Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 196 of 444
Found at i:54798130 original size:40 final size:40
Alignment explanation
Indices: 54798071--54798171 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
54798061 TGAATGATAC
* * * *
54798071 CCGGGCTAAGTCTCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TTATAT
* *
54798111 CCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTATAT
54798151 CCGGGCTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
54798172 ATTGTGCAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
40 51 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTTATAT
Found at i:54800991 original size:48 final size:48
Alignment explanation
Indices: 54800939--54801062 Score: 176
Period size: 48 Copynumber: 2.6 Consensus size: 48
54800929 CCTGGATATA
*
54800939 GTCTTACATGGGATCACATATCGATGCCAACGCCATGTCCCAGACATG
1 GTCTTACATGGGATCATATATCGATGCCAACGCCATGTCCCAGACATG
* * * * * *
54800987 GTCTTACATGGGATCGTAGATTGATGCCAATGCCATGTCCTAGATATG
1 GTCTTACATGGGATCATATATCGATGCCAACGCCATGTCCCAGACATG
*
54801035 GTCTTACATGAGATCATATATCGATGCC
1 GTCTTACATGGGATCATATATCGATGCC
54801063 GATAGCCCAG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
GTCTTACATGGGATCATATATCGATGCCAACGCCATGTCCCAGACATG
Found at i:54802897 original size:42 final size:42
Alignment explanation
Indices: 54802816--54802901 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
54802806 CAGTGCCAGC
* *
54802816 GCCATGCCCCAGACATGGTCTTATACGGAACCTCATATCGAT
1 GCCATGCCCCAGACATGGTCTTATACGAAACCACATATCGAT
* * *
54802858 GCCATGTCCCAGACATGGTCTTATACGAAATCACTTATCGAT
1 GCCATGCCCCAGACATGGTCTTATACGAAACCACATATCGAT
54802900 GC
1 GC
54802902 TGAAGCCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (42 bp):
GCCATGCCCCAGACATGGTCTTATACGAAACCACATATCGAT
Found at i:54802910 original size:90 final size:89
Alignment explanation
Indices: 54802718--54802891 Score: 206
Period size: 90 Copynumber: 1.9 Consensus size: 89
54802708 ACCAAATAGG
* * * * *
54802718 GTGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCACACAGCGATGCCATATCTCAGATA
1 GTGCC-AAGCCATGCCCCAGACATGGTCTTACACGGAACCACACAGCGATGCCATATCCCAGACA
*
54802783 TGGTCTTATACAAAGTCTCGAATCA
65 TGGTCTTATACAAAGTCACGAATCA
* * * * * *
54802808 GTGCCAGCGCCATGCCCCAGACATGGTCTTATACGGAACCTCATATCGATGCCATGTCCCAGACA
1 GTGCCA-AGCCATGCCCCAGACATGGTCTTACACGGAACCACACAGCGATGCCATATCCCAGACA
54802873 TGGTCTTATACGAAA-TCAC
65 TGGTCTTATAC-AAAGTCAC
54802892 TTATCGATGC
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 1 0.01
90 66 0.94
91 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (89 bp):
GTGCCAAGCCATGCCCCAGACATGGTCTTACACGGAACCACACAGCGATGCCATATCCCAGACAT
GGTCTTATACAAAGTCACGAATCA
Found at i:54802939 original size:48 final size:48
Alignment explanation
Indices: 54802856--54802985 Score: 154
Period size: 48 Copynumber: 2.7 Consensus size: 48
54802846 CCTCATATCG
* * * * * *
54802856 ATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTATCGATGCTGA
1 ATGCCATATCCCAAACATGGTCTTACACGAGATCACATATCGATGC-CA
* *
54802905 A-GCCATATCCCTAATATGGTCTTACACGAGATCACATATCGATGCCA
1 ATGCCATATCCCAAACATGGTCTTACACGAGATCACATATCGATGCCA
* *
54802952 ATGCCATGTCCCAAACATGGTCTTACACGGGATC
1 ATGCCATATCCCAAACATGGTCTTACACGAGATC
54802986 TCGTTAATCA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
47 2 0.03
48 65 0.96
49 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCATATCCCAAACATGGTCTTACACGAGATCACATATCGATGCCA
Found at i:54806825 original size:18 final size:18
Alignment explanation
Indices: 54806802--54806839 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
54806792 CGGTTAAGGA
54806802 TACCATGTAAGACCATGT
1 TACCATGTAAGACCATGT
54806820 TACCATGTAAGACCATGT
1 TACCATGTAAGACCATGT
54806838 TA
1 TA
54806840 AGACATGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (18 bp):
TACCATGTAAGACCATGT
Found at i:54806846 original size:10 final size:10
Alignment explanation
Indices: 54806803--54806843 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
54806793 GGTTAAGGAT
54806803 ACCATGTAAG
1 ACCATGTAAG
*
54806813 ACCATGT--T
1 ACCATGTAAG
54806821 ACCATGTAAG
1 ACCATGTAAG
54806831 ACCATGTTAAG
1 ACCATG-TAAG
54806842 AC
1 AC
54806844 ATGGCATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.27
10 13 0.50
11 6 0.23
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (10 bp):
ACCATGTAAG
Found at i:54807008 original size:47 final size:47
Alignment explanation
Indices: 54806949--54807070 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
54806939 CCATTGGCAC
*
54806949 TAAGACAAGGATACCATGTAAGACCATGTTTGGGACATGGCATTCGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTCGG
* *
54806996 TAAGACAAGGATACCATATAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTCGG
** * *
54807043 TAAGGTAAGGGTATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
54807071 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTCGG
Found at i:54807178 original size:55 final size:54
Alignment explanation
Indices: 54807043--54807243 Score: 235
Period size: 54 Copynumber: 3.7 Consensus size: 54
54807033 TGGCATTTGG
* * * * *
54807043 TAAGGTAAGGGTATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
* * *
54807097 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTA
* * * *
54807152 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGAATTGGTGAGTTC-A
1 TAAGGC-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
** *
54807205 TAAGGCAAGGATACCACATAAGACCATGTCAAGACATGG
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGG
54807244 AAATGGTAAG
Statistics
Matches: 126, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.24
54 46 0.37
55 42 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTA
Found at i:54807275 original size:108 final size:109
Alignment explanation
Indices: 54807057--54807280 Score: 290
Period size: 108 Copynumber: 2.1 Consensus size: 109
54807047 GTAAGGGTAT
* * **
54807057 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGAAACCACATAAGACC
* * * * * *
54807122 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGAAATGATAAGTTACAAAAAGGAAAAGGTCC
* * *
54807166 CATGTAAGACCATGCCAAGGCATGGAATTGGTGAGTTC-ATAAGGCAAGGATACCACATAAGACC
1 CATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGAAACCACATAAGACC
*
54807230 ATGTCAAGACATGGAAATGGTAAGTT-CAAAAAGGAAAAGGTTCC
66 ATGTCAAGACATGGAAATGATAAGTTACAAAAAGGAAAAGG-TCC
*
54807274 CAAGTAA
1 CATGTAA
54807281 TCCAAAGAGT
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
107 11 0.11
108 53 0.54
109 35 0.35
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGCAAGGAAACCACATAAGACC
ATGTCAAGACATGGAAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:54807588 original size:13 final size:13
Alignment explanation
Indices: 54807570--54807594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54807560 TATGGTCTAC
54807570 GATTTCATGAAAT
1 GATTTCATGAAAT
54807583 GATTTCATGAAA
1 GATTTCATGAAA
54807595 ATTTCATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:54811728 original size:29 final size:27
Alignment explanation
Indices: 54811689--54811744 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 27
54811679 GGGTTATACC
54811689 GATTTGGCTTCGGGCCATGATTATCAGTT
1 GATTTGGCTTC-GGCCATGA-TATCAGTT
54811718 GATTTGGCTTCGGCCATGATATCAGTT
1 GATTTGGCTTCGGCCATGATATCAGTT
54811745 CTTCTGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 8 0.30
28 8 0.30
29 11 0.41
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (27 bp):
GATTTGGCTTCGGCCATGATATCAGTT
Found at i:54812717 original size:41 final size:41
Alignment explanation
Indices: 54812672--54812789 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54812662 TGAAAGATAA
54812672 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54812713 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54812743 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54812784 ATGTAG
1 ATGTAG
54812790 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54812728 original size:71 final size:71
Alignment explanation
Indices: 54812640--54812803 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
54812630 GAGATGTATC
54812640 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54812705 AGGACA
66 AGGACA
54812711 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54812776 AGGACA
66 AGGACA
54812782 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54812804 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54819783 original size:68 final size:70
Alignment explanation
Indices: 54819711--54819908 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
54819701 ACACCCTGTA
* * * *
54819711 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGTGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
54819773 ATAAAT
65 ATAAAT
* *
54819779 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGTGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
54819844 ATAAAT
65 ATAAAT
*
54819850 GTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGTGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
54819909 AGACAAATCG
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 23 0.19
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGTGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:54819833 original size:71 final size:71
Alignment explanation
Indices: 54819745--54819908 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
54819735 GAGATGTATC
54819745 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54819810 AGGACA
66 AGGACA
*
54819816 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54819881 AGGACA
66 AGGACA
54819887 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54819909 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54824546 original size:28 final size:28
Alignment explanation
Indices: 54824514--54824583 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
54824504 ATAGTAAGTC
54824514 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
54824542 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
54824570 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54824584 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:54832326 original size:28 final size:28
Alignment explanation
Indices: 54832294--54832363 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
54832284 ATAGTAAGTC
54832294 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
54832322 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
54832350 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54832364 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:54837257 original size:2 final size:2
Alignment explanation
Indices: 54837250--54837277 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
