Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 194 of 345
Found at i:55253033 original size:52 final size:51
Alignment explanation
Indices: 55252977--55253187 Score: 220
Period size: 52 Copynumber: 4.2 Consensus size: 51
55252967 ATGATTACTA
* * *
55252977 ATCACTAACACTTTTGAAAGCTTATTATGGAACATACTCATAAAGAAACTTG
1 ATCACTCACACTTTTGAAAACTTA-TATGGAACATACTCATAAAGGAACTTG
* *
55253029 ---A-TCACACTATTGAAAACTGTATA-GG-ACATACTCATTATA-GAACTTG
1 ATCACTCACACTTTTGAAAACT-TATATGGAACATACTCA-TAAAGGAACTTG
* * * *
55253075 ATCACTCACACATTTGAAAACTTAATATGGAACATAATCATAATGGAACCTG
1 ATCACTCACACTTTTGAAAACTT-ATATGGAACATACTCATAAAGGAACTTG
* * *
55253127 ATCACTCACACTTTTGAAAACTTAGTAAGGAATATACTCATAACGGAACTTG
1 ATCACTCACACTTTTGAAAACTTA-TATGGAACATACTCATAAAGGAACTTG
55253179 ATCACTCAC
1 ATCACTCAC
55253188 TAGAAAACAG
Statistics
Matches: 131, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
46 15 0.11
47 5 0.04
48 16 0.12
49 5 0.04
50 18 0.14
51 5 0.04
52 67 0.51
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (51 bp):
ATCACTCACACTTTTGAAAACTTATATGGAACATACTCATAAAGGAACTTG
Found at i:55253330 original size:11 final size:11
Alignment explanation
Indices: 55253314--55253345 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
55253304 AAGCATTATG
55253314 GTTAAGTTTTA
1 GTTAAGTTTTA
55253325 GTTAAGTTTTA
1 GTTAAGTTTTA
55253336 GTTAAGTTTT
1 GTTAAGTTTT
55253346 TGTAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (11 bp):
GTTAAGTTTTA
Found at i:55254773 original size:47 final size:45
Alignment explanation
Indices: 55254662--55254980 Score: 250
Period size: 47 Copynumber: 6.8 Consensus size: 45
55254652 ATTACTTATA
* * *
55254662 TGCCAGTGTAAGACATGTCTGAGACATGCATCGGCCACATTATGAG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGA-TATGAG
* * *
55254708 TGCTAGTGTAAGACCATGTCTGGGACTTGGCATCAGCGTAGATATGAG
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAGATATGAG
* * *
55254756 TGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACGATGA-
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTAGA-TATGAG
* * *
55254802 TAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTA-AGA-GCTG
1 T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGATATG-AG
* * * *
55254847 TGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTTATATACGAG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGC---TAGATATGAG
* * * *
55254895 AGCTAGTGTAAGACCATGTCTGGAACATAGCATCGGCCTCGATGATGA-
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTAGAT-ATGAG
* *
55254943 TAGCCAGTGTATGACCATGTCTAGGACATGGCATCGGC
1 T-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
55254981 AACTTATCCC
Statistics
Matches: 222, Mismatches: 33, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.00
44 33 0.15
45 2 0.01
46 24 0.11
47 62 0.28
48 44 0.20
49 49 0.22
50 6 0.03
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAGATATGAG
Found at i:55254928 original size:141 final size:141
Alignment explanation
Indices: 55254663--55254980 Score: 394
Period size: 141 Copynumber: 2.2 Consensus size: 141
55254653 TTACTTATAT
* *
55254663 GCCAGTGTAAGACATGTCTGAGACATGCATCGGCCACATTATGAGTGCTAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCTAGTGTAAGACCATGTC
* * * * *
55254728 TGGGACTTGGCATCAGCGTAGATATGAGTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCT
66 TGGGACATGGCATCAGCGTAGATACGAGAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCCT
55254793 CGACGATGATA
131 CGACGATGATA
* * *
55254804 GCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTA-A-GA-GCTGTGCTAGTGTAAGA-CATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATG-AGTGCTAGTGTAAGACCATGT
* * *
55254865 CTGGGACAT-GCATCAGCATTTATATACGAGAGCTAGTGTAAGACCATGTCTGGAACATAGCATC
65 CTGGGACATGGCATCAGC--GTAGATACGAGAGCCAGTGTAAGA-CATGTCTGGAACAT-GCATC
*
55254929 GGCCTCGATGATGATA
126 GGCCTCGACGATGATA
* *
55254945 GCCAGTGTATGACCATGTCTAGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
55254981 AACTTATCCC
Statistics
Matches: 153, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
137 8 0.05
138 14 0.09
139 34 0.22
140 13 0.08
141 64 0.42
142 12 0.08
143 8 0.05
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (141 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGTGCTAGTGTAAGACCATGTC
TGGGACATGGCATCAGCGTAGATACGAGAGCCAGTGTAAGACATGTCTGGAACATGCATCGGCCT
CGACGATGATA
Found at i:55257830 original size:17 final size:17
Alignment explanation
Indices: 55257810--55257843 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55257800 AACTTTTCTC
*
55257810 TTTACTTAGTTTAATTA
1 TTTAATTAGTTTAATTA
55257827 TTTAATTAGTTTAATTA
1 TTTAATTAGTTTAATTA
55257844 ATTAGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTAATTAGTTTAATTA
Found at i:55257846 original size:13 final size:13
Alignment explanation
Indices: 55257828--55257854 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55257818 GTTTAATTAT
55257828 TTAATTAGTTTAA
1 TTAATTAGTTTAA
55257841 TTAATTAGTTTAA
1 TTAATTAGTTTAA
55257854 T
1 T
55257855 AAACAACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAA
Found at i:55257854 original size:9 final size:9
Alignment explanation
Indices: 55257810--55257843 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
55257800 AACTTTTCTC
*
55257810 TTTACTTAG
1 TTTAATTAG
55257819 TTTAATTA-
1 TTTAATTAG
55257827 TTTAATTAG
1 TTTAATTAG
55257836 TTTAATTA
1 TTTAATTA
55257844 ATTAGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (9 bp):
TTTAATTAG
Found at i:55267028 original size:20 final size:20
Alignment explanation
Indices: 55267005--55267068 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
55266995 TAAACATGGT
55267005 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
55267025 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
55267045 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
55267065 ATGT
1 ATGT
55267069 TCATAAATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:55267045 original size:11 final size:11
Alignment explanation
Indices: 55267009--55267063 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
55266999 CATGGTATGT
55267009 ATGATATGCAC
1 ATGATATGCAC
* *
55267020 ATGACATG--T
1 ATGATATGCAC
55267029 ATGATATGCAC
1 ATGATATGCAC
*
55267040 ATGATATG--T
1 ATGATATGCAC
55267049 ATGATATGCAC
1 ATGATATGCAC
55267060 ATGA
1 ATGA
55267064 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:55267170 original size:24 final size:24
Alignment explanation
Indices: 55267113--55267265 Score: 220
Period size: 24 Copynumber: 6.4 Consensus size: 24
55267103 GGAGGAAGTG
*
55267113 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55267137 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55267160 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
55267184 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55267208 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
55267231 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
55267255 TAAAAGAGGCT
1 CAAAAG-GGCT
55267266 AGGCCTCCAG
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 43 0.36
24 71 0.60
25 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:55267182 original size:47 final size:47
Alignment explanation
Indices: 55267113--55267265 Score: 227
Period size: 47 Copynumber: 3.2 Consensus size: 47
55267103 GGAGGAAGTG
55267113 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
55267160 CAAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* * *
55267208 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCTAGTTATT-AAAGGGCTTATGCCCCAGTTAT
*
55267255 TAAAAGAGGCT
1 CAAAAG-GGCT
55267266 AGGCCTCCAG
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
47 66 0.69
48 26 0.27
49 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:55267229 original size:71 final size:71
Alignment explanation
Indices: 55267113--55267265 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 71
55267103 GGAGGAAGTG
* *
55267113 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
55267178 AGTTAT
66 AGTTAT
* *
55267184 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
55267249 AGTTAT
66 AGTTAT
*
55267255 TAAAAGAGGCT
1 CAAAAG-GGCT
55267266 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 72 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:55267507 original size:31 final size:31
Alignment explanation
Indices: 55267472--55267535 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
55267462 CGTTTACAGT
55267472 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
55267503 AAAGGCTTTGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
55267534 AA
1 AA
55267536 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:55272337 original size:22 final size:21
Alignment explanation
Indices: 55272312--55272354 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
55272302 ATCAATTTAC
*
55272312 AACATATAGCATGCATTTCTCA
1 AACATAAAGCATGCA-TTCTCA
*
55272334 AACATAAAGCATTCATTCTCA
1 AACATAAAGCATGCATTCTCA
55272355 TAAATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (21 bp):
AACATAAAGCATGCATTCTCA
Found at i:55275271 original size:27 final size:27
Alignment explanation
Indices: 55275235--55275450 Score: 225
Period size: 27 Copynumber: 8.0 Consensus size: 27
55275225 GTTATTTGAT
* *
55275235 CATAATACCCCTGTAGGGTAAAATAAT
1 CATAATACCCCTGTAGGGTAAAATGAC
* *
55275262 CATAATACCCCTATAGGATAAAATGAC
1 CATAATACCCCTGTAGGGTAAAATGAC
* *
55275289 CGTAATACCCTTGTAGGGTAAAATGAC
1 CATAATACCCCTGTAGGGTAAAATGAC
*
55275316 CATAATGCCCCTGTAGGGTAAAATGAC
1 CATAATACCCCTGTAGGGTAAAATGAC
* * *
55275343 CGTAATGCCCCTATAGGGTAAAATGAC
1 CATAATACCCCTGTAGGGTAAAATGAC
* * *
55275370 CGTAATATCCCTGAAGGGTAAAATGAC
1 CATAATACCCCTGTAGGGTAAAATGAC
** * * * *
55275397 TGTAATGCTCTTGTAGGATAAAATGAC
1 CATAATACCCCTGTAGGGTAAAATGAC
** * *
55275424 TGTAATATCCCTGTATGGTAAAATGAC
1 CATAATACCCCTGTAGGGTAAAATGAC
55275451 GATTATGCCC
Statistics
Matches: 159, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 159 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
CATAATACCCCTGTAGGGTAAAATGAC
Found at i:55275370 original size:81 final size:81
