Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 239 of 328
Found at i:71355276 original size:79 final size:79
Alignment explanation
Indices: 71355135--71355395 Score: 305
Period size: 79 Copynumber: 3.2 Consensus size: 79
71355125 TTGCATTCAC
* * * * *
71355135 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTG-TTACTAATACTAATT-CTGATTCTGAT
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATT-CTGATTCT-GTTACTAATACTGAT
71355198 TCTGATTCTGTTACTG
64 TCTGATTCTGTTACTG
71355214 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
71355279 TGATTCTGATTTTGTTATTG
66 TGATTC------TGTTACTG
* * *
71355299 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
71355364 TAATTCTGATT-CTG
66 TGATTCTG-TTACTG
*
71355378 -TGACTGATTCTGATTCTG
1 AT-TCTGATTCTGATTCTG
71355396 ATTCTCATTT
Statistics
Matches: 160, Mismatches: 12, Indels: 20
0.83 0.06 0.10
Matches are distributed among these distances:
78 3 0.02
79 79 0.49
80 4 0.03
85 74 0.46
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (79 bp):
ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGTTACTG
Found at i:71355278 original size:85 final size:85
Alignment explanation
Indices: 71355135--71355400 Score: 400
Period size: 85 Copynumber: 3.2 Consensus size: 85
71355125 TTGCATTCAC
** *
71355135 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTG--T-T-A--CTAATACTAATTCTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
71355194 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
71355214 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
* *
71355279 TGATTCTGATTTTGTTATTG
66 TGATTCTGATTCTGTTACTG
* * *
71355299 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
* *
71355364 TAATTCTGATTCTGTGACTG
66 TGATTCTGATTCTGTTACTG
71355384 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
71355401 CATTTTGGTT
Statistics
Matches: 169, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
79 37 0.22
81 1 0.01
82 1 0.01
83 1 0.01
85 129 0.76
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:71360911 original size:68 final size:68
Alignment explanation
Indices: 71360839--71360990 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 68
71360829 CATCATGTGT
* * * *
71360839 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
71360902 TGTAG
64 TGTAG
* * *
71360907 ACAAGAGAGCTAC-AG-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
71360970 GTAG
65 GTAG
*
71360974 ACATGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
71360991 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 3 0.04
67 26 0.37
68 15 0.21
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:71367516 original size:25 final size:25
Alignment explanation
Indices: 71367487--71367534 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
71367477 CCTTATAATG
* * *
71367487 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
71367512 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
71367535 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:71367585 original size:9 final size:9
Alignment explanation
Indices: 71367573--71367629 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
71367563 TTTGATAAAC
71367573 ATGATATGT
1 ATGATATGT
*
71367582 ATGATATGCAC
1 ATGATATG--T
*
71367593 ATGACATGT
1 ATGATATGT
*
71367602 ATGATATGCAC
1 ATGATATG--T
71367613 ATGATATGT
1 ATGATATGT
71367622 ATGATATG
1 ATGATATG
71367630 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:71367596 original size:20 final size:20
Alignment explanation
Indices: 71367571--71367641 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
71367561 ATTTTGATAA
71367571 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71367591 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
71367611 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71367631 ACATGAGATGT
1 ACATGATATGT
71367642 CATAAATGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71367618 original size:11 final size:11
Alignment explanation
Indices: 71367582--71367636 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
71367572 CATGATATGT
71367582 ATGATATGCAC
1 ATGATATGCAC
* *
71367593 ATGACATG--T
1 ATGATATGCAC
71367602 ATGATATGCAC
1 ATGATATGCAC
*
71367613 ATGATATG--T
1 ATGATATGCAC
71367622 ATGATATGCAC
1 ATGATATGCAC
71367633 ATGA
1 ATGA
71367637 GATGTCATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71367651 original size:40 final size:40
Alignment explanation
Indices: 71367571--71367651 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
71367561 ATTTTGATAA
*
71367571 ACATGATATGTATGATATGCACATGACATGTATGATATGC
1 ACATGATATGTATGATATGCACATGACATGTATGAAATGC
*
71367611 ACATGATATGTATGATATGCACATGAGATGTCAT-AAATGC
1 ACATGATATGTATGATATGCACATGACATGT-ATGAAATGC
71367651 A
1 A
71367652 TTGGGTTGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGACATGTATGAAATGC
Found at i:71367737 original size:22 final size:22
Alignment explanation
Indices: 71367687--71367846 Score: 241
Period size: 22 Copynumber: 7.0 Consensus size: 22
71367677 AGGAAGTGCA
71367687 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-T
71367710 AAAGGGCTTATGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
71367732 AAAGGGCTTATGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
71367754 AAAGGGCTTATGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
71367776 AAAGGGCTTATGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
*
71367798 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTA-T
*
71367822 AAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAG-GGCTTATGCC-CCAGTTAT
71367846 A
1 A
71367847 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
22 67 0.52
23 42 0.32
24 11 0.08
25 10 0.08
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (22 bp):
AAAGGGCTTATGCCCCAGTTAT
Found at i:71368072 original size:31 final size:31
Alignment explanation
Indices: 71368037--71368100 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
71368027 CGTTTACAGT
71368037 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
71368068 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71368099 AA
1 AA
71368101 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71374478 original size:18 final size:17
Alignment explanation
Indices: 71374455--71374488 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
71374445 TAGCTGTGCC
71374455 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
71374473 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
71374489 CTCTTCCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:71375864 original size:28 final size:28
Alignment explanation
Indices: 71375803--71375900 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
71375793 TCACAAATTG
** * *
71375803 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
71375832 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
71375860 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
71375888 GCACTAAGTGTGC
1 GCACTAAGTGTGC
71375901 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:71383748 original size:18 final size:17
Alignment explanation
Indices: 71383725--71383758 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
71383715 TAGCTGTGCC
71383725 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
71383743 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
71383759 CTCTTCCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:71385135 original size:28 final size:28
Alignment explanation
Indices: 71385074--71385171 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
71385064 TCACAAATTG
** * *
71385074 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
71385103 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
71385131 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
71385159 GCACTAAGTGTGC
1 GCACTAAGTGTGC
71385172 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:71390950 original size:9 final size:9
Alignment explanation
Indices: 71390938--71390994 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
71390928 TTTGATAAAC
71390938 ATGATATGT
1 ATGATATGT
*
71390947 ATGATATGCAC
1 ATGATATG--T
*
71390958 ATGACATGT
1 ATGATATGT
*
71390967 ATGATATGCAC
1 ATGATATG--T
71390978 ATGATATGT
1 ATGATATGT
71390987 ATGATATG
1 ATGATATG
71390995 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:71390961 original size:20 final size:20
Alignment explanation
Indices: 71390936--71391006 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
71390926 ATTTTGATAA
71390936 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71390956 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
71390976 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
71390996 ACATGAGATGT
1 ACATGATATGT
71391007 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:71390983 original size:11 final size:11
Alignment explanation
Indices: 71390947--71391001 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
71390937 CATGATATGT
71390947 ATGATATGCAC
1 ATGATATGCAC
* *
71390958 ATGACATG--T
1 ATGATATGCAC
71390967 ATGATATGCAC
1 ATGATATGCAC
*
71390978 ATGATATG--T
1 ATGATATGCAC
71390987 ATGATATGCAC
1 ATGATATGCAC
71390998 ATGA
1 ATGA
71391002 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:71391109 original size:25 final size:25
Alignment explanation
Indices: 71391053--71391195 Score: 229
Period size: 25 Copynumber: 5.8 Consensus size: 25
71391043 AGGAAGTGCA
71391053 AAAGGGCTTATGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
71391076 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
71391101 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
71391126 GAAGGGCTTATGCCCCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
71391151 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
71391175 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
71391196 CTAAAAGAGG
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 22 0.20
24 21 0.19
25 69 0.62
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:71391152 original size:50 final size:49
Alignment explanation
Indices: 71391053--71391223 Score: 240
Period size: 50 Copynumber: 3.5 Consensus size: 49
71391043 AGGAAGTGCA
*
71391053 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTACGAT
*