54837240 GATTAAATCA
54837250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54837278 GTTAGTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54837429 original size:24 final size:25
Alignment explanation
Indices: 54837402--54837458 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
54837392 AGCTCATATA
*
54837402 AGCTTACTGA-TTGTAGCTCGTGAG
1 AGCTTACTGATTTATAGCTCGTGAG
*
54837426 AGCTTACCGATTTATAGCTCGTGAG
1 AGCTTACTGATTTATAGCTCGTGAG
*
54837451 AGCATACT
1 AGCTTACT
54837459 AATTCACAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (25 bp):
AGCTTACTGATTTATAGCTCGTGAG
Found at i:54847016 original size:40 final size:39
Alignment explanation
Indices: 54846971--54847178 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
54846961 CGGAATACAA
*
54846971 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
54847011 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
54847051 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
54847091 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
54847131 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
54847171 CCGGATAT
1 CCGGATAT
54847179 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:54847111 original size:80 final size:80
Alignment explanation
Indices: 54846971--54847177 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
54846961 CGGAATACAA
* * *
54846971 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
54847035 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
54847051 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
54847115 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
54847131 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
54847178 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:54849729 original size:46 final size:46
Alignment explanation
Indices: 54849679--54849854 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
54849669 TGGTTGAGCA
*
54849679 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
54849725 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
54849772 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
54849818 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54849855 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:54849835 original size:93 final size:93
Alignment explanation
Indices: 54849676--54849846 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
54849666 GGATGGTTGA
* *
54849676 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
54849741 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
54849769 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
54849834 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54849847 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:54852780 original size:15 final size:15
Alignment explanation
Indices: 54852760--54852828 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
54852750 GTATCTTGGG
54852760 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
54852775 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
54852790 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
54852805 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
54852820 TTTCTTTAT
1 TTTCTTTAT
54852829 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:54852829 original size:30 final size:30
Alignment explanation
Indices: 54852751--54852838 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
54852741 CATAGTATCG
* * * *
54852751 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
54852781 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
54852811 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
54852839 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:54855262 original size:46 final size:46
Alignment explanation
Indices: 54855212--54855387 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
54855202 TGGTTGAGCA
54855212 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
54855258 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* *
54855303 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
54855351 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54855388 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 64 0.57
47 27 0.24
48 2 0.02
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:54855368 original size:93 final size:93
Alignment explanation
Indices: 54855209--54855379 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
54855199 GGATGGTTGA
*
54855209 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
54855274 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
54855302 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
54855367 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54855380 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:54859705 original size:94 final size:94
Alignment explanation
Indices: 54859417--54859725 Score: 310
Period size: 94 Copynumber: 3.3 Consensus size: 94
54859407 GTGCCCATGC
** * *
54859417 CATGTCCCAAACATGGTCTTACACTGGCTATCATCTTCGAGGCTGATGCCATGTCCCAGACATGG
1 CATGTCCCAAACATGGTCTTACACTAAC-ATCATC-TC-ATGCCGATGCCATGTCCCAGACATGG
*
54859482 TCTTATACTAGCTCTCACATAACCGT-GATGATG
63 TCTTATACTAGCTCT-ACATAA-CGTGGCTGATG
* **
54859515 CCATGTCCCAGACATGGTCTTACACCGACA-CATCTCATAGCCGATG-CATGTCCCAGACAT-GT
1 -CATGTCCCAAACATGGTCTTACACTAACATCATCTCAT-GCCGATGCCATGTCCCAGACATGGT
* * * ** *
54859577 CTTATATTGGCT-TACGTCCCGAGGCTGATG
64 CTTATACTAGCTCTACATAACGTGGCTGATG
*
54859607 CATGTCCCAAACAT-GTCTTACACTAACACTCGTCTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAAACATGGTCTTACACTAACA-TCATCTC-ATGCCGATGCCATGTCCCAGACATGGT
* * *
54859671 CTTACACTAGCTCT-CATAATGTGGCCGATG
64 CTTATACTAGCTCTACATAACGTGGCTGATG
*
54859701 CATGTCCCAGACAT-GTCTTACACTA
1 CATGTCCCAAACATGGTCTTACACTA
54859726 GCTCACACAA
Statistics
Matches: 176, Mismatches: 26, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
90 12 0.07
91 15 0.09
92 21 0.12
93 17 0.10
94 57 0.32
95 16 0.09
96 8 0.05
97 4 0.02
98 1 0.01
99 25 0.14
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
CATGTCCCAAACATGGTCTTACACTAACATCATCTCATGCCGATGCCATGTCCCAGACATGGTCT
TATACTAGCTCTACATAACGTGGCTGATG
Found at i:54859729 original size:46 final size:46
Alignment explanation
Indices: 54859405--54859729 Score: 199
Period size: 46 Copynumber: 6.9 Consensus size: 46
54859395 ATCATGGGTA
* * * *
54859405 AAGTGCCCATGCCATGTCCCAAACATGGTCTTACACTGGCTATCATCTT
1 AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC--TC-TCAT
* * *
54859454 CGAG-GCTGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCACAT
1 -AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CAT
** * *
54859502 AACCGTGATGATGCCATGTCCCAGACATGGTCTTACACCGACACATCTCAT
1 AA--GTGCCGATGCCATGTCCCAGACATGGTCTTACA-CTA-GC-TCTCAT
* * * **
54859553 -A--GCCGATG-CATGTCCCAGACAT-GTCTTATATTGGCTTACGTCCC
1 AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-T-C-TCAT
* * * *
54859597 GAG-GCTGATG-CATGTCCCAAACAT-GTCTTACACTAACACTCGTC-T
1 AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACT-A-GCTC-TCAT
54859642 CAA-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
1 -AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
54859688 AATGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
1 AA-GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
54859730 ACACAAATGA
Statistics
Matches: 220, Mismatches: 33, Indels: 48
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 9 0.04
45 19 0.09
46 63 0.29
47 33 0.15
48 20 0.09
49 32 0.15
50 32 0.15
51 5 0.02
52 1 0.00
53 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
Found at i:54861429 original size:21 final size:20
Alignment explanation
Indices: 54861405--54861443 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54861395 TAGGGATTAA
54861405 ATTGTGAAATGTGTAAAATTC
1 ATTGTGAAAT-TGTAAAATTC
* *
54861426 ATTGTTAAGTTGTAAAAT
1 ATTGTGAAATTGTAAAAT
54861444 AAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTGTGAAATTGTAAAATTC
Found at i:54864877 original size:26 final size:26
Alignment explanation
Indices: 54864816--54864882 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
54864806 CACACCTTAA
*
54864816 CTCTT-ATGAGCATCCCGATTAAAGG
1 CTCTTCATGAGCTTCCCGATTAAAGG
*
54864841 CTCTTCATGAGCTTCCCG-TTAATTGG
1 CTCTTCATGAGCTTCCCGATTAA-AGG
**
54864867 CTCTTTGTGAGCTTCC
1 CTCTTCATGAGCTTCC
54864883 TAATAGTGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 9 0.25
26 27 0.75
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (26 bp):
CTCTTCATGAGCTTCCCGATTAAAGG
Found at i:54864976 original size:24 final size:24
Alignment explanation
Indices: 54864816--54865055 Score: 88
Period size: 24 Copynumber: 9.9 Consensus size: 24
54864806 CACACCTTAA
* *
54864816 CTCTTATGAGCATCCCGATTAAAGG
1 CTCTTATGAGCTTCCCGATT-ATGG
54864841 CTCTTCATGAGCTTCCCG-TTAATTGG
1 CTCTT-ATGAGCTTCCCGATT-A-TGG
* * *
54864867 CTCTTTGTGAGCTT-CCTAATA-GTG
1 CTC-TTATGAGCTTCCCGATTATG-G
* *
54864891 CTCGCTA-GAACTTCCCGA-TATTGG
1 CTC-TTATGAGCTTCCCGATTA-TGG
* ***
54864915 CTATCCGGAGCTTCCCGA-TATGG
1 CTCTTATGAGCTTCCCGATTATGG
* * *
54864938 TTCTTTGTGAACTTCCCGATTATGG
1 CTC-TTATGAGCTTCCCGATTATGG
*
54864963 CTCTTATGAGCTTCCC-ATTATATAG
1 CTCTTATGAGCTTCCCGA-T-TATGG
* ** *
54864988 CCCGAATAAGCTTCCCGA-TA-GG
1 CTCTTATGAGCTTCCCGATTATGG
* *
54865010 CTTTTTATGAGCTTCCCGA-AATGG
1 C-TCTTATGAGCTTCCCGATTATGG
*
54865034 CTCTGTGTGAGCTTCCCG-TTAT
1 CTCT-TATGAGCTTCCCGATTAT
54865056 AAGGCTCGAG
Statistics
Matches: 158, Mismatches: 39, Indels: 37
0.68 0.17 0.16
Matches are distributed among these distances:
22 2 0.01
23 30 0.19
24 63 0.40
25 36 0.23
26 25 0.16
27 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
CTCTTATGAGCTTCCCGATTATGG
Found at i:54866617 original size:15 final size:16
Alignment explanation
Indices: 54866597--54866626 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54866587 TGGTGCCTTG
54866597 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
54866612 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
54866627 AGTATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:54876177 original size:3 final size:3
Alignment explanation
Indices: 54876171--54876200 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
54876161 ATGGTGGTTT
54876171 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
54876201 CCGGTAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:54876259 original size:6 final size:6
Alignment explanation
Indices: 54876248--54876273 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
54876238 GGGTGGAGGA
54876248 GGCGGT GGCGGT GGCGGT GGCGGT GG
1 GGCGGT GGCGGT GGCGGT GGCGGT GG