Alignment explanation
Indices: 55275235--55275450 Score: 272
Period size: 81 Copynumber: 2.7 Consensus size: 81
55275225 GTTATTTGAT
* * * * *
55275235 CATAATACCCCTGTAGGGTAAAATAATCATAATACCCCTATAGGATAAAATGACCGTAATA-CCC
1 CATAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATATCCC
*
55275299 TTGTAGGGTAAAATGAC
66 -TGAAGGGTAAAATGAC
*
55275316 CATAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATATCCC
1 CATAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATATCCC
55275381 TGAAGGGTAAAATGAC
66 TGAAGGGTAAAATGAC
** * * * * * * *
55275397 TGTAATGCTCTTGTAGGATAAAATGACTGTAATATCCCTGTATGGTAAAATGAC
1 CATAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGAC
55275451 GATTATGCCC
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
81 114 0.97
82 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (81 bp):
CATAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGACCGTAATATCCC
TGAAGGGTAAAATGAC
Found at i:55277706 original size:43 final size:43
Alignment explanation
Indices: 55277561--55277707 Score: 149
Period size: 42 Copynumber: 3.4 Consensus size: 43
55277551 TGTGTTATCG
* * * *
55277561 TGTAAGACAACGTCTGGGACGTTGGCATC-A-ACTTATGATTTACG
1 TGTAAGACCACGTTTGGGACATTGGCATCGATA-TT-TGA-TTACA
* * * *
55277605 TGTAAGACCATGTATGAGACATTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTTTGGGACATTGGCATCGATATTTGATTACA
55277647 TGTAAGACC-CTGTTTGGGACATTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTTTGGGACATTGGCATCGATATTTGATTACA
*
55277690 TGTAAGACCACATTTGGG
1 TGTAAGACCACGTTTGGG
55277708 GTGTTGACAT
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
42 29 0.34
43 29 0.34
44 27 0.31
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTTTGGGACATTGGCATCGATATTTGATTACA
Found at i:55283148 original size:47 final size:47
Alignment explanation
Indices: 55283094--55283334 Score: 383
Period size: 47 Copynumber: 5.1 Consensus size: 47
55283084 TTAGGATTTT
** * *
55283094 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55283141 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55283188 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55283235 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
55283282 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55283329 ATGTGA
1 ATGTGA
55283335 AATGTGTATG
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55283169 original size:25 final size:25
Alignment explanation
Indices: 55283141--55283219 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
55283131 CGAATGGCCA
55283141 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
55283166 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
55283188 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
55283213 ATGTGAT
1 ATGTGAT
55283220 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 15 0.37
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:55283194 original size:22 final size:22
Alignment explanation
Indices: 55283123--55283241 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
55283113 GTATATATGA
55283123 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
55283145 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
55283170 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
55283192 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
55283217 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
55283239 GAT
1 GAT
55283242 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:55283290 original size:25 final size:25
Alignment explanation
Indices: 55283215--55283290 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
55283205 ATGCATATAT
55283215 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
55283240 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
55283262 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
55283287 GTGA
1 GTGA
55283291 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:55283367 original size:48 final size:48
Alignment explanation
Indices: 55283304--55283487 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
55283294 TGAACATGCA
*
55283304 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
55283352 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
55283400 CATATGTGGTAAAG-CGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
55283449 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
55283488 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
46 1 0.01
47 13 0.10
48 68 0.54
49 30 0.24
50 12 0.10
51 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:55283465 original size:97 final size:96
Alignment explanation
Indices: 55283305--55283487 Score: 298
Period size: 97 Copynumber: 1.9 Consensus size: 96
55283295 GAACATGCAT
* *
55283305 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
55283370 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
55283401 ATATGTGGTAAAG-CGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
55283464 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
55283488 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
94 1 0.01
95 13 0.16
96 15 0.19
97 52 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:55283740 original size:37 final size:37
Alignment explanation
Indices: 55283632--55283740 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
55283622 GGAAATATAT
*
55283632 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
55283669 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
55283706 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
55283741 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:55285269 original size:119 final size:120
Alignment explanation
Indices: 55285005--55285367 Score: 586
Period size: 119 Copynumber: 3.0 Consensus size: 120
55284995 GAGAATTGAG
*
55285005 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
*
55285070 AAGAGCATT-GTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
66 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* * *
55285124 AGTGATGTATCCGGGCTAAGTCCCGAATAGCATTCGTGCTAGTGATGTATCCAGGCTAAGTCCCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
55285189 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
66 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
* *
55285244 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCGTTCGTGCTAGTGATGTATCCGGGCTAAGTTCCG
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
* * * * * *
55285308 AAGAGCATTCGTGCTGGTGTTATATTCGGGCTAGGTCCCGAAGAGCAATCATGCT
66 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
*
55285363 GGTGA
1 AGTGA
55285368 CATGTATTCA
Statistics
Matches: 226, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
119 161 0.71
120 65 0.29
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (120 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
Found at i:55285294 original size:159 final size:159
Alignment explanation
Indices: 55285005--55285354 Score: 585
Period size: 159 Copynumber: 2.2 Consensus size: 159
55284995 GAGAATTGAG
55285005 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
*
55285070 AAGAGCATTGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
66 AAGAGCATTATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
*
55285135 CGGGCTAAGTCCCGAATAGCATTCGTGCT
131 CGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
55285164 AGTGATGTATCCAGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
*
55285229 AAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGT-CCGAAGAGCGTTCGTGCTAGTGATGTAT
66 AAGAGCATT-ATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
55285293 CCGGGCTAAGTTCCGAAGAGCATTCGTGCT
130 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
55285323 GGTGTTATATTCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
55285355 ATCATGCTGG
Statistics
Matches: 176, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
159 151 0.86
160 25 0.14
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (159 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCG
AAGAGCATTATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATC
CGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55285366 original size:40 final size:40
Alignment explanation
Indices: 55285005--55285354 Score: 578
Period size: 40 Copynumber: 8.8 Consensus size: 40
55284995 GAGAATTGAG
*
55285005 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55285045 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT-GTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
55285084 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55285124 AGTGATGTATCCGGGCTAAGTCCCGAATAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
55285164 AGTGATGTATCCAGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55285204 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55285244 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCGTTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
55285283 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
55285323 GGTGTTATATTCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
55285355 ATCATGCTGG
Statistics
Matches: 291, Mismatches: 17, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
39 76 0.26
40 215 0.74
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:55289250 original size:47 final size:47
Alignment explanation
Indices: 55289196--55289434 Score: 352
Period size: 47 Copynumber: 5.1 Consensus size: 47
55289186 TTAGGATTTT
** * *
55289196 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55289243 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55289290 ATGTGATGAATGTGAACATGCATGTATGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
55289337 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
55289384 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGTCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
55289431 ATGT
1 ATGT
55289435 AAAATGTGTA
Statistics
Matches: 174, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 174 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:55289271 original size:25 final size:25
Alignment explanation