71391101 AAAGGGCTTATGCCCCAGTTATGATGAAGGGCTTATGCCCCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTACGAT
* * *
71391151 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTACGAT
*
71391199 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
71391224 GATAAAGCAG
Statistics
Matches: 111, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
48 31 0.28
49 34 0.31
50 46 0.41
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTACGAT
Found at i:71391207 original size:25 final size:23
Alignment explanation
Indices: 71391052--71391222 Score: 200
Period size: 25 Copynumber: 7.0 Consensus size: 23
71391042 GAGGAAGTGC
71391052 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
71391075 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
71391098 GATAAAGGGCTTATGCCCCAGTTAT
1 -A-AAAGGGCTTATGCCCCAGTTAT
* *
71391123 GATGAAGGGCTTATGCCCCAGTTACG
1 -A-AAAGGGCTTATGCCCCAGTTA-T
71391149 ATAAAGGGCTTATGCCCCAGTTAT
1 A-AAAGGGCTTATGCCCCAGTTAT
*
71391173 AAAAAGGGCTTTTGCCCCAGTTACT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
71391198 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
71391222 A
1 A
71391223 TGATAAAGCA
Statistics
Matches: 132, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
23 22 0.17
24 31 0.23
25 79 0.60
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:71391451 original size:31 final size:31
Alignment explanation
Indices: 71391415--71391478 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71391405 CGTTTACAGT
*
71391415 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
71391446 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
71391477 AA
1 AA
71391479 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:71396024 original size:68 final size:68
Alignment explanation
Indices: 71395952--71396103 Score: 177
Period size: 64 Copynumber: 2.2 Consensus size: 68
71395942 CATCATGTGT
* * * *
71395952 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTG-A-ACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCACATGCGTGATACCAGGTGAAGACACCA
71396015 TGTAG
64 TGTAG
* * *
71396020 ACAAGAGAGCTAC-AG-GATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCACATGCGTGATACCAGGTGAA-GACACCAT
71396083 GTAG
65 GTAG
*
71396087 ACAAGAGAGCTATGAGA
1 ACAAGAGAGCTACGAGA
71396104 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 26 0.37
65 4 0.06
66 1 0.01
67 25 0.35
68 15 0.21
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCACATGCGTGATACCAGGTGAAGACACCATG
TAG
Found at i:71400213 original size:43 final size:43
Alignment explanation
Indices: 71400165--71400294 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 43
71400155 CATAGGATTG
*
71400165 TCGATATGTG-TTCTCATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATT-ACATGTAAGACCACGTCTGGGACGTTGGCA
* * * *
71400208 TCGATAAGTGATTACGTGTAAGACC-CTGTCTGGGA-TTGTGGCT
1 TCGATATGTGATTACATGTAAGACCAC-GTCTGGGACGT-TGGCA
* *
71400251 TCGATATGTGATTAAATGTAAGACTACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
71400294 T
1 T
71400295 TGTACGATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
42 2 0.03
43 65 0.92
44 4 0.06
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:71403044 original size:46 final size:46
Alignment explanation
Indices: 71402977--71403158 Score: 251
Period size: 46 Copynumber: 4.0 Consensus size: 46
71402967 TATATATACA
* * *
71402977 CATCTCATACATATCTCACATTAGCCATTTAGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCAGCTTTACCACATATC
* * *
71403023 CATCTCATACACGTTTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCAGCTTTACCACATATC
* *
71403069 CATCTCATACACGTTT-AGCATTAGCCATTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCA-CATTAGCCATTCAGCTTTACCACATATC
* *
71403115 CATCTCATACACATTTCGCATTAGCCATTC-GGTTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCAGCTTTACCACATAT
71403159 ATACACTTCC
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
45 13 0.11
46 110 0.89
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCAGCTTTACCACATATC
Found at i:71403188 original size:92 final size:91
Alignment explanation
Indices: 71402992--71403205 Score: 254
Period size: 92 Copynumber: 2.3 Consensus size: 91
71402982 CATACATATC
* *
71402992 TCACATTAGCCATTTAGCTTTACCACATATCCATCTCATACACGTTTCACATTAGCCATTCGGCT
1 TCACATTAGCCATTCAGCTTTACCACATATCCATCTCATACACATTTCACATTAGCCATTCGGCT
* *
71403057 TTACCTCATATCCATCTCATACACGTT
66 TTACCACATAT-CATCACATACACGTT
* *
71403084 T-AGCATTAGCCATTCAGCTTTACCTCATATCCATCTCATACACATTTCGCATTAGCCATTCGG-
1 TCA-CATTAGCCATTCAGCTTTACCACATATCCATCTCATACACATTTCACATTAGCCATTCGGC
* *
71403147 TTTACCACATAT-ATACACTTCCACGTT
65 TTTACCACATATCAT-CACATACACGTT
* * * *
71403174 CATCACATTGGCCATTCTGCCTTATCACATAT
1 --TCACATTAGCCATTCAGCTTTACCACATAT
71403206 ATGCATGTTC
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
89 2 0.02
90 9 0.09
91 12 0.12
92 80 0.77
93 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.35
Consensus pattern (91 bp):
TCACATTAGCCATTCAGCTTTACCACATATCCATCTCATACACATTTCACATTAGCCATTCGGCT
TTACCACATATCATCACATACACGTT
Found at i:71403206 original size:47 final size:47
Alignment explanation
Indices: 71403133--71403510 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
71403123 ACACATTTCG
* * * * * *
71403133 CATTAGCCATTCGG-TTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
71403179 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
71403226 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
71403273 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
71403320 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
71403367 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
71403414 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
71403461 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
71403508 CAT
1 CAT
71403511 AAAATCCTAA
Statistics
Matches: 313, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
46 13 0.04
47 300 0.96
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:71406845 original size:26 final size:26
Alignment explanation
Indices: 71406815--71406875 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
71406805 TATCCAGAGC
* *
71406815 TCCTGATTAAAGGCTCTTCATAAGCT
1 TCCTGATTAAAAGCTCTTCATAAACT
* **
71406841 TCCTGATTAAAAGTTCTTTGTAAACT
1 TCCTGATTAAAAGCTCTTCATAAACT
71406867 TCCTGATTA
1 TCCTGATTA
71406876 TGGCTTTGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (26 bp):
TCCTGATTAAAAGCTCTTCATAAACT
Found at i:71413429 original size:29 final size:29
Alignment explanation
Indices: 71413387--71413468 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
71413377 ATTATTTTTT
71413387 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
71413416 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
71413445 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
71413469 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:71421330 original size:29 final size:29
Alignment explanation
Indices: 71421288--71421369 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
71421278 GTATTTTTTT
71421288 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
71421317 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
71421346 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
71421370 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:71430303 original size:40 final size:40
Alignment explanation
Indices: 71430244--71430451 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
71430234 TGAATGATAC
* * *
71430244 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
71430284 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
71430324 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
71430364 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
71430404 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
71430444 CC-GGCTAA
1 CCGGGCTAA
71430452 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.03
40 143 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:71432958 original size:24 final size:24
Alignment explanation
Indices: 71432894--71433010 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
71432884 GCTTTATCAT
*
71432894 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
71432919 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
71432942 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
71432966 ATAAC-GGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
71432988 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
71433011 TCACTTCCTC
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.10
23 43 0.51
24 26 0.31
25 7 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:71433082 original size:9 final size:9
Alignment explanation
Indices: 71433068--71433144 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
71433058 ATCTCGTGTG
71433068 CATATCATA
1 CATATCATA
*
71433077 CATATCATGTG
1 CATATCA--TA
71433088 CATATCATA
1 CATATCATA
* *
71433097 CATGTCATGTG
1 CATATCA--TA
71433108 CATATCATA
1 CATATCATA
*
71433117 CATATCATGTG
1 CATATCA--TA
71433128 CATATCATA
1 CATATCATA
71433137 CATATCAT
1 CATATCAT
71433145 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:71433087 original size:20 final size:20
Alignment explanation
Indices: 71433064--71433146 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
71433054 GAACATCTCG
71433064 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
71433084 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
71433104 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
71433124 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
71433144 TGT
1 TGT
71433147 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:71433093 original size:11 final size:11
Alignment explanation
Indices: 71433064--71433135 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
71433054 GAACATCTCG
71433064 TGTGCATATCA
1 TGTGCATATCA
*
71433075 --TACATATCA
1 TGTGCATATCA
71433084 TGTGCATATCA
1 TGTGCATATCA
* *
71433095 --TACATGTCA
1 TGTGCATATCA
71433104 TGTGCATATCA
1 TGTGCATATCA
*
71433115 --TACATATCA
1 TGTGCATATCA
71433124 TGTGCATATCA
1 TGTGCATATCA
71433135 T
1 T
71433136 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:71434481 original size:27 final size:27
Alignment explanation