54876274 ATTTTGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.69, T:0.15
Consensus pattern (6 bp):
GGCGGT
Found at i:54886325 original size:10 final size:10
Alignment explanation
Indices: 54886290--54886335 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
54886280 TATATTCCGA
54886290 CACATATCAAT
1 CACATAT-AAT
*
54886301 CACATATAAG
1 CACATATAAT
54886311 CACATATAAT
1 CACATATAAT
* *
54886321 TACATACAAT
1 CACATATAAT
54886331 CACAT
1 CACAT
54886336 TTAGTCACAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (10 bp):
CACATATAAT
Found at i:54888099 original size:42 final size:42
Alignment explanation
Indices: 54888043--54888198 Score: 213
Period size: 42 Copynumber: 3.7 Consensus size: 42
54888033 ACTGAGATTA
* * *
54888043 CGTGTAAGAGCATATCTAGGATATGGCATCGATATGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
54888085 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
* * * * * *
54888127 TGTGTAAGACCGTAGCTGGGCTATTGGCATCAATACGAGATTT
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATACGAGACTT
*
54888170 CATGTAAGACCATATCTGGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
54888199 TGTATGGTAT
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 64 0.65
43 35 0.35
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
Found at i:54889783 original size:40 final size:40
Alignment explanation
Indices: 54889716--54889808 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
54889706 CTTGGTATCA
* *
54889716 CACACTTAGTGCCTCATATAGCTGAAGCTA-TTCTAACTCG
1 CACACTTAGTGCCTCATATAGCCGAAGCTATTTCGAAC-CG
* *
54889756 CACACTTAGTGCCAT-TTGTAGCCGAAGCTATTTCGAACCG
1 CACACTTAGTGCC-TCATATAGCCGAAGCTATTTCGAACCG
54889796 CACACTTAGTGCC
1 CACACTTAGTGCC
54889809 GATCAAAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 40 0.85
41 7 0.15
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (40 bp):
CACACTTAGTGCCTCATATAGCCGAAGCTATTTCGAACCG
Found at i:54913179 original size:29 final size:29
Alignment explanation
Indices: 54913137--54913194 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
54913127 ACAAAGTAAG
*
54913137 CTTTGAAAACTTAGTAAGCCATAAGCAAA
1 CTTTGAAAACTTAGTAAGCCAGAAGCAAA
54913166 CTTTGAAAACTTAGTAAGCCAGAAGCAAA
1 CTTTGAAAACTTAGTAAGCCAGAAGCAAA
54913195 TAAATCATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (29 bp):
CTTTGAAAACTTAGTAAGCCAGAAGCAAA
Found at i:54920782 original size:852 final size:850
Alignment explanation
Indices: 54919111--54920816 Score: 2621
Period size: 852 Copynumber: 2.0 Consensus size: 850
54919101 GTCTTCCATT
* *
54919111 ACCTCTACCGCGACCACGACCCCAGCAATAGTAGTAGTAGGTGCCAAACTCTGAGTGTGTGATAC
1 ACCTCTACCGCGACCACGACCCCAGCAAAAGTAGTAGTAGGTGCCAAACTCTGAGTCTGTGATAC
*
54919176 CTTTATTCTATTCAGACAATCCCTAAGAAAATGTTCTTTCAAACCACACTTATAATATCCACTTG
66 CTTTATTCTATTCAGACAATCCCTAAGAAAATGTTCTTTCAAACCACACTTATAACATCCACTTG
*
54919241 TCAACTTACGACACTCTCCAAGATGCCTACGATCGCAATGAGAAAAAAGCGACCATCTAGAACAA
131 TCAACTTACGACACTCTCCAAGATGCCTACGATCACAATGAGAAAAAAGCGACCATCTAGAACAA
** * *
54919306 CCAGTGCTAGTCACAGTATTACTCTTCTGTTTAGATTGACTCGATTGAGACACACGTCTTGCACC
196 CCAGTGCTAGTCACAACATTACTCTTCTGTTTAGATTGACTCGATCGAGACACACATCTTGCACC
* *
54919371 CCTACCAGAGACTTAATTATCACGCCCCTTATTGGGCAGACGTCTAGAAGCACCATTGGAAGCCG
261 CCTACCAGAGACGTAATTATCACGCCCCTTATTGGGCAGACGTCTAGAAGCACCATTGGAAGCCC
* * * * *
54919436 TTTTACTAGTCTCAGCCACTATCAAACATGCTGGCTCAGCCAAAGTCTCCTCTACGGCCTTGGCT
326 TTTTACCAGTCTCAGCAACTATCAAACAAGCTCGCTCAGCCAAAGTCTCCTCTACGACCTTGGCT
* * *
54919501 TTTTCCCCAAGCTCATCAAACAACTCTGTATTTTTGGCCATTAAATAAACCCGAATCTCTCAATT
391 TTTTCCACAAGCTCATCAAACAACTCTGTATTTTGGGCCATTAAATAAACCCAAATCTCTCAATT
* * ** * * * * *
54919566 AAGCTTGAAACAAAACCTCTTACAACATTCCTTCCCAGCCAATAGCATTTCAAAAGTATACTGAC
456 AAGCCTAAAACAAAACCTCTTACAACAACCCTTCCCAGCCAACACCATCTCAAAAGCATACTAAC
* * *
54919631 TGAGGCGCACAAACTTTACCTCATAGTCAGCCAGAGACAACTCACCATGCACAAGATCTAAAAAT
521 CGAGGCGCACAAACTATACCTCATAGTCAGCCAGAGACAACCCACCATGCACAAGATCTAAAAAT
* * * * * * *
54919696 TCCCACTTACGATCTTCCTTATACTTCTCGCCCATAAACTTCTTCCTAAGCACCACTAAAAATAA
586 TACCACTTACGATATTCCATAAACTACTCACCCATAAACTTCTTCCTAAGCACAACTAAAAATAA
*
54919761 TCCCAAGTTAAACGATCAGTGGTTGTACCTCTTTTAACATTATTCCACCAATGACGTGCCTCCCA
651 TCCCAAGTTAAACGATCAGTGGTTGTACCTCTTTTAACATTATTCCACCAAAGACGTGCCTCCCA
* * *
54919826 ATCAAGTAGGGACACAGTACAACCCAATTTCTCCTCGTTAGATCATGACATCTGTTCGAGGGTCC
716 ATCAAGTAGGGACACAATACAACCCAATTTCTCCTCGTTAGAACATGACATCTGTTCAAGGGTCC
*
54919891 TTTCAACTCCTTCCAACCAGTATTCAGCTATGGTTGAATCGGTCTTTTTGACCCTAAAAAACTCT
781 TTTCAACTCCTTCCAACCAGTATTCAGCTATGGTTGAATCAGTCTTTTTGACCCTAAAAAACTCT
54919956 TTACG
846 TTACG
* *
54919961 ACCTCTACCGCGACCATGACCCCTAGCAAAAGTAGTAGTAGGTGGCAAACTCTGAGTCTGTGATA
1 ACCTCTACCGCGACCACGACCCC-AGCAAAAGTAGTAGTAGGTGCCAAACTCTGAGTCTGTGATA
* *
54920026 CCTTTATTCTATTCGGA-AAGTCCCTAAGAAAATGTTCTTT-AGAACCACACTTATAACATCCTC
65 CCTTTATTCTATTCAGACAA-TCCCTAAGAAAATGTTCTTTCA-AACCACACTTATAACATCCAC
* * *
54920089 TTGTCAACTTACGACACTCTCCAAGATGCCTACGATCACAATGAGCACAAAGCGACTATCTAGAA
128 TTGTCAACTTACGACACTCTCCAAGATGCCTACGATCACAATGAGAAAAAAGCGACCATCTAGAA
* *
54920154 CCACCAGTGCTAGTCACAACATTACT-TTACT-TTTAGATTGACTC-AGTCGAGACCCACATCTT
193 CAACCAGTGCTAGTCACAACATTACTCTT-CTGTTTAGATTGACTCGA-TCGAGACACACATC-T
* * ** *
54920216 CTGCACCCCTACTAGAGCCGTAATTATCACGCCCCTTATTGGGTGGACGTCTAGAAGCAGCATTG
255 -TGCACCCCTACCAGAGACGTAATTATCACGCCCCTTATTGGGCAGACGTCTAGAAGCACCATTG
*
54920281 GAAGCCCTTTTACCAGTCTCAGCAACTATCAAACAAGCTCGCTCAGCCAAAGTCTCCTTTACGAC
319 GAAGCCCTTTTACCAGTCTCAGCAACTATCAAACAAGCTCGCTCAGCCAAAGTCTCCTCTACGAC
* *
54920346 CTTGGCTTTTTCCATAAGCTCATCAAACAACTCTGTATTTTGGGCCATTAAATAAACCCAAATGT
384 CTTGGCTTTTTCCACAAGCTCATCAAACAACTCTGTATTTTGGGCCATTAAATAAACCCAAATCT
* * * *
54920411 CTCAATTAAGCCTAAAACAGAACCTCTTACAACAACCCTTCCTAGTCAACACCATCTCAAGAGCA
449 CTCAATTAAGCCTAAAACAAAACCTCTTACAACAACCCTTCCCAGCCAACACCATCTCAAAAGCA
* * *
54920476 TACTAACCGAGGCTCACAAACTATGCCTCATAGTCAGCCATAGACAACCCACCATGCACAAGATC
514 TACTAACCGAGGCGCACAAACTATACCTCATAGTCAGCCAGAGACAACCCACCATGCACAAGATC
*
54920541 TAAAAATTACCACTTACGATATTCCATAAACTACTCACCCATAAACTTCTTCCTAAGCACAACTG
579 TAAAAATTACCACTTACGATATTCCATAAACTACTCACCCATAAACTTCTTCCTAAGCACAACTA
* * * *
54920606 AAAATAATTCCAAGTTAAACGCTCAGTGGTTGTACCTCTTTTAACATTATTCTACCAAAGATGTG
644 AAAATAATCCCAAGTTAAACGATCAGTGGTTGTACCTCTTTTAACATTATTCCACCAAAGACGTG
* * * *
54920671 CCTCCTAATCAAGTAGGGCCACAATATAACCCAATTTCTCCTTGTTAGAACATGACATCTGTTCA
709 CCTCCCAATCAAGTAGGGACACAATACAACCCAATTTCTCCTCGTTAGAACATGACATCTGTTCA
* *
54920736 AGGGTCCTTTCGACTCCTTCCAACCAGTATTCAGCTATGGTTGAATCAGTCTTTTTGACTCTAAA
774 AGGGTCCTTTCAACTCCTTCCAACCAGTATTCAGCTATGGTTGAATCAGTCTTTTTGACCCTAAA
54920801 AAACTCTTTACG
839 AAACTCTTTACG
54920813 ACCT
1 ACCT
54920817 AACGCCCAAA
Statistics
Matches: 772, Mismatches: 77, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
849 1 0.00
850 51 0.07
851 180 0.23
852 540 0.70
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (850 bp):
ACCTCTACCGCGACCACGACCCCAGCAAAAGTAGTAGTAGGTGCCAAACTCTGAGTCTGTGATAC
CTTTATTCTATTCAGACAATCCCTAAGAAAATGTTCTTTCAAACCACACTTATAACATCCACTTG
TCAACTTACGACACTCTCCAAGATGCCTACGATCACAATGAGAAAAAAGCGACCATCTAGAACAA
CCAGTGCTAGTCACAACATTACTCTTCTGTTTAGATTGACTCGATCGAGACACACATCTTGCACC
CCTACCAGAGACGTAATTATCACGCCCCTTATTGGGCAGACGTCTAGAAGCACCATTGGAAGCCC
TTTTACCAGTCTCAGCAACTATCAAACAAGCTCGCTCAGCCAAAGTCTCCTCTACGACCTTGGCT
TTTTCCACAAGCTCATCAAACAACTCTGTATTTTGGGCCATTAAATAAACCCAAATCTCTCAATT
AAGCCTAAAACAAAACCTCTTACAACAACCCTTCCCAGCCAACACCATCTCAAAAGCATACTAAC
CGAGGCGCACAAACTATACCTCATAGTCAGCCAGAGACAACCCACCATGCACAAGATCTAAAAAT
TACCACTTACGATATTCCATAAACTACTCACCCATAAACTTCTTCCTAAGCACAACTAAAAATAA
TCCCAAGTTAAACGATCAGTGGTTGTACCTCTTTTAACATTATTCCACCAAAGACGTGCCTCCCA
ATCAAGTAGGGACACAATACAACCCAATTTCTCCTCGTTAGAACATGACATCTGTTCAAGGGTCC
TTTCAACTCCTTCCAACCAGTATTCAGCTATGGTTGAATCAGTCTTTTTGACCCTAAAAAACTCT
TTACG
Found at i:54926059 original size:43 final size:43
Alignment explanation
Indices: 54926009--54926261 Score: 407
Period size: 43 Copynumber: 5.9 Consensus size: 43
54925999 GCATGAAACT
*
54926009 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
** * *
54926052 TTGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
54926095 CGATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
54926138 CGGTGATGTGTATTCAGGCCTTCGTCCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
54926181 CGGTGAAGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
54926224 CAGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
54926262 AATGCCAGTG
Statistics
Matches: 191, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 191 1.00
ACGTcount: A:0.11, C:0.24, G:0.32, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:54926463 original size:29 final size:29
Alignment explanation
Indices: 54926430--54926528 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
54926420 ATGATTAGAG
*
54926430 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCAAATTCCTTTAACCGA
* ** **
54926459 GCACTATGTGTGCGAGA-T-CGGTAATTGA
1 GCACTATGTGTGC-AAATTCCTTTAACCGA
*
54926487 GGCACTGTGTGTGCAAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATTCCTTTAACCGA
54926517 GCACTATGTGTG
1 GCACTATGTGTG
54926529 TGAGATCGGT
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
28 8 0.15
29 37 0.70
30 8 0.15
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCTTTAACCGA
Found at i:54926495 original size:58 final size:58
Alignment explanation
Indices: 54926427--54926595 Score: 286
Period size: 58 Copynumber: 2.9 Consensus size: 58
54926417 CAAATGATTA
54926427 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
*
54926485 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGTGAGATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* * * *
54926543 GAGGCACTGTGTGTGCGAGTT-CTTCAATCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
54926596 CAGTGGGCAT
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 29 0.28
58 76 0.72
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:54926549 original size:29 final size:28
Alignment explanation
Indices: 54926456--54926595 Score: 122
Period size: 29 Copynumber: 4.9 Consensus size: 28
54926446 TTCCTTTAAC
54926456 CGAGCACTATGTGTGCGAGATCGGTAAT
1 CGAGCACTATGTGTGCGAGATCGGTAAT
* * * ** *
54926484 TGAGGCACTGTGTGTGC-AAATTCCTTTAAC
1 CGA-GCACTATGTGTGCGAGA-T-CGGTAAT
*
54926514 CGAGCACTATGTGTGTGAGATCGGTAAT
1 CGAGCACTATGTGTGCGAGATCGGTAAT
* * * *
54926542 TGAGGCACTGTGTGTGCGAGTTC-TTCAAT
1 CGA-GCACTATGTGTGCGAGATCGGT-AAT
54926571 CGAGCACTATGTGTGCGAGATCGGT
1 CGAGCACTATGTGTGCGAGATCGGT
54926596 CAGTGGGCAT
Statistics
Matches: 83, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
28 28 0.34
29 47 0.57
30 8 0.10
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
