Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 160 of 352
Found at i:52259575 original size:30 final size:30
Alignment explanation
Indices: 52259541--52259621 Score: 153
Period size: 30 Copynumber: 2.7 Consensus size: 30
52259531 TTTTTGAGCA
52259541 TAGGGGTAAAATGGTCATTTTGCCGAGGTC
1 TAGGGGTAAAATGGTCATTTTGCCGAGGTC
52259571 TAGGGGTAAAATGGTCATTTTGCCGAGGTC
1 TAGGGGTAAAATGGTCATTTTGCCGAGGTC
*
52259601 TAGGGGCAAAATGGTCATTTT
1 TAGGGGTAAAATGGTCATTTT
52259622 ACCAAAGACG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.25, C:0.12, G:0.32, T:0.31
Consensus pattern (30 bp):
TAGGGGTAAAATGGTCATTTTGCCGAGGTC
Found at i:52260037 original size:47 final size:46
Alignment explanation
Indices: 52259962--52260229 Score: 204
Period size: 47 Copynumber: 5.7 Consensus size: 46
52259952 GATTTCTTGT
*
52259962 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATGA
* * *
52260008 GTGCCAGTATAAGACTATGTCTGGGACATGGCATCGGCGTA-GAGATGA
1 GTGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CACGTGATGA
* * *
52260056 GTGCCAGTGTAAGACATGTTTGGGACATACATCGGCCTCGATGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-TGATGA
** * * * * * * * *
52260103 -TAGCTTGTGTAAGACGTGTCTGAGACACGTATCGGCTAAGAG-T-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATGA
* * *
52260147 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGT-GAT--GA
* * *
52260195 GAGCTAGTATAAGACCATGTCTGGGACATGGCATC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
52260230 AGCCTCAATT
Statistics
Matches: 172, Mismatches: 36, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
43 2 0.01
44 27 0.16
45 3 0.02
46 24 0.14
47 57 0.33
48 39 0.23
49 15 0.09
50 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATGA
Found at i:52260123 original size:94 final size:91
Alignment explanation
Indices: 52259962--52260179 Score: 244
Period size: 94 Copynumber: 2.4 Consensus size: 91
52259952 GATTTCTTGT
*
52259962 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTTATGAGTGCCAGTATAAGACTATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATGAGTGCCAGTATAAGACTATG
* *
52260027 TCTGGGACATGGCATCGGCGT-AGAGATGA
66 TCTGAGACA-CGCATCGGC-TAAGAG-T-A
* * * ** * *
52260056 GTGCCAGTGTAAGACATGTTTGGGACATACATCGGCCTCGATGATGA-TAGCTTGTGTAAGAC-G
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-TGATGAGT-GCCAGTATAAGACTA
* *
52260119 TGTCTGAGACACGTATCGGCTAAGAGTT
64 TGTCTGAGACACGCATCGGCTAAGAGTA
*
52260147 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
52260180 AGCACGTATA
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
91 30 0.28
92 2 0.02
93 11 0.10
94 48 0.45
95 15 0.14
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATGAGTGCCAGTATAAGACTATG
TCTGAGACACGCATCGGCTAAGAGTA
Found at i:52261639 original size:13 final size:13
Alignment explanation
Indices: 52261621--52261645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52261611 TCAGTATCGT
52261621 ACACAGGCATGTC
1 ACACAGGCATGTC
52261634 ACACAGGCATGT
1 ACACAGGCATGT
52261646 GCCATGGCCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACAGGCATGTC
Found at i:52264158 original size:18 final size:18
Alignment explanation
Indices: 52264135--52264175 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
52264125 GGCCACATAT
52264135 AGAGGTGATTATCATGGC
1 AGAGGTGATTATCATGGC
* *
52264153 AGAGGTGGTTATCATGGT
1 AGAGGTGATTATCATGGC
52264171 AGAGG
1 AGAGG
52264176 AGGTCGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.39, T:0.27
Consensus pattern (18 bp):
AGAGGTGATTATCATGGC
Found at i:52265231 original size:131 final size:130
Alignment explanation
Indices: 52265003--52265303 Score: 295
Period size: 131 Copynumber: 2.3 Consensus size: 130
52264993 TGAAAAAGCG
* * *
52265003 CAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACAACGAACATTGCCTTCATTTTGAAA
1 CAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACAACGAACATTGCCTTCATTTTGAAA
* *
52265068 GGTTTTTGATAAACATGAGTGAAAGCCTAAAGGAATATTCGGTCGTTTTG-GACAAACGAGAAAT
66 GGTTTTTGATAAACATGAGTGAAAGCCTAAAGGAATATTCGATCATTTTGAG-C-AACGAGAAAT
52265132 CA
129 CA
* * * ** ** *
52265134 CAACCCAGCACGATAGGGCATGATTCCCGAATTGTCAAACACCGAGTATTGCCTTTGTTTT-AGA
1 CAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACAACGAACATTGCCTTCATTTTGAAA
* * ** * * *
52265198 GGATTTTTAGA-AGACCTGAGTGAAA-TTTCAAAGGGATATTTGATTATTTTGAGCAACGAGAAA
66 GG-TTTTT-GATAAACATGAGTGAAAGCCT-AAAGGAATATTCGATCATTTTGAGCAACGAGAAA
**
52265261 TTG
128 TCA
* * *
52265264 CAACCCAACGCGTTAGGGCACGATTCCGCGAATTGCCAAA
1 CAACCCAGCACGATAGGGCACGATTCC-CGAATTGCCAAA
52265304 TATCAAATTT
Statistics
Matches: 138, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
130 38 0.28
131 97 0.70
132 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (130 bp):
CAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAAACAACGAACATTGCCTTCATTTTGAAA
GGTTTTTGATAAACATGAGTGAAAGCCTAAAGGAATATTCGATCATTTTGAGCAACGAGAAATCA
Found at i:52268775 original size:56 final size:56
Alignment explanation
Indices: 52268689--52268808 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
52268679 ACAAGGGATG
*
52268689 ATGGGTAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
52268745 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
52268801 ATGGGCAA
1 ATGGGCAA
52268809 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:52270341 original size:49 final size:47
Alignment explanation
Indices: 52270262--52270905 Score: 906
Period size: 47 Copynumber: 13.6 Consensus size: 47
52270252 TATTTGAATA
*
52270262 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270309 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270358 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270407 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270456 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270503 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
52270550 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270599 AATGTGAACA-TGTGTATGTGTGATAAGG-CGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270645 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270692 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270739 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52270786 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
52270833 AATGTG-AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
52270879 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
52270906 TCCCGAAGGG
Statistics
Matches: 568, Mismatches: 21, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
45 1 0.00
46 83 0.15
47 296 0.52
49 187 0.33