Indices: 71434390--71434473 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
71434380 GGGCATATTT
*
71434390 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
71434417 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
71434444 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
71434471 GTC
1 GTC
71434474 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:71434490 original size:27 final size:26
Alignment explanation
Indices: 71434390--71434483 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
71434380 GGGCATATTT
*
71434390 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
71434417 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
71434444 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
71434471 GTCTTTTTACCTA
1 GTCACTTTACCTA
71434484 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:71434565 original size:27 final size:27
Alignment explanation
Indices: 71434512--71434791 Score: 161
Period size: 27 Copynumber: 10.3 Consensus size: 27
71434502 TTTCATCCTA
* * * * * *
71434512 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
71434539 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** *
71434566 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-T
* * *
71434595 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
71434622 CAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
71434649 TAAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
71434675 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAT
* * *
71434702 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTATAAAT
** * *
71434730 TGAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** * *
71434757 CGAGGGTAAAAT-AGTAATTCTATAAAT
1 CAAGGGT-ATTTCGGTAATTTTATAAAT
71434784 CAAGGGTA
1 CAAGGGTA
71434792 AAATAGTAAT
Statistics
Matches: 198, Mismatches: 49, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
26 3 0.02
27 164 0.83
28 16 0.08
29 15 0.08
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:71434684 original size:54 final size:54
Alignment explanation
Indices: 71434540--71434728 Score: 182
Period size: 54 Copynumber: 3.5 Consensus size: 54
71434530 TCTACAAACC
* ** * * * *
71434540 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTC
1 AAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTT-TGGTAA-TTTTA-AAAATT
* * ** * *
71434596 AAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTAAAAATT
1 AAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTGGTAATTTTAAAAATT
* * *
71434650 AAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTGGTAATTTTAAAAATT
* *
71434704 AGGGGTATTTTGGTAATTTTACAAA
1 AAGGGTATTTCGGTAATTTTACAAA
71434729 TTGAGGGTAT
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 71 0.63
55 6 0.05
56 35 0.31
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (54 bp):
AAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTGGTAATTTTAAAAATT
Found at i:71434791 original size:81 final size:81
Alignment explanation
Indices: 71434617--71434791 Score: 192
Period size: 81 Copynumber: 2.2 Consensus size: 81
71434607 TGTAACTTTG
71434617 TAAATCAGGGGTATTTTGGTAATTTTAAAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGG
1 TAAATCAGGGGTATTTTGGTAATTTTAAAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGG
*** * *
71434682 TATTTTGGTAATTTTA
66 TAAAATAGTAATTCTA
* * * * *** *
71434698 CAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTGTAAATCGAG-
1 TAAATC-AGGGGTATTTTGGTAATTTTAAAAATTAAGGGTATTTCGGTAATTTCACAAA-CCAGT
71434761 GGTAAAATAGTAATTCTA
64 GGTAAAATAGTAATTCTA
*
71434779 TAAATCAAGGGTA
1 TAAATCAGGGGTA
71434792 AAATAGTAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
80 1 0.01
81 71 0.93
82 4 0.05
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (81 bp):
TAAATCAGGGGTATTTTGGTAATTTTAAAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGG
TAAAATAGTAATTCTA
Found at i:71434792 original size:27 final size:27
Alignment explanation
Indices: 71434743--71434966 Score: 162
Period size: 27 Copynumber: 7.9 Consensus size: 27
71434733 GGGTATTTCT
* * *
71434743 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCAAGGGTAAAATA
71434770 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCAAGGGTAAAATA
* *
71434797 GTAATTCTATAAATCAACGGTAAAACA
1 GTAATTCTATAAATCAAGGGTAAAATA
* * * *
71434824 ATAATTTTGTAAATCTAGGGTAAAACGGGGGTAAAA
1 GTAATTCTATAAATCAAGGGTAAAA------T---A
* * ** *
71434860 TGGTAATTATGTAAATCGGGGGTAAAATG
1 --GTAATTCTATAAATCAAGGGTAAAATA
* *
71434889 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCAAGGGTAAAATA
**
71434916 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCAAGGGTAAAATA
* *
71434943 GTACTTC-ATAAATCGAGGGTAAAA
1 GTAATTCTATAAATCAAGGGTAAAA
71434967 CGGTAATTAT
Statistics
Matches: 161, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
26 16 0.10
27 122 0.76
32 1 0.01
36 1 0.01
38 21 0.13
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCAAGGGTAAAATA
Found at i:71434866 original size:65 final size:65
Alignment explanation
Indices: 71434787--71434914 Score: 157
Period size: 65 Copynumber: 2.0 Consensus size: 65
71434777 TATAAATCAA
* * *
71434787 GGGTAAAATAGTAATTCTATAAATCAACGGTAAAACAATAATTTTGTAAATCTAGGGTAAAACGG
1 GGGTAAAATAGTAATTATATAAATCAACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACGG
* * *** ***
71434852 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAAC
1 GGGTAAAATAGTAATTATATAAATCAACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAAC
71434915 AGTAATTCTA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (65 bp):
GGGTAAAATAGTAATTATATAAATCAACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACGG
Found at i:71434911 original size:92 final size:92
Alignment explanation
Indices: 71434751--71434943 Score: 260
Period size: 92 Copynumber: 2.1 Consensus size: 92
71434741 CTGTAATTTT
* * *
71434751 GTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
1 GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * *
71434816 GTAAAACAATAATTTTGTAAATCTAGG
66 GTAAAACAATAATTCTATAAATCAAGG
* * ** * * *
71434843 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGG
1 GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
*
71434908 GTAAAACAGTAATTCTATAAATCAAGG
66 GTAAAACAATAATTCTATAAATCAAGG
71434935 GTAAAACGG
1 GTAAAACGG
71434944 TACTTCATAA
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (92 bp):
GTAAAACGGGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
GTAAAACAATAATTCTATAAATCAAGG
Found at i:71434989 original size:26 final size:27
Alignment explanation
Indices: 71434851--71434982 Score: 135
Period size: 27 Copynumber: 4.9 Consensus size: 27
71434841 GGGTAAAACG
* *
71434851 GGGGTAAAATGGTAATTATGTAAATCG
1 GGGGTAAAACGGTAATTATGTAAATCA
* *
71434878 GGGGTAAAATGGTAATTCTGTAAATCA
1 GGGGTAAAACGGTAATTATGTAAATCA
* * * *
71434905 AGGGTAAAACAGTAATTCTATAAATCA
1 GGGGTAAAACGGTAATTATGTAAATCA
* *
71434932 AGGGTAAAACGGTACTTCA--TAAATC-
1 GGGGTAAAACGGTAATT-ATGTAAATCA
71434957 GAGGGTAAAACGGTAATTATGTAAAT
1 G-GGGTAAAACGGTAATTATGTAAAT
71434983 TGGGGTACTT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 21 0.23
27 68 0.76
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.27
Consensus pattern (27 bp):
GGGGTAAAACGGTAATTATGTAAATCA
Found at i:71437782 original size:31 final size:31
Alignment explanation
Indices: 71437741--71437804 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
71437731 CCTTTTCATA
*
71437741 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
71437772 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
71437803 TT
1 TT
71437805 ACGTAAACGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:71438060 original size:24 final size:24
Alignment explanation
Indices: 71437996--71438112 Score: 186
Period size: 23 Copynumber: 4.9 Consensus size: 24
71437986 GCTTTATCAT
*
71437996 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
71438021 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
71438044 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
71438068 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
71438091 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
71438113 CTCACTTCCT
Statistics
Matches: 88, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
23 41 0.47
24 39 0.44
25 8 0.09
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:71438069 original size:47 final size:47
Alignment explanation
Indices: 71437996--71438112 Score: 184
Period size: 47 Copynumber: 2.5 Consensus size: 47
71437986 GCTTTATCAT
*
71437996 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCC-TTTA
71438044 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
71438091 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
71438113 CTCACTTCCT
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
47 48 0.73
48 18 0.27
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:71438184 original size:9 final size:9
Alignment explanation
Indices: 71438170--71438246 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
71438160 ATCTCGTGTG
71438170 CATATCATA
1 CATATCATA
*
71438179 CATATCATGTG
1 CATATCA--TA
71438190 CATATCATA
1 CATATCATA
* *
71438199 CATGTCATGTG
1 CATATCA--TA
71438210 CATATCATA
1 CATATCATA
*
71438219 CATATCATGTG
1 CATATCA--TA
71438230 CATATCATA
1 CATATCATA
71438239 CATATCAT
1 CATATCAT
71438247 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:71438189 original size:20 final size:20
Alignment explanation
Indices: 71438166--71438248 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
71438156 GAACATCTCG
71438166 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
71438186 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
71438206 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
71438226 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
71438246 TGT
1 TGT
71438249 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:71438195 original size:11 final size:11
Alignment explanation
Indices: 71438166--71438237 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
71438156 GAACATCTCG
71438166 TGTGCATATCA
1 TGTGCATATCA
*
71438177 --TACATATCA
1 TGTGCATATCA
71438186 TGTGCATATCA
1 TGTGCATATCA
* *
71438197 --TACATGTCA
1 TGTGCATATCA
71438206 TGTGCATATCA
1 TGTGCATATCA
