Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 119 of 214
Found at i:36033010 original size:50 final size:50
Alignment explanation
Indices: 36032935--36033181 Score: 291
Period size: 50 Copynumber: 4.9 Consensus size: 50
36032925 CATGTCAACA
* *
36032935 CGAGATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
*
36032985 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGTCATTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * ** *
36033035 TGAGATGAGAGGTCTCC-TGTAAGACCATGTCTGGCACATGGTGTTGGAAC
1 CGAGATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * * * *
36033085 CGAGATGAGAGGTCCCCTGTAAGACCAT-TGCTGGGACATGACATGGGTAT
1 CGAGATGAGAGGTCCCATGTAAGACCATGT-CTGGGACATGGCATTGGCAC
* ** * * *
36033135 CGATATGAGAACTCCCATGTAAGACCATTTCTAGGATATGGCATTGG
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
36033182 GAGTATAGGA
Statistics
Matches: 168, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 3 0.02
50 162 0.96
51 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
Found at i:36036802 original size:12 final size:12
Alignment explanation
Indices: 36036766--36036815 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
36036756 ATTTTAATAG
*
36036766 ATTTAATATTAA
1 ATTTAATATTTA
*
36036778 ATTTATTATTTTA
1 ATTTAATA-TTTA
36036791 ATTTTAA-ATTTA
1 A-TTTAATATTTA
36036803 ATTTAATATTTA
1 ATTTAATATTTA
36036815 A
1 A
36036816 CTTGTAGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 5 0.16
12 18 0.56
13 5 0.16
14 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTAATATTTA
Found at i:36037024 original size:26 final size:24
Alignment explanation
Indices: 36036995--36037044 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
36036985 AATTGTAGAG
36036995 AGAAAATTCTCT-GAAGAAATTATTTC
1 AGAAAATT-TCTAG-AGAAATT-TTTC
36037021 AGAAAATTTCTAGAGAAATTTTTC
1 AGAAAATTTCTAGAGAAATTTTTC
36037045 TTATTTATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.17
25 10 0.43
26 9 0.39
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (24 bp):
AGAAAATTTCTAGAGAAATTTTTC
Found at i:36040889 original size:15 final size:15
Alignment explanation
Indices: 36040869--36040900 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36040859 CATTTCACTA
*
36040869 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
36040884 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
36040899 TT
1 TT
36040901 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:36042817 original size:62 final size:61
Alignment explanation
Indices: 36042733--36042864 Score: 160
Period size: 62 Copynumber: 2.1 Consensus size: 61
36042723 TTAATTTAAT
* * * *
36042733 ATTAAAGTAAGTATCTTAATATTAAATTTAATTTCATGTTTATCTTGAAGATAAATATTCTATTA
1 ATTAAA-TAAGTATCTTAATATTAAATTTAATCTAATATTTATCTT---GATAAATATTATATTA
*
36042798 ATTAAATAAG-AT-TTAATATTAAATTTAATCTAATATTTTTCTTGATAAATATTATATTA
1 ATTAAATAAGTATCTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTA
*
36042857 ATTTAATA
1 ATTAAATA
36042865 TTAAAGTGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
59 22 0.36
62 27 0.44
63 2 0.03
64 4 0.07
65 6 0.10
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (61 bp):
ATTAAATAAGTATCTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTA
Found at i:36043817 original size:12 final size:12
Alignment explanation
Indices: 36043800--36043824 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36043790 AGAAAGAAAG
36043800 AAAAAGAATTAA
1 AAAAAGAATTAA
36043812 AAAAAGAATTAA
1 AAAAAGAATTAA
36043824 A
1 A
36043825 GTAAAATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAAGAATTAA
Found at i:36044746 original size:30 final size:27
Alignment explanation
Indices: 36044675--36044754 Score: 103
Period size: 25 Copynumber: 2.9 Consensus size: 27
36044665 ATCCATATTT
36044675 ATGGAAAGTCAAAGATATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
36044702 AT--AAAGTCAAAGATATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
36044727 CTATTGGAAAG-CTAAAGATATGGGTATC
1 --A-TGGAAAGTC-AAAGATATGGGTATC
36044755 GAGATATTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
25 23 0.49
27 3 0.06
28 1 0.02
29 1 0.02
30 19 0.40
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (27 bp):
ATGGAAAGTCAAAGATATGGGTATCAA
Found at i:36049374 original size:25 final size:28
Alignment explanation
Indices: 36049339--36049425 Score: 108
Period size: 25 Copynumber: 3.1 Consensus size: 28
36049329 CATATTTATG
36049339 GAAAGTCAAAGATATGGGTATCAA-A-T
1 GAAAGTCAAAGATATGGGTATCAATATT
*
36049365 -AAAGTCAAAGGTATGGGTATCAATTATT
1 GAAAGTCAAAGATATGGGTATCAA-TATT
36049393 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 -GAAAGTCAAAGATATGGGTATC-A-ATATT
36049424 GA
1 GA
36049426 CATAAGAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
25 22 0.42
27 1 0.02
28 1 0.02
30 22 0.42
31 5 0.10
32 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.26
Consensus pattern (28 bp):
GAAAGTCAAAGATATGGGTATCAATATT
Found at i:36049401 original size:30 final size:27
Alignment explanation
Indices: 36049336--36049415 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 27
36049326 ATCCATATTT
36049336 ATGGAAAGTCAAAGATATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
*
36049363 AT--AAAGTCAAAGGTATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
36049388 TTATTGGAAAGTCAAAGATATGGGTATC
1 --A-TGGAAAGTCAAAGATATGGGTATC
36049416 GAGATATTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
25 22 0.48
27 3 0.07
28 1 0.02
30 20 0.43
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.26
Consensus pattern (27 bp):
ATGGAAAGTCAAAGATATGGGTATCAA
Found at i:36052150 original size:15 final size:15
Alignment explanation
Indices: 36052130--36052158 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36052120 GTTACCCCTA
36052130 CTATTGTACCTGTAC
1 CTATTGTACCTGTAC
36052145 CTATTGTACCTGTA
1 CTATTGTACCTGTA
36052159 TCGAGATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (15 bp):
CTATTGTACCTGTAC
Found at i:36058146 original size:40 final size:40
Alignment explanation
Indices: 36058062--36058286 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
36058052 TTGAATGATG
* * * *
36058062 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
36058102 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36058142 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36058181 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36058221 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36058262 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36058287 AACGTGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36058309 original size:119 final size:119
Alignment explanation
Indices: 36058062--36058290 Score: 266
Period size: 119 Copynumber: 1.9 Consensus size: 119
36058052 TTGAATGATG
* * *
36058062 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
36058127 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
36058181 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
36058244 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACG
36058291 TGGAGCTATA
Statistics
Matches: 92, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
118 3 0.03
119 67 0.73
120 22 0.24
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:36073521 original size:24 final size:24
Alignment explanation
Indices: 36073489--36073538 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
36073479 AAGATAGAAC
*
36073489 TTACAATGTATATTAATATATTTT
1 TTACAATGTATACTAATATATTTT
36073513 TTACAATGTATACTAATATATTTT
1 TTACAATGTATACTAATATATTTT
36073537 TT
1 TT
36073539 CTTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (24 bp):
TTACAATGTATACTAATATATTTT
Found at i:36081002 original size:17 final size:17
Alignment explanation
Indices: 36080942--36081004 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
36080932 TTATTATGCG
*
36080942 AAAATAAAAA-ATTCCT
1 AAAATAAAAATAATCCT
36080958 --AATAAAACATAATCCT
1 AAAATAAAA-ATAATCCT
*
36080974 AAAATATTAAATAA-CCT
1 AAAATA-AAAATAATCCT
36080991 AAGAATAAAAATAA
1 AA-AATAAAAATAA
36081005 AATAAAGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.18
15 1 0.03
16 5 0.13
17 11 0.29
18 12 0.32
19 2 0.05
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATAAAAATAATCCT
Found at i:36084119 original size:16 final size:17
Alignment explanation
Indices: 36084088--36084120 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36084078 CATATTCTAG
36084088 CATATATCAAAACATAT
1 CATATATCAAAACATAT
*
36084105 CATATA-CAGAACATAT
1 CATATATCAAAACATAT
36084121 AACAAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (17 bp):
CATATATCAAAACATAT
Found at i:36085636 original size:42 final size:43
Alignment explanation
Indices: 36085538--36085648 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 43
36085528 CTCGTACAAG
* *
36085538 GCCAACGTCCCAGAC-GTGGTCTTACTTGGAAACAAATATCGAT
1 GCCAATGTCCCAGACAG-GGTCTTACATGGAAACAAATATCGAT
* * *
36085581 GTCACTGTCCCAGACAGGGTCTTACAT-GAAATCATATA-CGAT
1 GCCAATGTCCCAGACAGGGTCTTACATGGAAA-CAAATATCGAT
*
36085623 GCCAATGTCCCAGACATGGTCTTACA
1 GCCAATGTCCCAGACAGGGTCTTACA
36085649 CGTAAGTCTC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.53
43 26 0.45
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACAGGGTCTTACATGGAAACAAATATCGAT
Found at i:36091957 original size:16 final size:17
Alignment explanation
Indices: 36091926--36091958 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
36091916 CATATTCTAG
36091926 CATATATCAAAACATAT
1 CATATATCAAAACATAT
*
36091943 CATATA-CAGAACATAT
1 CATATATCAAAACATAT
36091959 AACAAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (17 bp):
CATATATCAAAACATAT
Found at i:36093559 original size:42 final size:43
Alignment explanation
Indices: 36093477--36093586 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 43
36093467 TCTTACTTGT
* * * * *
36093477 AATCAAATATCGATGCCATTGTCCGAGACAGGGTCTTACACGA
1 AATCAAATATCGATGCCAATGTCCCAAACAGAGTCCTACACGA
* *
36093520 AATCATATAT-GATGCCAATGTCCCAAACATAGTCCTACACGTA
1 AATCAAATATCGATGCCAATGTCCCAAACAGAGTCCTACACG-A
* * *
36093563 AGTCTCAA-ATCGATGCCAAAGTCC
1 AATC-AAATATCGATGCCAATGTCC
36093587 TAGCGTGGGC
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 25 0.47
43 15 0.28
44 13 0.25
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATGTCCCAAACAGAGTCCTACACGA
Found at i:36097639 original size:11 final size:11
Alignment explanation
Indices: 36097611--36097652 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
36097601 CTTCATTCAT
*
36097611 CATCCCCCAAG
1 CATCCCTCAAG
36097622 CATCCCTCAAG
1 CATCCCTCAAG
*
36097633 CATCCCTCAAT
1 CATCCCTCAAG
*
36097644 CATTCCTCA
1 CATCCCTCA
36097653 TTCATTCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.26, C:0.48, G:0.05, T:0.21
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:36120517 original size:21 final size:21
Alignment explanation
Indices: 36120493--36120560 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
36120483 ACTCATATGA