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:52281656 original size:41 final size:40
Alignment explanation
Indices: 52281599--52281699 Score: 98
Period size: 41 Copynumber: 2.5 Consensus size: 40
52281589 CAGTAAGAGC
*
52281599 CTTTGCAATTTCAACATGGTGA-A-AAGAGGATATATTCCAAA
1 CTTTGC-ATATCAACATGGTGATATAAGA-G-TATATTCCAAA
* * **
52281640 CTTTGCAGTATCAACATGATGATATAAGAGTCTATTTTAAA
1 CTTTGCA-TATCAACATGGTGATATAAGAGTATATTCCAAA
52281681 CTTTGCATCATCAACATGG
1 CTTTGCAT-ATCAACATGG
52281700 CGAGAAGACC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
40 2 0.04
41 42 0.84
42 2 0.04
43 4 0.08
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (40 bp):
CTTTGCATATCAACATGGTGATATAAGAGTATATTCCAAA
Found at i:52283456 original size:16 final size:16
Alignment explanation
Indices: 52283435--52283466 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52283425 GTTATAATGC
52283435 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
*
52283451 CCCAAAAATCCTAAAA
1 CCCAAAAATCCCAAAA
52283467 TCCCGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.34, G:0.00, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:52285943 original size:40 final size:41
Alignment explanation
Indices: 52285897--52286001 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
52285887 CTCGCACAAG
* * *
52285897 GCCTTCGGGTCTTAACCCGGATATAGTCGC-TAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
52285937 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
52285978 GCCTTCGGGACTTAGCCCGAATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
52286002 TATTCGAGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
40 26 0.49
41 27 0.51
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.27
Consensus pattern (41 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:52285984 original size:41 final size:40
Alignment explanation
Indices: 52285897--52285985 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
52285887 CTCGCACAAG
* * *
52285897 GCCTTCGGGTCTTAACCCGGATATAGTCGCTAGCATAAAT
1 GCCTTCGGATCTTAACCCGGATATAGTCGCTAGCACAAAA
** *
52285937 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAACCCGGATATAGTCGC-TAGCACAAAA
52285978 GCCTTCGG
1 GCCTTCGG
52285986 GACTTAGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 26 0.62
41 16 0.38
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGATCTTAACCCGGATATAGTCGCTAGCACAAAA
Found at i:52287232 original size:38 final size:38
Alignment explanation
Indices: 52287190--52287265 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52287180 CAAGAACTCC
52287190 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
52287228 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
52287266 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:52288239 original size:29 final size:29
Alignment explanation
Indices: 52288164--52288279 Score: 130
Period size: 29 Copynumber: 4.1 Consensus size: 29
52288154 TGAATATAAG
** * *
52288164 GTGATTTGGGCCTAACAGGCCATATAAAG
1 GTGATTTGGGCCTAATGGGCCATATGAAT
52288193 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGATTTGGGCCTAATGGGCCATATGAAT
*
52288222 GTGATTTGGGCCTTATGGGCCATATGAAT
1 GTGATTTGGGCCTAATGGGCCATATGAAT
** *
52288251 AAGA--TGGGCC-AAGTGGGCCATATGCAT
1 GTGATTTGGGCCTAA-TGGGCCATATGAAT
52288278 GT
1 GT
52288280 ATGTAGGGGT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 19 0.25
29 55 0.73
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
GTGATTTGGGCCTAATGGGCCATATGAAT
Found at i:52292695 original size:29 final size:29
Alignment explanation
Indices: 52292660--52292733 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
52292650 GTTGTGAGAT
* *
52292660 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
52292689 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
52292718 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52292734 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:52300763 original size:29 final size:29
Alignment explanation
Indices: 52300730--52300803 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
52300720 GTTGTGAGAT
* *
52300730 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
52300759 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
52300788 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52300804 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:52304099 original size:29 final size:28
Alignment explanation
Indices: 52304057--52304117 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
52304047 GTGAGCATGA
52304057 ATATAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAGGTGATTTGGGCCTAATGGGCC
*
52304085 ATATAAAGGTGATTTGGGCCTGATGGGCC
1 ATAT-AAGGTGATTTGGGCCTAATGGGCC
52304114 ATAT
1 ATAT
52304118 GAATATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCCTAATGGGCC
Found at i:52304130 original size:29 final size:29
Alignment explanation
Indices: 52304069--52304150 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
52304059 ATAAGGTGAT
* * ** *
52304069 TTGGGCCTAATGGGCCATATAAAGGTGAT
1 TTGGGCCTGATGGGCCATATGAATATGAA
52304098 TTGGGCCTGATGGGCCATATGAATATGAA
1 TTGGGCCTGATGGGCCATATGAATATGAA
52304127 TTGGGCCCTG-TGGGCCATATGAAT
1 TTGGG-CCTGATGGGCCATATGAAT
52304151 GAGATGGGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 43 0.91
30 4 0.09
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAATATGAA
Found at i:52307753 original size:93 final size:93
Alignment explanation
Indices: 52307646--52307815 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
52307636 CCCCTAAGTA
* *
52307646 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
52307711 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
52307739 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
52307804 GAGTTCGGATGC
66 GAGTTCGGATGC
52307816 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:52307812 original size:46 final size:46
Alignment explanation
Indices: 52307640--52307812 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
52307630 AACCCGCCCC
* * * *
52307640 TAAGTAAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
52307686 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
52307734 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
52307779 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52307813 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:52312938 original size:29 final size:29
Alignment explanation
Indices: 52312906--52312961 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
52312896 TCTTAGAGAT
52312906 TAAATCAATAACTTACTCAAAATCTTTCA
1 TAAATCAATAACTTACTCAAAATCTTTCA
*
52312935 TAAATCAATAACTTACTCGAAATCTTT