CGAGCACTATGTGTGCGAGATCGGTAAT
Found at i:54928067 original size:40 final size:40
Alignment explanation
Indices: 54927959--54928168 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
54927949 CGGGATTTAA
* * * * *
54927959 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
54927999 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54928039 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54928079 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54928119 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54928159 CCGGATATAT
1 CCGGATATAT
54928169 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:54936194 original size:40 final size:40
Alignment explanation
Indices: 54936086--54936295 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
54936076 CGGGATTTAA
* * * * *
54936086 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
54936126 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54936166 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54936206 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54936246 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54936286 CCGGATATAT
1 CCGGATATAT
54936296 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:54939224 original size:40 final size:40
Alignment explanation
Indices: 54939179--54939344 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
54939169 CGGAATATAA
54939179 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
54939219 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
54939259 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
54939298 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54939337 CCGGATAT
1 CCGGATAT
54939345 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54939301 original size:39 final size:38
Alignment explanation
Indices: 54939195--54939306 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
54939185 ATAATCACGT
* * *
54939195 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
54939235 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
54939274 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
54939307 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:54939328 original size:79 final size:78
Alignment explanation
Indices: 54939195--54939344 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
54939185 ATAATCACGT
*
54939195 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
54939260 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
54939274 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
54939337 CCGGATAT
64 CCGGATAT
54939345 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:54940188 original size:17 final size:19
Alignment explanation
Indices: 54940165--54940210 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
54940155 AAGAAGCATG
54940165 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
54940183 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
54940201 AATCATGCTC
1 AATCATGCTC
54940211 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:54947216 original size:40 final size:40
Alignment explanation
Indices: 54947171--54947337 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
54947161 CGGAATATAA
54947171 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
54947211 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
54947251 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
54947291 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54947330 CCGGATAT
1 CCGGATAT
54947338 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54947321 original size:80 final size:79
Alignment explanation
Indices: 54947171--54947337 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
54947161 CGGAATATAA
* *
54947171 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
54947236 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
54947251 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
54947313 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
54947330 CCGGATAT
1 CCGGATAT
54947338 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:54948186 original size:17 final size:19
Alignment explanation
Indices: 54948163--54948208 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
54948153 AAGAAGCATG
54948163 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
54948181 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
54948199 AATCATGCTC
1 AATCATGCTC
54948209 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:54965893 original size:2 final size:2
Alignment explanation
Indices: 54965886--54965913 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
54965876 TTTATTGAGT
54965886 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54965914 CATTCGATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54966720 original size:23 final size:25
Alignment explanation
Indices: 54966693--54966784 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 25
54966683 AGTGAAAAGG
*
54966693 GCACTATGTGTGCGAATGG-GGC-A
1 GCACTATGTGTGCGAATGGAAGCTA
*
54966716 GCACTATGTGTGCGTATGGAAAAGCTA
1 GCACTATGTGTGCGAATGG--AAGCTA
**
54966743 GCACTATGTGTGCGAAT-GAATATA
1 GCACTATGTGTGCGAATGGAAGCTA
54966767 TGCACTATGTGTGCGAAT
1 -GCACTATGTGTGCGAAT
54966785 TTATTAACCG
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
23 18 0.31
24 4 0.07
25 17 0.29
26 3 0.05
27 17 0.29
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (25 bp):
GCACTATGTGTGCGAATGGAAGCTA
Found at i:54966745 original size:27 final size:24
Alignment explanation
Indices: 54966715--54966784 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
54966705 CGAATGGGGC
*
54966715 AGCACTATGTGTGCGTATGGAAAAGCT
1 AGCACTATGTGTGCGAAT-GAAAA--T
*
54966742 AGCACTATGTGTGCGAATGAATAT
1 AGCACTATGTGTGCGAATGAAAAT
54966766 ATGCACTATGTGTGCGAAT
1 A-GCACTATGTGTGCGAAT
54966785 TTATTAACCG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 2 0.05
25 17 0.43
26 4 0.10
27 17 0.43
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAATGAAAAT
Found at i:54967379 original size:20 final size:20
Alignment explanation
Indices: 54967354--54967394 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
54967344 TGATCTTATA
54967354 ATGTTAAAATCTTGTTAACT
1 ATGTTAAAATCTTGTTAACT
54967374 ATGTTAAAATCTTGTTAACT
1 ATGTTAAAATCTTGTTAACT
54967394 A
1 A
54967395 GCATGCGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (20 bp):
ATGTTAAAATCTTGTTAACT
Found at i:54970110 original size:43 final size:43
Alignment explanation
Indices: 54970002--54970115 Score: 174
Period size: 43 Copynumber: 2.7 Consensus size: 43
54969992 GCTGGTGAAT
* *
54970002 AATATTATCGGGCTTCGGGCCTAACAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGA
*
54970045 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGA
* **
54970088 AATGATATCGGGCTTCAAGCCTAGCAGG
1 AATAATATCGGGCTTCGGGCCTAGCAGG
54970116 TGAAATGCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGA
Found at i:54972157 original size:16 final size:16
Alignment explanation
Indices: 54972136--54972185 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
54972126 TTGTAACGCC
*
54972136 CCAAAAATCCCAAAAT
1 CCAAAAATCCCGAAAT
* *
54972152 CCAAAAATCTCGAAAC
1 CCAAAAATCCCGAAAT
54972168 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
54972184 CC
1 CC
54972186 CGAACTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.50, C:0.34, G:0.04, T:0.12
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:54977028 original size:40 final size:39
Alignment explanation
Indices: 54976971--54977169 Score: 207
Period size: 40 Copynumber: 5.1 Consensus size: 39
54976961 TCGAATGATG
*
54976971 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAA
*
54977011 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAA
54977050 T-CGGGCTAAG--CCGAAGGCATTTGTGCGAGT-CTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
*
54977085 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTA-AA
* * ** *
54977126 -CCGGGCTATGTCCCGAAGGTATTTGAACGAGTAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAA
54977165 TCCGG
1 TCCGG
54977170 TTAAACTCCG
Statistics
Matches: 137, Mismatches: 10, Indels: 24
0.80 0.06 0.14
Matches are distributed among these distances:
34 2 0.01
35 4 0.03
36 27 0.20
38 27 0.20
39 7 0.05
40 59 0.43
41 11 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:54977102 original size:74 final size:76
Alignment explanation
Indices: 54976973--54977122 Score: 209
Period size: 74 Copynumber: 2.0 Consensus size: 76
54976963 GAATGATGTC
54976973 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGT
1 CGGGCTAAG-CCCGAAGGCTTTGTGCTAAGT-ACTAAATCCGGACTAAGATCCGAAGGCATTTGT
54977038 GCGAGTTACTAAT
64 GCGAGTTACTAAT
* **
54977051 CGGGCTAAG-CCGAAGGCATTTGTGC-GAGT-CTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 CGGGCTAAGCCCGAAGGC-TTTGTGCTAAGTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGT
54977112 GCGAGTTACTA
64 GCGAGTTACTA
54977123 TAACCGGGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
73 1 0.01
74 39 0.58
76 11 0.16
77 7 0.10
78 9 0.13
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (76 bp):
CGGGCTAAGCCCGAAGGCTTTGTGCTAAGTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGC
GAGTTACTAAT
Found at i:54984194 original size:39 final size:39
Alignment explanation
Indices: 54984100--54984281 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 39
54984090 GATTGATGTC
* *
54984100 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT-AATT
*
54984140 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
54984179 CTGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAATC
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATT
* * **
54984218 CGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
* *
54984258 CGGGCTATGTCCCGAAGGTATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
54984282 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 19 0.16
39 28 0.24
40 63 0.53
41 8 0.07
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:54986796 original size:27 final size:28
Alignment explanation
Indices: 54986739--54986808 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
54986729 AAATTTGTAC
**
54986739 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
54986767 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
54986794 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54986809 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:54986817 original size:27 final size:27
Alignment explanation
Indices: 54986739--54986820 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
54986729 AAATTTGTAC
* *
54986739 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