36120493 GTTTCAGTTTAACCCTTTTGG
1 GTTTCAGTTTAACCCTTTTGG
* * *
36120514 GTTTCAGTTCAGCTCTTTTGAG
1 GTTTCAGTTTAACCCTTTTG-G
*
36120536 CTTT-AGTTTAA-CCTTTATGG
1 GTTTCAGTTTAACCCTTT-TGG
36120556 GTTTC
1 GTTTC
36120561 CATTTAGCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 8 0.22
21 24 0.67
22 4 0.11
ACGTcount: A:0.15, C:0.18, G:0.19, T:0.49
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTTTGG
Found at i:36120615 original size:21 final size:21
Alignment explanation
Indices: 36120554--36120615 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
36120544 TAACCTTTAT
* *
36120554 GGGTTTCCATTTAGCACTTAT
1 GGGTTTCCGTTTAGCACTTAC
* * * *
36120575 GAGCTTCCGTTTAACCCTTAC
1 GGGTTTCCGTTTAGCACTTAC
*
36120596 GGGTTTTCGTTTAGCACTTA
1 GGGTTTCCGTTTAGCACTTA
36120616 TGTGCTTCTG
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (21 bp):
GGGTTTCCGTTTAGCACTTAC
Found at i:36120623 original size:42 final size:42
Alignment explanation
Indices: 36120488--36120623 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 42
36120478 ACTTAACTCA
* * ** * *
36120488 TATGAGTTTCAGTTTAACCCTTTTGGGTTT-CAGTTCAGCTCT
1 TATGAGCTTCCGTTTAACCCTTACGGGTTTCCA-TTTAGCACT
* ** * *
36120530 TTTGAGCTTTAGTTTAACCTTTATGGGTTTCCATTTAGCACT
1 TATGAGCTTCCGTTTAACCCTTACGGGTTTCCATTTAGCACT
* *
36120572 TATGAGCTTCCGTTTAACCCTTACGGGTTTTCGTTTAGCACT
1 TATGAGCTTCCGTTTAACCCTTACGGGTTTCCATTTAGCACT
*
36120614 TATGTGCTTC
1 TATGAGCTTC
36120624 TGTGCAGCCT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 76 0.97
43 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (42 bp):
TATGAGCTTCCGTTTAACCCTTACGGGTTTCCATTTAGCACT
Found at i:36121490 original size:13 final size:13
Alignment explanation
Indices: 36121472--36121496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36121462 GCCTAGCACA
36121472 TGGTCGTGTGACT
1 TGGTCGTGTGACT
36121485 TGGTCGTGTGAC
1 TGGTCGTGTGAC
36121497 CCTTGCACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.40, T:0.36
Consensus pattern (13 bp):
TGGTCGTGTGACT
Found at i:36125112 original size:18 final size:17
Alignment explanation
Indices: 36125092--36125125 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36125082 CATTTTTGGA
*
36125092 AAAACCTTTATTTTCGT
1 AAAACCTTGATTTTCGT
36125109 AAAACCTTGATTTTCGT
1 AAAACCTTGATTTTCGT
36125126 CAAATGCCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (17 bp):
AAAACCTTGATTTTCGT
Found at i:36132847 original size:27 final size:27
Alignment explanation
Indices: 36132723--36132841 Score: 98
Period size: 27 Copynumber: 4.4 Consensus size: 27
36132713 AAAGGTTGTT
*
36132723 AAATGACAGTAATACCCCCA-TAAGGTA
1 AAATGACCGTAATA-CCCCAGTAAGGTA
* * * *
36132750 AAATGACTGAAATACCCCTGTAGGGT-
1 AAATGACCGTAATACCCCAGTAAGGTA
* * *** *
36132776 AAATGATCGTAATGCCATTGTAGGGTA
1 AAATGACCGTAATACCCCAGTAAGGTA
**
36132803 AAATGTTCGTAATACCCCAGTAAGGTA
1 AAATGACCGTAATACCCCAGTAAGGTA
36132830 AAATGACCGTAA
1 AAATGACCGTAA
36132842 CGCCCCTAGA
Statistics
Matches: 72, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
26 24 0.33
27 48 0.67
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATGACCGTAATACCCCAGTAAGGTA
Found at i:36133194 original size:21 final size:21
Alignment explanation
Indices: 36133153--36133194 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36133143 TATCCCCACA
* *
36133153 TGGTGTGTTGGTTGGTATGGG
1 TGGTGTATTGGTTGATATGGG
36133174 TGGTGTATTGGTTTGAT-TGGG
1 TGGTGTATTGG-TTGATATGGG
36133195 CTGGATTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.07, C:0.00, G:0.48, T:0.45
Consensus pattern (21 bp):
TGGTGTATTGGTTGATATGGG
Found at i:36137292 original size:14 final size:14
Alignment explanation
Indices: 36137264--36137302 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
36137254 CTAGAAAAAG
*
36137264 AAACAATTTTCCAA
1 AAACCATTTTCCAA
* *
36137278 AAATCATTTTTCAA
1 AAACCATTTTCCAA
36137292 AAACCATTTTC
1 AAACCATTTTC
36137303 GGTCAAACAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
AAACCATTTTCCAA
Found at i:36140213 original size:18 final size:19
Alignment explanation
Indices: 36140176--36140214 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
36140166 ATTAAAGAAT
*
36140176 AATTTAATTTTAGTGTTAA
1 AATTTAATTTTAGTGGTAA
*
36140195 AATTT-ATTTTTGTGGTAA
1 AATTTAATTTTAGTGGTAA
36140213 AA
1 AA
36140215 ATTTGACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (19 bp):
AATTTAATTTTAGTGGTAA
Found at i:36140797 original size:15 final size:17
Alignment explanation
Indices: 36140776--36140815 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
36140766 TAATTTTTTA
36140776 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
36140792 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
36140808 AAAATTAT
1 AAAATTAT
36140816 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:36145837 original size:16 final size:16
Alignment explanation
Indices: 36145816--36145847 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36145806 AAATTGGTTG
*
36145816 ATTTTTAGTTTAATTA
1 ATTTTTAGGTTAATTA
36145832 ATTTTTAGGTTAATTA
1 ATTTTTAGGTTAATTA
36145848 GATGAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTTTTAGGTTAATTA
Found at i:36151352 original size:27 final size:27
Alignment explanation
Indices: 36151240--36151367 Score: 96
Period size: 27 Copynumber: 4.7 Consensus size: 27
36151230 AATCCATTGG
** * *
36151240 GACAGTAAATGTGGGGTAGTCCACTAG
1 GACAGTAAACATGGGGTAGTTCACTAA
* *
36151267 GACAGTAAACATGGGGTAGCTCA-TCGA
1 GACAGTAAACATGGGGTAGTTCACT-AA
* * ** * *
36151294 TACAATAAACGCGGGGTAATTCACTGA
1 GACAGTAAACATGGGGTAGTTCACTAA
* *
36151321 TACAGTAAACATGGGGTAGTTCGCTAA
1 GACAGTAAACATGGGGTAGTTCACTAA
* *
36151348 GACAGTAAACACGAGGTAGT
1 GACAGTAAACATGGGGTAGT
36151368 CTATTGGGAC
Statistics
Matches: 78, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
26 1 0.01
27 76 0.97
28 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (27 bp):
GACAGTAAACATGGGGTAGTTCACTAA
Found at i:36154789 original size:6 final size:6
Alignment explanation
Indices: 36154778--36154814 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
36154768 GTGATGATGT
36154778 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA AAAGGA A
36154815 TGGTTTCGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:36175736 original size:50 final size:50
Alignment explanation
Indices: 36175602--36175927 Score: 327
Period size: 50 Copynumber: 6.6 Consensus size: 50
36175592 CGATCTCATA
* * * * *
36175602 TAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGA-G--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA-TG
* * * * *
36175650 CAAGACCATGTCTGGGACATGGCGTTGCCACAGAGATGAGAAGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
*
36175700 TAAGACCATG-CTTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCATG
1 TAAGACCATGTC-TGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * * * * *
36175750 TAAGACCATCTCTGGGACATTGCGTTGGCACCAAGATGAGAGGTACCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * * * * *
36175800 TAAAACCATGTCTAGGACATGGCGTTGGCACCGGGATGATAGGTCCCCTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* * * * **
36175850 TAAGACCATGTCTGGGACATGACATGGGCACCGATATAAGATCTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
* *
36175900 TAAGACCATATCTGGGATATGGCATTGG
1 TAAGACCATGTCTGGGACATGGCATTGG
36175928 TAGTACAGGA
Statistics
Matches: 226, Mismatches: 47, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
48 33 0.15
49 2 0.01
50 187 0.83
51 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATG
Found at i:36177538 original size:23 final size:23
Alignment explanation
Indices: 36177500--36177550 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
36177490 GGGAGAGAAA
*
36177500 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
36177523 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
36177546 AGTAA
1 TGTAA
36177551 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:36181691 original size:47 final size:46
Alignment explanation
Indices: 36181639--36181930 Score: 182
Period size: 49 Copynumber: 6.2 Consensus size: 46
36181629 TGGTTAGACC
* *
36181639 ATGGCAACATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCATGTGATATGTGA-TTCCGTGTAAGACCATAGCTGGGCT
* * * * * *
36181686 ATGGCATCGGTGTGATGTGATTATGAGTTCCGTATAAAACCATATCTGGGAT
1 ATGGCATC-ATGTGA--T-A-TGTGA-TTCCGTGTAAGACCATAGCTGGGCT
** * * * * * *
36181738 ATGGCATTGGTGTGATATGTGCTACTGTGTAAAACCATATCTGGGAT
1 ATGGCA-TCATGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCT
*
36181785 ATGGCATCA---G---TGTGATTGCGTGTAAGACCATAGCTGGGCT
1 ATGGCATCATGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCT
* * *
36181825 ACGGCATCAGTAAGTGATACGTGATTCCGTGTAAGACCATAGCTGGACT
1 ATGGCATCA-T--GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCT
* * * ** *
36181874 ATGTCATTGCTATGTGTTATGTGATTACGTGTAAGACCATAATTGGACT
1 ATGGCA-T-C-ATGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCT
36181923 ATGGCATC
1 ATGGCATC
36181931 GAGAAAACGA
Statistics
Matches: 193, Mismatches: 34, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
40 31 0.16
43 1 0.01
46 2 0.01
47 36 0.19
48 9 0.05
49 68 0.35
50 3 0.02
51 3 0.02
52 39 0.20
53 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (46 bp):
ATGGCATCATGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCT
Found at i:36181728 original size:52 final size:53
Alignment explanation
Indices: 36181647--36181753 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 53
36181637 CCATGGCAAC
* * * *
36181647 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATATGAGTTCCGTATAAAACCATAGCTGGGATATGGCATCGGTGTG
* *
36181700 ATGTGAT-TATGAGTTCCGTATAAAACCATATCTGGGATATGGCATTGGTGTG
1 ATGTGATATATGAGTTCCGTATAAAACCATAGCTGGGATATGGCATCGGTGTG
36181752 AT
1 AT
36181754 ATGTGCTACT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 41 0.85
53 7 0.15
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (53 bp):
ATGTGATATATGAGTTCCGTATAAAACCATAGCTGGGATATGGCATCGGTGTG
Found at i:36187335 original size:16 final size:18
Alignment explanation
Indices: 36187303--36187335 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36187293 TACGAATTGC
36187303 ATAAAATATTACCTAAAA
1 ATAAAATATTACCTAAAA
36187321 ATAAAAT-TT-CCTAAA
1 ATAAAATATTACCTAAA
36187336 TATTCATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAATATTACCTAAAA
Found at i:36187577 original size:15 final size:15
Alignment explanation
Indices: 36187557--36187586 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
36187547 TGAATGTAAT
36187557 TCACTCATGAAGCTA
1 TCACTCATGAAGCTA
36187572 TCACTCATGAAGCTA
1 TCACTCATGAAGCTA
36187587 AGGCTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (15 bp):
TCACTCATGAAGCTA
Found at i:36195316 original size:22 final size:22
Alignment explanation
Indices: 36195288--36195363 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
36195278 AAGTGTATAT
36195288 ATGTGATAATGCCTAATGGCCG
1 ATGTGATAATGCCTAATGGCCG
*** ****
36195310 ATGTGATGAATGTGAAAGTGTATAA