*
71438217 --TACATATCA
1 TGTGCATATCA
71438226 TGTGCATATCA
1 TGTGCATATCA
71438237 T
1 T
71438238 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:71438331 original size:25 final size:25
Alignment explanation
Indices: 71438285--71438332 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
71438275 ATATATAAAC
* * * *
71438285 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
71438310 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
71438333 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:71439575 original size:27 final size:27
Alignment explanation
Indices: 71439484--71439567 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
71439474 GGGCATATTC
*
71439484 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
71439511 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
71439538 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
71439565 GTC
1 GTC
71439568 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:71439584 original size:27 final size:26
Alignment explanation
Indices: 71439484--71439577 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
71439474 GGGCATATTC
*
71439484 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
71439511 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
71439538 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
71439565 GTCTTTTTACCTA
1 GTCACTTTACCTA
71439578 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:71439659 original size:27 final size:27
Alignment explanation
Indices: 71439606--71439857 Score: 150
Period size: 27 Copynumber: 9.3 Consensus size: 27
71439596 TTTCATCCTA
* * * * * *
71439606 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
71439633 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** *
71439660 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-T
* * *
71439689 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* *
71439716 CAGGGGTATTTTGGTAATTTTA-AAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
** * *
71439742 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
71439768 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAT
* * *
71439795 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTATAAAT
** * *
71439823 TGAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
*
71439850 CGAGGGTA
1 CAAGGGTA
71439858 AAATAGTATT
Statistics
Matches: 177, Mismatches: 42, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
26 23 0.13
27 125 0.71
28 14 0.08
29 15 0.08
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:71439777 original size:53 final size:54
Alignment explanation
Indices: 71439614--71439821 Score: 154
Period size: 53 Copynumber: 3.8 Consensus size: 54
71439604 TACAAGGGTG
* * * * * *** *
71439614 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAGTGGTA
* * * * * ** * *
71439668 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTT-GTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AGGGGTATTTCGGTAA-TTTCACAAACCAGTGGTA
*
71439724 TTTTGGTAATTTTA-AAA-TTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACCAGTGGTA
* *
71439777 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAA
71439822 TTGAGGGTAT
Statistics
Matches: 124, Mismatches: 21, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
52 3 0.02
53 38 0.31
54 33 0.27
55 15 0.12
56 32 0.26
57 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAGTGGTA
Found at i:71439937 original size:27 final size:27
Alignment explanation
Indices: 71439836--71440107 Score: 228
Period size: 27 Copynumber: 9.8 Consensus size: 27
71439826 GGGTATTTCT
* *
71439836 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
71439863 GT-ATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
71439889 GTAATTCTAT-AATCGACGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
71439915 ATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
71439942 GTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAAC---------A
* **
71439978 TGGTAATTATGTAAATCG-GGGTAAAATG
1 --GTAATTCTGTAAATCGAGGGTAAAACA
*
71440006 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
71440033 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
71440060 GTACTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
71440087 GTAATTATGTAAATCG-GGGTA
1 GTAATTCTGTAAATCGAGGGTA
71440108 CTTTGGTAAT
Statistics
Matches: 201, Mismatches: 30, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
26 63 0.31
27 116 0.58
37 8 0.04
38 14 0.07
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:71439974 original size:38 final size:37
Alignment explanation
Indices: 71439923--71440003 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 37
71439913 CAATAATTTT
* * *
71439923 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCG-GG
* *
71439961 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGGG
71439998 GTAAAA
1 GTAAAA
71440004 TGGTAATTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
37 8 0.21
38 30 0.79
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.23
Consensus pattern (37 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGGG
Found at i:71440001 original size:91 final size:91
Alignment explanation
Indices: 71439879--71440060 Score: 231
Period size: 91 Copynumber: 2.0 Consensus size: 91
71439869 TGTAAATCAA
* * * *
71439879 GGGTAAAATAGTAATTCTATAATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACGGT
1 GGGTAAAATAGTAATTATATAATCGACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAGT
* * *
71439944 AATTCTGTAAGTCGAGGGTAAAACGG
66 AATTCTATAAATCAAGGGTAAAACGG
* * * ***
71439970 GGGTAAAATGGTAATTATGTAAATCG-GGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTATAT-AATCGACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAG
71440034 TAATTCTATAAATCAAGGGTAAAACGG
65 TAATTCTATAAATCAAGGGTAAAACGG
71440061 TACTTCTATA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 72 0.94
92 5 0.06
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (91 bp):
GGGTAAAATAGTAATTATATAATCGACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAGT
AATTCTATAAATCAAGGGTAAAACGG
Found at i:71441377 original size:30 final size:30
Alignment explanation
Indices: 71441343--71441402 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71441333 ATTTAATACG
71441343 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
71441373 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
71441403 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71446094 original size:27 final size:27
Alignment explanation
Indices: 71446064--71446155 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
71446054 ATTACCAAAG
*
71446064 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
71446091 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
71446118 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
71446145 TACCCTCGATT
1 TACCCTCGATT
71446156 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:71446112 original size:54 final size:54
Alignment explanation
Indices: 71446053--71446155 Score: 125
Period size: 54 Copynumber: 1.9 Consensus size: 54
71446043 CGACTTGTAA
* * * *
71446053 AATTACCAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
* *** *
71446107 AATTACTATTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
1 AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
71446156 GTGAAATTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
Found at i:71446177 original size:27 final size:27
Alignment explanation
Indices: 71446147--71446286 Score: 140
Period size: 27 Copynumber: 5.2 Consensus size: 27
71446137 TACCGTTTTA
* **
71446147 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTAGATTGTGAAATTACCAAAATAC
* **
71446174 CCCTATAGGGT-AGAATTACCAAAATAC
1 CCCTAGATTGTGA-AATTACCAAAATAC
* *
71446201 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTGAAATTACCAAAATAC
* *
71446228 CACTAGTTTGTGAAATTACCAAAATAC
1 CCCTAGATTGTGAAATTACCAAAATAC
* *
71446255 CCTTA-ATTTGTAAAATTACCAAAATAC
1 CCCTAGA-TTGTGAAATTACCAAAATAC
71446282 CCCTA
1 CCCTA
71446287 ATTTACTAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 91 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
CCCTAGATTGTGAAATTACCAAAATAC
Found at i:71446228 original size:54 final size:54
Alignment explanation
Indices: 71446154--71446286 Score: 162
Period size: 54 Copynumber: 2.5 Consensus size: 54
71446144 TTACCCTCGA
* ** *
71446154 TTGTGAAATTACTGAAATACCCCTA-TAGGGT-AGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT-GGGTGA-AATTACCAAAATACCCCTAAT
* ** *
71446208 TTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCAAAATACCCTTAAT
1 TTGTAAAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAATACCCCTAAT
71446262 TTGTAAAATTACCAAAATACCCCTA
1 TTGTAAAATTACCAAAATACCCCTA
71446287 ATTTACTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 66 0.97
55 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCCTAGTGGGTGAAATTACCAAAATACCCCTAAT
Found at i:71446298 original size:54 final size:54
Alignment explanation
Indices: 71446187--71446312 Score: 175
Period size: 54 Copynumber: 2.3 Consensus size: 54
71446177 TATAGGGTAG
* * * *
71446187 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACTAATTTCTGA
*
71446241 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACT-A
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACTAATTT-CTGA
71446295 AATTA-CAGAAATACCCTT
1 AATTACCA-AAATACCCTT
71446313 GACTTTCTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
53 2 0.03
54 62 0.95
55 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACTAATTTCTGA
Found at i:71446300 original size:27 final size:27
Alignment explanation
Indices: 71446187--71446290 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
71446177 TATAGGGTAG
*
71446187 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* * *
71446214 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
*
71446241 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
71446268 AATTACCAAAATACCCCTAATTT
1 AATTACCAAAATACCCCTAATTT
71446291 ACTAAATTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:71446306 original size:27 final size:27
Alignment explanation
Indices: 71446187--71446324 Score: 145
Period size: 27 Copynumber: 5.1 Consensus size: 27