1 TAAATCAATAACTTACTCAAAATCTTT
52312962 GATCATTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (29 bp):
TAAATCAATAACTTACTCAAAATCTTTCA
Found at i:52314763 original size:48 final size:48
Alignment explanation
Indices: 52314707--52314873 Score: 221
Period size: 48 Copynumber: 3.5 Consensus size: 48
52314697 ATCTCAATCG
* * *
52314707 ATGCCATGTCCTAGACATGGTTTTACATGAAATCACATATTGATGCCA
1 ATGCCATGTCCTAGACATGGTCTTACATGAGATCACATATCGATGCCA
* * * *
52314755 ATGCCATGTCCCAGATATGGTCTTAGATGGAGATCACATATCGATGTCA
1 ATGCCATGTCCTAGACATGGTCTTACAT-GAGATCACATATCGATGCCA
*
52314804 ATGCCATGTTCC-AAACATGGTCTTACAT-AGGATCACATATCGATGCCA
1 ATGCCATG-TCCTAGACATGGTCTTACATGA-GATCACATATCGATGCCA
52314852 ATGCCATGTCCTAGACATGGTC
1 ATGCCATGTCCTAGACATGGTC
52314874 AATTCTATGT
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
47 4 0.04
48 58 0.56
49 38 0.37
50 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCTAGACATGGTCTTACATGAGATCACATATCGATGCCA
Found at i:52314973 original size:37 final size:37
Alignment explanation
Indices: 52314939--52315023 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
52314929 TGTCCCAGAC
* *
52314939 ATGGTCTTACATGGGATCACAATGTCATAGCCCAGCT
1 ATGGTCTTACATGGCATCACAATGCCATAGCCCAGCT
* * *
52314976 ATGGTCTTACATGTCATTACGATGCCATAGCCCAGCT
1 ATGGTCTTACATGGCATCACAATGCCATAGCCCAGCT
*
52315013 ATGGTTTTACA
1 ATGGTCTTACA
52315024 CGTACTCACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (37 bp):
ATGGTCTTACATGGCATCACAATGCCATAGCCCAGCT
Found at i:52318970 original size:43 final size:44
Alignment explanation
Indices: 52318917--52319013 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 44
52318907 AACATAATGG
* *
52318917 CTTCAGTTTATTCT-ATGATGAACTGTGTGTGCTAGTATACATT-
1 CTTCAATTTATTCTGATGATGAACTATGTGTGCTAGTATA-ATTC
* * *
52318960 CTTCAATTTA-TCTGATGATGCACTATGTGTGTTAGTATATTTC
1 CTTCAATTTATTCTGATGATGAACTATGTGTGCTAGTATAATTC
52319003 CTTCAATTTAT
1 CTTCAATTTAT
52319014 CCAATGTTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 5 0.11
43 41 0.89
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.46
Consensus pattern (44 bp):
CTTCAATTTATTCTGATGATGAACTATGTGTGCTAGTATAATTC
Found at i:52319025 original size:43 final size:43
Alignment explanation
Indices: 52318917--52319026 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
52318907 AACATAATGG
* * * * *
52318917 CTTCAGTTTATTCTATGATGAACTGTGTGTGCTAGTATACATT
1 CTTCAATTTATCCAATGATGCACTATGTGTGCTAGTATACATT
** * *
52318960 CTTCAATTTATCTGATGATGCACTATGTGTGTTAGTATA-TTT
1 CTTCAATTTATCCAATGATGCACTATGTGTGCTAGTATACATT
*
52319002 CCTTCAATTTATCCAATGTTGCACT
1 -CTTCAATTTATCCAATGATGCACT
52319027 GTAGTTTCAT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 2 0.04
43 53 0.96
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (43 bp):
CTTCAATTTATCCAATGATGCACTATGTGTGCTAGTATACATT
Found at i:52324652 original size:27 final size:25
Alignment explanation
Indices: 52324591--52324645 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
52324581 ATCTCCACAA
**
52324591 ATGGTGAAGTGTGAGTTGTCTCTATAC
1 ATGGTGAAGTGTGAAATGTCTC--TAC
52324618 ATGGTGAAGTGTGAAATGTCTCTAC
1 ATGGTGAAGTGTGAAATGTCTCTAC
52324643 ATG
1 ATG
52324646 TTGTGAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 6 0.23
27 20 0.77
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (25 bp):
ATGGTGAAGTGTGAAATGTCTCTAC
Found at i:52324733 original size:27 final size:27
Alignment explanation
Indices: 52324703--52324777 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
52324693 CCACAGGTGG
* * * *
52324703 AAAGTGCGAGCTGACCTACTAATTGTC
1 AAAGTGCTAGCTGACCTACGAACTATC
* *
52324730 AAAGTGCTAGTTGACCTACGAACTATG
1 AAAGTGCTAGCTGACCTACGAACTATC
*
52324757 AAAGTGCTAGCTGACCCACGA
1 AAAGTGCTAGCTGACCTACGA
52324778 GCATGCGAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (27 bp):
AAAGTGCTAGCTGACCTACGAACTATC
Found at i:52333698 original size:34 final size:34
Alignment explanation
Indices: 52333660--52333727 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
52333650 TGTGTGTGTT
52333660 TTTAGGTGTTTATGAGTATTGATCGAATTATTGA
1 TTTAGGTGTTTATGAGTATTGATCGAATTATTGA
52333694 TTTAGGTGTTTATGAGTATTGATCGAATTATTGA
1 TTTAGGTGTTTATGAGTATTGATCGAATTATTGA
52333728 CTTACTCCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (34 bp):
TTTAGGTGTTTATGAGTATTGATCGAATTATTGA
Found at i:52334758 original size:35 final size:35
Alignment explanation
Indices: 52334712--52334786 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
52334702 TGTTGCATAT
52334712 GAAATGATAATATGTTTAAAATACTATCTGAATAG
1 GAAATGATAATATGTTTAAAATACTATCTGAATAG
52334747 GAAATGATAATATGTTTAAAATACTATCTGAATAG
1 GAAATGATAATATGTTTAAAATACTATCTGAATAG
52334782 GAAAT
1 GAAAT
52334787 TAAGTGATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (35 bp):
GAAATGATAATATGTTTAAAATACTATCTGAATAG
Found at i:52366016 original size:24 final size:23
Alignment explanation
Indices: 52365988--52366035 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
52365978 TCCATCTTCC
*
52365988 TTTCTTATCCCCTTCTTCCTCTCT
1 TTTCTTATCCCCTTC-CCCTCTCT
* *
52366012 TTTCTTTTCCTCTTCCCCTCTCT
1 TTTCTTATCCCCTTCCCCTCTCT
52366035 T
1 T
52366036 CCTCCTCCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTCTTATCCCCTTCCCCTCTCT
Found at i:52371297 original size:45 final size:44
Alignment explanation
Indices: 52371246--52371343 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 44
52371236 GCCAAAACAT
52371246 GTGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
1 GTGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
* * * *
52371290 GATGTCACATATATCTTGAACTCAGACCATAACTTAATGAGTTCA
1 G-TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
52371335 G-GTCACATA
1 GTGTCACATA
52371344 GTTCCTAGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 8 0.16
44 1 0.02
45 40 0.82
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (44 bp):
GTGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
Found at i:52372936 original size:30 final size:30
Alignment explanation
Indices: 52372895--52372952 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
52372885 AGGAATGAAC
*
52372895 AGGGGTCGGTTTGAATCAAAAATAAAAAAT
1 AGGGATCGGTTTGAATCAAAAATAAAAAAT
52372925 AGGGATCGGTTTGAATCAAAAATAAAAA
1 AGGGATCGGTTTGAATCAAAAATAAAAA
52372953 GTTGGGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (30 bp):
AGGGATCGGTTTGAATCAAAAATAAAAAAT
Found at i:52376585 original size:18 final size:20
Alignment explanation
Indices: 52376562--52376598 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
52376552 CGGGTCGCAC
52376562 GCCCATGTA-AC-AACCTGT