1 ATGTGAT-AATGCCTAA-TG-GCCG
36195335 ATGTGATAATGCCTAATGGCCG
1 ATGTGATAATGCCTAATGGCCG
36195357 ATGTGAT
1 ATGTGAT
36195364 GGATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.30
Consensus pattern (22 bp):
ATGTGATAATGCCTAATGGCCG
Found at i:36195449 original size:49 final size:47
Alignment explanation
Indices: 36195203--36195521 Score: 530
Period size: 47 Copynumber: 6.7 Consensus size: 47
36195193 ATGATAGTAT
36195203 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
36195250 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
36195297 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
36195344 TGCCTAATGGCCGATGTGATGGATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36195391 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
* *
36195440 GGCCTAATGGCCGATGTTATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
36195489 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
36195522 CCCGAAGGGC
Statistics
Matches: 260, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 168 0.65
49 88 0.34
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:36195695 original size:37 final size:37
Alignment explanation
Indices: 36195639--36195717 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36195629 CCGAGCTCTA
* * *
36195639 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
36195676 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
36195713 AAGAC
1 AAGAC
36195718 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:36196665 original size:43 final size:43
Alignment explanation
Indices: 36196616--36196718 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
36196606 TTGGTTTTCA
36196616 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTAAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTAAGATTG
* *
36196659 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTAAGATTG
36196702 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
36196719 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTAAGATTG
Found at i:36196735 original size:29 final size:29
Alignment explanation
Indices: 36196700--36196773 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
36196690 GTTGTGAGAT
* *
36196700 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
36196729 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
36196758 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36196774 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:36197208 original size:40 final size:40
Alignment explanation
Indices: 36197164--36197400 Score: 303
Period size: 40 Copynumber: 5.9 Consensus size: 40
36197154 GAGTTACTAA
* *
36197164 ATCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
36197204 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
36197244 ATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
36197284 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* ** * * * *
36197324 ATCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * *
36197364 ATCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
36197401 CGTGTATTCG
Statistics
Matches: 171, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 171 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:36197256 original size:80 final size:80
Alignment explanation
Indices: 36197084--36197400 Score: 334
Period size: 80 Copynumber: 4.0 Consensus size: 80
36197074 TCGAATGATG
* ** * * *
36197084 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGGCTAAGTGACCATATCCAGACTAAGATCCGAAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGT-GCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGC
** * * *
36197146 ATTGGTGCGAGTTACTAAA
63 ATTCATGCTAGTGA-TATA
* *
36197165 TCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
36197230 CATGCTAGTGATATA
66 CATGCTAGTGATATA
*
36197245 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
*
36197310 CGTGCTAGTGATATA
66 CATGCTAGTGATATA
* ** * * * * * * * *
36197325 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGTAAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
*
36197390 CATGCTGGTGA
66 CATGCTAGTGA
36197401 CGTGTATTCG
Statistics
Matches: 202, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 159 0.79
81 35 0.17
82 5 0.02
83 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
CATGCTAGTGATATA
Found at i:36200869 original size:47 final size:47
Alignment explanation
Indices: 36200806--36201178 Score: 683
Period size: 47 Copynumber: 7.9 Consensus size: 47
36200796 ATGATAGTAT
36200806 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
36200853 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36200900 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
36200947 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36200994 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
36201041 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
36201088 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGATAA
36201139 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
36201179 ATATGTGATA
Statistics
Matches: 317, Mismatches: 5, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
47 271 0.85
51 46 0.15
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:36213506 original size:22 final size:22
Alignment explanation
Indices: 36213478--36213519 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
36213468 ATCATTAGTC
36213478 GGTGATCG-TTTGGTAAATTGTT
1 GGTGATCGATTT-GTAAATTGTT
36213500 GGTGATCGATTTGTAAATTG
1 GGTGATCGATTTGTAAATTG
36213520 ATTTCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.21, C:0.05, G:0.31, T:0.43
Consensus pattern (22 bp):
GGTGATCGATTTGTAAATTGTT
Found at i:36213645 original size:10 final size:10
Alignment explanation
Indices: 36213630--36213655 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
36213620 TTTTTAATTT
36213630 TAAAATTTTA
1 TAAAATTTTA
36213640 TAAAATTTTA
1 TAAAATTTTA
36213650 TAAAAT
1 TAAAAT
36213656 AAAAGACAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:36221177 original size:62 final size:62
Alignment explanation
Indices: 36221102--36221223 Score: 199
Period size: 62 Copynumber: 2.0 Consensus size: 62
36221092 ATTATGAGAG
* *
36221102 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGCCACCGAGATGAGAGATCCCATGTAAA
1 GTCCCATGTAAGACCATGTCTGGAACATGGCGTTGCCACCGAGATAAGAGATCCCATGTAAA
* * *
36221164 GTCCCATGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATAAGAGGTCTCATGTA
1 GTCCCATGTAAGACCATGTCTGGAACATGGCGTTGCCACCGAGATAAGAGATCCCATGTA
36221224 GGACCATGTC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (62 bp):
GTCCCATGTAAGACCATGTCTGGAACATGGCGTTGCCACCGAGATAAGAGATCCCATGTAAA
Found at i:36221223 original size:50 final size:49
Alignment explanation
Indices: 36221164--36221330 Score: 181
Period size: 50 Copynumber: 3.3 Consensus size: 49
36221154 CCCATGTAAA
* *
36221164 GTCCCATGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATAAGAG
1 GTCCCATGTAAGACCATGTCTGG-ACATGGCGTTGGCACCTAGATGAGAG
* * * * *
36221214 GTCTCATGTAGGACCATGTCTTGGAGATGTCGTTAGCACCTAGATGAGAG
1 GTCCCATGTAAGACCATGTC-TGGACATGGCGTTGGCACCTAGATGAGAG
** * * * *
36221264 GTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAA
1 GTCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCTAGATGAGAG
*
36221314 CTCCCATGTAAGACCAT
1 GTCCCATGTAAGACCAT
36221331 ATTTGGGATA
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 1 0.01
50 90 0.96
51 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (49 bp):
GTCCCATGTAAGACCATGTCTGGACATGGCGTTGGCACCTAGATGAGAG
Found at i:36221338 original size:50 final size:49
Alignment explanation
Indices: 36221271--36221390 Score: 143
Period size: 49 Copynumber: 2.4 Consensus size: 49
36221261 GAGGTCCCCC
* *
36221271 GTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC-TCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCA-CTACAAGA-AACATCCCAT
* * * * *
36221321 GTAAGACCATATTTGGGATATGGCATTGGCAGTACAAGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACTACAAGAAACATCCCAT
*
36221370 GTAAGACTATGTCTGGGACAT
1 GTAAGACCATGTCTGGGACAT
36221391 ATCTTTGGCA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.05
49 28 0.48
50 27 0.47
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACTACAAGAAACATCCCAT
Found at i:36221387 original size:49 final size:50
Alignment explanation
Indices: 36221165--36221390 Score: 152
Period size: 50 Copynumber: 4.5 Consensus size: 50
36221155 CCATGTAAAG
* * * * * **
36221165 TCCCATGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATA-AGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACA-AGAGAAC
* * * * * * ** * * **
36221215 TCTCATGTAGGACCATGTCTTGGAGATGTCGTTAGCACCTAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC
** * *
36221265 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC
* * * * *
36221315 TCCCATGTAAGACCATATTTGGGATATGGCATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC
*
36221363 ATCCCATGTAAGACTATGTCTGGGACAT
1 -TCCCATGTAAGACCATGTCTGGGACAT
36221391 ATCTTTGGCA
Statistics
Matches: 139, Mismatches: 35, Indels: 5
0.78 0.20 0.03
Matches are distributed among these distances:
48 3 0.02
49 28 0.20
50 108 0.78
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC
Found at i:36225496 original size:15 final size:15
Alignment explanation
Indices: 36225476--36225505 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36225466 ACCATGATAA
*
36225476 ATTTGTGAAATGTTG
1 ATTTGTAAAATGTTG
36225491 ATTTGTAAAATGTTG
1 ATTTGTAAAATGTTG
36225506 TATAGGCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (15 bp):
ATTTGTAAAATGTTG
Found at i:36231997 original size:25 final size:25
Alignment explanation
Indices: 36231963--36232205 Score: 204
Period size: 25 Copynumber: 9.7 Consensus size: 25
36231953 AAATAACATG
* * **
36231963 CCACGAAGGCTTTCCTGAGAATTTT
1 CCACAAAGGCTTTCCAGAGAATTCA
** * *
36231988 CCACAAAGGCTTTTAAGAGGATTCG
1 CCACAAAGGCTTTCCAGAGAATTCA
** *
36232013 CTGCAAAGGCTTTCCAGAGAATTTA
1 CCACAAAGGCTTTCCAGAGAATTCA
* * *
36232038 CCACAAAGCCTTTCTAGAGGATTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
36232063 CCACAAAGGCTTTCCAGAGAATTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
* *
36232088 CCACAAAGGCTTTTCAGA-AGATTCG
1 CCACAAAGGCTTTCCAGAGA-ATTCA
* * * **
36232113 CCACAAAGGATTTCCAAATAATTTT
1 CCACAAAGGCTTTCCAGAGAATTCA
36232138 CCACAAAGGCTGTT-CAGA-AGATTCA
1 CCACAAAGGCT-TTCCAGAGA-ATTCA
**
36232163 TGACAAAGGCTTTCCAGAGAATTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
* * *
36232188 CCGCAAAGACTTTTCAGA
1 CCACAAAGGCTTTCCAGA
36232206 CATCTGTGTT
Statistics
Matches: 171, Mismatches: 41, Indels: 12
0.76 0.18 0.05
Matches are distributed among these distances:
24 4 0.02
25 163 0.95
26 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (25 bp):
CCACAAAGGCTTTCCAGAGAATTCA
Found at i:36232043 original size:50 final size:50
Alignment explanation
Indices: 36231962--36232205 Score: 274