54986767 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
54986794 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
54986821 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:54994845 original size:27 final size:28
Alignment explanation
Indices: 54994788--54994857 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
54994778 AAATTTGTAC
**
54994788 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
54994816 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
54994843 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54994858 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:54994866 original size:27 final size:27
Alignment explanation
Indices: 54994788--54994869 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
54994778 AAATTTGTAC
* *
54994788 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
54994816 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
54994843 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
54994870 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:54998559 original size:40 final size:40
Alignment explanation
Indices: 54998514--54998643 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
54998504 CGGAATACAA
54998514 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
54998554 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
54998594 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
54998634 CCGGATATAA
1 CCGGATATAA
54998644 TTTCCAGCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:55006581 original size:40 final size:40
Alignment explanation
Indices: 55006536--55006664 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
55006526 CGGAATACAA
55006536 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
55006576 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
55006616 CCGGATGTAGCCGCTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
55006655 CCGGATATAA
1 CCGGATATAA
55006665 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 27 0.35
40 50 0.65
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:55015130 original size:40 final size:40
Alignment explanation
Indices: 55015062--55015239 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
55015052 CCAAGGCCAA
* * * *
55015062 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
55015101 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
55015141 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * *
55015181 CGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTT
*
55015221 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
55015240 CATTCAATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 9 0.08
40 99 0.87
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:55019123 original size:27 final size:27
Alignment explanation
Indices: 55019093--55019233 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
55019083 CGACCTGTAA
* *
55019093 AATTACTAAAATACCCCTTTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
55019120 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
55019147 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
55019174 AAATACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
55019201 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
55019228 AATTAC
1 AATTAC
55019234 CATTTTGTCC
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:55019885 original size:27 final size:26
Alignment explanation
Indices: 55019797--55019904 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
55019787 ATTCTGTTAA
* *
55019797 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
* *
55019824 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
55019851 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
** * *
55019878 GTAACTCTGTCAAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
55019904 G
1 G
55019905 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 13 0.19
27 51 0.73
28 6 0.09
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:55022631 original size:40 final size:40
Alignment explanation
Indices: 55022557--55022702 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
55022547 CCGCACCAAG
* * * * * *
55022557 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
55022597 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
55022637 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
55022677 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
55022703 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:55022717 original size:40 final size:40
Alignment explanation
Indices: 55022589--55022740 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
55022579 ATCACGATTT
* * * **
55022589 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
55022629 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
55022669 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
55022709 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55022741 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:55030724 original size:40 final size:40
Alignment explanation
Indices: 55030650--55030795 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
55030640 CCGCACCAAG
* * * * * *
55030650 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
55030690 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
55030730 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
55030770 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
55030796 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:55030810 original size:40 final size:40
Alignment explanation
Indices: 55030682--55030833 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
55030672 ATCACGATTT
* * * **
55030682 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
55030722 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
55030762 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
55030802 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
55030834 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:55040014 original size:10 final size:10
Alignment explanation
Indices: 55039999--55040037 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
55039989 TGCTTTTGTA
55039999 CATGATATGC
1 CATGATATGC
55040009 CATGATATGC
1 CATGATATGC
55040019 ACATGATATGC
1 -CATGATATGC
55040030 CATGATAT
1 CATGATAT
55040038 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:55040023 original size:21 final size:21
Alignment explanation
Indices: 55039998--55040037 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
55039988 CTGCTTTTGT
55039998 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
55040019 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
55040038 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:55040158 original size:24 final size:25
Alignment explanation
Indices: 55040082--55040151 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
55040072 AGGAAGTGAT
* * *
55040082 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
55040107 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
55040132 AAAAGGGCTTTGCCTCAGTT
1 AAAAGGGCTTTGCCCCAGTT
55040152 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:55040164 original size:24 final size:24
Alignment explanation
Indices: 55040107--55040178 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
55040097 CAGTTTACCG
*
55040107 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCTCAG-TTATC
*
55040131 AAAA-AGGGCTTTGCCTCAGTTATT
1 AAAAGA-GGCTTTGCCTCAGTTATC
**
55040155 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCCT-CAGTTAT
55040179 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 20 0.50
25 20 0.50
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCTCAGTTATC
Found at i:55043815 original size:25 final size:24
Alignment explanation
Indices: 55043757--55043816 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
55043747 ATAGCTCGGA
*
55043757 TGAGCATCTTATTATAAGCCCTCT
1 TGAGCATCTTGTTATAAGCCCTCT
** *
55043781 TGAGTGTCTTGTTATATAGCTCT-T
1 TGAGCATCTTGTTATA-AGCCCTCT
55043805 GTGAGCATCTTG
1 -TGAGCATCTTG
55043817 ATCGATAGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (24 bp):
TGAGCATCTTGTTATAAGCCCTCT
Found at i:55046427 original size:40 final size:41
Alignment explanation
Indices: 55046337--55046442 Score: 103
Period size: 40 Copynumber: 2.6 Consensus size: 41
55046327 AGAAATTGAA
* * *
55046337 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT
1 TGATATCCGGGCTAAGACCCGAAGGCAATTATGCTGCAAAT
*
55046378 T-ATAACCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAAT
1 TGATATCCGGGCTAAGACCCGAAGGCAATTATGCTGCAAAT
* * *
55046415 CGTGATATCCGGGTTAAGTCCCGTAGGC
1 --TGATATCCGGGCTAAGACCCGAAGGC
55046443 CTTGGTGCGG
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
37 6 0.11
38 2 0.04
39 4 0.07
40 41 0.76
41 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (41 bp):
TGATATCCGGGCTAAGACCCGAAGGCAATTATGCTGCAAAT
Found at i:55056678 original size:944 final size:962
Alignment explanation
Indices: 55054791--55056697 Score: 3625
Period size: 944 Copynumber: 2.0 Consensus size: 962
55054781 ACTATGTGAA
*
55054791 TGTATTGCTGTAATTAGAGTTGATTATATTCCTTGAGACTTACTAAGCATAAAAATGCTTACTCC
1 TGTATTGCTGTAATTAAAGTTGATTATATTCCTTGAGACTTACTAAGCATAAAAATGCTTACTCC
55054856 GCTGCTTTGGCTCTCAGTTTTCTAGATTTCGCTCGATAGCAATCGGATTCGGGATCGTTGAAGTC
66 GCTGCTTTGGCTCTCAGTTTTCTAGATTTCGCTCGATAGCAATCGGATTCGGGATCGTTGAAGTC
55054921 GAAGTCATCCACACTATCAAGCCCCATTTTGGTATAAATTCTTGGTTGAACTTGAAATGGCATGT
131 GAAGTCATCCACACTATCAAGCCCCATTTTGGTATAAATTCTTGGTTGAACTTGAAATGGCATGT
55054986 ATAGGACTACCCCTTGTTGGTTTAAATATGTTATGATGTATATGTGTACGGCCATGCGAAAATGG
196 ATAGGACTACCCCTTGTTGGTTTAAATATGTTATGATGTATATGTGTACGGCCATGCGAAAATGG
*
55055051 CTCGTAATAGTGAAGTATCAACTTAAACTATTTGCGGTTTGTATATATATATATGGTGTCATGAT
261 CTCGTAAAAGTGAAGTATCAACTTAAACTATTTGCGGTTTGTATATATATATATGGTGTCATGAT
55055116 GTGACTATGAATTGGAAATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAATGATC
326 GTGACTATGAATTGGAAATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAATGATC
*
55055181 ATATGTGGACCTATGTAAGGCAAGACTAGTTGGTTCATGGAGACTACAAAATAGGTAAGACCTAC
391 ATATGTGAACCTATGTAAGGCAAGACTAGTTGGTTCATGGAGACTACAAAATAGGTAAGACCTAC
55055246 CTTAAAAACAGATGCTGCCAGCTGCAGTAACGTGAATGTGAAAAATCACCAAAATTTGTAGGAAT
456 CTTAAAAACAGATGCTGCCAGCTGCAGTAACGTGAATGTGAAAAATCACCAAAATTTGTAGGAAT
*
55055311 GGTATTAAATAGTGAATCAGCTATGTAAATGAACATTGATGAGTCTATTTTCATATGGAAGAAAC
521 GGTATTAAATAGTGAATAAGCTATGTAAATGAACATTGATGAGTCTATTTTCATATGGAAGAAAC
55055376 GAAATGGTCATAGGAGTTACATGTTAAGAGATATTAAAGCTATTGTGAGACAGGGCCAGAACGGT
586 GAAATGGTCATAGGAGTTACATGTTAAGAGATATTAAAGCTATTGTGAGACAGGGCCAGAACGGT