1 GCCCATGTAGACAAACCTGT
52376580 GCCCATGTAGACAAACCTG
1 GCCCATGTAGACAAACCTG
52376599 CACCAAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (20 bp):
GCCCATGTAGACAAACCTGT
Found at i:52381998 original size:20 final size:20
Alignment explanation
Indices: 52381973--52382016 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
52381963 TTTGGTATTG
52381973 TTTTGAGTATATATGGTGTC
1 TTTTGAGTATATATGGTGTC
52381993 TTTTGAGTATATATGGTGTC
1 TTTTGAGTATATATGGTGTC
52382013 TTTT
1 TTTT
52382017 TAAAGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.05, G:0.23, T:0.55
Consensus pattern (20 bp):
TTTTGAGTATATATGGTGTC
Found at i:52382063 original size:1 final size:1
Alignment explanation
Indices: 52382059--52382098 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
52382049 GTTTTTGCTG
52382059 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
52382099 GCTCCTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:52397443 original size:22 final size:21
Alignment explanation
Indices: 52397398--52397461 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
52397388 TATTTACCTA
*
52397398 TTATTATTT-TTTAAATTCA-T
1 TTATTATTTATTTATA-TCATT
52397418 TTA-T-TTTATTGTAT-TCATT
1 TTATTATTTATT-TATATCATT
*
52397437 TTATTATTTATTTATATCGTT
1 TTATTATTTATTTATATCATT
52397458 TTAT
1 TTAT
52397462 ATAATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
18 6 0.17
19 7 0.19
20 9 0.25
21 14 0.39
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (21 bp):
TTATTATTTATTTATATCATT
Found at i:52397607 original size:18 final size:18
Alignment explanation
Indices: 52397585--52397618 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52397575 AGGTTCTATT
52397585 TTTTTTA-TATTTTTATA
1 TTTTTTATTATTTTTATA
52397602 TTTTTTATTATTTTTAT
1 TTTTTTATTATTTTTAT
52397619 TTAGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTATTATTTTTATA
Found at i:52410620 original size:53 final size:53
Alignment explanation
Indices: 52410549--52410654 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
52410539 TGCTCCGTAG
* * *
52410549 ATATCGGTCTGATCCTTCACATGTGATTAGATCATCTAAGATTGATATTAAGC
1 ATATCGGTCTGATCCTTCACATGTGATTAGATCACCTAAGATCGAGATTAAGC
* *
52410602 ATATCGGTTTGATTCTTCACATGTGATTAGATCACCTAAGATCGAGATTAAGC
1 ATATCGGTCTGATCCTTCACATGTGATTAGATCACCTAAGATCGAGATTAAGC
52410655 CCAATATGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (53 bp):
ATATCGGTCTGATCCTTCACATGTGATTAGATCACCTAAGATCGAGATTAAGC
Found at i:52414957 original size:49 final size:45
Alignment explanation
Indices: 52414892--52415010 Score: 143
Period size: 44 Copynumber: 2.6 Consensus size: 45
52414882 AAGTACAAAC
*
52414892 CTTATCTCCCTAAAGTTGCAGTGGAGT-AAATCGAAGATAGGCTACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTCAAAT--AA-A-A-GCTACCAAT
* *
52414941 CTTATCTCCCTGAAGTTGCAGTGGA-TCAAATTAAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTCAAATAAAAGCTACCAAT
*
52414985 CCTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
52415011 CGGATTAAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
44 32 0.50
45 1 0.02
46 1 0.02
47 1 0.02
48 1 0.02
49 28 0.44
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTCAAATAAAAGCTACCAAT
Found at i:52414995 original size:44 final size:44
Alignment explanation
Indices: 52414932--52415301 Score: 217
Period size: 44 Copynumber: 8.2 Consensus size: 44
52414922 TCGAAGATAG
* * *
52414932 GCTACCAATCTTATCTCCCTGAAGTTGCAGTGGATCAAATTAAA
1 GCTACAAATCCTATCTCCCTGAAGTTGCAGTGGATCAGATTAAA
* * *
52414976 GCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
1 GCTACAAATCCTATCTCCCTGAAGTTGCAGTGGATCAGATTAAA
* * *
52415020 GCGACAAATCCTATAC-CTCTGAAGGTGCAGTAGG-TCAGATTAAA
1 GCTACAAATCCTAT-CTCCCTGAAGTTGCAGT-GGATCAGATTAAA
* * * * **
52415064 TCTACCATAACTACAAACCTTATCTCCTTGAAGTTGC-GATAGGAGCAGGTGGAA
1 GCTA-CA-AA-T-----CC-TATCTCCCTGAAGTTGCAG-T-GGATCAGATTAAA
* * * * * *
52415118 GTTATAGATCTTATCTCCCTGAAGTTGCAATGGAGT-AGATCAAA
1 GCTACAAATCCTATCTCCCTGAAGTTGCAGTGGA-TCAGATTAAA
* * * * * *
52415162 GATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAA
1 GCTA-CAAATCCTATCTCCCTGAAGTTGCAGTGGATCAGATTAAA
* * * * * * *
52415207 ACAATAAATCCTATTTCCTTGAAGTTGCAGTGGAGCAGATTGAA
1 GCTACAAATCCTATCTCCCTGAAGTTGCAGTGGATCAGATTAAA
* * * * *
52415251 GTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA
1 GCTACAAATCCTATCTCCCTGAAGTTGCAGTGGATCAGATTAAA
*
52415295 GCGACAA
1 GCTACAA
52415302 GTTGCAAATC
Statistics
Matches: 245, Mismatches: 63, Indels: 36
0.71 0.18 0.10
Matches are distributed among these distances:
44 156 0.64
45 54 0.22
46 3 0.01
47 1 0.00
51 1 0.00
52 5 0.02
53 17 0.07
54 8 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTACAAATCCTATCTCCCTGAAGTTGCAGTGGATCAGATTAAA
Found at i:52415174 original size:45 final size:44
Alignment explanation
Indices: 52415075--52415345 Score: 195
Period size: 44 Copynumber: 6.0 Consensus size: 44
52415065 CTACCATAAC
* * * ** *
52415075 TACAAACCTTATCTCCTTGAAGTTGC-GATAGGAGCAGGTGGAAGT
1 TACAAATCTTATCTCCCTGAAGTTGCAG-T-GGAGCAGATTAAAGA
* * * * *
52415120 TATAGATCTTATCTCCCTGAAGTTGCAATGGAGTAGATCAAAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
* * *
52415164 TAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAA-A
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
* * * * * * *
52415208 CAATAAATCCTATTTCCTTGAAGTTGCAGTGGAGCAGATTGAAGT
1 -TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
* *
52415253 TACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGACAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA--G---A
* * *
52415302 GTTGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAA
1 --TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
52415346 ACGATAAATC
Statistics
Matches: 173, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
44 79 0.46
45 56 0.32
46 1 0.01
51 37 0.21
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGA
Found at i:52415325 original size:51 final size:51
Alignment explanation
Indices: 52415249--52415345 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
52415239 GAGCAGATTG
*
52415249 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGAC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGAC
* * * *
52415300 AAGTTGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAA
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA
52415346 ACGATAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (51 bp):
AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGAC
Found at i:52415346 original size:139 final size:134
Alignment explanation
Indices: 52415088--52415355 Score: 335