Period size: 50 Copynumber: 4.9 Consensus size: 50
36231952 CAAATAACAT
* * * * *
36231962 GCCACGAAGGCTTTCCTGAGAATTTTCCACAAAGGCTTTTAAGAGGATTC
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGAAGATTC
** * *
36232012 GCTGCAAAGGCTTTCCAGAGAATTTACCACAAA-GCCTTTCTAGAGGATTC
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTC-AGAAGATTC
* *
36232062 ACCACAAAGGCTTTCCAGAGAATTCACCACAAAGGCTTTTCAGAAGATTC
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGAAGATTC
* * * * *
36232112 GCCACAAAGGATTTCCAAATAATTTTCCACAAAGGCTGTTCAGAAGATTC
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGAAGATTC
*** * * *
36232162 ATGACAAAGGCTTTCCAGAGAATTCACCGCAAAGACTTTTCAGA
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGA
36232206 CATCTGTGTT
Statistics
Matches: 161, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 5 0.03
50 150 0.93
51 6 0.04
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (50 bp):
GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGAAGATTC
Found at i:36232142 original size:100 final size:100
Alignment explanation
Indices: 36231963--36232205 Score: 308
Period size: 100 Copynumber: 2.4 Consensus size: 100
36231953 AAATAACATG
* * ** * * ** *
36231963 CCACGAAGGCTTTCCTGAGAATTTTCCACAAAGGCTTTTAAGAGGATTCGCTGCAAAGGCTTTCC
1 CCACAAAGGCTTTCCAGAGAATTCACCACAAAGGCTTTTCAGAAGATTCGCCACAAAGGATTTCC
* *
36232028 AGAGAATTTACCACAAAGCCT-TTCTAGAGGATTCA
66 AAAGAATTTACCACAAAGCCTGTTC-AGAAGATTCA
36232063 CCACAAAGGCTTTCCAGAGAATTCACCACAAAGGCTTTTCAGAAGATTCGCCACAAAGGATTTCC
1 CCACAAAGGCTTTCCAGAGAATTCACCACAAAGGCTTTTCAGAAGATTCGCCACAAAGGATTTCC
* * *
36232128 AAATAATTTTCCACAAAGGCTGTTCAGAAGATTCA
66 AAAGAATTTACCACAAAGCCTGTTCAGAAGATTCA
** * *
36232163 TGACAAAGGCTTTCCAGAGAATTCACCGCAAAGACTTTTCAGA
1 CCACAAAGGCTTTCCAGAGAATTCACCACAAAGGCTTTTCAGA
36232206 CATCTGTGTT
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
100 121 0.98
101 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (100 bp):
CCACAAAGGCTTTCCAGAGAATTCACCACAAAGGCTTTTCAGAAGATTCGCCACAAAGGATTTCC
AAAGAATTTACCACAAAGCCTGTTCAGAAGATTCA
Found at i:36246747 original size:27 final size:27
Alignment explanation
Indices: 36246717--36246770 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
36246707 ATATATAATT
36246717 ATTA-TAAAATAATTAAATTTTACTTAA
1 ATTATTAAAAT-ATTAAATTTTACTTAA
* * *
36246744 ATTATTAACATGTTGAATTTTACTTAA
1 ATTATTAAAATATTAAATTTTACTTAA
36246771 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTATTAAAATATTAAATTTTACTTAA
Found at i:36248753 original size:53 final size:54
Alignment explanation
Indices: 36248679--36248936 Score: 308
Period size: 53 Copynumber: 4.8 Consensus size: 54
36248669 AAATACCCTA
* * *
36248679 ATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCC
1 ATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACTGAAATATCCCC
** * * *
36248733 ATA-AATAAAATGACTAAAATACCCTCATATGGTAAAATGA-TCGAAATATCCCT
1 ATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACT-GAAATATCCCC
* * * * * * *
36248786 ATCGGGTAAAATAACTTAATTACCCCTATAGGGTAAAATGACCGAATTATCCCC
1 ATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACTGAAATATCCCC
* * *
36248840 ATAGGGTAAAATGACTGAATTACCCCCATAAGGT-AAATGACTGAAATATCCCC
1 ATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACTGAAATATCCCC
36248893 ATAGGGTAAAATGA-TCAAAATACCCCCATAGGGTAAAATGACTG
1 ATAGGGTAAAATGACT-AAAATACCCCCATAGGGTAAAATGACTG
36248937 TTATACCTCT
Statistics
Matches: 169, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.01
53 88 0.52
54 79 0.47
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.23
Consensus pattern (54 bp):
ATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGACTGAAATATCCCC
Found at i:36248795 original size:80 final size:81
Alignment explanation
Indices: 36248662--36248936 Score: 333
Period size: 80 Copynumber: 3.4 Consensus size: 81
36248652 TTACATTGTT
*
36248662 ATGACCAAAATACCCTAATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAAT
1 ATGACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAAT
**
36248727 ACCCCCATA-AATAAA
66 ACCCCCATAGGGTAAA
* * * * * * *
36248742 ATGACTAAAATACCCTCATATGGTAAAATGA-TCGAAATATCCCTATCGGGTAAAATAACTTAAT
1 ATGACCAAAATACCCTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATAACTGAAA
*
36248806 TACCCCTATAGGGTAAA
65 TACCCCCATAGGGTAAA
* * * * *
36248823 ATGACCGAATTATCCC-CATAGGGTAAAATGACTGAATTACCCCCATAAGGT-AAATGACTGAAA
1 ATGACCAAAATA-CCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAA
*
36248886 TATCCCCATAGGGTAAA
65 TACCCCCATAGGGTAAA
* *
36248903 ATGATCAAAATACCCCCATAGGGTAAAATGACTG
1 ATGACCAAAATACCCTCATAGGGTAAAATGACTG
36248937 TTATACCTCT
Statistics
Matches: 162, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
79 4 0.02
80 114 0.70
81 40 0.25
82 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (81 bp):
ATGACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAAT
ACCCCCATAGGGTAAA
Found at i:36248914 original size:134 final size:135
Alignment explanation
Indices: 36248674--36248931 Score: 369
Period size: 134 Copynumber: 1.9 Consensus size: 135
36248664 GACCAAAATA
*
36248674 CCCTAATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAAAT
1 CCCTAATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAAAT
* * * * *
36248739 AAAATGACTAAAATACCCTCATATGGTAAAATGATCGAAATATCCCTATCGGGTAAAATAACTTA
66 AAAATGACTAAAATACCCTCATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAATAACTTA
36248804 ATTAC
131 ATTAC
* * * * *
36248809 CCCT-ATAGGGTAAAATGACCGAATTATCCCCATAGGGTAAAATGACTGAATTACCCCCATAAGG
1 CCCTAATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAA-A
*
36248873 T-AAATGACTGAAATATCCC-CATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAAT
65 TAAAATGACTAAAATA-CCCTCATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAAT
36248932 GACTGTTATA
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
134 101 0.93
135 8 0.07
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.23
Consensus pattern (135 bp):
CCCTAATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCATAAAT
AAAATGACTAAAATACCCTCATAGGGTAAAATGATCAAAATACCCCCATAGGGTAAAATAACTTA
ATTAC
Found at i:36248943 original size:27 final size:27
Alignment explanation
Indices: 36248669--36248936 Score: 292
Period size: 27 Copynumber: 10.0 Consensus size: 27
36248659 GTTATGACCA
**
36248669 AAATACCCTAATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
*
36248696 AAATACCCCCATAGGGTAAAATAACTG
1 AAATACCCCCATAGGGTAAAATGACTG
** *
36248723 AAATACCCCCATA-AATAAAATGACTA
1 AAATACCCCCATAGGGTAAAATGACTG
* *
36248749 AAATACCCTCATATGGTAAAATGA-TCG
1 AAATACCCCCATAGGGTAAAATGACT-G
* * * * *
36248776 AAATATCCCTATCGGGTAAAATAACTT
1 AAATACCCCCATAGGGTAAAATGACTG
* * *
36248803 AATTACCCCTATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
* *
36248830 AATTATCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
* *
36248857 AATTACCCCCATAAGGT-AAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
* *
36248883 AAATATCCCCATAGGGTAAAATGA-TCA
1 AAATACCCCCATAGGGTAAAATGACT-G
36248910 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
36248937 TTATACCTCT
Statistics
Matches: 200, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 46 0.23
27 152 0.76
28 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:36249153 original size:26 final size:26
Alignment explanation
Indices: 36249099--36249153 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
36249089 TGGAGAAAGT
* * *
36249099 ATACTGTTAGTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTCGCTACG
*
36249125 ATACTGTTACTGGCAGCTTCGCTATG
1 ATACTGTTACTGGCAGCTTCGCTACG
36249151 ATA
1 ATA
36249154 TTGGTGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTCGCTACG
Found at i:36251558 original size:27 final size:26
Alignment explanation
Indices: 36251528--36251927 Score: 381
Period size: 27 Copynumber: 14.9 Consensus size: 26
36251518 TGTTATAACT
*
36251528 GAAATACACCCATAGGGTAAAATGATC
1 GAAATACCCCCATAGGGTAAAATGA-C
*
36251555 GAAATACCCCCATAGGATAAAATGATC
1 GAAATACCCCCATAGGGTAAAATGA-C
*
36251582 GAAATACCCTCATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGA-C
* * *
36251609 AAAATACCCCCATATGGTAAAATAAC
1 GAAATACCCCCATAGGGTAAAATGAC
** *
36251635 AGAAATACCCCTTTATGGTAAAATGACC
1 -GAAATACCCCCATAGGGTAAAATGA-C
* * *
36251663 GAATTACCCCCATAAGGTAAAACGACC
1 GAAATACCCCCATAGGGTAAAATGA-C
* *
36251690 GAATTACCCCCACAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGA-C
* *
36251717 GAATTACCCCCACAGGGTAAAATGAC
1 GAAATACCCCCATAGGGTAAAATGAC
* *
36251743 TAAAATACCCCCATTGGGTAAAATGATC
1 -GAAATACCCCCATAGGGTAAAATGA-C
** * * *
36251771 GAAATATACCTATCGGGTAAAATAAC
1 GAAATACCCCCATAGGGTAAAATGAC
* * *
36251797 TTAATTAGCCCCATAGGGTAAAATGAC
1 -GAAATACCCCCATAGGGTAAAATGAC
*
36251824 TACAATACCCCCATTA-GGTAAAATGAC
1 GA-AATACCCCCA-TAGGGTAAAATGAC
* *
36251851 TGAATTACCCCCATAAGGTAAAATGAC
1 -GAAATACCCCCATAGGGTAAAATGAC
*
36251878 AGAAATACCCCCATAGGGTAAAATGATT
1 -GAAATACCCCCATAGGGTAAAATGA-C
36251906 GAAATA-CCCCATAGGGTAAAAT
1 GAAATACCCCCATAGGGTAAAAT
36251928 AACTGTTATA
Statistics
Matches: 317, Mismatches: 46, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
26 23 0.07
27 289 0.91
28 5 0.02
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (26 bp):
GAAATACCCCCATAGGGTAAAATGAC
Found at i:36252131 original size:26 final size:26
Alignment explanation
Indices: 36252092--36252172 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
36252082 TGAAGGAAGT
* * *
36252092 ATACTTTTAGTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGTTGCG
* * *
36252118 ATACTGTTACTGGCAGCTTCGTTGCA
1 ATACTATTACTGGCAGCTTTGTTGCG
*
36252144 ATACTACTACTGGCAGCTTTGTTGCG
1 ATACTATTACTGGCAGCTTTGTTGCG
36252170 ATA
1 ATA
36252173 TTGGTGTGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGTTGCG
Found at i:36252316 original size:28 final size:28
Alignment explanation
Indices: 36252276--36252383 Score: 171
Period size: 28 Copynumber: 3.9 Consensus size: 28
36252266 ACTGTACCGA
* * *
36252276 TACTGCATTGGGCTAAGGCCCATAATGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
*
36252304 TACTATATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
36252332 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
*
36252360 TATTGTATTGGGCTAAGGCCCACA
1 TACTGTATTGGGCTAAGGCCCACA
36252384 CTGTACTATT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 74 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:36252411 original size:33 final size:33
Alignment explanation
Indices: 36252369--36252491 Score: 183
Period size: 33 Copynumber: 3.7 Consensus size: 33
36252359 TTATTGTATT
*
36252369 GGGCTAAGGCCCACACTGTACTATTTCTGAAAA
1 GGGCTAAGGCCCACACTGTACTGTTTCTGAAAA
*
36252402 GGGCTAAGGCCCACACTTTACTGTTTCTGAAAA
1 GGGCTAAGGCCCACACTGTACTGTTTCTGAAAA
*
36252435 GGGCTAAGGCCCACACTTTACTGTTTCTGAAAA
1 GGGCTAAGGCCCACACTGTACTGTTTCTGAAAA
* * *
36252468 GGACTTAGGCCCAGACTGTTACTG
1 GGGCTAAGGCCCACACTG-TACTG
36252492 CATGTTGTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
33 78 0.94
34 5 0.06