55055441 TTCTGGGTTCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCCAGAAAGAATTAGGAGACAT
651 TTCTGGGTTCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCCAGAAAGAATTAGGAGACAT
*
55055506 ACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTAGAAACAAACGGCACCAGCATTAAA
716 ACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTAGAAACAAACGCCACCAGCATTAAA
55055571 GCCCTGTACAGAGAGATATTCAAGTTATACCGCGCGAAGGTCAGAGCAGTCGATCCCTGTAACAT
781 GCCCTGTACAGAGAGATATTCAAGTTATACCGCGCGAAGGTCAGAGCAGTCGATCCCTGTAACAT
55055636 GGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGG
846 GGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGG
55055701 ATGGATATATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGT
911 ATGGATATATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGT
55055753 TGTATTGCTGTAATTAAAGTTGATTATATTCCTTGAGACTTACTAAGCATAAAAATGCTTACTCC
1 TGTATTGCTGTAATTAAAGTTGATTATATTCCTTGAGACTTACTAAGCATAAAAATGCTTACTCC
55055818 GCTGCTTTGGCTCTC-GTTTTCTAGATTTCGCTCGATAGCAATCGGATTCGGGATCGTT-AAGTC
66 GCTGCTTTGGCTCTCAGTTTTCTAGATTTCGCTCGATAGCAATCGGATTCGGGATCGTTGAAGTC
55055881 GAAGTCATCCACACTATCAAGCCCCATTTTGGTATAAATTCTTGGTTGAACTTGAAATGGCATGT
131 GAAGTCATCCACACTATCAAGCCCCATTTTGGTATAAATTCTTGGTTGAACTTGAAATGGCATGT
*
55055946 ATAGGACTACCCCTTGTTGGTTTAAATATG-TGTGATGTATATGT-TACGGCCATGCGAAAATGG
196 ATAGGACTACCCCTTGTTGGTTTAAATATGTTATGATGTATATGTGTACGGCCATGCGAAAATGG
55056009 CTCGTAAAAGTGAAG-AT-AACTT-AACTATTTG-GGTTTGTAT-TATATATATGGTGTCATGAT
261 CTCGTAAAAGTGAAGTATCAACTTAAACTATTTGCGGTTTGTATATATATATATGGTGTCATGAT
*
55056069 GTGATTATG-ATTGGAAATGGG-ATGTTGGTCACATGATCAGCCATTGG-ATGGTTAAAATGATC
326 GTGACTATGAATTGGAAATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAATGATC
55056131 ATATGTGAACCTATGT-AGGCAAGACTAGTTGGTTCATGGAGACTACAAAATAGGTAAGACCTAC
391 ATATGTGAACCTATGTAAGGCAAGACTAGTTGGTTCATGGAGACTACAAAATAGGTAAGACCTAC
55056195 CTTAAAAACAGATGCTGCCAGCTGCAGT-ACGTGAATGTGAAAAATCACCAAAATTTGTAGGAAT
456 CTTAAAAACAGATGCTGCCAGCTGCAGTAACGTGAATGTGAAAAATCACCAAAATTTGTAGGAAT
55056259 GGTATTAAATAGTGAATAAGCTATGTAAATGAAC-TTGATGAGTCTATTTTCATATGGAAG-AAC
521 GGTATTAAATAGTGAATAAGCTATGTAAATGAACATTGATGAGTCTATTTTCATATGGAAGAAAC
55056322 GAAATGGTCATAGGAGTTACATGTTAAGAGATATTAAAGCTATTGTGAGACAGGGCCAGAACGGT
586 GAAATGGTCATAGGAGTTACATGTTAAGAGATATTAAAGCTATTGTGAGACAGGGCCAGAACGGT
55056387 TTCTGGGTTCCCTGTCGCAACTTTAAAAA-TTACTATAAATTATCCAGAAAGAATTAGGAGACAT
651 TTCTGGGTTCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCCAGAAAGAATTAGGAGACAT
55056451 ACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTAGAAACAAACGCCACCAGCATTAAA
716 ACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTAGAAACAAACGCCACCAGCATTAAA
55056516 GCCCTGTACAGAGAGATATTCAAGTTATACCG-GCGAAGGTCAGAGCAGTCGATCCCTGTAACAT
781 GCCCTGTACAGAGAGATATTCAAGTTATACCGCGCGAAGGTCAGAGCAGTCGATCCCTGTAACAT
55056580 GGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGG
846 GGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGG
55056645 ATGGATATATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGT
911 ATGGATATATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGT
55056697 T
1 T
55056698 TTGAAACTCG
Statistics
Matches: 938, Mismatches: 7, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
944 150 0.16
945 131 0.14
946 97 0.10
947 26 0.03
948 69 0.07
949 76 0.08
950 30 0.03
951 26 0.03
952 12 0.01
953 28 0.03
954 9 0.01
955 9 0.01
956 5 0.01
957 2 0.00
958 33 0.04
959 13 0.01
960 100 0.11
961 43 0.05
962 79 0.08
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (962 bp):
TGTATTGCTGTAATTAAAGTTGATTATATTCCTTGAGACTTACTAAGCATAAAAATGCTTACTCC
GCTGCTTTGGCTCTCAGTTTTCTAGATTTCGCTCGATAGCAATCGGATTCGGGATCGTTGAAGTC
GAAGTCATCCACACTATCAAGCCCCATTTTGGTATAAATTCTTGGTTGAACTTGAAATGGCATGT
ATAGGACTACCCCTTGTTGGTTTAAATATGTTATGATGTATATGTGTACGGCCATGCGAAAATGG
CTCGTAAAAGTGAAGTATCAACTTAAACTATTTGCGGTTTGTATATATATATATGGTGTCATGAT
GTGACTATGAATTGGAAATGGGAATGTTGGTCACATGATCAGCCATTGGCATGGTTAAAATGATC
ATATGTGAACCTATGTAAGGCAAGACTAGTTGGTTCATGGAGACTACAAAATAGGTAAGACCTAC
CTTAAAAACAGATGCTGCCAGCTGCAGTAACGTGAATGTGAAAAATCACCAAAATTTGTAGGAAT
GGTATTAAATAGTGAATAAGCTATGTAAATGAACATTGATGAGTCTATTTTCATATGGAAGAAAC
GAAATGGTCATAGGAGTTACATGTTAAGAGATATTAAAGCTATTGTGAGACAGGGCCAGAACGGT
TTCTGGGTTCCCTGTCGCAACTTTAAAAATTTACTATAAATTATCCAGAAAGAATTAGGAGACAT
ACCTTATATGTACAGATTCCATTTTGAGTCTAGTTTCATTAGAAACAAACGCCACCAGCATTAAA
GCCCTGTACAGAGAGATATTCAAGTTATACCGCGCGAAGGTCAGAGCAGTCGATCCCTGTAACAT
GGGTGACTTTAACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTAGAAATAAATCCATGG
ATGGATATATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGT
Found at i:55069742 original size:28 final size:27
Alignment explanation
Indices: 55069702--55069785 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
55069692 GGAGGAAGCG
*
55069702 TTCTGGTGGCTCTACCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
* *
55069730 TTCTAGTGGCTCTGCCATAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * *
55069757 ATCTGGTGACTCTGTCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
55069784 TT
1 TT
55069786 TGGCAGCCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 32 0.68
28 15 0.32
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:55078151 original size:24 final size:24
Alignment explanation
Indices: 55077883--55078149 Score: 444
Period size: 24 Copynumber: 11.1 Consensus size: 24
55077873 GCAAAGACCA
*
55077883 TATGGCACTATGTGTGCGGTTTAC
1 TATGGCACTATGTGTGCGATTTAC
55077907 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
55077931 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
55077955 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
55077979 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* *
55078003 TATGGCACTAGGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
55078027 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
55078051 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
55078075 TATAGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
55078099 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
55078123 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
55078147 TAT
1 TAT
55078150 AGTCACATTC
Statistics
Matches: 232, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 232 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:55080746 original size:27 final size:28
Alignment explanation
Indices: 55080708--55080820 Score: 144
Period size: 27 Copynumber: 4.2 Consensus size: 28
55080698 GAGGAAGCGT
*
55080708 TCTGGTGGCTCTGCCACAAATATCT-AA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
55080735 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
55080763 TTTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* **
55080790 TCTGGTGACTCTATCAC-AATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
55080816 TCTGG
1 TCTGG
55080821 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:55080794 original size:55 final size:54
Alignment explanation
Indices: 55080710--55080816 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 54
55080700 GGAAGCGTTC
* *
55080710 TGGTGGCTCTGCCACAAATATCTAATCTGGTGGCTCTGCCACAAATATCTGTTTT
1 TGGTGGCTCTGCCACAAATATCTAATCTGGTGACTCTACCAC-AATATCTGTTTT
* *
55080765 TGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTATCACAATATCTGTT
1 TGGTGGCTCTGCCACAAATATCT-AATCTGGTGACTCTACCACAATATCTGTT
55080817 CTGGCAGCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
54 17 0.36
55 30 0.64
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (54 bp):
TGGTGGCTCTGCCACAAATATCTAATCTGGTGACTCTACCACAATATCTGTTTT
Found at i:55082528 original size:24 final size:24
Alignment explanation
Indices: 55082478--55082531 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
55082468 AATCGAATTT
*
55082478 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
55082502 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
55082526 GCACAC
1 GCACAC
55082532 TCAATGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:55084682 original size:28 final size:28
Alignment explanation
Indices: 55084617--55084715 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
55084607 CATGAGATTG
* * *
55084617 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
55084646 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
55084674 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
55084702 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55084716 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:55088250 original size:27 final size:27
Alignment explanation
Indices: 55088220--55088273 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
55088210 GAATACTTTA
* **
55088220 GTTTACCAAATTACTGAAATATCCTCG
1 GTTTACAAAATTACCCAAATATCCTCG
*
55088247 GTTTATAAAATTACCCAAATATCCTCG
1 GTTTACAAAATTACCCAAATATCCTCG
55088274 ATTTGTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.33
Consensus pattern (27 bp):
GTTTACAAAATTACCCAAATATCCTCG
Found at i:55088282 original size:27 final size:27
Alignment explanation
Indices: 55088227--55088422 Score: 126
Period size: 27 Copynumber: 7.3 Consensus size: 27
55088217 TTAGTTTACC
* * * *
55088227 AAATTACTGAAATATCCTCGGTTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55088254 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
55088281 AAATTATCGAAATACCCTCAATTTGCA
1 AAATTACCGAAATACCCTCGATTTGTA
** **
55088308 AAATTATTGAAATACCCTCGACATGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
55088335 AAATTATC-AAAGTACCCTCGATTTACA
1 AAATTACCGAAA-TACCCTCGATTTGTA
** **
55088362 AAATTACC-ATTTTACCCTCGATTTACA
1 AAATTACCGA-AATACCCTCGATTTGTA
* *** **
55088389 AAATTACTGTTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTGTA
55088416 AAATTAC
1 AAATTAC
55088423 TATTTTACCC
Statistics
Matches: 142, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.02
27 139 0.98
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:55088311 original size:54 final size:54
Alignment explanation
Indices: 55088248--55088369 Score: 147
Period size: 54 Copynumber: 2.3 Consensus size: 54
55088238 ATATCCTCGG
* * **
55088248 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTCAA
1 TTTACAAAATTACCCAAATACCCTCGACATGTAAAATTATC-AAAGTACCCTCAA
* *** *
55088302 TTTGCAAAATTATTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCGA
1 TTTACAAAATTACCCAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCAA
55088356 TTTACAAAATTACC
1 TTTACAAAATTACC
55088370 ATTTTACCCT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 3 0.05
54 52 0.95
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
TTTACAAAATTACCCAAATACCCTCGACATGTAAAATTATCAAAGTACCCTCAA
Found at i:55088378 original size:54 final size:54
Alignment explanation
Indices: 55088277--55088544 Score: 147