Period size: 133 Copynumber: 2.0 Consensus size: 134
52415078 AAACCTTATC
* * *
52415088 TCCTTGAAGTTGCGATAGGAGCAGGTGGAAGTTATAGATCTTATCTCCCTGAAGTTGCAATGGAG
1 TCCTTGAAGTTGCGATAGGAGCAGATGGAAGTTAAAGATCTTATCTCCCTGAAGTTGCAATAGAG
* *
52415153 TAGATCAAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAACAATAAATCC
66 CAGATCAAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACAATAAATCC
52415218 TATT
131 TATT
* *
52415222 TCCTTGAAGTTGC-AGT-GGAGCAGATTGAAGTTACAAG-TCTTATCTCCCTGAAGTTGCAGTAG
1 TCCTTGAAGTTGCGA-TAGGAGCAGATGGAAGTTA-AAGATCTTATCTCCCTGAAGTTGCAATAG
* * * * *
52415284 AGCAGATTAAAGCGACAAGTTGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAACG
64 AGCAGATCAAA--G---A-TAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACA
52415349 ATAAATC
123 ATAAATC
52415356 TTATACCTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
133 48 0.42
134 16 0.14
135 1 0.01
138 1 0.01
139 48 0.42
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (134 bp):
TCCTTGAAGTTGCGATAGGAGCAGATGGAAGTTAAAGATCTTATCTCCCTGAAGTTGCAATAGAG
CAGATCAAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACAATAAATCC
TATT
Found at i:52419181 original size:14 final size:15
Alignment explanation
Indices: 52419149--52419181 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
52419139 GGGAAGTATT
52419149 CACTCTTCCCTTGTCA
1 CACTCTTCCCTTG-CA
52419165 CACTCTTCCCTTG-A
1 CACTCTTCCCTTGCA
52419179 CAC
1 CAC
52419182 GACAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
16 13 0.76
ACGTcount: A:0.15, C:0.45, G:0.06, T:0.33
Consensus pattern (15 bp):
CACTCTTCCCTTGCA
Found at i:52428113 original size:17 final size:18
Alignment explanation
Indices: 52428091--52428125 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52428081 TCACATTGAA
52428091 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
52428108 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
52428126 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:52429243 original size:29 final size:29
Alignment explanation
Indices: 52429156--52429272 Score: 112
Period size: 29 Copynumber: 4.1 Consensus size: 29
52429146 ACCCCTACAT
* *
52429156 ACATGCATATGGCCCA-CTTGGCCC-AATC
1 ACATTCATATGGCCCATC-AGGCCCAAATC
* * * * *
52429184 TCATTTATATGGCCCATCAGGTCGAATTC
1 ACATTCATATGGCCCATCAGGCCCAAATC
52429213 ACATTCATATGGCCCATCAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* * * *
52429242 ACCTTTATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
52429271 AC
1 AC
52429273 CTTATATTCA
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
28 16 0.23
29 55 0.77
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAAATC
Found at i:52431518 original size:37 final size:37
Alignment explanation
Indices: 52431472--52431546 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
52431462 CAATAATAAA
*
52431472 AAAGAAAACTTAAATAAATGAAATAAATAAGACGTTG
1 AAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
52431509 AAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
1 AAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
52431546 A
1 A
52431547 CTTGATGATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.21
Consensus pattern (37 bp):
AAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
Found at i:52431557 original size:3 final size:3
Alignment explanation
Indices: 52431549--52431594 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
52431539 GACATTGACT
52431549 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
52431595 AACAATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:52432315 original size:21 final size:20
Alignment explanation
Indices: 52432266--52432326 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
52432256 GCCAAATTTT
*
52432266 TTTTTTTTACAAAATCAAAA
1 TTTTTTTTAAAAAATCAAAA
* *
52432286 TTTTCTTTTAAAAAATCACTAC
1 TTTT-TTTTAAAAAATCA-AAA
*
52432308 TTTTTTTT-ATAAATCAAAA
1 TTTTTTTTAAAAAATCAAAA
52432327 CTTTATATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
21 16 0.48
22 5 0.15
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTTTTTTAAAAAATCAAAA
Found at i:52432329 original size:20 final size:20
Alignment explanation
Indices: 52432266--52432330 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
52432256 GCCAAATTTT
52432266 TTTTTTTTACAAAATCAAAA-
1 TTTTTTTTA-AAAATCAAAAC
**
52432286 TTTTCTTTTAAAAAATCACTAC
1 TTTT-TTTT-AAAAATCAAAAC
*
52432308 TTTTTTTTATAAATCAAAAC
1 TTTTTTTTAAAAATCAAAAC
52432328 TTT
1 TTT
52432331 ATATCAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 16 0.43
21 16 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTTTTTAAAAATCAAAAC
Found at i:52432590 original size:145 final size:142
Alignment explanation
Indices: 52432264--52432591 Score: 358
Period size: 145 Copynumber: 2.3 Consensus size: 142
52432254 TGGCCAAATT
* * * * * *
52432264 TTTTTTTTTTACAAAATCAAAATTT-TC-TTTTAAAAAATCACTACTTTTTTTTATAAATCAAAA
1 TTTTTATTTTA-AAAATCAAACTTTCTCTTTTTAAAAAATCAATACTTTTTCTGAAAAATCAAAA
* * *
52432327 CTTTATATCAAAATAGTTGAAAAAGATCTAAACTTTATTTTAAAAAAATTGAACTTTTCCTTTAG
65 CTTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAAATTAAACATTTCCTTTAG
*
52432392 ACCAAATAACATA
130 ACCAAAAAACATA
*
52432405 TTTTTATTTTAATAATCAAAACTTTCTCTTTTTTTAAAAAAATCAATA-TTTTTCTGAAAAATCA
1 TTTTTATTTTAAAAATC-AAACTTTCTC--TTTTT-AAAAAATCAATACTTTTTCTGAAAAATCA
* * * * * *
52432469 AAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGTTTT-AAGAATTTAAACATTTCCTT
62 AAACTTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAAATTAAACATTTCC-T
** *
52432533 TAATATGATTAAAAAATATA
126 T--TA-GACCAAAAAACATA
52432553 TTTTTATTTTAAAAATCTAAACTTTCTCTTTTTAAAAAA
1 TTTTTATTTTAAAAATC-AAACTTTCTCTTTTTAAAAAA
52432592 AAATCAAAAC
Statistics
Matches: 155, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
140 5 0.03
141 16 0.10
142 2 0.01
144 14 0.09
145 64 0.41
146 16 0.10
147 2 0.01
148 36 0.23
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (142 bp):
TTTTTATTTTAAAAATCAAACTTTCTCTTTTTAAAAAATCAATACTTTTTCTGAAAAATCAAAAC
TTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAAATTAAACATTTCCTTTAGA
CCAAAAAACATA
Found at i:52432606 original size:148 final size:145
Alignment explanation
Indices: 52432318--52432606 Score: 364
Period size: 148 Copynumber: 2.0 Consensus size: 145
52432308 TTTTTTTTAT
* * *
52432318 AAATCAAAACTTTATATCAAAATAGTTGAAAAAGATCTAAACTTTATTTTAAAAAAATTGAACTT
1 AAATCAAAACTTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAAATTAAACAT
* * **
52432383 TTCCTTTAGACCAAATAACATATTTTTATTTTAATAATCAAAACTTTCTCTTTTTTTAAAAAAAT
66 TTCCTTTAGACCAAAAAACATATTTTTATTTTAAAAATCAAAACTTTCTCTTTTTAAAAAAAAAT