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (33 bp):
GGGCTAAGGCCCACACTGTACTGTTTCTGAAAA
Found at i:36270384 original size:29 final size:29
Alignment explanation
Indices: 36270339--36270695 Score: 200
Period size: 29 Copynumber: 12.3 Consensus size: 29
36270329 ACGTATAGAT
* *
36270339 GACCATCGATTAATGAAAAGGGATAGTTTC
1 GACCATCGACT-ATGAAAAGGGATAGTGTC
* * *
36270369 GACTATCGACTATGAAAA-GGATGGTGAC
1 GACCATCGACTATGAAAAGGGATAGTGTC
* *
36270397 GACCATCAACTATGAAAAGGGATGGTGGT-
1 GACCATCGACTATGAAAAGGGATAGT-GTC
* * * *
36270426 AACCATCGAATATGAAAAGGGATAGTTTT
1 GACCATCGACTATGAAAAGGGATAGTGTC
* * *
36270455 GACTATCGACTATGAAAAGGGATGGTGAC
1 GACCATCGACTATGAAAAGGGATAGTGTC
** * * ** *
36270484 GACCATAAAGTATGAAAAGAGAGGGTGAC
1 GACCATCGACTATGAAAAGGGATAGTGTC
* * ** *
36270513 GACCATCAACTATGAAAAAGGAGGGTGAC
1 GACCATCGACTATGAAAAGGGATAGTGTC
* * * *
36270542 GACCATC-AATGAATGAAAATGGATGGTTTC
1 GACCATCGACT--ATGAAAAGGGATAGTGTC
* * * *
36270572 GACCAACGAATATGAAAAGGGATGGTGAC
1 GACCATCGACTATGAAAAGGGATAGTGTC
* * * *
36270601 GACCATCGAATATGTAAAGGGATGGTGAC
1 GACCATCGACTATGAAAAGGGATAGTGTC
* * * * * *
36270630 GATCATCAATTATGAAAATGAATGGTGAT-
1 GACCATCGACTATGAAAAGGGATAGTG-TC
** * *
36270659 GACCATCGAAAATGAAAAGGGATGGTTTC
1 GACCATCGACTATGAAAAGGGATAGTGTC
*
36270688 GGCCATCG
1 GACCATCG
36270696 TTTAGAACAC
Statistics
Matches: 263, Mismatches: 56, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
28 27 0.10
29 203 0.77
30 30 0.11
31 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.21
Consensus pattern (29 bp):
GACCATCGACTATGAAAAGGGATAGTGTC
Found at i:36270477 original size:58 final size:58
Alignment explanation
Indices: 36270351--36270694 Score: 327
Period size: 58 Copynumber: 5.9 Consensus size: 58
36270341 CCATCGATTA
* ** * * **
36270351 ATGAAAAGGGATAGTTTCGACTATCGACTATGAAAA-GGATGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCAACT
*** * * * *
36270408 ATGAAAAGGGATGGTGGTAACCATCGAATATGAAAAGGGATAGTTTTGACTATCGACT
1 ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCAACT
* * * **
36270466 ATGAAAAGGGATGGTGACGACCAT-AAAGTATGAAAAGAGAGGGTGACGACCATCAACT
1 ATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTTTCGACCATCAACT
* * * *
36270524 ATGAAAAAGGAGGGTGACGACCATC-AATGAATGAAAATGGATGGTTTCGACCAACGAA-T
1 ATGAAAAGGGATGGTGACGACCATCGAAT--ATGAAAAGGGATGGTTTCGACCATC-AACT
* ** * *
36270583 ATGAAAAGGGATGGTGACGACCATCGAATATGTAAAGGGATGGTGACGATCATCAATT
1 ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCAACT
* * * * *
36270641 ATGAAAATGAATGGTGATGACCATCGAAAATGAAAAGGGATGGTTTCGGCCATC
1 ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATC
36270695 GTTTAGAACA
Statistics
Matches: 229, Mismatches: 50, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
57 34 0.15
58 147 0.64
59 43 0.19
60 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTTTCGACCATCAACT
Found at i:36270518 original size:87 final size:85
Alignment explanation
Indices: 36270339--36270684 Score: 306
Period size: 87 Copynumber: 4.0 Consensus size: 85
36270329 ACGTATAGAT
*
36270339 GACCATCGATTAATGAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGATGGTGACGACCATC
1 GACCATCGAAT-ATGAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGATGGTGACGACCAT-
* **
36270404 AACTATGAAAAGGGATGGTGGT
64 AAATATGAAAAGGGATGGTGAC
* *
36270426 AACCATCGAATATGAAAAGGGATAGTTTTGACTATCGACTATGAAAAGGGATGGTGACGACCATA
1 GACCATCGAATATGAAAAGGGATAGTTTCGACTATCGACTATGAAAA-GGATGGTGACGACCATA
* *
36270491 AAGTATGAAAAGAGAGGGTGAC
65 AA-TATGAAAAGGGATGGTGAC
* ** ** * * **
36270513 GACCATC-AACTATGAAAAAGGAGGGTGACGACCATC-AATGAATGAAAATGGATGGTTTCGACC
1 GACCATCGAA-TATGAAAAGGGATAGTTTCGACTATCGACT--ATGAAAA-GGATGGTGACGACC
36270576 A-ACGAATATGAAAAGGGATGGTGAC
62 ATA--AATATGAAAAGGGATGGTGAC
* * ** * * * *
36270601 GACCATCGAATATGTAAAGGGATGGTGACGA-TCATCAATTATGAAAATGAATGGTGATGACCAT
1 GACCATCGAATATGAAAAGGGATAGTTTCGACT-ATCGACTATGAAAA-GGATGGTGACGACCAT
36270665 CGAAA-ATGAAAAGGGATGGT
64 --AAATATGAAAAGGGATGGT
36270685 TTCGGCCATC
Statistics
Matches: 215, Mismatches: 31, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
86 41 0.19
87 100 0.47
88 67 0.31
89 6 0.03
90 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (85 bp):
GACCATCGAATATGAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGATGGTGACGACCATAA
ATATGAAAAGGGATGGTGAC
Found at i:36270694 original size:146 final size:146
Alignment explanation
Indices: 36270383--36270676 Score: 355
Period size: 146 Copynumber: 2.0 Consensus size: 146
36270373 ATCGACTATG
* * * * *
36270383 AAAAGGATGGTGACGACCATCAACT--ATGAAAAGGGATGGTGGT-AACCATCGAATATGAAAAG
1 AAAAGGAGGGTGACGACCATCAA-TGAATGAAAATGGATGGT-TTCGACCAACGAATATGAAAAG
*** * *
36270445 GGATAGTTTTGACTATCGACTATGAAAAGGGATGGTGACGACCATAAAGTATGAAAAGAGAGGGT
64 GGATAGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATAAAGTATGAAAAGAGAGGGT
*
36270510 GACGACCATCAACTATGA
129 GACGACCATCAACAATGA
36270528 AAAAGGAGGGTGACGACCATCAATGAATGAAAATGGATGGTTTCGACCAACGAATATGAAAAGGG
1 AAAAGGAGGGTGACGACCATCAATGAATGAAAATGGATGGTTTCGACCAACGAATATGAAAAGGG
* * * * * *
36270593 ATGGTGACGACCATCGAATATGTAAAGGGATGGTGACGATCATCAATTATGAAAATGA-ATGGTG
66 ATAGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATAAAGTATGAAAA-GAGAGGGTG
*
36270657 ATGACCATCGAA-AATGA
130 ACGACCATC-AACAATGA
36270674 AAA
1 AAA
36270677 GGGATGGTTT
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
144 1 0.01
145 23 0.18
146 98 0.78
147 4 0.03
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (146 bp):
AAAAGGAGGGTGACGACCATCAATGAATGAAAATGGATGGTTTCGACCAACGAATATGAAAAGGG
ATAGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATAAAGTATGAAAAGAGAGGGTGA
CGACCATCAACAATGA
Found at i:36270695 original size:87 final size:88
Alignment explanation
Indices: 36270495--36270684 Score: 242
Period size: 88 Copynumber: 2.2 Consensus size: 88
36270485 ACCATAAAGT
* * * * *
36270495 ATGAAAAGAGAGGGTGACGACCATC-AACTATGAAAAAGGAGGGTGACGACCATCAATGAATGAA
1 ATGAAAAGGGATGGTGACGACCATCGAA-TATGTAAAGGGATGGTGACGACCATCAATGAATGAA
* * *
36270559 AATGGATGGTTTCGACCAACGAAT
65 AATGAATGGTATCGACCAACGAAA
* *
36270583 ATGAAAAGGGATGGTGACGACCATCGAATATGTAAAGGGATGGTGACGATCATCAAT-TATGAAA
1 ATGAAAAGGGATGGTGACGACCATCGAATATGTAAAGGGATGGTGACGACCATCAATGAATGAAA
*
36270647 ATGAATGGTGAT-GACCATCGAAA
66 ATGAATGGT-ATCGACCAACGAAA
36270670 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
36270685 TTCGGCCATC
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
87 38 0.43
88 49 0.55
89 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.19
Consensus pattern (88 bp):
ATGAAAAGGGATGGTGACGACCATCGAATATGTAAAGGGATGGTGACGACCATCAATGAATGAAA
ATGAATGGTATCGACCAACGAAA
Found at i:36276755 original size:33 final size:33
Alignment explanation
Indices: 36276713--36276779 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
36276703 TTATTATTTT
36276713 AATGTCTACAGCATGTTAA-TAATCTAGTATAAA
1 AATGTCTACAGCATG-TAAGTAATCTAGTATAAA
36276746 AATGTCTACAGCATGTAAGTAATCTAGTATAAA
1 AATGTCTACAGCATGTAAGTAATCTAGTATAAA
36276779 A
1 A
36276780 TGACTAGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (33 bp):
AATGTCTACAGCATGTAAGTAATCTAGTATAAA
Found at i:36277830 original size:30 final size:29
Alignment explanation
Indices: 36277755--36277982 Score: 233
Period size: 29 Copynumber: 7.8 Consensus size: 29
36277745 CGTATCGATT
* * * **
36277755 ACCATCGATTAATGAAATGGGATAGTTTCG
1 ACCATCGAAT-ATGAAAAGGGATGGTGACG
* * *
36277785 ACTATCGACTATGAAAAGGGATGGTGATG
1 ACCATCGAATATGAAAAGGGATGGTGACG
* *
36277814 ACCATC-AACTGGTGAAAAGGAATGGTGACG
1 ACCATCGAA-T-ATGAAAAGGGATGGTGACG
* *
36277844 ACCATCGATTAATGAAAAGGGATGGTGGCG
1 ACCATCGAAT-ATGAAAAGGGATGGTGACG
*
36277874 ACCATCGAATATGAAAAGGGATGGTGATG
1 ACCATCGAATATGAAAAGGGATGGTGACG
* *
36277903 ACCTTCGAATATGATAAGGGATGGTGACG
1 ACCATCGAATATGAAAAGGGATGGTGACG
* * *
36277932 ACCATCAAACATGAAAAGGGATGATGACG
1 ACCATCGAATATGAAAAGGGATGGTGACG
* *
36277961 ACCATCGAAAATGAAAAAGGAT
1 ACCATCGAATATGAAAAGGGAT
36277983 TGTTTCGACC
Statistics
Matches: 164, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
28 1 0.01
29 106 0.65
30 56 0.34
31 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.21
Consensus pattern (29 bp):
ACCATCGAATATGAAAAGGGATGGTGACG
Found at i:36283238 original size:40 final size:40
Alignment explanation
Indices: 36283154--36283337 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
36283144 TTGAATGCTG
* * * *
36283154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
36283193 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
36283234 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
36283274 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
36283314 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36283338 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:36283291 original size:80 final size:81
Alignment explanation
Indices: 36283154--36283334 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
36283144 TTGAATGCTG
* *
36283154 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
36283218 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
36283234 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
36283295 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
36283314 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
36283335 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:36290837 original size:40 final size:40
Alignment explanation
Indices: 36290806--36290936 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
36290796 GGACTAAGAT
36290806 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
36290846 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
36290886 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
36290926 CCGAAGGCATT
1 CCGAAGGCATT
36290937 GTATGAGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 81 0.99
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:36290893 original size:80 final size:81
Alignment explanation
Indices: 36290760--36290933 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 81
36290750 CTGTCTGGGC
* *
36290760 TAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
*
36290824 GTTATT-AATTCCGGGT
66 GTT-TTAAAATCCGGGT
**
36290840 TAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGCATTCGTG
1 TAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGCATTCGTG
36290901 CGAGTTTTAAAATCCGGGT
63 CGAGTTTTAAAATCCGGGT
36290920 TAAGTCCCGAAGGC
1 TAAGTCCCGAAGGC
36290934 ATTGTATGAG
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
79 4 0.05
80 71 0.85
81 9 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (81 bp):
TAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
GTTTTAAAATCCGGGT
Found at i:36314806 original size:5 final size:5
Alignment explanation
Indices: 36314796--36314823 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
36314786 TGATATCATC
36314796 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
36314824 TGGTCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:36334925 original size:27 final size:27