Period size: 54 Copynumber: 5.0 Consensus size: 54
55088267 ATCCTCGATT
* * ** **
55088277 TGTAAAATTATCGAAATACCCTCAATTTGCAAAATTATTGA-AATACCCTCGACA
1 TGTAAAATTATCGAAATACCCTCGATTTACAAAATTA-CCATTTTACCCTCGACA
**
55088331 TGTAAAATTATC-AAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TGTAAAATTATCGAAA-TACCCTCGATTTACAAAATTACCATTTTACCCTCGACA
** *** *
55088385 TACAAAATTA-CTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTC-A-A
1 TGTAAAATTATC-GAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGACA
* * * ** * * *
55088437 TTTACAGAGTTA-CTATTTTACCCTTGAATTACAAAATTACTATTTTACCCTCG--A
1 TGTA-A-AATTATCGA-AATACCCTCGATTTACAAAATTACCATTTTACCCTCGACA
* * *** * *
55088491 TTTACAGAATTACCGTTCTACCCTCGATTTATAGAATTACCATTTTACCCTCGA
1 TGTA-A-AATTATCGAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGA
55088545 TTTAGAGAAT
Statistics
Matches: 173, Mismatches: 31, Indels: 19
0.78 0.14 0.09
Matches are distributed among these distances:
52 2 0.01
53 7 0.04
54 163 0.94
55 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (54 bp):
TGTAAAATTATCGAAATACCCTCGATTTACAAAATTACCATTTTACCCTCGACA
Found at i:55088405 original size:81 final size:79
Alignment explanation
Indices: 55088320--55088569 Score: 250
Period size: 81 Copynumber: 3.1 Consensus size: 79
55088310 ATTATTGAAA
* *** *
55088320 TACCCTCGACATGTAAAATTATCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGA-ATATAAAATTA-CATTCTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
*
55088385 TACAAAATTACTGTTT
64 TACAAAATTACTATTT
* * * * * * * *
55088401 TACCCTCGATTTACAAAATTACTATTTTACCCTCAATTTACAGAGTTACTATTTTACCCTTGAAT
1 TACCCTCGA-ATATAAAATTAC-ATTCTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
55088466 TACAAAATTACTATTT
64 TACAAAATTACTATTT
* * *
55088482 TACCCTCG-ATTTACAGAATTACCGTTCTACCCTCGATTTATAGAATTACCATTTTACCCTCGAT
1 TACCCTCGAATATA-A-AATTA-CATTCTACCCTCGATTTACAGAATTACCATTTTACCCTCGAT
* * *
55088546 TTAGAGAATTACCATTT
63 TTACAAAATTACTATTT
55088563 TACCCTC
1 TACCCTC
55088570 AATTTAGAAA
Statistics
Matches: 137, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.01
80 2 0.01
81 132 0.96
82 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (79 bp):
TACCCTCGAATATAAAATTACATTCTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
CAAAATTACTATTT
Found at i:55088423 original size:27 final size:27
Alignment explanation
Indices: 55088347--55088580 Score: 297
Period size: 27 Copynumber: 8.7 Consensus size: 27
55088337 ATTATCAAAG
55088347 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
**
55088374 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
55088401 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
55088428 TACCCTCAATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
55088455 TACCCTTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
55088482 TACCCTCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTACAAAATTACCATTT
* *
55088509 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
55088536 TACCCTCGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
55088563 TACCCTCAATTTAGAAAA
1 TACCCTCGATTTACAAAA
55088581 CTACAAAAAT
Statistics
Matches: 184, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 184 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:55088594 original size:81 final size:81
Alignment explanation
Indices: 55088347--55088747 Score: 303
Period size: 81 Copynumber: 4.9 Consensus size: 81
55088337 ATTATCAAAG
* *
55088347 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
* *
55088412 TACAAAATTACTATTT
66 TACAAAATTACAATTA
* * * * *
55088428 TACCCTCAATTTACAGAGTTACTATTTTACCCTTGAATTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
* ** *
55088493 TACAGAATTACCGTTC
66 TACAAAATTACAATTA
* * * * *
55088509 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAGAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
* * **
55088574 TAGAAAACTACAAAAA
66 TACAAAATTACAATTA
* * * *** * ** **
55088590 TACCCCTGGTTTGTA-A-AATTACTAAAATACCCCCTGATTTGTAAAATTACTGA-AATACCCTC
1 TA-CCCTCGATT-TACAGAATTACCATTTTACCCTC-GATTTACAAAATTACT-ATTTTACCCTC
*
55088652 GACTGGTA-AAAATTACCAA--A
62 GA-T-TTACAAAATTA-CAATTA
* * ** * * *
55088672 GTACCATCGATTTATAGAATTACTGTTTTACCC-CGATTTACAGAATTATTATTTTACCCTTGAT
1 -TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGAT
*
55088736 TTAGAAAATTAC
65 TTACAAAATTAC
55088748 CGTTTTACGC
Statistics
Matches: 248, Mismatches: 60, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
79 3 0.01
80 9 0.04
81 170 0.69
82 37 0.15
83 24 0.10
84 5 0.02
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
TACAAAATTACAATTA
Found at i:55088623 original size:28 final size:28
Alignment explanation
Indices: 55088577--55088649 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
55088567 CTCAATTTAG
* * *
55088577 AAAACTACAAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
55088604 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
*
55088632 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
55088650 TCGACTGGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 13 0.32
28 28 0.68
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.27
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:55088663 original size:28 final size:28
Alignment explanation
Indices: 55088602--55088676 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
55088592 CCCCTGGTTT
* *
55088602 GTAAAATTACTAAAATACCCCCTGATTT
1 GTAAAATTACTAAAATACCCCCTGACTG
* *
55088630 GTAAAATTACTGAAATACCCTC-GACTG
1 GTAAAATTACTAAAATACCCCCTGACTG
* *
55088657 GTAAAAATTACCAAAGTACC
1 GT-AAAATTACTAAAATACC
55088677 ATCGATTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 5 0.13
28 34 0.87
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (28 bp):
GTAAAATTACTAAAATACCCCCTGACTG
Found at i:55088716 original size:26 final size:27
Alignment explanation
Indices: 55088673--55088763 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
55088663 ATTACCAAAG
* *
55088673 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
55088700 TACCC-CGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * * *
55088726 TACCCTTGATTTAGAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
55088753 TACGCTCGATT
1 TACCCTCGATT
55088764 ATGAAATTAC
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
26 23 0.45
27 28 0.55
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:55088813 original size:27 final size:27
Alignment explanation
Indices: 55088768--55089098 Score: 353
Period size: 27 Copynumber: 12.3 Consensus size: 27
55088758 TCGATTATGA
* *
55088768 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * ** *
55088795 AATTACCAAAACACTCCTAGT-TTGTAA
1 AATTACCAAAATACCCCT-GTAGGGTAG
*
55088822 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
**
55088849 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
55088876 AATTA-CAGAAATACCCCTGTAAGGTGG
1 AATTACCA-AAATACCCCTGTAGGGTAG
* *
55088903 AATTACCGAAATACCCCTGTATGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
**
55088930 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
55088957 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* ** *
55088984 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
55089011 AATTACCGAAATACCCTTGTAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
55089038 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * * *
55089065 AATTACCAAGATA-CCTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
55089091 AATTACCA
1 AATTACCA
55089099 TTTTGCCCCT
Statistics
Matches: 257, Mismatches: 43, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.07
27 236 0.92
28 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:55089376 original size:27 final size:26
Alignment explanation
Indices: 55089338--55089389 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
55089328 CTCGCTGCAA
*
55089338 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
55089365 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
55089390 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:55089427 original size:67 final size:67
Alignment explanation
Indices: 55089319--55089472 Score: 290
Period size: 67 Copynumber: 2.3 Consensus size: 67
55089309 GAGGAAGCGT
55089319 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
55089384 TA
66 TA
55089386 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
55089451 TA
66 TA
* *
55089453 TCTGGCAACCTCGCTACAAT
1 TCTGGCAGCCTCGCTGCAAT
55089473 TTCTGTGGTG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 85 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:55089443 original size:27 final size:26
Alignment explanation
Indices: 55089405--55089456 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
55089395 CTCGCTGCAA
*
55089405 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
55089432 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
55089457 GCAACCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:55089584 original size:6 final size:6
Alignment explanation
Indices: 55089575--55089820 Score: 182
Period size: 6 Copynumber: 39.8 Consensus size: 6
55089565 TTGCATTCAC
* * *
55089575 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTA ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
55089625 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
55089674 ATTCTG -TTACCTA ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
55089724 ATACTG ATTTTG ATTCTG -TTACCTA ATTCTG ATTCTG GTTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
55089773 ATTCTG -TCACCTG ATTCTG ATTCTG CTTCTG ATTCTG ATTCTA ATTCT
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
55089821 AGTTATGATA
Statistics
Matches: 190, Mismatches: 29, Indels: 42
0.73 0.11 0.16
Matches are distributed among these distances:
5 13 0.07
6 149 0.78
7 18 0.09
8 10 0.05
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:55089606 original size:25 final size:25
Alignment explanation
Indices: 55089575--55089766 Score: 166
Period size: 25 Copynumber: 7.7 Consensus size: 25
55089565 TTGCATTCAC
55089575 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * *
55089600 ATACTGATTCTAATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTG
*
55089625 ATTCTGATTCTGGTTCTGATT--CTG
1 ATTCTGATTCTGATTCTG-TTACCTG
*
55089649 ATTCTG-TTACCTGATACTGATT--CTG
1 ATTCTGATT--CTGATTCTG-TTACCTG
*
55089674 ATTCTG-TTACCTAATTCTGATT--CTG
1 ATTCTGATT--CTGATTCTG-TTACCTG
*
55089699 GTTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
* * *
55089724 ATACTGATTTTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTG
*
55089749 ATTCTGATTCTGGTTCTG
1 ATTCTGATTCTGATTCTG
55089767 ATTTTGATTC
Statistics