71446177 TATAGGGTAG
* *
71446187 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTCTAA
* * * *
71446214 AATTACCAAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAATTTCTAA
* *
71446241 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTCTAA
71446268 AATTACCAAAATACCCCTAATTTACT-A
1 AATTACCAAAATACCCCTAATTT-CTAA
* *
71446295 AATTA-CAGAAATACCCTTGACTTTCTAA
1 AATTACCA-AAATACCCCT-AATTTCTAA
71446323 AA
1 AA
71446325 ATTATAGAAA
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.02
27 87 0.90
28 8 0.08
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTCTAA
Found at i:71446491 original size:27 final size:27
Alignment explanation
Indices: 71446414--71446491 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
71446404 AAATGACTAA
* *
71446414 AATACCCCT-AATAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
71446441 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
71446468 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
71446492 GAATATTCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:71447614 original size:16 final size:16
Alignment explanation
Indices: 71447593--71447646 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
71447583 GAGCCTAGGG
71447593 GCAAAAGTGTAAATAT
1 GCAAAAGTGTAAATAT
* * *
71447609 GCAAAAGT-T-TAGAG
1 GCAAAAGTGTAAATAT
71447623 GCAAAAGTGTAAATAT
1 GCAAAAGTGTAAATAT
71447639 GCAAAAGT
1 GCAAAAGT
71447647 TTAGGGGCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
14 10 0.33
15 2 0.07
16 18 0.60
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (16 bp):
GCAAAAGTGTAAATAT
Found at i:71447626 original size:30 final size:30
Alignment explanation
Indices: 71447592--71447657 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
71447582 CGAGCCTAGG
71447592 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
*
71447622 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
71447652 GGCAAA
1 GGCAAA
71447658 TTGTAATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.45, C:0.08, G:0.26, T:0.21
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGA
Found at i:71450171 original size:22 final size:22
Alignment explanation
Indices: 71450141--71450186 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
71450131 ATGTTTTGGG
*
71450141 CTTCGTAGACTCAAATAAGGGA
1 CTTCATAGACTCAAATAAGGGA
71450163 CTTCATAGACTCAAATAAGGGA
1 CTTCATAGACTCAAATAAGGGA
71450185 CT
1 CT
71450187 ATGTGTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (22 bp):
CTTCATAGACTCAAATAAGGGA
Found at i:71450885 original size:25 final size:25
Alignment explanation
Indices: 71450847--71450916 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
71450837 AGGAAGTGCT
* *
71450847 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
71450872 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
71450897 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
71450917 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:71450929 original size:24 final size:24
Alignment explanation
Indices: 71450845--71450941 Score: 97
Period size: 25 Copynumber: 3.9 Consensus size: 24
71450835 GGAGGAAGTG
71450845 CTAAAAGGGCTATGCCCCAGTTTA
1 CTAAAAGGGCTATGCCCCAGTTTA
* *
71450869 CCGAAAAGGGCTTTGCCCCAGTTTA
1 -CTAAAAGGGCTATGCCCCAGTTTA
* *
71450894 CCAAAAAGGGCTTTGCCCCAG-TTA
1 -CTAAAAGGGCTATGCCCCAGTTTA
* *
71450918 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAG-GGCTATGCC-CCAGTT
71450942 ATATGATAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
23 5 0.08
24 10 0.16
25 46 0.74
26 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (24 bp):
CTAAAAGGGCTATGCCCCAGTTTA
Found at i:71450940 original size:50 final size:50
Alignment explanation
Indices: 71450847--71450941 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
71450837 AGGAAGTGCT
**
71450847 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
* **
71450897 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
71450942 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.23
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTACCA
Found at i:71451183 original size:31 final size:31
Alignment explanation
Indices: 71451147--71451218 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
71451137 AAGGCATCAA
*
71451147 CCAGTGATATGATTTATGAAAAGGCTTTGGC
1 CCAGTGATATGATTTATGAAAAGGCTTCGGC
71451178 CCAGTGATATGATTTATGAAAAGGCTTCGGC
1 CCAGTGATATGATTTATGAAAAGGCTTCGGC
71451209 CCAGT-ATATG
1 CCAGTGATATG
71451219 TCGAGACTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 5 0.12
31 35 0.88
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (31 bp):
CCAGTGATATGATTTATGAAAAGGCTTCGGC
Found at i:71453564 original size:52 final size:52
Alignment explanation
Indices: 71453431--71453588 Score: 185
Period size: 52 Copynumber: 3.0 Consensus size: 52
71453421 CACGGATCAT
* * *
71453431 ATATCATACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATC
1 ATATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACA-TATC
* * * *
71453484 ATATCACACCGGTACCATAGCCCAGCTATGGTCTTATACAGGAA-CACAAATC
1 ATATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAAGCACATATC
* * *
71453536 ATA-CTGTACCGATGCCATAGCTCTGCTATGGTCTTATACGGAAGCACATATC
1 ATATC-ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACATATC
71453588 A
1 A
71453589 CATCTTTTCT
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
51 5 0.06
52 42 0.47
53 38 0.43
54 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (52 bp):
ATATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCACATATC
Found at i:71459522 original size:27 final size:27
Alignment explanation
Indices: 71459340--71459875 Score: 154
Period size: 27 Copynumber: 19.9 Consensus size: 27
71459330 TTAGTTTACC
* *
71459340 AAATTACCAAAATA-CCTCTATTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
*
71459367 AAACTACCAAAATACCC-CTG-CTTTGTA
1 AAATTACCAAAATACCCTC-GAC-TTGTA
* * *
71459394 AAATTATCAAAATACCCGTAG-TTTGTA
1 AAATTACCAAAATACCC-TCGACTTGTA
* *
71459421 AAATTACCAAAATACCCAT-GATTTGTG
1 AAATTACCAAAATACCC-TCGACTTGTA
** *
71459448 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
* **
71459475 AACTTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
* *
71459502 AAATTACCAAAGTACCTTCGA-TT-TA
1 AAATTACCAAAATACCCTCGACTTGTA
* ****
71459527 CATAATTATCGGTTTACCCTCGA-TT-TA
1 -A-AATTACCAAAATACCCTCGACTTGTA
**** * *
71459554 CAGAATTACCGTTTTACCCTCGATTTATA
1 -A-AATTACCAAAATACCCTCGACTTGTA
* * *** *
71459583 GAATTACTATTTTACCCTTGA-TT-TA
1 AAATTACCAAAATACCCTCGACTTGTA
***** * * **
71459608 CAGAATTACTGTTTTACCTTTGA-TTCACA
1 -A-AATTACCAAAATACCCTCGACTT-GTA
* * ** **
71459637 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGACTTGTA
*
71459664 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACCAAAATACCCTCGACT-TGTA
* * * *
71459691 AAATTACCAAATTACCCTGGTC-TATA
1 AAATTACCAAAATACCCTCGACTTGTA
* **
71459717 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* * *
71459744 AAATTACCATAATATCCCTAG-TTTGTA
1 AAATTACCAAAATA-CCCTCGACTTGTA
** *
71459771 AAATTACCAAAATACCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCGACTTGTA
* ** *
71459798 AAATTACCAGAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
* **
71459825 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GACTTGTA
* *
71459852 AAATTACAAAAATACCCTTGACTT
1 AAATTACCAAAATACCCTCGACTT
71459876 TCTAAAAATT
Statistics
Matches: 401, Mismatches: 81, Indels: 54
0.75 0.15 0.10
Matches are distributed among these distances:
25 4 0.01
26 31 0.08
27 351 0.88
28 12 0.03
29 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTGTA
Found at i:71459694 original size:54 final size:54
Alignment explanation
Indices: 71459636--71459871 Score: 228
Period size: 54 Copynumber: 4.4 Consensus size: 54
71459626 TTTGATTCAC
* * *
71459636 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-GATTAGT
* * * * *
71459690 AAAATTACCAAATTACCC-TGGTCTATAAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGATTAGT
* * * * * *
71459743 AAAATTACCATAATATCCC-TAGTTTGTAAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATA-CCCTTGGTTTATAAAATTACCAAAATACCCCTGATTAGT
* * ** * *
71459797 GAAATTACCAGAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTA-C
1 AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGA-TTAGT
*
71459851 AAAATTACAAAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
71459872 ACTTTCTAAA
Statistics
Matches: 152, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
53 40 0.26
54 110 0.72
55 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGATTAGT
Found at i:71459706 original size:81 final size:81
Alignment explanation
Indices: 71459628--71459952 Score: 252
Period size: 80 Copynumber: 4.0 Consensus size: 81
71459618 GTTTTACCTT
* *
71459628 TGATTC-ACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAA
1 TGATTCTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGTAA
*
71459692 AATTACCAAATTACCC
66 AATTACCAAAATACCC
* * ** * * *
71459708 TG-GTCTATAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCATAATATCCCTAG-TTTGTA
1 TGATTCTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATTAGTA
71459771 AAATTACCAAAATACCAC
65 AAATTACCAAAATACC-C
* * * * * ** ** *
71459789 TGGTT-TGTGAAATTACCAGAATACCCTTAATTTGTAAAATTACCAAAATACCC-CTGATTTA-C
1 TGATTCTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTC-GA-TTAGT
*
71459851 AAAATTACAAAAATACCC
64 AAAATTACCAAAATACCC
* ** * * *
71459869 TTGACTTTCTA-AAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTT
1 -TGA--TTCTATAAAATTACTA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTA
* * *
71459932 GTAGATTTACCAAAACACCC
62 GTAAAATTACCAAAATACCC
71459952 T
1 T
71459953 TGTAGGGTGA
Statistics
Matches: 188, Mismatches: 43, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
79 2 0.01
80 65 0.35
81 63 0.34
82 7 0.04
83 50 0.27
84 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
TGATTCTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGTAA
AATTACCAAAATACCC
Found at i:71459919 original size:27 final size:27
Alignment explanation
Indices: 71459880--71459931 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
71459870 TGACTTTCTA
71459880 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
71459907 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