Indices: 55289243--55289321 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
55289233 CGAATGGCCA
55289243 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
55289268 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
55289290 ATGTGATGAATGTGAACATGCATGT
1 ATGTGATGAATGTGAACATGCATAT
55289315 ATGTGAT
1 ATGTGAT
55289322 AAGACCGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 8 0.20
25 15 0.38
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:55289296 original size:22 final size:22
Alignment explanation
Indices: 55289225--55289296 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
55289215 GTATATATGA
55289225 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
55289247 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
55289272 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
55289294 GAT
1 GAT
55289297 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:55289557 original size:98 final size:96
Alignment explanation
Indices: 55289407--55289590 Score: 280
Period size: 98 Copynumber: 1.9 Consensus size: 96
55289397 GAACATGCAT
* * *
55289407 ATATGTGGTAAAGTCGAATGGCTAATGTAAAATGTGTATGAGATATGTATATGTGGTAAAACCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATGAGATATGTATATGTGGTAAAACCGA
55289472 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
55289503 ATATGTGGTAAAGCCGAATGG-TCAATGTGATATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGT-A-AAATATATATGAGATATGTATATGTGGTAAAAC
*
55289567 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
55289591 GGCGATGTAC
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.32
97 1 0.01
98 52 0.66
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTAAAATATATATGAGATATGTATATGTGGTAAAACCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:55289606 original size:50 final size:48
Alignment explanation
Indices: 55289406--55289590 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
55289396 TGAACATGCA
* * *
55289406 TATATGTGGTAAAGTCGAATGGCTAATGTAAAATGTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
55289454 TATATGTGGTAAAACCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
55289502 CATATGTGGTAAAGCCGAATGG-TCAATGTGATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGA-A-ATATGTATGAGATATG
*
55289552 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
55289591 GGCGATGTAC
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
47 1 0.01
48 77 0.63
49 2 0.02
50 42 0.34
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:55289792 original size:37 final size:37
Alignment explanation
Indices: 55289736--55289843 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
55289726 GGAAATATAT
*
55289736 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55289773 TCCGGGTAAGATCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
55289810 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
55289844 TCGTCTGAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55293060 original size:16 final size:15
Alignment explanation
Indices: 55293039--55293068 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
55293029 AAAGATGTGT
55293039 TCTATTTGCTCAAGTG
1 TCTATTTGCT-AAGTG
55293055 TCTATTTGCTAAGT
1 TCTATTTGCTAAGT
55293069 CTTTATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.47
Consensus pattern (15 bp):
TCTATTTGCTAAGTG
Found at i:55294226 original size:85 final size:86
Alignment explanation
Indices: 55294072--55294233 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 86
55294062 TGTGTTATCG
*
55294072 TGTAAGACCACGTCTGGAACACTGGCATCGACTTTTGATTTACGTGTAAGACCATCTCTGGGACA
1 TGTAAGACCACGTCTGGAACACTGGCATCGACTTTTGATTTACATGTAAGACCATCTCTGGGACA
55294137 TTGGCATCGTATTTGATTTCA
66 TTGGCATCGTATTTGATTTCA
* * * * *
55294158 TGTAAGACCATGTTTGGGACAGTGGCATTGA-TATTTGA-TTACATGTAAGACCA-CATCTGGGA
1 TGTAAGACCACGTCTGGAACACTGGCATCGACT-TTTGATTTACATGTAAGACCATC-TCTGGGA
* *
55294220 CGTTGGCATTGTAT
64 CATTGGCATCGTAT
55294234 GAGCTTTCCA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
84 1 0.02
85 34 0.52
86 31 0.47
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (86 bp):
TGTAAGACCACGTCTGGAACACTGGCATCGACTTTTGATTTACATGTAAGACCATCTCTGGGACA
TTGGCATCGTATTTGATTTCA
Found at i:55294230 original size:43 final size:43
Alignment explanation
Indices: 55294072--55294228 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
55294062 TGTGTTATCG
* * *
55294072 TGTAAGACCACGTCTGGAACACTGGCATCGACT-TTTGATTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA-TTACA
*
55294116 TGTAAGACCATC-TCTGGGACATTGGCATCG-TATTTGATTTCA
1 TGTAAGACCA-CGTCTGGGACATTGGCATCGATATTTGATTACA
* * * *
55294158 TGTAAGACCATGTTTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
* *
55294201 TGTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
55294229 TGTATGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
42 29 0.31
43 39 0.41
44 26 0.27
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:55295314 original size:146 final size:146
Alignment explanation
Indices: 55295045--55295317 Score: 476
Period size: 146 Copynumber: 1.9 Consensus size: 146
55295035 TGGTATATGT
55295045 TTTGGTTGAGAAATGGTTGAGAATTTGGTATAAAATGATGTGGTTTTGATGCTTGTAAGGAGGAC
1 TTTGGTTGAGAAATGGTTGAGAATTTGGTATAAAATGATGTGGTTTTGATGCTTGTAAGGAGGAC
*
55295110 CCTTTAAGGGGTGGCAAATTGGCCTTATAAATGGCATATTTTTGCCCACAAGGGCAGGGACATGG
66 CCTTTAAGGGGTGGCAAATTGGACTTATAAATGGCATATTTTTGCCCACAAGGGCAGGGACATGG
55295175 ACGTTTGTCTCATCCA
131 ACGTTTGTCTCATCCA
*
55295191 TTTGGTTGAGAAATGGTTGAGAATTTGGTGA-AAAATGATGTGGTTTTGATGCTTGTAGGGAGGA
1 TTTGGTTGAGAAATGGTTGAGAATTTGGT-ATAAAATGATGTGGTTTTGATGCTTGTAAGGAGGA
* * * *
55295255 CCCTTTAAGGGGTGGCAAATTGGACTTGTAAATGGCCTATTTTTGCCCACACGGTCAGGGACA
65 CCCTTTAAGGGGTGGCAAATTGGACTTATAAATGGCATATTTTTGCCCACAAGGGCAGGGACA
55295318 CGGGTGTGTG
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
146 119 0.99
147 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (146 bp):
TTTGGTTGAGAAATGGTTGAGAATTTGGTATAAAATGATGTGGTTTTGATGCTTGTAAGGAGGAC
CCTTTAAGGGGTGGCAAATTGGACTTATAAATGGCATATTTTTGCCCACAAGGGCAGGGACATGG
ACGTTTGTCTCATCCA
Found at i:55295913 original size:40 final size:40
Alignment explanation
Indices: 55295854--55295944 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
55295844 GGGGTGTTAT
* *
55295854 ACTAAGTGCCATATTTAGCCGAAGCTATGTCGAATCGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTATGTCGAATAGCAC
* *
55295894 ACTAAGTGCCATATATAGCCGAAGCTATGTTGTATAGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTATGTCGAATAGCAC
*
55295934 ACTAAATGCCA
1 ACTAAGTGCCA
55295945 CAAATAATCG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (40 bp):
ACTAAGTGCCATATATAGCCGAAGCTATGTCGAATAGCAC
Found at i:55300298 original size:12 final size:12
Alignment explanation
Indices: 55300281--55300305 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55300271 TGTGTGGCAT
55300281 GGTAGAGACACG
1 GGTAGAGACACG
55300293 GGTAGAGACACG
1 GGTAGAGACACG
55300305 G
1 G
55300306 CCATATGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.44, T:0.08
Consensus pattern (12 bp):
GGTAGAGACACG
Found at i:55301792 original size:13 final size:13
Alignment explanation
Indices: 55301774--55301814 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
55301764 CCCTTTGCTT
55301774 TAATTAGTTTAGA
1 TAATTAGTTTAGA
55301787 TAATTAGTTTAGA
1 TAATTAGTTTAGA
55301800 TAATTAGTTTA-A
1 TAATTAGTTTAGA
55301812 TAA
1 TAA
55301815 ACAAACCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 4 0.14
13 24 0.86
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (13 bp):
TAATTAGTTTAGA
Found at i:55307180 original size:6 final size:6
Alignment explanation
Indices: 55307169--55307215 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
55307159 TCCTCTTATC
* * *
55307169 TTTTTA TTTTTA TTTTTA TTTTTC TTCTTA TTTTTGT TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA TTTT
55307216 CTTTTGAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:55307199 original size:24 final size:25
Alignment explanation
Indices: 55307167--55307215 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
55307157 AATCCTCTTA
*
55307167 TCTTTTTATTTTT-ATTTTTATTTT
1 TCTTCTTATTTTTGATTTTTATTTT
*
55307191 TCTTCTTATTTTTGTTTTTTATTTT
1 TCTTCTTATTTTTGATTTTTATTTT
55307216 CTTTTGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (25 bp):
TCTTCTTATTTTTGATTTTTATTTT
Found at i:55312522 original size:40 final size:40
Alignment explanation
Indices: 55312437--55312587 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 40
55312427 AATTGAATGA
* * *
55312437 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
55312477 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
* *
55312518 -ATCCGGGCTAAGACCTGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
55312557 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
55312588 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.06
40 77 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:55312601 original size:40 final size:40
Alignment explanation
Indices: 55312474--55312603 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
55312464 ATGCTGGAAA
* * * *
55312474 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * * **
55312514 CTACATCCGGGCTAAGACCTGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
55312554 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
55312594 TTATATCCGG
1 TTATATCCGG
55312604 TTATATTCCG
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:55332447 original size:39 final size:39
Alignment explanation
Indices: 55332366--55332528 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
55332356 TATGGTAACC
* *
55332366 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
55332406 CGCACAATTGCCTTCGGGCTTAGCCCGGATATGATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
55332445 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
55332484 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
55332523 CGCACA
1 CGCACA
55332529 TTCATTCACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:55332490 original size:78 final size:79
Alignment explanation