* *
52432448 CAATATTTTTCTGAA
131 CAAAACTTTTCTGAA
* * * * * *
52432463 AAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGTTTT-AAGAATTTAAACAT
1 AAATCAAAACTTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAAATTAAACAT
** * *
52432527 TTCCTTTAATATGATTAAAAAATATATTTTTATTTTAAAAATCTAAACTTTCTCTTTTTAAAAAA
66 TTCC-TT--TA-GACCAAAAAACATATTTTTATTTTAAAAATCAAAACTTTCTCTTTTTAAAAAA
52432592 AAATCAAAACTTTTC
127 AAATCAAAACTTTTC
52432607 ACAAGATCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
144 14 0.12
145 47 0.39
147 2 0.02
148 58 0.48
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (145 bp):
AAATCAAAACTTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAAATTAAACAT
TTCCTTTAGACCAAAAAACATATTTTTATTTTAAAAATCAAAACTTTCTCTTTTTAAAAAAAAAT
CAAAACTTTTCTGAA
Found at i:52432775 original size:11 final size:11
Alignment explanation
Indices: 52432759--52432794 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
52432749 ATATGGCAAA
52432759 AAAAGAAAAAG
1 AAAAGAAAAAG
52432770 AAAAGAAAAAAG
1 AAAAG-AAAAAG
52432782 AAAA-AAAAAG
1 AAAAGAAAAAG
52432792 AAA
1 AAA
52432795 TTAGAATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.38
11 5 0.21
12 10 0.42
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:52432800 original size:17 final size:18
Alignment explanation
Indices: 52432757--52432794 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
52432747 GTATATGGCA
52432757 AAAAAAGAAAAAGAAAAG
1 AAAAAAGAAAAAGAAAAG
52432775 AAAAAAGAAAAA-AAAAG
1 AAAAAAGAAAAAGAAAAG
52432792 AAA
1 AAA
52432795 TTAGAATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAAGAAAAG
Found at i:52432933 original size:3 final size:3
Alignment explanation
Indices: 52432925--52432974 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
52432915 TTATAAAAAG
* *
52432925 ATA ATA ATA ATA TTTA AAA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52432970 ATA AT
1 ATA AT
52432975 TTGAGCCCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:52436560 original size:40 final size:40
Alignment explanation
Indices: 52436505--52436721 Score: 344
Period size: 40 Copynumber: 5.4 Consensus size: 40
52436495 GATTATATCT
52436505 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
*
52436545 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTCCC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
*
52436585 GAGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
* * *
52436625 GGGTTAAGTCCCGAAGGCATTCATGCTGGTTGCTATTTTC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
* **
52436665 GGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACATCC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
* *
52436705 GGGCTAAATCCCGAAGG
1 GGGTTAAGTCCCGAAGG
52436722 TAATTGGGTT
Statistics
Matches: 162, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 162 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (40 bp):
GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCC
Found at i:52438361 original size:14 final size:15
Alignment explanation
Indices: 52438342--52438374 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
52438332 TACAAGAAAC
52438342 AAAAATAAAATA-AT
1 AAAAATAAAATATAT
*
52438356 AAAAATCAAATATAT
1 AAAAATAAAATATAT
52438371 AAAA
1 AAAA
52438375 TAATAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATAAAATATAT
Found at i:52438670 original size:23 final size:23
Alignment explanation
Indices: 52438644--52438688 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
52438634 AATAATAAAA
* *
52438644 TATTTATAATTATTATTATATTG
1 TATTAATAATTATTATCATATTG
* *
52438667 TATTAATCATTTTTATCATATT
1 TATTAATAATTATTATCATATT
52438689 TTTCTAAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTAATAATTATTATCATATTG
Found at i:52441381 original size:29 final size:29
Alignment explanation
Indices: 52441294--52441386 Score: 132
Period size: 29 Copynumber: 3.2 Consensus size: 29
52441284 GTATCAATGC
*
52441294 CCATCGAATATGAAAAGAGATGGTGAAGA
1 CCATCGAATATGAAAAGAGATGGTGACGA
* *
52441323 CCATGGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGAGATGGTGACGA
* **
52441352 CCATTGAATATGAAAAGAGATGGTTTCGA
1 CCATCGAATATGAAAAGAGATGGTGACGA
52441381 CCATCG
1 CCATCG
52441387 TTTAGTATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (29 bp):
CCATCGAATATGAAAAGAGATGGTGACGA
Found at i:52445783 original size:12 final size:12
Alignment explanation
Indices: 52445768--52445797 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
52445758 AATTATTCAC
52445768 ATATTTATATAT
1 ATATTTATATAT
52445780 ATATTTATATAT
1 ATATTTATATAT
52445792 ATATTT
1 ATATTT
52445798 GTTGTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATTTATATAT
Found at i:52448436 original size:40 final size:40
Alignment explanation
Indices: 52448379--52448548 Score: 252
Period size: 40 Copynumber: 4.2 Consensus size: 40
52448369 CTAACGGGGT
* * *
52448379 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
52448419 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
52448459 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
52448499 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
*
52448539 TAAGACCCGA
1 TAAGTCCCGA
52448549 CGACCTTGTG
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.02
40 119 0.98
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:52450416 original size:130 final size:131
Alignment explanation
Indices: 52450271--52450514 Score: 339
Period size: 131 Copynumber: 1.9 Consensus size: 131
52450261 AAAATTCTCT
* ** *
52450271 AAAATGAAGGCAATACTCGATGTTTGGAAATTC-GAGAATCGTACCCTATCGTGCTGGGTTGCAA
1 AAAACGAAGGCAATACAAGATGTTTGGAAATTCGGAGAATCGTACCCTATCGTGCTAGGTTGCAA
* *
52450335 TTTCCCATTTGTTCAAAACAATCA-AATATTCCTTTGGAATTTCGCTCATATCTTTAAAAACCCT
66 TTTCCCATTTGTTCAAAACAAT-AGAATATTCCTTTAGAATTTCACTCATATCTTTAAAAACCCT
52450399 TC
130 TC
* * * * *
52450401 AAAACGAAGGTAATACAAGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTAGGTTGCGA
1 AAAACGAAGGCAATACAAGATGTTTGGAAATTCGGAGAATCGTACCCTATCGTGCTAGGTTGCAA
** *
52450466 TTTCCTGTTTGTTCAAAATAATAGAATATTCCTTTAGAATTTCACTCAT
66 TTTCCCATTTGTTCAAAACAATAGAATATTCCTTTAGAATTTCACTCAT
52450515 GATTCTCTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
130 29 0.30
131 69 0.70
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (131 bp):
AAAACGAAGGCAATACAAGATGTTTGGAAATTCGGAGAATCGTACCCTATCGTGCTAGGTTGCAA
TTTCCCATTTGTTCAAAACAATAGAATATTCCTTTAGAATTTCACTCATATCTTTAAAAACCCTT
C
Found at i:52458118 original size:21 final size:23
Alignment explanation
Indices: 52458064--52458118 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
52458054 ATGATGCTAG