71459932 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:71460049 original size:27 final size:27
Alignment explanation
Indices: 71459985--71460049 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
71459975 ACCCCTATTA
* *
71459985 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGACCCTGTAG
* ** *
71460012 GGTAAAGTGACCGTAATTACCCTGTAT
1 GGTAAAATGACCGTAAAGACCCTGTAG
71460039 GGTAAAATGAC
1 GGTAAAATGAC
71460050 GAATATGCCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGACCCTGTAG
Found at i:71460896 original size:25 final size:24
Alignment explanation
Indices: 71460858--71460926 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 24
71460848 AGGAAGTGCT
*
71460858 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
71460882 GAAAAGGGATTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
71460907 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
71460927 AATAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 18 0.46
25 21 0.54
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:71460918 original size:24 final size:24
Alignment explanation
Indices: 71460858--71460939 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
71460848 AGGAAGTGCT
* *
71460858 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
71460882 GAAAAGGGATTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
71460907 AAAAGGGCTTTGCCCTAGTTAAT-
1 AAAAGGGCTTTGCCCCAGTTTATC
71460930 AAAAGAGGCT
1 AAAAG-GGCT
71460940 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 5 0.10
24 24 0.48
25 21 0.42
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:71461180 original size:31 final size:31
Alignment explanation
Indices: 71461145--71461316 Score: 272
Period size: 31 Copynumber: 5.5 Consensus size: 31
71461135 CATTTACAAT
*
71461145 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
71461176 AAAGGCTTCGGCGCAGAGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
71461207 TAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
71461238 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
71461269 TAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
71461300 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
71461317 AACCGTTAAA
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 130 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:71463612 original size:27 final size:27
Alignment explanation
Indices: 71463590--71464118 Score: 261
Period size: 27 Copynumber: 19.6 Consensus size: 27
71463580 TTAGTTTACC
71463590 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
71463617 AAACTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
71463644 AAATTATCAAAATATCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
71463671 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
*** * **
71463698 AAATTATTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* ** * *
71463725 AACTTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * **
71463752 AAATTACCAAAGTA-CCCTCAATTTACA
1 AAATTACCAAAATACCCCT-AGTTTGTA
* *** * *
71463779 TAATTACCATTTTA-CCCTCGATT-TA
1 AAATTACCAAAATACCCCTAGTTTGTA
*** * *
71463804 CAGAATTACCATTTTA-CCCTCGATTTATA
1 -A-AATTACCAAAATACCCCTAG-TTTGTA
* * *** * *
71463833 GAATTACTATTTTA-CCCTTGATT-TA
1 AAATTACCAAAATACCCCTAGTTTGTA
***** * *
71463858 CAGAATTACTGTTTTA-CCCTCGATTTATA
1 -A-AATTACCAAAATACCCCTAG-TTTGTA
* * * **
71463887 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
71463914 AAATTACCAAAATA-CCCTCGATCAGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* * * *
71463941 AAATTACCAAATTA-CCCTGGTCTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
71463967 AAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
71463994 AAATTACCATAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
71464021 AAATTACCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
71464048 AAATTACCAAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
71464075 AAATTACCAAAATACCCCTAATTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
71464102 AAATTACAAAAATACCC
1 AAATTACCAAAATACCC
71464119 TTGACTTTCT
Statistics
Matches: 403, Mismatches: 86, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
25 3 0.01
26 28 0.07
27 359 0.89
28 9 0.02
29 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:71463930 original size:54 final size:54
Alignment explanation
Indices: 71463590--71464132 Score: 294
Period size: 54 Copynumber: 10.1 Consensus size: 54
71463580 TTAGTTTACC
* * * * *
71463590 AAATTACCAAAATACCC-CTAGTTTGTAAAACTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATAAAATTACCAAAATACCCTTGA-TTTATA
* * * * * * * *
71463644 AAATTATCAAAATATCCT-TAGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTCGA-TTTATAAAATTACCAAAATACCCTTGATTTATA
*** ** * * ** * * *
71463698 AAATTATTGAAATACCCTCGACCTGTAAACTTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTATA
* * * * *** * *
71463752 AAATTACCAAAGTACCCTCAATTTACATAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTATA
* *** * * *** *
71463806 GAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTATA
* ***** * * *
71463860 GAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTATA
* * * *
71463914 AAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAATTACCC-TGGTCTATA
1 AAATTACCAAAATACCCTCGATTTA-TAAAATTACCAAAATACCCTTGATTTATA
* * * * * *
71463967 AAATTACTAAAATACCC-CTGGTTTGTAAAATTACCATAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATAAAATTACCAAAATACCCTTGA-TTTATA
* * * * *
71464021 AAATTACCAAAATACCACT-GGTTTGTGAAATTACCAAAATACCCTTAATTTGTA
1 AAATTACCAAAATACC-CTCGATTTATAAAATTACCAAAATACCCTTGATTTATA
* * * *
71464075 AAATTACCAAAATACCC-CTAATTTACAAAATTACAAAAATACCCTTGACTTTCTA
1 AAATTACCAAAATACCCTC-GATTTATAAAATTACCAAAATACCCTTGA-TTTATA
71464130 AAA
1 AAA
71464133 ATTATAGAAA
Statistics
Matches: 390, Mismatches: 85, Indels: 27
0.78 0.17 0.05
Matches are distributed among these distances:
52 1 0.00
53 44 0.11
54 333 0.85
55 12 0.03
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTATA
Found at i:71463930 original size:81 final size:80
Alignment explanation
Indices: 71463723--71464164 Score: 248
Period size: 81 Copynumber: 5.5 Consensus size: 80
71463713 CCTCGACCTG
* * * ** * * *
71463723 TAAACTTATTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCTCAATTTACATAATTACCA
1 TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATTTACA-AATTACCA
71463788 TTTTACCCTCGATTTA
65 TTTTACCCTCGATTTA
* * * *** * * * * *** * **
71463804 CAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTG
1 TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATTTACA-AATTACCA
71463869 TTTTACCCTCGATTTA
65 TTTTACCCTCGATTTA
* *
71463885 TAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTA-AAATTACC
1 TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGAT--TTACAAATTACC
** * *
71463949 AAATTACCCT-GGTCTA
64 ATTTTACCCTCGATTTA
* * * * *
71463965 TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCATAATACCCCTAGTTTGTA-AAATTACC
1 TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCCTCGATT-TACAAATTACC
*** * *
71464029 AAAATACCACT-GGTTTG
64 ATTTTACC-CTCGATTTA
* * ** * * *
71464046 TGAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCC-CTAATTTACAAAATTACA
1 TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTC-GATTTAC-AAATTACC
*** * *
71464110 AAAATACCCTTGACTTTC
64 ATTTTACCCTCGA-TTTA
* *
71464128 TAAAAATTA-TAGAAATACCATTGGTTTACAAAATTAC
1 T-AAAATTACTA-AAATACCCTTGGTTTATAAAATTAC
71464165 TGAAATTCCC
Statistics
Matches: 278, Mismatches: 71, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
79 2 0.01
80 67 0.24
81 175 0.63
82 6 0.02
83 28 0.10
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (80 bp):
TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATTTACAAATTACCAT
TTTACCCTCGATTTA
Found at i:71463989 original size:80 final size:81
Alignment explanation
Indices: 71463883--71464092 Score: 271
Period size: 80 Copynumber: 2.6 Consensus size: 81
71463873 ACCCTCGATT
**
71463883 TATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTA
1 TATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTA
*
71463947 CCAAATTACC-CTGGTC
65 CCAAAATACCACTGGTC
* * * **
71463963 TATAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCATAATACCCCTAGTTTGTAAAATTAC
1 TATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTAC
*
71464028 CAAAATACCACTGGTT
66 CAAAATACCACTGGTC
* * * **
71464044 TGTGAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCC
1 TATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCC
71464093 TAATTTACAA
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
79 2 0.02
80 63 0.56
81 47 0.42
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
TATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTAC
CAAAATACCACTGGTC
Found at i:71464169 original size:27 final size:27
Alignment explanation
Indices: 71464130--71464181 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
71464120 TGACTTTCTA
71464130 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
71464157 AAAATTACT-GAAATTCCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
71464182 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:71464282 original size:26 final size:27
Alignment explanation
Indices: 71464235--71464298 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
71464225 ACCCCTATTA
* *
71464235 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
71464262 GGTAAAGTGACCGTAAA-CCCCTGTAT
1 GGTAAAATGACCGTAAAGCCCCTGTAG
71464288 GGTAAAATGAC
1 GGTAAAATGAC
71464299 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 18 0.56
27 14 0.44
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:71465180 original size:23 final size:24
Alignment explanation
Indices: 71465105--71465186 Score: 103
Period size: 25 Copynumber: 3.4 Consensus size: 24
71465095 AGGAAGTGCT
* *
71465105 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
71465129 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
* *
71465154 AAAAGGGCTTTGTCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
71465177 AAAAGAGGCT
1 AAAAG-GGCT
71465187 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 9 0.17
24 21 0.40
25 22 0.42
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:71465427 original size:31 final size:31