Alignment explanation
Indices: 36334892--36334948 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
36334882 TGGCAGAGGG
36334892 TGGTTGACCAATTCAATTTGGTAGTCC
1 TGGTTGACCAATTCAATTTGGTAGTCC
36334919 TGGTTGACCAATTCAATTTGGTAGTCC
1 TGGTTGACCAATTCAATTTGGTAGTCC
36334946 TGG
1 TGG
36334949 GTTGTCTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (27 bp):
TGGTTGACCAATTCAATTTGGTAGTCC
Found at i:36337944 original size:17 final size:18
Alignment explanation
Indices: 36337919--36337954 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36337909 CAATTTGGGC
*
36337919 CGTGTGGGC-CACACGGG
1 CGTGAGGGCTCACACGGG
36337936 CGTGAGGGCTCACACGGG
1 CGTGAGGGCTCACACGGG
36337954 C
1 C
36337955 AGGCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.31, G:0.44, T:0.11
Consensus pattern (18 bp):
CGTGAGGGCTCACACGGG
Found at i:36347060 original size:13 final size:13
Alignment explanation
Indices: 36347042--36347066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36347032 TAATGGTATA
36347042 TTGAATCCATGAC
1 TTGAATCCATGAC
36347055 TTGAATCCATGA
1 TTGAATCCATGA
36347067 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:36347647 original size:27 final size:27
Alignment explanation
Indices: 36347612--36347790 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
36347602 TTAAATTGTA
36347612 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
36347639 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
36347666 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
36347693 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
36347721 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
36347748 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
36347775 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
36347791 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:36347728 original size:82 final size:81
Alignment explanation
Indices: 36347614--36347769 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
36347604 AAATTGTATA
* *
36347614 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36347678 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
36347695 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36347760 TGCGAGTTGA
65 TGCGAATTGA
36347770 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36347781 original size:82 final size:81
Alignment explanation
Indices: 36347610--36347790 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
36347600 GATTAAATTG
* *
36347610 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36347675 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
36347691 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36347755 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
36347773 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
36347791 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36350201 original size:46 final size:45
Alignment explanation
Indices: 36350151--36350326 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
36350141 TGGTTGAGCA
*
36350151 TCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
36350197 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
36350242 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
36350290 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36350327 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:36350307 original size:93 final size:93
Alignment explanation
Indices: 36350148--36350319 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
36350138 GGATGGTTGA
* * *
36350148 GCATCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
36350213 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
36350241 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
36350306 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
36350320 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGGTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36357779 original size:46 final size:46
Alignment explanation
Indices: 36357725--36357900 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
36357715 TGGTTGAGCA
36357725 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
36357771 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
36357816 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
36357864 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36357901 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 28 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:36357881 original size:93 final size:93
Alignment explanation
Indices: 36357722--36357893 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
36357712 GGATGGTTGA
* * *
36357722 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCAAACTCGTTGAGT
36357787 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
36357815 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCAAACTCGTTGAGT
36357880 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
36357894 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACGTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:36360552 original size:16 final size:16
Alignment explanation
Indices: 36360527--36360559 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
36360517 ATGTAATTTT
36360527 AAGTATTAT-ATCAAA
1 AAGTATTATAATCAAA
36360542 AAGTAATTATAATCAAA
1 AAGT-ATTATAATCAAA
36360559 A
1 A
36360560 TTTATATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 5 0.31
17 7 0.44
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (16 bp):
AAGTATTATAATCAAA
Found at i:36362933 original size:37 final size:37
Alignment explanation
Indices: 36362883--36362961 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36362873 TTATTACGAA
* * *
36362883 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
36362920 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
36362957 GTCTT
1 GTCTT
36362962 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:36363158 original size:47 final size:47
Alignment explanation
Indices: 36363080--36363349 Score: 380
Period size: 47 Copynumber: 5.7 Consensus size: 47
36363070 CCCTTCGGGA
* * * * * *
36363080 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36363127 CCTGTCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36363174 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
36363221 CTTATCTCATATATGCACTTTCACATTTATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36363268 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36363315 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
36363350 AGAATCCTAA
Statistics
Matches: 200, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.00
47 199 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36366272 original size:40 final size:40
Alignment explanation
Indices: 36366240--36366660 Score: 422
Period size: 40 Copynumber: 10.6 Consensus size: 40
36366230 CCAGCATGAT
* * * *
36366240 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
36366280 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
36366320 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
36366360 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
36366400 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * * *
36366440 TGCTCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* * ** * * *
36366481 TGC-CTTCGGGACTTAACTCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
*
36366521 TGC-CTTCGGG-CTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
36366559 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
* ** * * *
36366600 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
36366640 TGC-CTTCGGG-CTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
36366661 ATTAGTAACT
Statistics
Matches: 326, Mismatches: 51, Indels: 9
0.84 0.13 0.02
Matches are distributed among these distances:
38 12 0.04
39 28 0.09
40 262 0.80
41 24 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:36366383 original size:80 final size:80
Alignment explanation
Indices: 36366240--36366740 Score: 457
Period size: 80 Copynumber: 6.3 Consensus size: 80
36366230 CCAGCATGAT
* * * ** *
36366240 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
36366305 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* * * *
36366320 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAACCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
36366385 CATCACTAGCACGAA
66 TATCACTAGCACGAA
* * * * *
36366400 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGTTA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* * *
36366465 TAGTAACTCGCACAAA
66 TA-TCACTAGCACGAA
* * * * * *
36366481 TGC-CTTCGGGACTTAACTCGGATTTAGTAACTCGCACCAATGC-CTTCGGG-CTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
36366543 ACATCACTAGCATGAA
65 ATATCACTAGCACGAA
* * * * *
36366559 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * *
36366623 TTAGTAACTCGCACCAA
65 ATA-TCACTAGCACGAA
* * * * *
36366640 TGC-CTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGC-CTTC-AGATCTTAGTCCGG
1 TGCTCTTCGGGACTTAGCCCGGATA-TA-TCACTAGCACGAATGCTCTTCGGGA-CTTAGCCCGG
*
36366700 ATATGGTCACTTAGCAC-AA
63 ATAT-ATCAC-TAGCACGAA
*
36366719 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
36366741 CATCATTCGA
Statistics
Matches: 356, Mismatches: 55, Indels: 20
0.83 0.13 0.05
Matches are distributed among these distances:
78 15 0.04
79 113 0.32
80 191 0.54
81 37 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAA
Found at i:36366571 original size:119 final size:120
Alignment explanation
Indices: 36366273--36366660 Score: 541
Period size: 119 Copynumber: 3.2 Consensus size: 120
36366263 TATAACACCA
* * * * * *
36366273 GCACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGC
1 GCACCAATGCTCTTC-GGGCTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGC
* * * * ** ** * *
36366338 CCGGATACA-TCACTAGCATGAATGCTCTTCGGGACTTAACCCGGATACA-TCACTA
65 CCGGTTATAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGATTTAGTAACTC
* * *
36366393 GCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTTGGGACTTAGC
1 GCACCAATGCTCTTCGG-GCTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGC
*
36366458 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTC
65 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
36366514 GCACCAATGC-CTTCGGGCTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCC
1 GCACCAATGCTCTTCGGGCTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCC
36366578 CGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
66 CGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
36366633 GCACCAATGC-CTTCGGGCTTAGCCCGGA
1 GCACCAATGCTCTTCGGGCTTAGCCCGGA
36366661 ATTAGTAACT
Statistics
Matches: 243, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
119 130 0.53
120 88 0.36
121 25 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
GCACCAATGCTCTTCGGGCTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCC
CGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
Found at i:36366694 original size:119 final size:119
Alignment explanation
Indices: 36366273--36366740 Score: 473
Period size: 119 Copynumber: 3.9 Consensus size: 119
36366263 TATAACACCA
* * * * * *
36366273 GCACGAATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCG-GAACTTAG
1 GCACCAATGC-CTTC-GGGCTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGAG-ACTTAG
* * * * ** ** * *
36366337 CCCGGATACA-TCACTAGCATGAATGCTCTTCGGGACTTAACCCGGATACA-TCACTA
63 CCCGGTTATAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGATTTAGTAACTC
* * * ** * *
36366393 GCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTTGGGACTTAGC
1 GCACCAATGC-CTTCGG-GCTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGAGACTTAGC
*
36366458 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTC
64 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
* ** *
36366514 GCACCAATGCCTTCGGGCTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC
1 GCACCAATGCCTTCGGGCTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGAGACTTAGCCC
36366579 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
66 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
* *
36366633 GCACCAATGCCTTCGGGCTTAGCCCGGAATTA-GTAACTCGCACAAATGC-CTTC-AGATCTTAG
1 GCACCAATGCCTTCGGGCTTAGCCCGG-A-TACATAACTAGCACAAATGCTCTTCGAGA-CTTAG
* * * * * *
36366695 TCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 CCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
36366741 CATCATTCGA
Statistics
Matches: 307, Mismatches: 33, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
118 2 0.01
119 169 0.55
120 108 0.35
121 28 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (119 bp):
GCACCAATGCCTTCGGGCTTAGCCCGGATACATAACTAGCACAAATGCTCTTCGAGACTTAGCCC
GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTC
Found at i:36366734 original size:40 final size:40
Alignment explanation
Indices: 36366244--36366740 Score: 399
Period size: 40 Copynumber: 12.5 Consensus size: 40
36366234 CATGATTGCT
* *
36366244 CTTCGGGACCTAGCCCGGATATA--ACAC-CAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTA-ACTC-GCACAAATGC
** * * * *
36366283 TCTTCGGGGTTTAGCACGGATATA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * **
36366323 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * *
36366363 TCTTCGGGACTTAACCCGGATACA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * **
36366403 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* *
36366443 TCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * *
36366484 CTTCGGGACTTAACTCGGATTTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * **
36366524 CTTCGGG-CTTAGCCCGGATACA-TCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
*
36366562 TCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * *
36366603 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
36366643 CTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
* * * * *
36366682 CTTC-AGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GC
1 CTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACAAATGC
36366722 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
36366741 CATCATTCGA
Statistics
Matches: 385, Mismatches: 60, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
38 13 0.03
39 50 0.13
40 287 0.75
41 35 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:36368644 original size:37 final size:37
Alignment explanation
Indices: 36368594--36368672 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36368584 TTATTACGAA
* * *
36368594 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
36368631 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
36368668 GTCTT
1 GTCTT
36368673 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:36368869 original size:47 final size:47
Alignment explanation
Indices: 36368791--36368951 Score: 250
Period size: 47 Copynumber: 3.4 Consensus size: 47
36368781 CCCTTCGGGA
* * * * * *
36368791 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36368838 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36368885 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36368932 CTTATCACATATATACACTT
1 CTTATCACATATATACACTT
36368952 AGGCCTTATC
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 104 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36368956 original size:24 final size:24
Alignment explanation
Indices: 36368926--36368975 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
36368916 ACATCGGCCA
36368926 TTAGGCCTTATCACATATATACAC
1 TTAGGCCTTATCACATATATACAC
*
36368950 TTAGGCCTTATCACATATATGCAC
1 TTAGGCCTTATCACATATATACAC
36368974 TT
1 TT
36368976 TCACATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (24 bp):
TTAGGCCTTATCACATATATACAC
Found at i:36368961 original size:71 final size:71
Alignment explanation
Indices: 36368879--36369022 Score: 261
Period size: 71 Copynumber: 2.0 Consensus size: 71
36368869 ACATCGGCCA
36368879 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
36368944 ATACAC
66 ATACAC
* *
36368950 TTAGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATAT
1 TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
36369015 ATGCAC
66 ATACAC
36369021 TT
1 TT
36369023 TCACATTCAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (71 bp):
TTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
ATACAC
Found at i:36368986 original size:118 final size:118
Alignment explanation
Indices: 36368842--36369069 Score: 402
Period size: 118 Copynumber: 1.9 Consensus size: 118
36368832 CTCGGCCCTG
36368842 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
36368907 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTAGGCCTTA
66 ACATTCAACACATCGGCCATTAGGCCTTATCACATATATACACTTAGGCCTTA
* * *
36368960 TCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* *
36369025 ACATTCAACACATCGGCCATTAGGCCTTATCATATATATATACTT
66 ACATTCAACACATCGGCCATTAGGCCTTATCACATATATACACTT
36369070 TCACATTTAT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (118 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCAACACATCGGCCATTAGGCCTTATCACATATATACACTTAGGCCTTA
Found at i:36369003 original size:47 final size:47
Alignment explanation
Indices: 36368950--36369131 Score: 285
Period size: 47 Copynumber: 3.9 Consensus size: 47
36368940 ATATATACAC
36368950 TTAGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCA
1 TTAGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCA
* *
36368997 TTAGGCCTTATCTCATATATGCACTTTCACATTCAACACATCGGCCA
1 TTAGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCA
* ** *
36369044 TTAGGCCTTATCATATATATATACTTTCACATTTATCACATCGGCCA
1 TTAGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCA
*
36369091 TTAGGCCTTATCACATATATGCA-TGTTCACATCCATCACAT
1 TTAGGCCTTATCACATATATGCACT-TTCACATTCATCACAT
36369132 AGAATCCTAA
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.01
47 120 0.99
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (47 bp):
TTAGGCCTTATCACATATATGCACTTTCACATTCATCACATCGGCCA
Found at i:36369064 original size:165 final size:165
Alignment explanation
Indices: 36368791--36369110 Score: 505
Period size: 165 Copynumber: 1.9 Consensus size: 165
36368781 CCCTTCGGGA
* * * * *
36368791 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
36368856 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCAACACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
36368921 GGCCATTAGGCCTTATCACATATATACACTTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTAGGC
* * * * * *
36368956 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* * *
36369021 TTTCACATTCAACACATCGGCCATTAGGCCTTATCATATATATATACTTTCACATTTATCACATC
66 TTTCACATTCAACACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
36369086 GGCCATTAGGCCTTATCACATATAT
131 GGCCATTAGGCCTTATCACATATAT
36369111 GCATGTTCAC
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
165 140 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (165 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCAACACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTAGGC
Found at i:36373972 original size:291 final size:291
Alignment explanation
Indices: 36373448--36374172 Score: 1281
Period size: 291 Copynumber: 2.5 Consensus size: 291
36373438 TGGTTACGAC
36373448 AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
1 AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
* *
36373513 TTTCGATAAAGTACTATAAAAGCCGAAAAAAATTCAAAAATTGTTTGGGTCCTAATTGAAAAATA
66 TTTCGATAAAGTACTATAAAAGCCGAAAATAATTCAAAAATTGATTGGGTCCTAATTGAAAAATA
* * *
36373578 CACTCAATTAGATGTAAAATTTTATTATTAAATTTGACATAAACGCCGTTGGTCCCTCCTGCTAA
131 CACTCAATTGGATGTAAAATTTAATTATTAAATTTGACATAAACGCCGTTGATCCCTCCTGCTAA
*
36373643 TCACAAAATAGAGGAAACGCTAACTTTCTCAAATCTCACAATAATGAAGCACATCATCAACAACA
196 TCACAAAATAGAGGAAACGCTAACTTTCTCAAATCTCACAACAATGAAGCACATCATCAACAACA
36373708 AATGACAAGATTTGTCAGTTTCAAGACATAT
261 AATGACAAGATTTGTCAGTTTCAAGACATAT
*
36373739 AACTTTCAAACACTACAAAGTGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
1 AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
*
36373804 TTTCGATAAAGTACTATAAAAGCCGAAACTAATTCAAAAATTGATTGGGTCCTAATTGAAAAATA
66 TTTCGATAAAGTACTATAAAAGCCGAAAATAATTCAAAAATTGATTGGGTCCTAATTGAAAAATA
* * * *
36373869 CACTCAAGTGGATGTAAAATTTAATTATTAAATTTGATATAAACGCCGTTGATTCCTCTTGCTAA
131 CACTCAATTGGATGTAAAATTTAATTATTAAATTTGACATAAACGCCGTTGATCCCTCCTGCTAA
*
36373934 TCACAAAATAGAGGAAATGCTAACTTTCTCAAATCTCACAACAATGAAGCACATCATCAACAACA
196 TCACAAAATAGAGGAAACGCTAACTTTCTCAAATCTCACAACAATGAAGCACATCATCAACAACA
*
36373999 AATGACGAGATTTGTCAGTTTCAAGACATAT
261 AATGACAAGATTTGTCAGTTTCAAGACATAT
*
36374030 AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACGATTTAAAAGAT
1 AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
* *
36374095 TTTCGATAAAGTACTATAGAAGCCGAAAATAATTCAAAAATT-ATTTGGGTCCTAATTGAAATAT
66 TTTCGATAAAGTACTATAAAAGCCGAAAATAATTCAAAAATTGA-TTGGGTCCTAATTGAAAAAT
36374159 ACACTCAATTGGAT
130 ACACTCAATTGGAT
36374173 CTCAAATTCA
Statistics
Matches: 413, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
290 1 0.00
291 412 1.00
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (291 bp):
AACTTTCAAACACTACAAAGGGCCCTCTTATTTAGCTTAAAAGTTTCTAAAACAATTTAAAAGAT
TTTCGATAAAGTACTATAAAAGCCGAAAATAATTCAAAAATTGATTGGGTCCTAATTGAAAAATA
CACTCAATTGGATGTAAAATTTAATTATTAAATTTGACATAAACGCCGTTGATCCCTCCTGCTAA
TCACAAAATAGAGGAAACGCTAACTTTCTCAAATCTCACAACAATGAAGCACATCATCAACAACA
AATGACAAGATTTGTCAGTTTCAAGACATAT
Found at i:36374331 original size:30 final size:29
Alignment explanation
Indices: 36374267--36374341 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
36374257 GCGGGTAAAA
*
36374267 CTTAATTGATATTTT-ATTTTTTAGGAGGG
1 CTTAATTGAT-TTTTAATTTTTTAAGAGGG
* * *
36374296 TTTAATAGATTTTTAATTATTTTAAGATGG
1 CTTAATTGATTTTTAATT-TTTTAAGAGGG
36374326 CTTAATTGATTTTTAA
1 CTTAATTGATTTTTAA
