22 0.21
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTATGATAA
Found at i:93431564 original size:92 final size:94
Alignment explanation
Indices: 93431397--93431568 Score: 276
Period size: 92 Copynumber: 1.9 Consensus size: 94
93431387 ATTATTGTGA
* * *
93431397 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTATAAGAGCCAGTGTAAGACCATGTC
1 GCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATGTC
93431462 TGCGACATGGCATCGGCGTTGAGATGAGT
66 TGCGACATGGCATCGGCGTTGAGATGAGT
* *
93431491 GCTACTGTAAGACATGTTTGGGACATGCATCGG-C-TATGAGAGGTGCCAGTGTAAGACCATGTC
1 GCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATGTC
*
93431554 TGGGACATGGCATCG
66 TGCGACATGGCATCG
93431569 ACACAGATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 39 0.54
93 1 0.01
94 32 0.44
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (94 bp):
GCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATGTC
TGCGACATGGCATCGGCGTTGAGATGAGT
Found at i:93431594 original size:94 final size:94
Alignment explanation
Indices: 93431395--93431602 Score: 251
Period size: 92 Copynumber: 2.2 Consensus size: 94
93431385 GGATTATTGT
* * *
93431395 GAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCATATTATAAGAGCCAGTGTAAGACCATG
1 GAGCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATG
* ***
93431460 TCTGCGACATGGCATCGGCGTTGAGATGA
66 TCTGCGACATGGCATCGACACAGAGATGA
* * *
93431489 GTGCTACTGTAAGACATGTTTGGGACATGCATCGG-C-TATGAGAGGTGCCAGTGTAAGACCATG
1 GAGCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATG
* *
93431552 TCTGGGACATGGCATCGACACAGATATGCTA
66 TCTGCGACATGGCATCGACACAGAGATG--A
93431583 GAGCTTA-TGTAAGACCATGT
1 GAGC-TACTGTAAGA-CATGT
93431603 CTAGGACGTG
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
92 45 0.46
93 1 0.01
94 44 0.45
95 7 0.07
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
GAGCTACTGTAAGACATGTTTGGGACATGCATCGGCCATATGAGAAGAGCCAGTGTAAGACCATG
TCTGCGACATGGCATCGACACAGAGATGA
Found at i:93441923 original size:46 final size:44
Alignment explanation
Indices: 93441818--93441976 Score: 153
Period size: 46 Copynumber: 3.5 Consensus size: 44
93441808 AGGGCGAGTA
* *
93441818 TAAGACCATGTTTGGGACATGGCATCGGCGTTGA-GATGA-GTGCTAGTG
1 TAAGA-CATGTTTGGGACAT-GCATTGGC--T-ACGA-GACGTGCCAGTG
93441866 TAAGACATGTTTGGGACATGCATTGGCCT-CGAGACGTAAGCCAGTG
1 TAAGACATGTTTGGGACATGCATTGG-CTACGAGACGT--GCCAGTG
* * * *
93441912 TAAGACTTGTTTGGGACATGCATTGGCTACTAGAGGTGTCAGTG
1 TAAGACATGTTTGGGACATGCATTGGCTACGAGACGTGCCAGTG
93441956 TAAGACCATGTTTGGGACATG
1 TAAGA-CATGTTTGGGACATG
93441977 GTATCAACAC
Statistics
Matches: 97, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
43 2 0.02
44 15 0.15
45 17 0.18
46 43 0.44
47 15 0.15
48 5 0.05
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.28
Consensus pattern (44 bp):
TAAGACATGTTTGGGACATGCATTGGCTACGAGACGTGCCAGTG
Found at i:93444840 original size:20 final size:20
Alignment explanation
Indices: 93444811--93444857 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
93444801 ATTTTGATAA
*
93444811 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
93444831 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
93444851 ACGTGAT
1 ACATGAT
93444858 GTAATCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:93444914 original size:23 final size:23
Alignment explanation
Indices: 93444884--93444928 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
93444874 TGGGTTGGGT
93444884 TTTTATATGAATAGAGGAAGTGC
1 TTTTATATGAATAGAGGAAGTGC
*
93444907 TTTTATATGAATGGAGGAAGTG
1 TTTTATATGAATAGAGGAAGTG
93444929 AAAAAGGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.36
Consensus pattern (23 bp):
TTTTATATGAATAGAGGAAGTGC
Found at i:93444961 original size:23 final size:23
Alignment explanation
Indices: 93444931--93445072 Score: 230
Period size: 23 Copynumber: 6.1 Consensus size: 23
93444921 AGGAAGTGAA
93444931 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
93444954 AAAGGGCTTGTGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
93444977 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
93445000 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
93445023 AAAGGGCTCATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
93445046 AAAGGGGCTTTTGCCCCAATTATT
1 AAA-GGGCTTATGCCCCAGTTATT
93445070 AAA
1 AAA
93445073 AGAGGCTAGG
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
23 90 0.82
24 20 0.18
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:93446296 original size:21 final size:22
Alignment explanation
Indices: 93446257--93446297 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
93446247 TCAAATTGGT
93446257 CACACGAGCGTGTTGCCCCTCC
1 CACACGAGCGTGTTGCCCCTCC
*
93446279 CACACGGGCGTG-TGCCCCT
1 CACACGAGCGTGTTGCCCCT
93446298 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGAGCGTGTTGCCCCTCC
Found at i:93449815 original size:37 final size:37
Alignment explanation
Indices: 93449765--93449838 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
93449755 TCATTCCATC
* * *
93449765 AGATTTACTAGTAACTATGCACTTTTCTTTAGTGAAA
1 AGATTTAATAGTAACTATACACTTGTCTTTAGTGAAA
93449802 AGATTTAATAGTAACTATACACTTGTCTTTAGTGAAA
1 AGATTTAATAGTAACTATACACTTGTCTTTAGTGAAA
93449839 TTAACAAGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (37 bp):
AGATTTAATAGTAACTATACACTTGTCTTTAGTGAAA
Found at i:93452350 original size:22 final size:23
Alignment explanation
Indices: 93452313--93452356 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
93452303 TTTGTTGAAA
* *
93452313 ATTATCAAAATTAATTGAAATTT
1 ATTATCAAAATCAATTAAAATTT
93452336 ATTAT-AAAATCAATTAAAATT
1 ATTATCAAAATCAATTAAAATT
93452357 CAACATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATCAATTAAAATTT
Done.