Matches: 141, Mismatches: 20, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
23 4 0.03
24 16 0.11
25 117 0.83
26 4 0.03
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:55089644 original size:37 final size:37
Alignment explanation
Indices: 55089597--55089692 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
55089587 ATTCTGTTAC
* *
55089597 CTGATACTGATTCTAATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTAATTCTGTTACCTAATACTGATT
* * *
55089634 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTAATTCTGTTACCTAATACTGATT
55089671 CTGATTCTG-TTACCTAATTCTG
1 CTGATTCTGATT--CTAATTCTG
55089693 ATTCTGGTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 2 0.04
37 40 0.80
38 8 0.16
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTAATTCTGTTACCTAATACTGATT
Found at i:55089678 original size:62 final size:62
Alignment explanation
Indices: 55089576--55089803 Score: 402
Period size: 62 Copynumber: 3.7 Consensus size: 62
55089566 TGCATTCACA
*
55089576 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTAATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
55089638 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
*
55089700 TTCTGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
* * * *
55089762 TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGCTTCTG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG
55089804 ATTCTGATTC
Statistics
Matches: 159, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 159 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (62 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
Found at i:55089706 original size:37 final size:37
Alignment explanation
Indices: 55089659--55089741 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
55089649 ATTCTGTTAC
* *
55089659 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
* *
55089696 CTGGTTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
*
55089733 TTGATTCTG
1 CTGATTCTG
55089742 TTACCTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:55089768 original size:37 final size:37
Alignment explanation
Indices: 55089727--55089814 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
55089717 TTACCTGATA
* *
55089727 CTGATTTTGATTCTGTTACCTAATTCTGATTCTGGTT
1 CTGATTTTGATTCTGTCACCTAATTCTGATTCTGCTT
*
55089764 CTGATTTTGATTCTGTCACCTGATTCTGATTCTGCTT
1 CTGATTTTGATTCTGTCACCTAATTCTGATTCTGCTT
*
55089801 CTGATTCTGATTCT
1 CTGATTTTGATTCT
55089815 AATTCTAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.15, C:0.19, G:0.16, T:0.50
Consensus pattern (37 bp):
CTGATTTTGATTCTGTCACCTAATTCTGATTCTGCTT
Found at i:55092810 original size:7 final size:7
Alignment explanation
Indices: 55092798--55092822 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55092788 TTGGAAGCAA
55092798 AATTGAG
1 AATTGAG
55092805 AATTGAG
1 AATTGAG
55092812 AATTGAG
1 AATTGAG
55092819 AATT
1 AATT
55092823 TCAAGCAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (7 bp):
AATTGAG
Found at i:55094764 original size:41 final size:41
Alignment explanation
Indices: 55094711--55094812 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
55094701 TTGCAGATAT
* *
55094711 CTGACAACTTGTGTGAGCAGAACTGTGTAGCTACGCCCTGA
1 CTGACAGCTTGTGTGAGCAGAACTGTGCAGCTACGCCCTGA
* *
55094752 CTGACAGCTTGTGTGAGCAGCACTGTGCAGCTACGTCCTGA
1 CTGACAGCTTGTGTGAGCAGAACTGTGCAGCTACGCCCTGA
55094793 CTGACAGCTTGTGTGAGCAG
1 CTGACAGCTTGTGTGAGCAG
55094813 GCCCGTGAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (41 bp):
CTGACAGCTTGTGTGAGCAGAACTGTGCAGCTACGCCCTGA
Found at i:55100101 original size:48 final size:48
Alignment explanation
Indices: 55099972--55100151 Score: 204
Period size: 48 Copynumber: 3.8 Consensus size: 48
55099962 TTGATATTGG
* * *
55099972 GAGATATGTATGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC
1 GAGATATTTAAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
* * *
55100020 -A-ATA-TGAGAGCCAGTGTAAGACATGTCTGGGACATGTATCAGCCTC
1 GAGATATTTA-AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
* *
55100066 GAGATATTTAAGCTAGTGTACGACATGTCTGGGACATGCATCGGCCTC
1 GAGATATTTAAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
*** * * *
55100114 GAGATAGACAAGCTAGTGTAAGACCTATTTGGGACATG
1 GAGATATTTAAGCTAGTGTAAGACATGTCTGGGACATG
55100152 GCGTCAGCTT
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 37 0.34
47 2 0.02
48 68 0.62
49 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGATATTTAAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
Found at i:55101739 original size:28 final size:28
Alignment explanation
Indices: 55101678--55101746 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
55101668 TCAGTGTACG
* *
55101678 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
55101706 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
55101734 AAATA-TG-GAATGA
1 AAATATTGAGAATGA
55101747 TTTCTTGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 6 0.17
27 2 0.06
28 28 0.78
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.28
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:55105753 original size:22 final size:23
Alignment explanation
Indices: 55105710--55105756 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
55105700 CGATCAAGGC
* *
55105710 AAGTGTTGAATTATGGCTTTGTT
1 AAGTGTTGAATTAAGGCATTGTT
*
55105733 AAGTGTT-AATTAAGGGATTGTT
1 AAGTGTTGAATTAAGGCATTGTT
55105755 AA
1 AA
55105757 CCCCATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (23 bp):
AAGTGTTGAATTAAGGCATTGTT
Found at i:55107904 original size:34 final size:34
Alignment explanation
Indices: 55107828--55107904 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 34
55107818 AATTGCATAT
*
55107828 CTGTTACTGTTACTGAATTGGGCTAAGGCCCACA
1 CTGTTACTGATACTGAATTGGGCTAAGGCCCACA
*
55107862 CTGATACTGATACTGAATTGGGCTAAGGCCCTA-A
1 CTGTTACTGATACTGAATTGGGCTAAGGCCC-ACA
55107896 CTGTTACTG
1 CTGTTACTG
55107905 GACTGTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (34 bp):
CTGTTACTGATACTGAATTGGGCTAAGGCCCACA
Found at i:55113100 original size:47 final size:47
Alignment explanation
Indices: 55113039--55113286 Score: 397
Period size: 47 Copynumber: 5.2 Consensus size: 47
55113029 CTTCGGGACC
* *
55113039 TATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
* *
55113086 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
*
55113133 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
* * *
55113180 TATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
*
55113227 TATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
55113276 TATCACATATA
1 TATCACATATA
55113287 CATATCTTGT
Statistics
Matches: 184, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 141 0.77
49 43 0.23
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
Found at i:55113198 original size:94 final size:94
Alignment explanation
Indices: 55113037--55113286 Score: 446
Period size: 94 Copynumber: 2.6 Consensus size: 94
55113027 CCCTTCGGGA
* * *
55113037 CCTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
55113102 TTTCACATTCATCACATTGGCCACTCGGC
66 TTTCACATTCATCACATTGGCCACTCGGC
55113131 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
55113196 TTTCACATTCATCACGTTGGCCACTCGGC
66 TTTCACATTCATCACATTGGCCACTCGGC
55113225 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 CCTATCAC--ATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
55113287 CATATCTTGT
Statistics
Matches: 150, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
94 98 0.65
96 52 0.35
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (94 bp):
CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCACTCGGC
Found at i:55116618 original size:40 final size:40
Alignment explanation
Indices: 55116561--55116876 Score: 447
Period size: 40 Copynumber: 7.9 Consensus size: 40
55116551 CGAATACACG
* * * * *
55116561 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
55116601 ACACCAGCACGAATGCTCTTCGGACCTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
55116641 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
55116681 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * *
55116721 TCACCAGCACAAATGCTCTTCGG-GCTTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
55116760 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * * * *
55116800 TCACCAGCACGGATGCTCTTTAGG-GCTTAGCCCGGATATA
1 TCACTAGCACGAATGCTC-TTCGGAACTTAGCCCGGATACA
*
55116840 TCACTAGCACGAATGCTCTTCGGAACTTAACCCGGAT
1 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
55116877 CATTGTCGAG
Statistics
Matches: 244, Mismatches: 29, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
39 39 0.16
40 201 0.82
41 4 0.02
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:55116798 original size:159 final size:160
Alignment explanation
Indices: 55116574--55116876 Score: 493
Period size: 159 Copynumber: 1.9 Consensus size: 160
55116564 CTAGCATGAT
*
55116574 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGACCTTAGCCCGGATA
1 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* *
55116639 CATCACTAGCACGAATGCTC-TTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCG
66 CATCACCAGCACGAATGCTCTTTAGG-ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCG
*
55116703 GAACTTAGCCCGGATACATCACCAGCACAAA
130 GAACTTAACCCGGATACATCACCAGCACAAA
* * *
55116734 TGCTCTTCGGG-CTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* * *
55116798 CATCACCAGCACGGATGCTCTTTAGGGCTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGG
66 CATCACCAGCACGAATGCTCTTTAGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
55116863 AACTTAACCCGGAT
131 AACTTAACCCGGAT
55116877 CATTGTCGAG
Statistics
Matches: 132, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
159 117 0.89
160 15 0.11
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (160 bp):
TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
CATCACCAGCACGAATGCTCTTTAGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
AACTTAACCCGGATACATCACCAGCACAAA
Found at i:55119487 original size:47 final size:47
Alignment explanation
Indices: 55119426--55119673 Score: 397
Period size: 47 Copynumber: 5.2 Consensus size: 47
55119416 CCTTCGGGAC
* *
55119426 TATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
* *
55119473 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
*
55119520 TATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
* * *
55119567 TATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
*
55119614 TATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
55119663 TATCACATATA
1 TATCACATATA
55119674 CATATCTTGT
Statistics
Matches: 184, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 141 0.77
49 43 0.23
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
Done.