Indices: 55332335--55332515 Score: 274
Period size: 78 Copynumber: 2.3 Consensus size: 79
55332325 TCGTTCAAAC
* * *
55332335 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
55332400 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * * * *
55332415 GCCTTCGGGCTTAGCCCGGATATGATAGCTCGCACCATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
55332479 CAACTCGCACAATT
66 CAACTCGCACAATT
55332493 GCCTTCGGGCTTAGCCCGGATAT
1 GCCTTCGGGCTTAGCCCGGATAT
55332516 CACAATTCGC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 52 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.23
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:55338715 original size:40 final size:40
Alignment explanation
Indices: 55338626--55338885 Score: 278
Period size: 40 Copynumber: 6.5 Consensus size: 40
55338616 CTCAAGTAAT
* * * *
55338626 CTTCGGGATTTAG-CCGGATATACT-ACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
55338663 CTTCTGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
55338703 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
55338743 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
55338783 CTTCGGGTCTTAGCCTGGATATAG-CAACTCGCACGAATGT
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
55338823 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
55338864 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
55338886 CATTCGAATA
Statistics
Matches: 184, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
37 10 0.05
38 9 0.05
39 10 0.05
40 126 0.68
41 26 0.14
42 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55338846 original size:120 final size:121
Alignment explanation
Indices: 55338626--55338885 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 121
55338616 CTCAAGTAAT
* * * * * * *
55338626 CTTCGGGATTTAG-CCGGATATACT-ACTTGCAC-AAGGCCTTCTGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* *
55338688 CACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
66 CACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
* *
55338743 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCTGGATATAG-
1 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* * * *
55338807 CAACTCGCAC-GAATGTCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
66 C-ACTAGCACAG-ATGCCTTCGGGA-CTTAGCCCGGATATAGTCACCTAGCACAAAAGC
55338864 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
55338886 CATTCGAATA
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
117 11 0.09
118 10 0.08
119 11 0.09
120 55 0.46
121 33 0.28
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (121 bp):
CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
Found at i:55339310 original size:13 final size:13
Alignment explanation
Indices: 55339292--55339320 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
55339282 ACGCATTTTT
55339292 AATCACATTAAGC
1 AATCACATTAAGC
55339305 AATCACATTAAGC
1 AATCACATTAAGC
55339318 AAT
1 AAT
55339321 TTAATACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (13 bp):
AATCACATTAAGC
Found at i:55346884 original size:40 final size:40
Alignment explanation
Indices: 55346802--55347060 Score: 305
Period size: 40 Copynumber: 6.5 Consensus size: 40
55346792 CTCAAGTAAT
* * *
55346802 CTTCGGGAT-TTAG-CCGGATATACT-ACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55346839 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55346879 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCA-AAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55346918 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
55346958 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
55346998 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
55347039 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
55347061 CATTCGAATA
Statistics
Matches: 189, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.01
37 11 0.06
38 9 0.05
39 44 0.23
40 95 0.50
41 29 0.15
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:55346931 original size:79 final size:79
Alignment explanation
Indices: 55346802--55347060 Score: 317
Period size: 79 Copynumber: 3.3 Consensus size: 79
55346792 CTCAAGTAAT
* * * * * *
55346802 CTTCGGGATTTAG-CCGGATATACT-ACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
*
55346865 ACTAGCACAGATGC
66 ACTAGCACAAATGC
* *
55346879 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCAAAATGCCTTCGGGTCTTAGCCCGGATATAATC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
*
55346944 GCTAGCACAAATGC
66 ACTAGCACAAATGC
* * * * * *
55346958 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCA-AAATGCCTTCGGGTCTTAGCCCGGATATAG
*
55347022 TCACCTAGCACAAAAGC
64 TCA-CTAGCACAAATGC
55347039 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
55347061 CATTCGAATA
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
77 12 0.08
78 11 0.07
79 73 0.47
80 27 0.17
81 33 0.21
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:55347010 original size:119 final size:121
Alignment explanation
Indices: 55346802--55347060 Score: 327
Period size: 119 Copynumber: 2.2 Consensus size: 121
55346792 CTCAAGTAAT
* * * * * *
55346802 CTTCGGGATTTAG-CCGGATATACT-ACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* *
55346864 CACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCA-AAATGC
66 CACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
*
55346918 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* * *
55346982 CAACTCGCAC-GAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
66 C-ACTAGCACAG-ATGCCTTCGGGA-CTTAGCCCGGATATAGTCACCTAGCACAAAAGC
55347039 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
55347061 CATTCGAATA
Statistics
Matches: 122, Mismatches: 13, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
116 11 0.09
117 10 0.08
118 11 0.09
119 58 0.48
120 6 0.05
121 26 0.21
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (121 bp):
CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
Found at i:55352900 original size:40 final size:40
Alignment explanation
Indices: 55352818--55352909 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
55352808 AACCATTGCT
* *
55352818 CACTAAGTGCCATATATAGCCGAAGCTATGTCAAATTACA
1 CACTAAGTGCCATATATAGCCAAAGCTATGTCAAATCACA
*** *
55352858 CACTAAGTGCCATATATAGCCAAAGCTATGTTGTATCGCA
1 CACTAAGTGCCATATATAGCCAAAGCTATGTCAAATCACA
55352898 CACTAAGTGCCA
1 CACTAAGTGCCA
55352910 CAAATAATCG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (40 bp):
CACTAAGTGCCATATATAGCCAAAGCTATGTCAAATCACA
Found at i:55366693 original size:30 final size:30
Alignment explanation
Indices: 55366659--55366720 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
55366649 CCAGTTATAA
55366659 ACAACTTAGTGACTGTTGGTCAGAAAAACT
1 ACAACTTAGTGACTGTTGGTCAGAAAAACT
55366689 ACAACTTAGTGACTGTTGGTCAGAAAAACT
1 ACAACTTAGTGACTGTTGGTCAGAAAAACT
55366719 AC
1 AC
55366721 TTGTAGTGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (30 bp):
ACAACTTAGTGACTGTTGGTCAGAAAAACT
Found at i:55366803 original size:49 final size:49
Alignment explanation
Indices: 55366729--55367445 Score: 1281
Period size: 49 Copynumber: 14.6 Consensus size: 49
55366719 ACTTGTAGTG
*
55366729 AGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
* *
55366778 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
*
55366827 AGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
55366876 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
55366925 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
55366974 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
*
55367023 AGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
* * *
55367072 AGTGGATGCATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
* *
55367121 AGTGGATGCATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
*
55367170 AGTGTATGGATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
55367219 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
** * *
55367268 AGTGTATGTATATGTGATCCGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
*
55367317 AGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
55367366 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
1 AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
*
55367415 AGTGTATGTATATGTGATAAGGCCTAATGGC
1 AGTGTATGTATATGTGATGAGGCCTAATGGC
55367446 TAATGTAAAA
Statistics
Matches: 643, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 643 1.00
ACGTcount: A:0.27, C:0.09, G:0.35, T:0.30
Consensus pattern (49 bp):
AGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAA
Found at i:55367597 original size:37 final size:37
Alignment explanation
Indices: 55367554--55367665 Score: 215
Period size: 37 Copynumber: 3.0 Consensus size: 37
55367544 GTTCCGGGAG
55367554 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
55367591 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
*
55367628 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
55367665 A
1 A
55367666 AACTTCTTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:55370596 original size:26 final size:28
Alignment explanation
Indices: 55370567--55370635 Score: 115
Period size: 26 Copynumber: 2.5 Consensus size: 28
55370557 ATAGTGAGTC
55370567 CGCACACTTAGTGCTATA-AATCAA-CT
1 CGCACACTTAGTGCTATATAATCAAGCT
*
55370593 CGCACACCTAGTGCTATATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAGCT
55370621 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55370636 GTACAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 17 0.44
27 6 0.15
28 16 0.41
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAGCT
Found at i:55378588 original size:26 final size:26
Alignment explanation
Indices: 55378559--55378655 Score: 113
Period size: 26 Copynumber: 3.5 Consensus size: 26
55378549 ATAGTGAGTC
55378559 CGCACACTTAGTGCTATAAATCAACT
1 CGCACACTTAGTGCTATAAATCAACT
*
55378585 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATA-AATC-AACT
* * *
55378613 CGCACACTTAGTGCTGTACAAATTAAACC
1 CGCACACTTAGTGC--TATAAA-TCAACT
55378642 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55378656 CATTCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