*
52458064 ATGTTAGAATTGGCTTGGTTATA
1 ATGTTTGAATTGGCTTGGTTATA
52458087 ATGTTTGAATTGGC-TGG-TAT-
1 ATGTTTGAATTGGCTTGGTTATA
52458107 ATGTTTGCAATT
1 ATGTTTG-AATT
52458119 ATTGGTATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.23
21 7 0.23
22 3 0.10
23 13 0.43
ACGTcount: A:0.24, C:0.05, G:0.25, T:0.45
Consensus pattern (23 bp):
ATGTTTGAATTGGCTTGGTTATA
Found at i:52461159 original size:206 final size:205
Alignment explanation
Indices: 52460651--52462080 Score: 1586
Period size: 206 Copynumber: 7.0 Consensus size: 205
52460641 ATCTTGCATA
* * * * *
52460651 TGTTTTGGATACTAAATTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAACTTCCTG
1 TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCGGTTGTTTGTGAATTTCCTA
* * * * * *
52460716 ATGTATTTCCGGAAGAATTACCTAGTTTACCACCGGCTAGAAAAGTGGAGTTCTCTATAGACCTT
66 ATGTATTTCCGAAAGAATTATCTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCTT
* * * * ** **
52460781 GTTCTGAGGACAACACTGATATCCATAACACCTACAAAATGAATTCTTTCGAATTGAAAGAATTG
131 GTTCCGAGGACAACACCGATATCCATAGCACCTACAGAATGGCTTCTACCGAATTGAAAGAATTG
* *
52460846 AAAACATAGT
196 AAAGCACAGT
* * * * * *
52460856 TGTTTTGGATACTAAAGTATCTAAGTCTAAGATTCAGTCAGTGCCGATTATTTGTTAATTTCTTA
1 TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCGGTTGTTTGTGAATTTCCTA
* *
52460921 ATGCATTTCC-AGAAGAATTA-CTTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAAACC
66 ATGTATTTCCGA-AAGAATTATC-TGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACC
** * * * *
52460984 TTGTTCCGAGGACAACAGTGATATCCATAACACCTTATAGACTAGCTTCTACCGAATTGAAAGAA
129 TTGTTCCGAGGACAACACCGATATCCATAGCACC-TACAGAATGGCTTCTACCGAATTGAAAGAA
*
52461049 TTGAAAGCACGGT
193 TTGAAAGCACAGT
* * *
52461062 TATTTTGGATACTAAAGTATCTGAGTCGAAGATTTAGTCAGTGCTGGTTGTTTGTGAATTTCCTA
1 TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCGGTTGTTTGTGAATTTCCTA
* * * * * *
52461127 ATGTATTTCTGAAAAAAATATCTGGTTTACCACCAATTAGAGAAGTGAAGTTTTCTATAGACCTT
66 ATGTATTTCCGAAAGAATTATCTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCTT
* * *
52461192 GTTCCGAGGACAACACCGATATCTATAGCAACCTACAGAATGGCTCCT-CCTGAATTGAAATAAT
131 GTTCCGAGGACAACACCGATATCCATAGC-ACCTACAGAATGGCTTCTACC-GAATTGAAAGAAT
52461256 TGAAAGCACAGT
194 TGAAAGCACAGT
* * * * * * * *
52461268 TGTTTTGGATACTAAAGTATCTGAGCCGAAGATTCAATCACTGTCGGTTGTTTCTAAATTTTCTG
1 TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCGGTTGTTTGTGAATTTCCTA
* * * *
52461333 ATGTATTTCCGGAAGAATTA-CTTGATTTGCCACTAGTTAGAGAAGTGGAGTTCTCTATAGACCT
66 ATGTATTTCCGAAAGAATTATC-TGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCT
* * * * *
52461397 TGTTTCGAGGACAACATCGATA-CTTATAGCACCCTACAGAATGGAC-CCTACAGAATTGAAAGA
130 TGTTCCGAGGACAACACCGATATC-CATAGCA-CCTACAGAATGG-CTTCTACCGAATTGAAAGA
* *
52461460 ATTGGAAGCATAGT
192 ATTGAAAGCACAGT
* * * * *
52461474 TGTTTTGGATACTAAAGTATCTGAGTCAAAAATTCAGTCAGTGCCAGTTGTTTGTGAATTTCTTG
1 TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCGGTTGTTTGTGAATTTCCTA
* * * *
52461539 ATGTATTTCCGGAAGAATTACCTGGTTTGCCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
66 ATGTATTTCCGAAAGAATTATCTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCTT
* * * * *
52461604 ATTCCGGGGACAACACCGATATCCATAGCACCGTACAAAATGGC-TCT----TA-T--CAG-ATT
131 GTTCCGAGGACAACACCGATATCCATAGCACC-TACAGAATGGCTTCTACCGAATTGAAAGAATT
*
52461660 GAAAGAACAGT
195 GAAAGCACAGT
* * ** * *
52461671 TGTTTTGGATACTAAAGTATCTGAGTTGAAGTTTCAGTCAGCACAGATTGTTTGTGAATTTCCTA
1 TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCGGTTGTTTGTGAATTTCCTA
* * * *
52461736 ATGTACTTCC-ATAAGAATTAGCTAGTTTACCAGCAGTTAGAGAAGTGGAGTTCTCTATAGACCT
66 ATGTATTTCCGA-AAGAATTATCTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCT
* **
52461800 TGTTCC-AGGGACAACACCGATATCCATAGCACCCTATAGAATGG-TTCCTACTAAATTGAAAGA
130 TGTTCCGA-GGACAACACCGATATCCATAGCA-CCTACAGAATGGCTT-CTACCGAATTGAAAGA
*
52461863 ATTGAAAGCATAGT
192 ATTGAAAGCACAGT
* * * *
52461877 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAATACTGGTTGTTTGTGAATTTCCTA
1 TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCGGTTGTTTGTGAATTTCCTA
* * * * * *
52461942 ATGTATTTTCAGAAA-AATTTTCTGGCTTACTACAAGTTAGAGAAGTAGAGTTCTCTATAGACCT
66 ATGTA-TTTCCGAAAGAATTATCTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCT
* * *
52462006 TGTT-CTAGGGACAACACCGATATCTATAGCAACCTACAGAATGGCTCCTACCGAATTGAAAGAA
130 TGTTCCGA-GGACAACACCGATATCCATAGC-ACCTACAGAATGGCTTCTACCGAATTGAAAGAA
52462070 TTGAAAGCACA
193 TTGAAAGCACA
52462081 ATTGCAAGAA
Statistics
Matches: 1034, Mismatches: 158, Indels: 65
0.82 0.13 0.05
Matches are distributed among these distances:
197 158 0.15
198 6 0.01
200 1 0.00
201 1 0.00
202 1 0.00
203 1 0.00
204 1 0.00
205 154 0.15
206 694 0.67
207 16 0.02
208 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (205 bp):
TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCGGTTGTTTGTGAATTTCCTA
ATGTATTTCCGAAAGAATTATCTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCTT
GTTCCGAGGACAACACCGATATCCATAGCACCTACAGAATGGCTTCTACCGAATTGAAAGAATTG
AAAGCACAGT
Found at i:52461877 original size:403 final size:400
Alignment explanation
Indices: 52460651--52462069 Score: 1552
Period size: 403 Copynumber: 3.5 Consensus size: 400
52460641 ATCTTGCATA
* * *
52460651 TGTTTTGGATACTAAATTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAACTTCCTG
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
* * * * * *
52460716 ATGTATTTCCGGAAGAATTACCTAGTTTACCACCGGCTAGAAAAGTGGAGTTCTCTATAGACCTT
66 ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
* * * **
52460781 GTTCTGAGGACAACACTGATATCCATAAC-ACCTACAAAATGAATTCTT-TC-GAATTGAAAGAA
131 GTTCCGAGGACAACACCGATATCCATAGCAACCTACAAAATG-GCTCTTATCAGAATTG--A-AA
* *
52460843 TTGAAAACATAGTTGTTTTGGATACTAAAGTATCTAAGTCT-AAGATTCAGTCAGTGC-CGATTA
192 --G--AAC--AGTTGTTTTGGATACTAAAGTATCTGAGT-TGAAGATTCAGTCA--GCACGATTG
* * * *
52460906 TTTGTTAATTTCTTAATGCATTTCCAGAAGAATTACTTGGTTTACCACCAGTTAGAGAAGTGGAG
248 TTTGTAAATTTCCTAATGTATTTCCAGAAGAATTAC-TAGTTTACCA-CAGTTAGAGAAGTGGAG
* ** * * * *
52460971 TTCTCTATAAACCTTGTTCCGAGGACAACAGTGATATCCATAACACCTTATAGACTAGCTT-CTA
311 TTCTCTATAGACCTTGTTCCGAGGACAACACCGATATCCATAGCACCCTATAGAAT-GGTTCCTA
* **
52461035 CCGAATTGAAAGAATTGAAAGCACGGT
375 -CAAATTGAAAGAATTGAAAGCATAGT
* * * **
52461062 TATTTTGGATACTAAAGTATCTGAGTCGAAGATTTAGTCAGTGCTGGTTGTTTGTGAATTTCCTA
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
* * * * * *
52461127 ATGTATTTCTGAAAAAAATATCTGGTTTACCACCAATTAGAGAAGT-GAAGTTTTCTATAGACCT
66 ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAG-AGTTCTCTATAGACCT
* * * *
52461191 TGTTCCGAGGACAACACCGATATCTATAGCAACCTACAGAATGGCTCCTCCTGAATTGAAATAAT