36374342 AGGCTATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 4 0.11
29 11 0.29
30 23 0.61
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (29 bp):
CTTAATTGATTTTTAATTTTTTAAGAGGG
Found at i:36380205 original size:48 final size:48
Alignment explanation
Indices: 36380151--36380246 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
36380141 CATATCGATG
*
36380151 CTGCTGTCCTAGACAGGGTCTTACTTGCACACATATATTGGAATCACA
1 CTGCTGTCCTAGACAGGGTCTCACTTGCACACATATATTGGAATCACA
36380199 CTGCTGTCCTAGACAGGGTCTCACTTGCACACATATATTGGAATCACA
1 CTGCTGTCCTAGACAGGGTCTCACTTGCACACATATATTGGAATCACA
36380247 TATCTATGCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (48 bp):
CTGCTGTCCTAGACAGGGTCTCACTTGCACACATATATTGGAATCACA
Found at i:36382889 original size:87 final size:85
Alignment explanation
Indices: 36382740--36383078 Score: 348
Period size: 87 Copynumber: 4.0 Consensus size: 85
36382730 TTTGATAATA
* * * * *
36382740 AAAATTAAATAAAATCTATTTCGGGATTTATTTCCTCCGTTCAACAGATTTTATTTCCTTTTTTA
1 AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTA-TTCCATTTTTA
* * *
36382805 TTATATTTCCAAATGAGTATT
65 TTTTGTTTCCAAATGAGAATT
* **
36382826 AAAAATTAAATAAAATTTGTTTCGGGATTTATTCCCGCCATTCAATGGATTTTATTCCATTTTTA
1 -AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTATTCCATTTTTA
* *
36382891 TTTTGTTGCCAGAACGAGAAATT
65 TTTTGTTTCCA-AATGAG-AATT
* * * * *
36382914 AAAATTAAATAAACTTTGTTTCGGGATTTATACCCTCCATTTAACAGATTTTATTCGATTTTAAT
1 AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTATTCCATTTTTAT
36382979 TTTGTTTCCAAAAT-AGAATT
66 TTTGTTTCC-AAATGAGAATT
* * * * * *
36382999 -AAATT---GAAAATTTGTTTCGGGATTTATTCCCACCGTTTAACAAATTTTA-TCCGATTTTGA
1 AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTATTCC-ATTTTTA
* *
36383059 TTCTGTTTCCAAACGAGAAT
65 TTTTGTTTCCAAATGAGAAT
36383079 ACTTAATCAA
Statistics
Matches: 214, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.02
81 58 0.27
84 5 0.02
85 4 0.02
86 20 0.09
87 118 0.55
88 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (85 bp):
AAAATTAAATAAAATTTGTTTCGGGATTTATTCCCTCCATTCAACAGATTTTATTCCATTTTTAT
TTTGTTTCCAAATGAGAATT
Found at i:36383039 original size:81 final size:79
Alignment explanation
Indices: 36382916--36383071 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 79
36382906 GAGAAATTAA
* * * * *
36382916 AATTAAATAAACTTTGTTTCGGGATTTATACCCTCCATTTAACAGATTTTATTCGATTTTAATTT
1 AATTAAATAAAATTTGTTTCGGGATTTATACCCACCATTTAACAAATTTTATCCGATTTTAATTC
36382981 TGTTTCCAAAATAG
66 TGTTTCCAAAATAG
* * *
36382995 AATTAAATTGAAAATTTGTTTCGGGATTTATTCCCACCGTTTAACAAATTTTATCCGATTTTGAT
1 AATTAAA-T-AAAATTTGTTTCGGGATTTATACCCACCATTTAACAAATTTTATCCGATTTTAAT
36383060 TCTGTTTCCAAA
64 TCTGTTTCCAAA
36383072 CGAGAATACT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 7 0.10
80 1 0.01
81 59 0.88
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (79 bp):
AATTAAATAAAATTTGTTTCGGGATTTATACCCACCATTTAACAAATTTTATCCGATTTTAATTC
TGTTTCCAAAATAG
Found at i:36383131 original size:85 final size:81
Alignment explanation
Indices: 36382916--36383133 Score: 197
Period size: 81 Copynumber: 2.7 Consensus size: 81
36382906 GAGAAATTAA
* * * * * * *
36382916 AATTAAAT--AAACTTTGTTTCGGGATTTATACCCTCCATTTAACAGATTTTATTCGATTTTAAT
1 AATTAAATCAAAAATTTATTTCGAGATTTATTCCCACCGTTTAACAGATTTTATCCGATTTTAAT
* *
36382979 TTTGTTTCCAAAATAG
66 TCTGTTTCCAAAAGAG
** * * * *
36382995 AATTAAATTGAAAATTTGTTTCGGGATTTATTCCCACCGTTTAACAAATTTTATCCGATTTTGAT
1 AATTAAATCAAAAATTTATTTCGAGATTTATTCCCACCGTTTAACAGATTTTATCCGATTTTAAT
*
36383060 TCTGTTTCCAAACGAG
66 TCTGTTTCCAAAAGAG
* *** *
36383076 AATACTTAATCAAATAATTCTATTTCGAGATTTATTCCTGTCGTTTAATAGATTTTAT
1 AAT--TAAATCAAA-AATT-TATTTCGAGATTTATTCCCACCGTTTAACAGATTTTAT
36383134 TTTGATTTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
79 8 0.07
81 64 0.57
83 6 0.05
84 4 0.04
85 31 0.27
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (81 bp):
AATTAAATCAAAAATTTATTTCGAGATTTATTCCCACCGTTTAACAGATTTTATCCGATTTTAAT
TCTGTTTCCAAAAGAG
Found at i:36384369 original size:19 final size:20
Alignment explanation
Indices: 36384345--36384382 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
36384335 GGTACCACCA
36384345 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
36384364 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
36384383 ACTACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:36390628 original size:46 final size:46
Alignment explanation
Indices: 36390561--36390729 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
36390551 CGCCCCTAAG
* *
36390561 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAA
* * * *
36390607 TGAACTCGGGCTCAACTCAACGAGTTCGAATGCCCAG-TTACAT-C-T-TA
1 TGAACTCGGACTCAACTCAACGAGTTCG---G-AC-GTTTGCATCCATAAA
* * *
36390654 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAA
36390700 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
36390730 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 55 0.54
47 27 0.27
48 1 0.01
49 2 0.02
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAA
Found at i:36390671 original size:93 final size:93
Alignment explanation
Indices: 36390562--36390732 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
36390552 GCCCCTAAGT
* * *
36390562 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAATGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
36390627 CGAGTTCGAATGCCCAGTTACATCTTAC
66 CGAGTTCGAATGCCCAGTTACATCTTAC
* *
36390655 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
*
36390720 CGAGTTCGGATGC
66 CGAGTTCGAATGC
36390733 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCCAGTTACATCTTAC
Found at i:36390748 original size:46 final size:46
Alignment explanation
Indices: 36390559--36390748 Score: 126
Period size: 46 Copynumber: 4.1 Consensus size: 46
36390549 CCCGCCCCTA
* ***
36390559 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT-TTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCAACCATCC-T
* * * * *
36390604 AAATGAACTCGGGCTCAACTCAACGAGTTCGAATGCCCAGTTA-CATCTT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA---ACCATCCT
* * * *
36390653 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
36390698 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
36390744 AGTGA
1 AGTGA
36390749 CATGTCACTT
Statistics
Matches: 111, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
44 8 0.07
45 2 0.02
46 60 0.54
47 29 0.26
48 3 0.03
49 5 0.05
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:36393588 original size:15 final size:15
Alignment explanation
Indices: 36393568--36393597 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36393558 CAAACTATGT
*
36393568 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
36393583 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
36393598 GATACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:36397687 original size:24 final size:24
Alignment explanation
Indices: 36397651--36397812 Score: 78
Period size: 24 Copynumber: 6.8 Consensus size: 24
36397641 GAGCCAACAT
* *
36397651 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * **
36397675 TGGCACTATGTGTGCAAAATCGGT
1 TGGCACTATGTGTGCGAATTTGAA
* * *
36397699 TGGCACTATGTATACTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* * ** * * *
36397723 TGTCAATAAATGAGTGAATTTCCAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * *
36397748 -AGCACTATGTGTGCG-GTTTAGCA
1 TGGCACTATGTGTGCGAATTT-GAA
*
36397771 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
*
36397795 TAGCACTATGTGTGCGAA
1 TGGCACTATGTGTGCGAA
36397813 ATCAGTTGAG
Statistics
Matches: 92, Mismatches: 41, Indels: 10
0.64 0.29 0.07
Matches are distributed among these distances:
23 5 0.05
24 82 0.89
25 5 0.05
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:36402064 original size:29 final size:28
Alignment explanation
Indices: 36402028--36402100 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
36402018 TCATGAGATT
*
36402028 GGCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGA-GTGTAAA--GTACA
36402058 -GCACTAAGTGTGCGAGTGTAAAGTACA
1 GGCACTAAGTGTGCGAGTGTAAAGTACA
36402085 TGGCACTAAGTGTGCG
1 -GGCACTAAGTGTGCG
36402101 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 5 0.13
29 33 0.85
30 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTGTAAAGTACA
Found at i:36402325 original size:145 final size:145
Alignment explanation
Indices: 36402083--36402356 Score: 512
Period size: 145 Copynumber: 1.9 Consensus size: 145
36402073 GTGTAAAGTA
*
36402083 CATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
* *
36402148 ATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTG
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
36402213 TGCGAACTTGAAATG
131 TGCGAACTTGAAATG
36402228 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
1 CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
*
36402293 ATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
36402357 ACCTTGAGTT
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 125 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (145 bp):
CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCT
ATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTG
TGCGAACTTGAAATG
Found at i:36404179 original size:15 final size:15
Alignment explanation
Indices: 36404159--36404188 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36404149 CAAACTATGT
*
36404159 CTCTAATTTAGGAAA
1 CTCTAAGTTAGGAAA
36404174 CTCTAAGTTAGGAAA
1 CTCTAAGTTAGGAAA
36404189 GACACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
CTCTAAGTTAGGAAA
Found at i:36405270 original size:43 final size:43
Alignment explanation
Indices: 36405208--36405347 Score: 165
Period size: 43 Copynumber: 3.3 Consensus size: 43
36405198 TATCCTAGAT
* ** * * *
36405208 ATGGTCTTACATGTTATCATATATCGATGCCACTGTCCCAGAT
1 ATGGTCTTACACGAAATCATATATCAATGCCAATGTCCCAGAC
* * *
36405251 AGGGTCTTATACGAAATCATATAACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCATATATCAATGCCAATGTCCCAGAC
* *
36405294 ATGGTCTTACACGTAATCACAATAT-AATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCA-TATATCAATGCCAATGTCCCAGAC
36405337 ATGGTCTTACA
1 ATGGTCTTACA
36405348 TGTAATCACA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 79 0.96
44 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCATATATCAATGCCAATGTCCCAGAC
Found at i:36407171 original size:32 final size:32
Alignment explanation
Indices: 36407133--36407231 Score: 173
Period size: 32 Copynumber: 3.1 Consensus size: 32
36407123 ATTTATGTCA
36407133 TTTTCAATCTAACAGAGTGACAGATTTCATGC
1 TTTTCAATCTAACAGAGTGACAGATTTCATGC
*
36407165 TTTTCAATCCAACAGAGTGACAGATTTCATG-
1 TTTTCAATCTAACAGAGTGACAGATTTCATGC
36407196 TTTTCCAATCTAACAGAGTGACAGATTTCATGC
1 TTTT-CAATCTAACAGAGTGACAGATTTCATGC
36407229 TTT
1 TTT
36407232 AAGGTTTATA
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
31 4 0.06
32 56 0.89
33 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (32 bp):
TTTTCAATCTAACAGAGTGACAGATTTCATGC
Done.