Alignment explanation
Indices: 71465393--71465749 Score: 543
Period size: 31 Copynumber: 11.5 Consensus size: 31
71465383 ATTTACAGTA
* *
71465393 AAGGCTTCGGCCCAATGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* * *
71465424 AAGGCTTTGGCCTAGAGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
71465455 AAGACTTTGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
71465486 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
** *
71465517 AAGGCTTCTACCCAATGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
71465548 AAGGCTTCGGCCTAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
71465579 AAGGCTTCGGCCCAGAGATGTGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
*
71465610 AAGGCTTCGGCCTAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
71465641 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
*
71465672 AAGGCTTTGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
71465703 AAGGCTTCGGCCTAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
*
71465734 AAAGCTTCGGCCCAGT
1 AAGGCTTCGGCCCAGT
71465750 AACCGTTAAA
Statistics
Matches: 294, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 294 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:71469637 original size:25 final size:25
Alignment explanation
Indices: 71469603--71469671 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
71469593 TTTTATCAAA
*
71469603 AATTCAATTAGTATAAAATATT-AAT
1 AATTCAATTAAT-TAAAATATTAAAT
*
71469628 AATTCAATTAATTAAAATTTTAAAT
1 AATTCAATTAATTAAAATATTAAAT
* *
71469653 AATTAAATAAAATTAAAAT
1 AATTCAAT-TAATTAAAAT
71469672 TTAGGAGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 8 0.21
25 21 0.55
26 9 0.24
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (25 bp):
AATTCAATTAATTAAAATATTAAAT
Found at i:71476186 original size:33 final size:33
Alignment explanation
Indices: 71476144--71476252 Score: 107
Period size: 33 Copynumber: 3.3 Consensus size: 33
71476134 TATGTAAGTT
* *
71476144 CATAGTTGGGCTATAGCATTCTTATGATAATAC
1 CATAATTGGGCTATAGCATTCTTATGATAAGAC
* *
71476177 CATAATTGGGTTATGGCA--C-TATGGACGTAAGAC
1 CATAATTGGGCTATAGCATTCTTAT-GA--TAAGAC
* * *
71476210 CATAGTTAGGCTATAGCATTCTGATGATAAGAC
1 CATAATTGGGCTATAGCATTCTTATGATAAGAC
71476243 CATAATTGGG
1 CATAATTGGG
71476253 TTATGGCACT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
30 3 0.05
31 3 0.05
33 48 0.81
35 3 0.05
36 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (33 bp):
CATAATTGGGCTATAGCATTCTTATGATAAGAC
Found at i:71476215 original size:66 final size:66
Alignment explanation
Indices: 71476144--71476278 Score: 216
Period size: 66 Copynumber: 2.0 Consensus size: 66
71476134 TATGTAAGTT
* * * * *
71476144 CATAGTTGGGCTATAGCATTCTTATGATAATACCATAATTGGGTTATGGCACTATGGACGTAAGA
1 CATAGTTAGGCTATAGCATTCTGATGATAAGACCATAATTGGGTTATGGCACTACGAACGTAAGA
71476209 C
66 C
*
71476210 CATAGTTAGGCTATAGCATTCTGATGATAAGACCATAATTGGGTTATGGCACTACGAATGTAAGA
1 CATAGTTAGGCTATAGCATTCTGATGATAAGACCATAATTGGGTTATGGCACTACGAACGTAAGA
71476275 C
66 C
71476276 CAT
1 CAT
71476279 GTCAGGGCCA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (66 bp):
CATAGTTAGGCTATAGCATTCTGATGATAAGACCATAATTGGGTTATGGCACTACGAACGTAAGA
C
Found at i:71476274 original size:33 final size:32
Alignment explanation
Indices: 71476175--71476278 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 32
71476165 TTATGATAAT
* *
71476175 ACCATAATTGGGTTATGGCACTATGGACGTAAG
1 ACCATAATTGGGTTATGGCACTA-CGATGTAAG
* * * * *
71476208 ACCATAGTTAGGCTATAGCA-TTCTGATGATAAG
1 ACCATAATTGGGTTATGGCACTAC-GATG-TAAG
71476241 ACCATAATTGGGTTATGGCACTACGAATGTAAG
1 ACCATAATTGGGTTATGGCACTACG-ATGTAAG
71476274 ACCAT
1 ACCAT
71476279 GTCAGGGCCA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
32 4 0.07
33 46 0.84
34 5 0.09
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (32 bp):
ACCATAATTGGGTTATGGCACTACGATGTAAG
Found at i:71479433 original size:54 final size:54
Alignment explanation
Indices: 71479237--71479498 Score: 321
Period size: 54 Copynumber: 4.9 Consensus size: 54
71479227 TTTCCTTTTT
* * * * * * *
71479237 GAACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * ** *
71479290 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATA
* * * * *
71479344 GTAACTCATCAATGCCATGGCTTGACATGGTCTTACATGATTTCCTTGCCGTATA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* *
71479399 GAACTTATCAATGTCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
71479453 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
71479499 ATCTTACCAA
Statistics
Matches: 182, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
52 2 0.01
53 42 0.23
54 93 0.51
55 43 0.24
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:71479535 original size:47 final size:47
Alignment explanation
Indices: 71479477--71479642 Score: 248
Period size: 47 Copynumber: 3.6 Consensus size: 47
71479467 CATGCCTTGG
* *
71479477 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAGTGCCATGTTCCAAA
* *
71479524 CATGGTTTTACATGGTATCCTTGTCTTACCAAGTGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAGTGCCATGTTCCAAA
* *
71479571 CATGGTCTTAC---ATATCCTTGTCTTACCAAGTACAATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAGTGCCATGTTCCAAA
*
71479615 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
71479643 GTGCCAATGT
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
44 41 0.38
47 66 0.62
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAGTGCCATGTTCCAAA
Found at i:71479731 original size:47 final size:45
Alignment explanation
Indices: 71479646--71479766 Score: 109
Period size: 45 Copynumber: 2.6 Consensus size: 45
71479636 TGTCTTAGTG
* * ** * * *
71479646 CCAATGTCATATCTTGATGTGGTCTTACATGGAGTCCTTAATCAATG
1 CCAATGCCATGTCTTGACATGGTCTTACACGGAGTCCTT--GCAATA
* **
71479693 CCGATGCCATGTCTTGACATGGTCTTACAC-GAGATCCTTGCCTTA
1 CCAATGCCATGTCTTGACATGGTCTTACACGGAG-TCCTTGCAATA
*
71479738 CCAATGTCATGTCTTGACATGGTCTTACA
1 CCAATGCCATGTCTTGACATGGTCTTACA
71479767 TGGTATCCTT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
45 29 0.48
46 3 0.05
47 29 0.48
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (45 bp):
CCAATGCCATGTCTTGACATGGTCTTACACGGAGTCCTTGCAATA
Found at i:71486804 original size:28 final size:27
Alignment explanation
Indices: 71486703--71486804 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 27
71486693 TCAGTGTTAA
* * *
71486703 CTGGGCCTTAGCCTATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
71486731 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
71486763 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
71486791 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
71486805 TATTACAAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
27 7 0.12
28 26 0.45
30 2 0.03
32 16 0.28
33 7 0.12
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:71486824 original size:60 final size:59
Alignment explanation
Indices: 71486704--71486840 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
71486694 CAGTGTTAAC
* * *
71486704 TGGGCCTTAGCCTATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
71486765 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
71486825 TGGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
71486841 TAACACAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:71486887 original size:19 final size:20
Alignment explanation
Indices: 71486845--71486887 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
71486835 CCATATTAAC
** *
71486845 ACAGTTCGGCCCATTTCAAT
1 ACAGTTCGGCCCATAACAAA
71486865 ACAGTT-GGCCCATAACAAA
1 ACAGTTCGGCCCATAACAAA
71486884 ACAG
1 ACAG
71486888 CCTCATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (20 bp):
ACAGTTCGGCCCATAACAAA
Found at i:71489073 original size:19 final size:18
Alignment explanation
Indices: 71489036--71489079 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
71489026 ATACATGCAG
71489036 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
71489053 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
71489072 TACTAATT
1 TAATAATT
71489080 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:71491191 original size:35 final size:35
Alignment explanation
Indices: 71491152--71491222 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
71491142 GTTATGTGAA
*
71491152 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAACTGACCAGGATGTGGTAAGG
71491187 TGATGTGTTCATTAACTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAACTGACCAGGATGTGGTAAGG
71491222 T
1 T
71491223 TATAAACAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.32
Consensus pattern (35 bp):
TGATGTGTTCATTAACTGACCAGGATGTGGTAAGG
Found at i:71492142 original size:2 final size:2
Alignment explanation
Indices: 71492135--71492161 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71492125 ATGACATGTG
71492135 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
71492162 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71494635 original size:15 final size:16
Alignment explanation
Indices: 71494615--71494644 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
71494605 AAGATCTTAT
71494615 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
71494630 AATCATAACCTTACT
1 AATCATAACCTTACT
71494645 GATGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:71494905 original size:43 final size:42
Alignment explanation
Indices: 71494809--71494925 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
71494799 CACACGGTAC
* * *
71494809 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAGATCT
* * *
71494851 CGTATCAATGCCAATAGCCCAGCTATGGTCTTACACGA-AGTCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGAGA-TCT
*
71494894 CATAT-AGATGCCATATCCTAGATATGGTCTTA
1 CATATCA-ATGCCATATCCCAGATATGGTCTTA
71494926 TACATAGTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAGATCT
Found at i:71494935 original size:42 final size:42
Alignment explanation
Indices: 71494809--71494935 Score: 118
Period size: 42 Copynumber: 3.0 Consensus size: 42
71494799 CACACGGTAC
* *
71494809 CATACCAATGCCATATCCCAGATATGGTC-T-TACATGGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTATACAT-AG-TCT
* * * *
71494851 CGTATCAATGCCAATAGCCCAGCTATGGTCTTACACGA-AGTCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTATAC-ATAGTCT