26 18 0.30
27 3 0.05
28 18 0.30
29 18 0.30
30 4 0.07
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (26 bp):
CGCACACTTAGTGCTATAAATCAACT
Found at i:55378621 original size:28 final size:27
Alignment explanation
Indices: 55378559--55378655 Score: 124
Period size: 29 Copynumber: 3.5 Consensus size: 27
55378549 ATAGTGAGTC
55378559 CGCACACTTAGTGCTATAAATC-AACT
1 CGCACACTTAGTGCTATAAATCAAACT
*
55378585 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATA-AATCAAACT
* * *
55378613 CGCACACTTAGTGCTGTACAAATTAAACC
1 CGCACACTTAGTGC--TATAAATCAAACT
55378642 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55378656 CATTCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.29
27 3 0.05
28 18 0.29
29 20 0.32
30 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAATCAAACT
Found at i:55382276 original size:11 final size:10
Alignment explanation
Indices: 55382248--55382281 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
55382238 AGCCTGTAAG
55382248 TATTCTGAAT
1 TATTCTGAAT
*
55382258 TTTTCTGAAT
1 TATTCTGAAT
55382268 ATATTCTGAAT
1 -TATTCTGAAT
55382279 TAT
1 TAT
55382282 CTATCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:55388773 original size:28 final size:28
Alignment explanation
Indices: 55388733--55388800 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
55388723 TAGATGTACT
*
55388733 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
55388761 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
55388789 TTTATACCCCTA
1 ATTATACCCCTA
55388801 GGGTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.32
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:55388964 original size:27 final size:28
Alignment explanation
Indices: 55388906--55388995 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
55388896 AGGAAGCGTC
*
55388906 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
55388934 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
55388961 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
55388990 CTGGTG
1 CTGGTG
55388996 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:55389006 original size:29 final size:28
Alignment explanation
Indices: 55388916--55389006 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
55388906 CTGGTGGCTA
* * *
55388916 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
55388944 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
55388971 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
55389000 TGTCACA
1 TGCCACA
55389007 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:55389014 original size:55 final size:56
Alignment explanation
Indices: 55388906--55389020 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
55388896 AGGAAGCGTC
* * *
55388906 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
55388961 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
55389017 CTGG
1 CTGG
55389021 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:55389481 original size:19 final size:19
Alignment explanation
Indices: 55389457--55389495 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
55389447 TTTTAATTAT
* *
55389457 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
55389476 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
55389495 T
1 T
55389496 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:55397534 original size:52 final size:52
Alignment explanation
Indices: 55397348--55397565 Score: 260
Period size: 52 Copynumber: 4.2 Consensus size: 52
55397338 GAAGATTACC
* * * * * *
55397348 GATCACT-AGCACTTTTGAAAACTTAGTATAGCACTTACTTATAATGAAACTT
1 GATCACTCA-CACTTTTGAAAACTTAGTATGGAACATACTCATAATGGAACCT
* *
55397400 GATCACTCACACTTTTGAAAACTTAGTATGGAGCATACTCATAAAGGAA-CT
1 GATCACTCACACTTTTGAAAACTTAGTATGGAACATACTCATAATGGAACCT
* * * * *
55397451 CGATCACTTACACATTTGAAAACTTATTATGGAACATACTTATAACGGAACCT
1 -GATCACTCACACTTTTGAAAACTTAGTATGGAACATACTCATAATGGAACCT
* *
55397504 GATCATTCACACTTTTGAAAACTTAGTATGGAACAAACTCATAATGGAACCT
1 GATCACTCACACTTTTGAAAACTTAGTATGGAACATACTCATAATGGAACCT
*
55397556 TATCACTCAC
1 GATCACTCAC
55397566 CAGAAAATAG
Statistics
Matches: 140, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 136 0.97
53 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.30
Consensus pattern (52 bp):
GATCACTCACACTTTTGAAAACTTAGTATGGAACATACTCATAATGGAACCT
Found at i:55397562 original size:104 final size:104
Alignment explanation
Indices: 55397347--55397553 Score: 290
Period size: 104 Copynumber: 2.0 Consensus size: 104
55397337 TGAAGATTAC
* * * * *
55397347 CGATCAC-TAGCACTTTTGAAAACTTAGTATAGCACTTACTTATAATGAAACTTGATCACTCACA
1 CGATCACTTA-CACATTTGAAAACTTAGTATAGAACATACTTATAACGAAACCTGATCACTCACA
* *
55397411 CTTTTGAAAACTTAGTATGGAGCATACTCATAAAGGAACT
65 CTTTTGAAAACTTAGTATGGAACAAACTCATAAAGGAACT
* * * *
55397451 CGATCACTTACACATTTGAAAACTTATTATGGAACATACTTATAACGGAACCTGATCATTCACAC
1 CGATCACTTACACATTTGAAAACTTAGTATAGAACATACTTATAACGAAACCTGATCACTCACAC
*
55397516 TTTTGAAAACTTAGTATGGAACAAACTCATAATGGAAC
66 TTTTGAAAACTTAGTATGGAACAAACTCATAAAGGAAC
55397554 CTTATCACTC
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
104 88 0.98
105 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (104 bp):
CGATCACTTACACATTTGAAAACTTAGTATAGAACATACTTATAACGAAACCTGATCACTCACAC
TTTTGAAAACTTAGTATGGAACAAACTCATAAAGGAACT
Found at i:55416098 original size:15 final size:15
Alignment explanation
Indices: 55416078--55416109 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
55416068 TGATAAAAAT
55416078 TAATAGATATAATTA
1 TAATAGATATAATTA
55416093 TAATAGATATAATTA
1 TAATAGATATAATTA
55416108 TA
1 TA
55416110 TATTAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (15 bp):
TAATAGATATAATTA
Found at i:55419704 original size:24 final size:24
Alignment explanation
Indices: 55419658--55419722 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
55419648 ATAGTAGGGT
* *** *
55419658 GGAGTGATTTATGGAGTGTATCAC
1 GGAGAGATTTATGGAGAAAATCAA
55419682 GGAGAGATATTA-GGAGAAAATCAA
1 GGAGAGAT-TTATGGAGAAAATCAA
*
55419706 GGAGTGATTTATGGAGA
1 GGAGAGATTTATGGAGA
55419723 GATTTAAGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.35, C:0.05, G:0.34, T:0.26
Consensus pattern (24 bp):
GGAGAGATTTATGGAGAAAATCAA
Found at i:55421070 original size:27 final size:27
Alignment explanation
Indices: 55421040--55421216 Score: 175
Period size: 27 Copynumber: 6.6 Consensus size: 27
55421030 AACTGTTTAG
* *
55421040 ATTATCGAAATACCCTCGGTTTGTAAA
1 ATTACCGAAATACCCTCAGTTTGTAAA
* * *
55421067 ATTATCGACATACCC-CGGTTTGTAAA
1 ATTACCGAAATACCCTCAGTTTGTAAA
* *
55421093 ATTACCAAAATACCCCCCAGTTTGTAAA
1 ATTACCGAAATA-CCCTCAGTTTGTAAA
*
55421121 ATTACC-AAGATACCC-CAATTTGTAAA
1 ATTACCGAA-ATACCCTCAGTTTGTAAA
*
55421147 ATTACCGAAATACCCTCAATATT-TAAA
1 ATTACCGAAATACCCTCAGT-TTGTAAA
* *
55421174 ATTACCAAAATACCCT-TGTTAGTGTAAA
1 ATTACCGAAATACCCTCAGTT--TGTAAA
55421202 ATTACCGAAATACCC
1 ATTACCGAAATACCC
55421217 CTATAGGGTA
Statistics
Matches: 131, Mismatches: 10, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.01
26 43 0.33
27 48 0.37
28 39 0.30
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
ATTACCGAAATACCCTCAGTTTGTAAA
Found at i:55421092 original size:26 final size:26
Alignment explanation
Indices: 55421040--55421217 Score: 171
Period size: 26 Copynumber: 6.6 Consensus size: 26
55421030 AACTGTTTAG
* *
55421040 ATTATCGAAATACCCTCGGTTTGTAAA
1 ATTACCGAAATACCC-CAGTTTGTAAA
* * *
55421067 ATTATCGACATACCCCGGTTTGTAAA
1 ATTACCGAAATACCCCAGTTTGTAAA
*
55421093 ATTACCAAAATACCCCCCAGTTTGTAAA
1 ATTACCGAAATA--CCCCAGTTTGTAAA
*
55421121 ATTACC-AAGATACCCCAATTTGTAAA
1 ATTACCGAA-ATACCCCAGTTTGTAAA
*
55421147 ATTACCGAAATACCCTCAATATT-TAAA
1 ATTACCGAAATACCC-CAGT-TTGTAAA
* **
55421174 ATTACCAAAATACCCTTGTTAGTGTAAA
1 ATTACCGAAATACCCCAGTT--TGTAAA
55421202 ATTACCGAAATACCCC
1 ATTACCGAAATACCCC
55421218 TATAGGGTAA
Statistics
Matches: 130, Mismatches: 12, Indels: 17
0.82 0.08 0.11
Matches are distributed among these distances:
25 1 0.01
26 46 0.35
27 41 0.32
28 42 0.32
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (26 bp):
ATTACCGAAATACCCCAGTTTGTAAA
Found at i:55421721 original size:27 final size:26
Alignment explanation
Indices: 55421648--55421737 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 26
55421638 GGGCAAATCG
* *
55421648 TATTTACCAGTGGCTATGAGCCTATCA
1 TATTTACCA-TGGCTATGTGCCGATCA
** * *
55421675 TATTTATTGATGACTCTGTGCCGATCA
1 TATTTA-CCATGGCTATGTGCCGATCA
*
55421702 TATTTACCCATGGCTATGTGCCGATTA
1 TATTTA-CCATGGCTATGTGCCGATCA
55421729 TA-TTACCAT
1 TATTTACCAT
55421738 CACTGATGGC
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
25 4 0.08
26 3 0.06
27 42 0.84
28 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (26 bp):
TATTTACCATGGCTATGTGCCGATCA
Found at i:55428537 original size:16 final size:15
Alignment explanation
Indices: 55428511--55428540 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
55428501 ACTAGATCGA
55428511 CAAAAGCCGAAAAGT
1 CAAAAGCCGAAAAGT
55428526 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
55428541 CCAGCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.20, G:0.20, T:0.07
Consensus pattern (15 bp):
CAAAAGCCGAAAAGT
Found at i:55428821 original size:27 final size:26
Alignment explanation
Indices: 55428791--55428852 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
55428781 ATTTACTAAA
55428791 ATACCCCTAAGTAAAAAAATTACCATT
1 ATACCCCTAAGT-AAAAAATTACCATT
* **
55428818 ATACCCCTAGGTGTAAAATTACCATT
1 ATACCCCTAAGTAAAAAATTACCATT
55428844 ATACCCCTA
1 ATACCCCTA
55428853 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.27
Consensus pattern (26 bp):
ATACCCCTAAGTAAAAAATTACCATT
Found at i:55428995 original size:28 final size:28
Alignment explanation
Indices: 55428955--55429092 Score: 174
Period size: 28 Copynumber: 5.0 Consensus size: 28
55428945 GGAGGAAGCG
* *
55428955 TTCTAGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
55428983 TTCTGGTGGCTCTGCCACAAATATTTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
55429011 TTCTAGTGGCTCTGCCACAAATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