*
71494894 CATAT-AGATGCCATATCCTAGATATGGTCTTATACATAGTCT
1 CATATCA-ATGCCATATCCCAGATATGGTCTTATACATAGTCT
71494936 TAGTAACACT
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 35 0.51
43 27 0.40
44 2 0.03
45 2 0.03
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTATACATAGTCT
Found at i:71500083 original size:19 final size:20
Alignment explanation
Indices: 71500048--71500085 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
71500038 TGATACTATG
*
71500048 TGTATATAGCTTGATAAATC
1 TGTATATAGCATGATAAATC
71500068 TGTATATA-CATGATAAAT
1 TGTATATAGCATGATAAAT
71500086 GGACATGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (20 bp):
TGTATATAGCATGATAAATC
Found at i:71500574 original size:34 final size:34
Alignment explanation
Indices: 71500506--71500574 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
71500496 GCTTGGTTTG
* *
71500506 AGATGATGATATGATGAGTCTTGTGATATAAAAT
1 AGATGATGATATGATGAATCTAGTGATATAAAAT
*
71500540 AGATGAT-ATTATGATGAAT-TAGTGAATATGAAAT
1 AGATGATGA-TATGATGAATCTAGTG-ATATAAAAT
71500574 A
1 A
71500575 TATGTAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.42, C:0.01, G:0.22, T:0.35
Consensus pattern (34 bp):
AGATGATGATATGATGAATCTAGTGATATAAAAT
Found at i:71501032 original size:490 final size:489
Alignment explanation
Indices: 71500113--71501095 Score: 1903
Period size: 490 Copynumber: 2.0 Consensus size: 489
71500103 GAATGATGAT
*
71500113 ATGAGAGCTACTAAGTGTTTATTAATTGATGATTTGTATATCATGAATTGTTGAGTATATTTAGT
1 ATGAGAGCTACTAAGTGTTTAGTAATTGATGATTTGTATATCATGAATTGTTGAGTATATTTAGT
* * *
71500178 ATGAACTTACTAAGCTAAGAAGCTTACTGTATGTTATTTATCTTTGTTTTCTAGAGTATCGAAGC
66 ATGAACCTACTAAGCGAAGAAGCTTACTGTATGTTATTTATCTTTGCTTTCTAGAGTATCGAAGC
71500243 TAGCTCAGACATCAAGGATCATCAGGAACCATCATCACACTATTGAATCAACTCGTTGGTACTTT
131 TAGCTCAGACATCAAGGATCATCAGGAACCATCATCACACTATTGAATCAACTCGTTGGTACTTT
71500308 TGAAGCTTTTGGAGCTTTGTATATATGGTATATGGCATGTATAAGCTAGTGTTATTTTGGTATGT
196 TGAAGCTTTTGGAGCTTTGTATATATGGTATATGGCATGTATAAGCTAGTGTTATTTTGGTATGT
71500373 TATGAGTCTTGATATTAGCCATGAGATTTGGCTTGTAAATGTGGTATGTATAGCCATCTAAGTTG
261 TATGAGTCTTGATATTAGCCATGAGATTTGGCTTGTAAATGTGGTATGTATAGCCATCTAAGTTG
71500438 GCTTGGATTATGTGTTTGGTAAGTGTTATATGTGATGTATATAATGCTTTATGAATTGGCTTGGT
326 GCTTGGATTATGTGTTTGGTAAGTGTTATATGTGATGTATATAATGCTTTATGAATTGGCTTGGT
71500503 TTGAGATGATGATATGATGAGTCTTGTGATATAAAATAGATGATATTATGATGAATTAGTGAATA
391 TTGAGATGATGATATGATGAGTCTTGTGATATAAAATAGATGATATTATGATGAATTAGTGAATA
71500568 TGAAATATATGTAAGTTGTGATGATTTTGGCATA
456 TGAAATATATGTAAGTTGTGATGATTTTGGCATA
71500602 ATGAGAGCTACTAAGTGTTTAGTAATTGATGATTTGTATATCATGAATTGTTGAGTATATTTAGT
1 ATGAGAGCTACTAAGTGTTTAGTAATTGATGATTTGTATATCATGAATTGTTGAGTATATTTAGT
71500667 ATGAACCTACTAAGCGAAGAAGCTTACTGTATGTTATTTATCTTTGCTTTCTAGAGTATCGAAGC
66 ATGAACCTACTAAGCGAAGAAGCTTACTGTATGTTATTTATCTTTGCTTTCTAGAGTATCGAAGC
*
71500732 TAGCTCAGACATCAGGGATCATCAGGAACCATCATCACACTATTGAATCAACTCGTTGGTACTTT
131 TAGCTCAGACATCAAGGATCATCAGGAACCATCATCACACTATTGAATCAACTCGTTGGTAC-TT
71500797 TTGAAGCTTTTGGAGCTTTGTATATATGGTATATGGCATGTATAAGCTAGTGTTATTTTGGTATG
195 TTGAAGCTTTTGGAGCTTTGTATATATGGTATATGGCATGTATAAGCTAGTGTTATTTTGGTATG
71500862 TTATGAGTCTTGATATTAGCCATGAGATTTGGCTTGTAAATGTGGTATGTATAGCCATCTAAGTT
260 TTATGAGTCTTGATATTAGCCATGAGATTTGGCTTGTAAATGTGGTATGTATAGCCATCTAAGTT
*
71500927 GGCTTGGATTATGTGTTTGGTAAGTGTTATATGTGATGTATATAATGCTTTATGAATTGGTTTGG
325 GGCTTGGATTATGTGTTTGGTAAGTGTTATATGTGATGTATATAATGCTTTATGAATTGGCTTGG
71500992 TTTGAGATGATGATATGATGAGTCTTGTGATATAAAATAGATGATATTATGATGAATTAGTGAAT
390 TTTGAGATGATGATATGATGAGTCTTGTGATATAAAATAGATGATATTATGATGAATTAGTGAAT
71501057 ATGAAATATATGTAAGTTGTGATGATTTTGGCATA
455 ATGAAATATATGTAAGTTGTGATGATTTTGGCATA
71501092 ATGA
1 ATGA
71501096 TTTGGTATAT
Statistics
Matches: 487, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
489 187 0.38
490 300 0.62
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (489 bp):
ATGAGAGCTACTAAGTGTTTAGTAATTGATGATTTGTATATCATGAATTGTTGAGTATATTTAGT
ATGAACCTACTAAGCGAAGAAGCTTACTGTATGTTATTTATCTTTGCTTTCTAGAGTATCGAAGC
TAGCTCAGACATCAAGGATCATCAGGAACCATCATCACACTATTGAATCAACTCGTTGGTACTTT
TGAAGCTTTTGGAGCTTTGTATATATGGTATATGGCATGTATAAGCTAGTGTTATTTTGGTATGT
TATGAGTCTTGATATTAGCCATGAGATTTGGCTTGTAAATGTGGTATGTATAGCCATCTAAGTTG
GCTTGGATTATGTGTTTGGTAAGTGTTATATGTGATGTATATAATGCTTTATGAATTGGCTTGGT
TTGAGATGATGATATGATGAGTCTTGTGATATAAAATAGATGATATTATGATGAATTAGTGAATA
TGAAATATATGTAAGTTGTGATGATTTTGGCATA
Found at i:71501064 original size:34 final size:34
Alignment explanation
Indices: 71500996--71501064 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
71500986 GTTTGGTTTG
* *
71500996 AGATGATGATATGATGAGTCTTGTGATATAAAAT
1 AGATGATGATATGATGAATCTAGTGATATAAAAT
*
71501030 AGATGAT-ATTATGATGAAT-TAGTGAATATGAAAT
1 AGATGATGA-TATGATGAATCTAGTG-ATATAAAAT
71501064 A
1 A
71501065 TATGTAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.42, C:0.01, G:0.22, T:0.35
Consensus pattern (34 bp):
AGATGATGATATGATGAATCTAGTGATATAAAAT
Found at i:71520383 original size:40 final size:40
Alignment explanation
Indices: 71520283--71520483 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
71520273 CGGAATTTAG
* ** *
71520283 CCGGATATAACCACAAGCACAATTGCCTT-GGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
71520322 CCGG-TATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
71520361 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
*
71520401 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * *
71520441 CCGGATATAATC-ACTAGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
71520480 CCGG
1 CCGG
71520484 GTATCATTCA
Statistics
Matches: 146, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 19 0.13
39 26 0.18
40 100 0.68
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:71528125 original size:40 final size:40
Alignment explanation
Indices: 71528081--71528257 Score: 266
Period size: 40 Copynumber: 4.4 Consensus size: 40
71528071 GTAAGCATTT
*
71528081 TTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCC
1 TTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCC
* *
71528121 TTCGGGTCTTATCCCGGATATAACAACTCGCACAAATGCC
1 TTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCC
71528161 TTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCC
1 TTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCC
* * *
71528201 TTCGGGTCTTAACCCGGATATAATC-ACTAGCATAAATGCC
1 TTCGGGTCTTAACCCGGATAT-AGCAACTCGCACAAATGCC
* *
71528241 TTCGGGGCTTAGCCCGG
1 TTCGGGTCTTAACCCGG
71528258 GTATCATTCA
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 124 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCC
Found at i:71530592 original size:2 final size:2
Alignment explanation
Indices: 71530579--71530609 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
71530569 ACATGCATGC
*
71530579 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71530610 AGCTTACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:71534972 original size:40 final size:39
Alignment explanation
Indices: 71534928--71535053 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
71534918 GGGACTCAAC
*
71534928 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
71534968 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
71535008 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
71535048 CCGGAT
1 CCGGAT
71535054 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:71535012 original size:80 final size:80
Alignment explanation
Indices: 71534867--71535053 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
71534857 GCTACACATT
* * *
71534867 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
71534931 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
71534947 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
71535010 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
71535028 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
71535054 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:71546165 original size:20 final size:20
Alignment explanation
Indices: 71546140--71546177 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
71546130 AATCGCACAC
*
71546140 TTAGTGTCAAATACCATTGA
1 TTAGTGCCAAATACCATTGA
71546160 TTAGTGCCAAATACCATT
1 TTAGTGCCAAATACCATT
71546178 AATTTATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
TTAGTGCCAAATACCATTGA
Found at i:71547475 original size:28 final size:27
Alignment explanation
Indices: 71547435--71547501 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
71547425 TTAAAAGAAA
* * *
71547435 GCCTTTGTAGCAATATCTGTCAAATGAT
1 GCCTTTATGGCAA-ATCTATCAAATGAT
71547463 GCCTTTATGGC-AATCTATCAAATGAT
1 GCCTTTATGGCAAATCTATCAAATGAT
*
71547489 GCCTTTACGGCAA
1 GCCTTTATGGCAA
71547502 GACTCTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.68
27 2 0.06
28 9 0.26
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (27 bp):
GCCTTTATGGCAAATCTATCAAATGAT
Found at i:71547485 original size:26 final size:26
Alignment explanation
Indices: 71547449--71547501 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
71547439 TTGTAGCAAT
* *
71547449 ATCTGTCAAATGATGCCTTTATGGCA
1 ATCTATCAAATGATGCCTTTACGGCA
71547475 ATCTATCAAATGATGCCTTTACGGCA
1 ATCTATCAAATGATGCCTTTACGGCA
71547501 A
1 A
71547502 GACTCTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (26 bp):
ATCTATCAAATGATGCCTTTACGGCA
Found at i:71552549 original size:29 final size:29
Alignment explanation
Indices: 71552525--71552618 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
71552515 TCGCACACCC
* *
71552525 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
71552554 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
71552583 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
71552612 AGTGCCA
1 AGTGCCA
71552619 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:71552550 original size:58 final size:58
Alignment explanation
Indices: 71552487--71552618 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
71552477 GATTTAAGCC
* * * * *
71552487 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
71552545 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
71552603 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
71552619 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Done.