55429038 TTCTGATGGCTCTGCCAC-AATACCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
55429065 ATCTGGTGACTCTGTCA-AAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
55429092 T
1 T
55429093 GTAACACCCC
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
26 7 0.07
27 37 0.39
28 50 0.53
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:55431820 original size:30 final size:30
Alignment explanation
Indices: 55431786--55431846 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55431776 TCCTTAACTC
55431786 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
55431816 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
55431846 A
1 A
55431847 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:55436268 original size:30 final size:30
Alignment explanation
Indices: 55436234--55436294 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
55436224 TCCTTAACTC
55436234 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
55436264 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
55436294 A
1 A
55436295 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:55438405 original size:40 final size:40
Alignment explanation
Indices: 55438308--55438411 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
55438298 TGGATGATAA
**
55438308 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTTGCGC-AGTGACTACAT
* * *
55438349 TCGGGCTAAGTCCCGAAGGCATTTCTGCG-AGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCAGTGACTACAT
55438389 CCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
55438412 AAGCGAGTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 29 0.52
41 23 0.41
42 4 0.07
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTTGCGCAGTGACTACAT
Found at i:55442583 original size:28 final size:28
Alignment explanation
Indices: 55442493--55442627 Score: 186
Period size: 28 Copynumber: 4.9 Consensus size: 28
55442483 CTGCCAGAAT
* * *
55442493 AGATA-TTGTGACAGAGTCACCAGATAC
1 AGATATTTGTGGCAGAGCCACCAGAAAC
55442520 AGATA-TTGTGGCAGAGCCACCAG-AAC
1 AGATATTTGTGGCAGAGCCACCAGAAAC
*
55442546 AGATATTTGTGGCACAGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAGAAAC
*
55442574 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAGAAAC
* *
55442602 AGATATTTATGGCATAGCCACCAGAA
1 AGATATTTGTGGCAGAGCCACCAGAA
55442628 CACTTCCTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
26 7 0.07
27 38 0.38
28 55 0.55
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGAAAC
Found at i:55450298 original size:27 final size:26
Alignment explanation
Indices: 55450257--55450351 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 26
55450247 AGCATGGCTG
* *
55450257 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
55450283 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
55450310 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
55450337 CCAGAAACAGATATT
1 CCAG-AACAGATATT
55450352 TGCACCCTAG
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.19
27 43 0.68
28 8 0.13
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:55450362 original size:28 final size:28
Alignment explanation
Indices: 55450305--55450370 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
55450295 ATTGTGGCAG
***
55450305 AGCCACCAG-AACAGATATTTGTGGCAT
1 AGCCACCAGAAACAGATATTTGCACCAT
*
55450332 AGCCACCAGAAACAGATATTTGCACCCT
1 AGCCACCAGAAACAGATATTTGCACCAT
55450360 AGCCACCAGAA
1 AGCCACCAGAA
55450371 CGCTTCCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.17
Consensus pattern (28 bp):
AGCCACCAGAAACAGATATTTGCACCAT
Found at i:55450819 original size:8 final size:8
Alignment explanation
Indices: 55450782--55450822 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
55450772 TCACAAATTG
*
55450782 TCGGCTCT
1 TCGGCTTT
*
55450790 TCGGCATT
1 TCGGCTTT
*
55450798 TCGGCATT
1 TCGGCTTT
55450806 TCGGCTTT
1 TCGGCTTT
55450814 TCGGCTTT
1 TCGGCTTT
55450822 T
1 T
55450823 GCTGATCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.05, C:0.27, G:0.24, T:0.44
Consensus pattern (8 bp):
TCGGCTTT
Found at i:55462849 original size:40 final size:40
Alignment explanation
Indices: 55462782--55462949 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
55462772 AAATTGAATG
* * * * *
55462782 ATATCCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
55462822 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
55462862 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
55462902 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
55462942 ATATCCGG
1 ATATCCGG
55462950 TTATATTCCG
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.03
40 99 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:55466450 original size:55 final size:52
Alignment explanation
Indices: 55466309--55466489 Score: 168
Period size: 55 Copynumber: 3.3 Consensus size: 52
55466299 ATTAGGGTTT
55466309 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGCTTCTAAGGC
1 AAGGA-ACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-GCTTCTAAGGC
* * * *
55466364 AAGGAATCATGTAAGACTATGTCAAGACATGGCATTGGTAA-CTTACTATATGGC
1 AAGGAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGCTT-CTA-A-GGC
** * * * *
55466418 AAAGGTCCCATGTAAGACCAAGCCAAGGCATGGTATTGGTGAG-TTCAGAAGGC
1 -AAGGAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGCTTC-TAAGGC
55466471 AAGGATACCATGTCAAGAC
1 AAGGA-ACCATGT-AAGAC
55466490 ATGGCAATGG
Statistics
Matches: 102, Mismatches: 16, Indels: 17
0.76 0.12 0.13
Matches are distributed among these distances:
51 3 0.03
52 7 0.07
53 18 0.18
54 34 0.33
55 40 0.39
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (52 bp):
AAGGAACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGCTTCTAAGGC
Found at i:55491663 original size:43 final size:42
Alignment explanation
Indices: 55491508--55491664 Score: 104
Period size: 43 Copynumber: 3.7 Consensus size: 42
55491498 TGTGATTTCG
* * * * *
55491508 TGTAAGACCACATCTGGGATGTTAGCATCGACTTTTGTTTTACG
1 TGTAAGACCACGTCTAGGACGTTAGCATCGA-TTTTG-ATTACA
* ** * * *
55491552 TGTAAGACCATGTCTAGGAAATCAGCATC-ATATCTGATTTCA
1 TGTAAGACCACGTCTAGGACGTTAGCATCGAT-TTTGATTACA
* *
55491594 TGTAAGACC-CTGTCTAAGAC-TGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTAGGACGT-TAGCATCGAT-TTTGATTACA
* *
55491637 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTAGCAT
55491665 TGTATATGTT
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.29
43 36 0.41
44 25 0.29
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACGTTAGCATCGATTTTGATTACA
Found at i:55491970 original size:17 final size:14
Alignment explanation
Indices: 55491937--55491976 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 14
55491927 AATTTGTGTT
55491937 TGTTTATTTGTATA
1 TGTTTATTTGTATA
55491951 TGTTTATTTGAATCATA
1 TGTTTATTTG--T-ATA
55491968 TGTTTATTT
1 TGTTTATTT
55491977 TCATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.43
16 1 0.04
17 12 0.52
ACGTcount: A:0.23, C:0.03, G:0.12, T:0.62
Consensus pattern (14 bp):
TGTTTATTTGTATA
Found at i:55497674 original size:49 final size:49
Alignment explanation
Indices: 55497618--55498027 Score: 687
Period size: 49 Copynumber: 8.4 Consensus size: 49
55497608 TACATATATG
* * *
55497618 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
55497667 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
55497716 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
55497765 TGTGATGAGGCC-AATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
55497813 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
55497862 TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* * *
55497911 TGTGATGAGGCCTAATGGCTGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
55497960 TGTGATAAGGCCTAACGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
55498009 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
55498028 TAATGTAAAA
Statistics
Matches: 342, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 48 0.14
49 294 0.86
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:55498060 original size:195 final size:195
Alignment explanation
Indices: 55497618--55498040 Score: 670
Period size: 195 Copynumber: 2.2 Consensus size: 195
55497608 TACATATATG
* * * * * *
55497618 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCAATGTGATAAATATGAAATTGTATGTATATGTGATAAGGCCCAAT
55497683 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
66 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
* *
55497748 GTGAAAGTGTATGTATATGTGATGAGGCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
131 GTGAAAGTGTATGTATATGTGATAAGGCCAACGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* * * *
55497813 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATGTATATGTGATAAGGCCCAAT
1 TGTGATAAGGCCTAATGGCCAATGTGATAAATATGAAATTGTATGTATATGTGATAAGGCCCAAT
* * *
55497878 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCTGATGTGGTGAAT
66 GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
*
55497943 GTGAAAGTGTATGTATATGTGATAAGGCCTAACGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
131 GTGAAAGTGTATGTATATGTGATAAGGCC-AACGGCCGATGTGATGAATGTGAAAGTGTATGTAT
55498008 A
195 A
*
55498009 TGTGATAAGGCCTAATGGCTAATGT-A-AAATAT
1 TGTGATAAGGCCTAATGGCCAATGTGATAAATAT
55498041 ATGTGTGATA
Statistics
Matches: 210, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
194 4 0.02
195 150 0.71
196 56 0.27
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (195 bp):
TGTGATAAGGCCTAATGGCCAATGTGATAAATATGAAATTGTATGTATATGTGATAAGGCCCAAT
GGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTGTATGTATATGTGATAAGGCCAACGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:55498179 original size:37 final size:37
Alignment explanation
Indices: 55498129--55498250 Score: 208
Period size: 37 Copynumber: 3.3 Consensus size: 37
55498119 GGAATATGTT
*
55498129 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
* *
55498166 CCGGGTAAGACCCGATGACTACATGTAGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
55498203 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
55498240 CCGGGTAAGAC
1 CCGGGTAAGAC
55498251 TTCTTTTATA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 79 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:55500413 original size:29 final size:29
Alignment explanation
Indices: 55500381--55500512 Score: 237
Period size: 29 Copynumber: 4.6 Consensus size: 29
55500371 CGTTAACCGA
*
55500381 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
55500410 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
55500439 GCACTATGTGTGCGAGAACAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
55500468 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
55500497 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
55500513 TTTTTCAACA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 99 1.00
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.24
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:55500420 original size:58 final size:58
Alignment explanation
Indices: 55500349--55500512 Score: 215
Period size: 58 Copynumber: 2.8 Consensus size: 58
55500339 CGAATGATTA
* * * *
55500349 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAAA-TCAG-TAACCGAGGCACTATGTGTGCGAGAACAGTAATC
* *
55500407 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGAACAGTAATC
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGAACAGTAATC
* * *
55500465 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAG
55500513 TTTTTCAACA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
57 6 0.06
58 89 0.92
59 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (58 bp):
GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGAACAGTAATC
Found at i:55503989 original size:49 final size:49
Alignment explanation
Indices: 55503933--55504105 Score: 283
Period size: 49 Copynumber: 3.5 Consensus size: 49
55503923 TACATATATG
* * *
55503933 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
55503982 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
55504031 TGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAAATTGTATGTATA
1 TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
55504080 TGTGATGAGGCCCAATGGCCGATGTG
1 TGTGATAAGGCCCAATGGCCGATGTG
55504106 GCCCAATGGC
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 118 1.00
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (49 bp):
TGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:55504108 original size:17 final size:17
Alignment explanation
Indices: 55504083--55504122 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
55504073 ATGTATATGT
*
55504083 GATGAGGCCCAATGGCC
1 GATGTGGCCCAATGGCC
55504100 GATGTGGCCCAATGGCC
1 GATGTGGCCCAATGGCC
55504117 GATGTG
1 GATGTG
55504123 ATGAATGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.25, G:0.38, T:0.17
Consensus pattern (17 bp):
GATGTGGCCCAATGGCC
Found at i:55504116 original size:66 final size:66
Alignment explanation
Indices: 55504034--55504172 Score: 251
Period size: 66 Copynumber: 2.1 Consensus size: 66
55504024 ATGTATATGT
* *
55504034 GATGAGGCCCAATGGCCGATGTGATGAATGTGAAATTGTATGTATATGTGATGAGGCCCAATGGC
1 GATGTGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGC
55504099 C
66 C
*
55504100 GATGTGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGC
1 GATGTGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGC
55504165 C
66 C
55504166 GATGTGG
1 GATGTGG
55504173 TGAATGTGAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.27
Consensus pattern (66 bp):
GATGTGGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGC
C
Found at i:55504122 original size:115 final size:115
Alignment explanation
Indices: 55503990--55504221 Score: 401
Period size: 115 Copynumber: 2.0 Consensus size: 115
55503980 TATGTGATAA
*
55503990 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATG
1 GGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATG
* * *
55504055 TGATGAATGTGAAATTGTATGTATATGTGATGAGGCCCAATGGCCGATGT
66 TGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCCAACGGCCGATGT
*
55504105 GGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATG
1 GGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATG
* *
55504170 TGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAACGGCCGATGT
66 TGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCCAACGGCCGATGT
55504220 GG
1 GG
55504222 TGAATGTGAA
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 110 1.00
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (115 bp):
GGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATG
TGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCCAACGGCCGATGT
Found at i:55504135 original size:164 final size:164
Alignment explanation
Indices: 55503941--55504262 Score: 527
Period size: 164 Copynumber: 2.0 Consensus size: 164
55503931 TGTGTGATAA
*
55503941 GGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATG
1 GGCCCAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATG
* * *
55504006 TGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCCAATGGCCGATGTGATGAATGTGAAATT
66 TGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCCAACGGCCGATGTGATGAATGTGAAAGT
* *
55504071 GTATGTATATGTGATGAGGCCCAATGGCCGATGT
131 GTATGTATACGTGATAAGGCCCAATGGCCGATGT
* * *
55504105 GGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATG
1 GGCCCAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATG
* * *
55504170 TGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAACGGCCGATGTGGTGAATGTGAAAGT
66 TGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCCAACGGCCGATGTGATGAATGTGAAAGT
*
55504235 GTATGTATACGTGATAAGGCCTAATGGC
131 GTATGTATACGTGATAAGGCCCAATGGC
55504263 TAATGTAAAA
Statistics
Matches: 145, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
164 145 1.00
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.28
Consensus pattern (164 bp):
GGCCCAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCCAACGGCCGATGTGATGAATGTGAAAGT
GTATGTATACGTGATAAGGCCCAATGGCCGATGT
Found at i:55504164 original size:49 final size:49
Alignment explanation
Indices: 55504105--55504262 Score: 271
Period size: 49 Copynumber: 3.2 Consensus size: 49
55504095 TGGCCGATGT
* * *
55504105 GGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGA
1 GGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAA
55504154 GGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAA
1 GGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAA
* *
55504203 GGCCTAACGGCCGATGTGGTGAATGTGAAAGTGTATGTATACGTGATAA
1 GGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAA
55504252 GGCCTAATGGC
1 GGCCTAATGGC
55504263 TAATGTAAAA
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 103 1.00
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAA
Found at i:55504421 original size:37 final size:37
Alignment explanation
Indices: 55504371--55504448 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
55504361 GTTCCGGGTG
55504371 AGACCCGATGACTACGTGTGGAGATTATGACCGGATA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGATA
* *
55504408 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGATA
55504445 AGAC
1 AGAC
55504449 TTCTTTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGATA
Found at i:55504756 original size:150 final size:150
Alignment explanation
Indices: 55504485--55504784 Score: 600
Period size: 150 Copynumber: 2.0 Consensus size: 150
55504475 AAAATACACA
55504485 ATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATTTAAACTAAACCATA
1 ATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATTTAAACTAAACCATA
55504550 AGATAGTTATGTGATGTATACGAGAGCAATCTATGAGACTATTCCTATGATTATGATGAGATGTG
66 AGATAGTTATGTGATGTATACGAGAGCAATCTATGAGACTATTCCTATGATTATGATGAGATGTG
55504615 CATATTTGGATAAAAGGGTG
131 CATATTTGGATAAAAGGGTG
55504635 ATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATTTAAACTAAACCATA
1 ATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATTTAAACTAAACCATA
55504700 AGATAGTTATGTGATGTATACGAGAGCAATCTATGAGACTATTCCTATGATTATGATGAGATGTG
66 AGATAGTTATGTGATGTATACGAGAGCAATCTATGAGACTATTCCTATGATTATGATGAGATGTG
55504765 CATATTTGGATAAAAGGGTG
131 CATATTTGGATAAAAGGGTG
55504785 GTATGCCCGA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (150 bp):
ATGCGAAAGGTTAAACAGGTATGTACTCCAAGTTTATATGTGAGCTTGATTTAAACTAAACCATA
AGATAGTTATGTGATGTATACGAGAGCAATCTATGAGACTATTCCTATGATTATGATGAGATGTG
CATATTTGGATAAAAGGGTG
Found at i:55509106 original size:52 final size:52
Alignment explanation
Indices: 55509044--55509145 Score: 177
Period size: 52 Copynumber: 2.0 Consensus size: 52
55509034 CCAAAACAAC
* *
55509044 AGTTGATGGGGATTACCGAAGCGAGCTAATCACCCATAATTGAGATTTGAAT
1 AGTTGATGGGGATTACCGAAGCAAGCTAATCACCCATAATCGAGATTTGAAT
*
55509096 AGTTGATGGGGATTACTGAAGCAAGCTAATCACCCATAATCGAGATTTGA
1 AGTTGATGGGGATTACCGAAGCAAGCTAATCACCCATAATCGAGATTTGA
55509146 TTTATTATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (52 bp):
AGTTGATGGGGATTACCGAAGCAAGCTAATCACCCATAATCGAGATTTGAAT
Found at i:55509199 original size:19 final size:19
Alignment explanation
Indices: 55509175--55509211 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
55509165 TCTTGAACTT
55509175 TTATTTCTTTTATGTTATG
1 TTATTTCTTTTATGTTATG
*
55509194 TTATTTCTTTTATTTTAT
1 TTATTTCTTTTATGTTAT
55509212 CATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (19 bp):
TTATTTCTTTTATGTTATG
Found at i:55510520 original size:14 final size:16
Alignment explanation
Indices: 55510489--55510522 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
55510479 AAATTATGAC
55510489 ATAATTAAAACTTAAA
1 ATAATTAAAACTTAAA
55510505 ATAATT-AAAC-TAAA
1 ATAATTAAAACTTAAA
55510519 ATAA
1 ATAA
55510523 CTATAACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 4 0.22
16 6 0.33
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAATTAAAACTTAAA
Found at i:55513721 original size:38 final size:39
Alignment explanation
Indices: 55513635--55513814 Score: 285
Period size: 38 Copynumber: 4.7 Consensus size: 39
55513625 GAATGTTCGA
55513635 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
55513674 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
55513712 GTGATATCCGGGCTAAG-CCGAAGGTAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55513750 ATGAT-TCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55513788 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
55513815 CTTTGTGCGG
Statistics
Matches: 129, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
37 26 0.20
38 50 0.39
39 44 0.34
40 9 0.07
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:55521595 original size:31 final size:31
Alignment explanation
Indices: 55521557--55521619 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
55521547 CTAAGCCCGA
55521557 AGGCAATTGTGCAAATTGTGATATCCGGGCT
1 AGGCAATTGTGCAAATTGTGATATCCGGGCT
55521588 AGGCAATTGTGCAAATTGTGATATCCGGGCT
1 AGGCAATTGTGCAAATTGTGATATCCGGGCT
55521619 A
1 A
55521620 AGCCCGAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (31 bp):
AGGCAATTGTGCAAATTGTGATATCCGGGCT
Found at i:55521609 original size:70 final size:71
Alignment explanation
Indices: 55521535--55521709 Score: 235
Period size: 70 Copynumber: 2.4 Consensus size: 71
55521525 GAATGTTCGA
*
55521535 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCT-AGGCAATTGTG
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGGCAATTGTG
55521599 CAAATT
66 CAAATT
* *
55521605 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCT-------AAGGC
55521670 AATTGTGCAAATT
59 AATTGTGCAAATT
*
55521683 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
55521710 CTTTGTGCGG
Statistics
Matches: 92, Mismatches: 4, Indels: 9
0.88 0.04 0.09
Matches are distributed among these distances:
70 50 0.54
78 33 0.36
79 9 0.10
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (71 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGGCAATTGTG
CAAATT
Found at i:55521633 original size:39 final size:39
Alignment explanation
Indices: 55521588--55521709 Score: 199
Period size: 39 Copynumber: 3.1 Consensus size: 39
55521578 TATCCGGGCT
55521588 AGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGA
1 AGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGA
* * *
55521627 AGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGA
1 AGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGA
*
55521666 AGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGA
1 AGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGA
55521706 AGGC
1 AGGC
55521710 CTTTGTGCGG
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 66 0.88
40 9 0.12
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
AGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGA
Found at i:55525100 original size:40 final size:40
Alignment explanation
Indices: 55525045--55525232 Score: 268
Period size: 40 Copynumber: 4.7 Consensus size: 40
55525035 ATTATTGATG
* *
55525045 ATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
*
55525085 ATTGCACATACGTGCCCCTGTTTGTACTTAGATACCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* *
55525125 ATTGCACATACGTGCCCCTGTTTATACTTCGATACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* * *
55525165 ATTACACATGCATGCCCCTGTTTGTACTTCGATACCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
* * * *
55525205 AATGCACTTACATGCCCCTGTTTATACT
1 ATTGCACATACGTGCCCCTGTTTGTACT
55525233 CTAGTATCCC
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 132 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTA
Found at i:55525142 original size:20 final size:20
Alignment explanation
Indices: 55525045--55525143 Score: 85
Period size: 20 Copynumber: 5.0 Consensus size: 20
55525035 ATTATTGATG
55525045 ATTGCACATACGTGCCCCTA
1 ATTGCACATACGTGCCCCTA
* * * *
55525065 TTTGTAC-TTCGGTACCCCTA
1 ATTGCACATAC-GTGCCCCTA
*
55525085 ATTGCACATACGTGCCCCTG
1 ATTGCACATACGTGCCCCTA
* * * *
55525105 TTTGTACTTA-GATACCCCTA
1 ATTGCACATACG-TGCCCCTA
55525125 ATTGCACATACGTGCCCCT
1 ATTGCACATACGTGCCCCT
55525144 GTTTATACTT
Statistics
Matches: 57, Mismatches: 18, Indels: 8
0.69 0.22 0.10
Matches are distributed among these distances:
19 3 0.05
20 51 0.89
21 3 0.05
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.31
Consensus pattern (20 bp):
ATTGCACATACGTGCCCCTA
Found at i:55525162 original size:20 final size:20
Alignment explanation
Indices: 55525139--55525203 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
55525129 CACATACGTG
55525139 CCCCTGTTTATACTTCGATA
1 CCCCTGTTTATACTTCGATA
* * * *
55525159 CCCCTGATTACACAT-GCATG
1 CCCCTGTTTATACTTCG-ATA
*
55525179 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTATACTTCGATA
55525199 CCCCT
1 CCCCT
55525204 AAATGCACTT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 1 0.03
20 32 0.94
21 1 0.03
ACGTcount: A:0.18, C:0.35, G:0.12, T:0.34
Consensus pattern (20 bp):
CCCCTGTTTATACTTCGATA
Found at i:55527224 original size:18 final size:17
Alignment explanation
Indices: 55527197--55527230 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
55527187 GAATTGAGTT
*
55527197 GAAAAAATTATTTAATA
1 GAAAAAATTAATTAATA
55527214 GAAATAAATTAATTAAT
1 GAAA-AAATTAATTAAT
55527231 TTAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
GAAAAAATTAATTAATA
Found at i:55530028 original size:28 final size:28
Alignment explanation
Indices: 55529996--55530050 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
55529986 TTTTAAAAGG
55529996 AAGATTATGGGCGAGCAATACATGGAGT
1 AAGATTATGGGCGAGCAATACATGGAGT
*
55530024 AAGATTATGGGTGAGCAATACATGGAG
1 AAGATTATGGGCGAGCAATACATGGAG
55530051 CCAATATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.33, T:0.22
Consensus pattern (28 bp):
AAGATTATGGGCGAGCAATACATGGAGT
Found at i:55534669 original size:27 final size:27
Alignment explanation
Indices: 55534639--55534694 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
55534629 GTGGATTTCG
*
55534639 AGATTTTGAAGGAAAATAATGTTTCAA
1 AGATTTTGAAGGAAAACAATGTTTCAA
55534666 AGATTTTGAAGGAAAACAATGTTTCAA
1 AGATTTTGAAGGAAAACAATGTTTCAA
55534693 AG
1 AG
55534695 TGTTTTCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (27 bp):
AGATTTTGAAGGAAAACAATGTTTCAA
Found at i:55538117 original size:26 final size:26
Alignment explanation
Indices: 55538074--55538124 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
55538064 CTCTATTCTG
*
55538074 ACTGTGCACTTCGGTGCAATACTGTA
1 ACTGTGCACTTCGATGCAATACTGTA
* *
55538100 ACTGTGCATTTTGATGCAATACTGT
1 ACTGTGCACTTCGATGCAATACTGT
55538125 GAAAGTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (26 bp):
ACTGTGCACTTCGATGCAATACTGTA
Found at i:55539780 original size:32 final size:32
Alignment explanation
Indices: 55539735--55539802 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
55539725 AAAAATTATG
* *
55539735 TTTTCTATTCTTCTAACTTT-TTATCCCTTCAA
1 TTTTCCATCCTTCT-ACTTTGTTATCCCTTCAA
* *
55539767 TTTTCCATCCTTCTAGTTTGTTATCCCTTCAT
1 TTTTCCATCCTTCTACTTTGTTATCCCTTCAA
55539799 TTTT
1 TTTT
55539803 TTTTTCATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.15, C:0.25, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTTCCATCCTTCTACTTTGTTATCCCTTCAA
Found at i:55541250 original size:43 final size:43
Alignment explanation
Indices: 55541203--55541370 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
55541193 ATCAAGATAT
*
55541203 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
** * * * *
55541246 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCATACAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA-TTGA
* * * * *
55541289 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * * *
55541332 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
55541371 GAGCTTATGT
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 9 0.09
43 89 0.90
44 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:55552641 original size:26 final size:28
Alignment explanation
Indices: 55552612--55552672 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
55552602 TCGATATTTT
55552612 GCACACT-A-TGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
55552638 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
55552666 GTACACT
1 GCACACT
55552673 GAGTACCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.23
27 1 0.03
28 23 0.74
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:55558076 original size:18 final size:18
Alignment explanation
Indices: 55558053--55558089 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
55558043 TATAGTTTGA
* *
55558053 TATTCGATTTATTTGAAT
1 TATTCGAGTTATTCGAAT
55558071 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
55558089 T
1 T
55558090 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:55558159 original size:9 final size:9
Alignment explanation
Indices: 55558145--55558190 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
55558135 TTAATTTGAA
55558145 TAACTCGAT
1 TAACTCGAT
*
55558154 TAACTCGAA
1 TAACTCGAT
55558163 TAACTCGAT
1 TAACTCGAT
*
55558172 TAACTCGAA
1 TAACTCGAT
55558181 TAACTCGAT
1 TAACTCGAT
55558190 T
1 T
55558191 CGTTTAACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (9 bp):
TAACTCGAT
Found at i:55558163 original size:18 final size:18
Alignment explanation
Indices: 55558142--55558190 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
55558132 GATTTAATTT
55558142 GAATAACTCGATTAACTC
1 GAATAACTCGATTAACTC
55558160 GAATAACTCGATTAACTC
1 GAATAACTCGATTAACTC
55558178 GAATAACTCGATT
1 GAATAACTCGATT
55558191 CGTTTAACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (18 bp):
GAATAACTCGATTAACTC
Found at i:55562121 original size:86 final size:86
Alignment explanation
Indices: 55561978--55562145 Score: 336
Period size: 86 Copynumber: 2.0 Consensus size: 86
55561968 TTCAAACTAT
55561978 TTTTTTTTTCCTTCACTATTTTTGCTTTTCGTATTTTTGTAAAGCCACTAAGTTCGGGATTTCTA
1 TTTTTTTTTCCTTCACTATTTTTGCTTTTCGTATTTTTGTAAAGCCACTAAGTTCGGGATTTCTA
55562043 ATATTCTGGCCCTGAAAATTA
66 ATATTCTGGCCCTGAAAATTA
55562064 TTTTTTTTTCCTTCACTATTTTTGCTTTTCGTATTTTTGTAAAGCCACTAAGTTCGGGATTTCTA
1 TTTTTTTTTCCTTCACTATTTTTGCTTTTCGTATTTTTGTAAAGCCACTAAGTTCGGGATTTCTA
55562129 ATATTCTGGCCCTGAAA
66 ATATTCTGGCCCTGAAA
55562146 TTAATAATTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (86 bp):
TTTTTTTTTCCTTCACTATTTTTGCTTTTCGTATTTTTGTAAAGCCACTAAGTTCGGGATTTCTA
ATATTCTGGCCCTGAAAATTA
Done.