130 TGTTCCGAGGACAACACCGATATCCATAGCAACCTACAAAATGGCT-CT--T--A-T--CAGAAT
* ** * * *
52461256 TGAAAGCACAGTTGTTTTGGATACTAAAGTATCTGAGCCGAAGATTCAATCA-CTGTCGGTTGTT
187 TGAAAGAACAGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGATTCAGTCAGC--ACGATTGTT
* * * * * *
52461320 TCTAAATTTTCTGATGTATTTCCGGAAGAATTACTTGATTTGCCACTAGTTAGAGAAGTGGAGTT
250 TGTAAATTTCCTAATGTATTTCCAGAAGAATTACTAG-TTTACCAC-AGTTAGAGAAGTGGAGTT
* * * * **
52461385 CTCTATAGACCTTGTTTCGAGGACAACATCGATA-CTTATAGCACCCTACAGAATGGACCCTACA
313 CTCTATAGACCTTGTTCCGAGGACAACACCGATATC-CATAGCACCCTATAGAATGGTTCCTACA
*
52461449 GAATTGAAAGAATTGGAAGCATAGT
377 -AATTGAAAGAATTGAAAGCATAGT
* * * * *
52461474 TGTTTTGGATACTAAAGTATCTGAGTCAAAAATTCAGTCAGTGCCAGTTGTTTGTGAATTTCTTG
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
* *
52461539 ATGTATTTCCGGAAGAATTACCTGGTTTGCCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
66 ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
* *
52461604 ATTCCGGGGACAACACCGATATCCATAGC-ACCGTACAAAATGGCTCTTATCAG-ATTGAAAGAA
131 GTTCCGAGGACAACACCGATATCCATAGCAACC-TACAAAATGGCTCTTATCAGAATTGAAAGAA
* *
52461667 CAGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGTTTCAGTCAGCACAGATTGTTTGTGAATTT
195 CAGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGATTCAGTCAGCAC-GATTGTTTGTAAATTT
* *
52461732 CCTAATGTACTTCCATAAGAATTAGCTAGTTTACCAGCAGTTAGAGAAGTGGAGTTCTCTATAGA
259 CCTAATGTATTTCCAGAAGAATTA-CTAGTTTACCA-CAGTTAGAGAAGTGGAGTTCTCTATAGA
52461797 CCTTGTTCC-AGGGACAACACCGATATCCATAGCACCCTATAGAATGGTTCCTACTAAATTGAAA
322 CCTTGTTCCGA-GGACAACACCGATATCCATAGCACCCTATAGAATGGTTCCTAC-AAATTGAAA
52461861 GAATTGAAAGCATAGT
385 GAATTGAAAGCATAGT
* * **
52461877 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAATACTGGTTGTTTGTGAATTTCCTA
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
* * ** * * *
52461942 ATGTATTTTCAGAAAAATTTTCTGGCTTACTACAAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
66 ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
* * * * *
52462007 GTT-CTAGGGACAACACCGATATCTATAGCAACCTACAGAATGGCTCCTA-CCGAATTGAAAGAA
131 GTTCCGA-GGACAACACCGATATCCATAGCAACCTACAAAATGGCTCTTATCAGAATTGAAAGAA
52462070 TTGAAAGCAC
Statistics
Matches: 845, Mismatches: 130, Indels: 74
0.81 0.12 0.07
Matches are distributed among these distances:
402 5 0.01
403 340 0.40
404 11 0.01
406 1 0.00
407 1 0.00
409 2 0.00
410 1 0.00
411 146 0.17
412 324 0.38
413 1 0.00
414 3 0.00
416 1 0.00
418 3 0.00
419 1 0.00
421 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (400 bp):
TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
GTTCCGAGGACAACACCGATATCCATAGCAACCTACAAAATGGCTCTTATCAGAATTGAAAGAAC
AGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGATTCAGTCAGCACGATTGTTTGTAAATTTCC
TAATGTATTTCCAGAAGAATTACTAGTTTACCACAGTTAGAGAAGTGGAGTTCTCTATAGACCTT
GTTCCGAGGACAACACCGATATCCATAGCACCCTATAGAATGGTTCCTACAAATTGAAAGAATTG
AAAGCATAGT
Found at i:52465179 original size:46 final size:46
Alignment explanation
Indices: 52465107--52465224 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
52465097 GACAGGACAG
* * *
52465107 GACAGAAATGAGTCATGTAAGTCCATATCAGT-TATATGGCTTTGGA
1 GACAGGAATGAGTCATGTAAGCCCATATCA-TATATATGGCATTGGA
*
52465153 GACAGGAATGAG-CTATGTAAGCCCATATTATATATATGGCATTGGA
1 GACAGGAATGAGTC-ATGTAAGCCCATATCATATATATGGCATTGGA
* * *
52465199 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGTCATGTAAGCCCAT
52465225 GTCGATGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 2 0.03
46 59 0.95
47 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (46 bp):
GACAGGAATGAGTCATGTAAGCCCATATCATATATATGGCATTGGA
Found at i:52470015 original size:16 final size:16
Alignment explanation
Indices: 52469985--52470021 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
52469975 AATAATAATA
52469985 ATTAA-ATTATATTAT
1 ATTAATATTATATTAT
*
52470000 ATTAATATTATTTTAT
1 ATTAATATTATATTAT
52470016 ATTAAT
1 ATTAAT
52470022 TAATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAATATTATATTAT
Found at i:52470144 original size:13 final size:13
Alignment explanation
Indices: 52470130--52470180 Score: 77
Period size: 13 Copynumber: 3.9 Consensus size: 13
52470120 TTTAATAATA
52470130 AAATAAA-GAAAT
1 AAATAAATGAAAT
52470142 AAATAAATGAAAT
1 AAATAAATGAAAT
52470155 AAATAAATGAAAT
1 AAATAAATGAAAT
*
52470168 AAAAGAAATGAAA
1 -AAATAAATGAAA
52470181 AAGAAAAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 7 0.19
13 18 0.50
14 11 0.31
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.18
Consensus pattern (13 bp):
AAATAAATGAAAT
Found at i:52470147 original size:4 final size:4
Alignment explanation
Indices: 52470130--52470170 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
52470120 TTTAATAATA
*
52470130 AAAT AAAG AAAT AAAT AAAT GAAAT AAAT AAAT GAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT -AAAT AAA
52470171 AGAAATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 25 0.76
5 8 0.24
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:52470156 original size:9 final size:9
Alignment explanation
Indices: 52470130--52470176 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
52470120 TTTAATAATA
52470130 AAATAAA-G
1 AAATAAATG
52470138 AAATAAAT-
1 AAATAAATG
52470146 AAATGAAAT-
1 AAAT-AAATG
52470155 AAATAAATG
1 AAATAAATG
*
52470164 AAATAAAAG
1 AAATAAATG
52470173 AAAT
1 AAAT
52470177 GAAAAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
8 15 0.43
9 20 0.57
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (9 bp):
AAATAAATG
Found at i:52470228 original size:4 final size:4
Alignment explanation
Indices: 52470219--52470262 Score: 61
Period size: 4 Copynumber: 10.5 Consensus size: 4
52470209 AGAACAGGGG
*
52470219 AGAA AGAA AGGAA AGAA AGAA AGAA AGGGA AGAA AGAA AGAA AG
1 AGAA AGAA A-GAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA AG
52470263 GGAGAAAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 29 0.81
5 7 0.19
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:52470235 original size:13 final size:12
Alignment explanation
Indices: 52470219--52470262 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
52470209 AGAACAGGGG
52470219 AGAAAGAAAGGAA
1 AGAAAGAAA-GAA
52470232 AGAAAGAAAGAA
1 AGAAAGAAAGAA
*
52470244 AGGGAAGAAAGAA
1 A-GAAAGAAAGAA
52470257 AGAAAG
1 AGAAAG
52470263 GGAGAAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAGAA
Found at i:52470271 original size:17 final size:17
Alignment explanation
Indices: 52470219--52470269 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
52470209 AGAACAGGGG
*
52470219 AGAAAGAAAGGAAAGAA
1 AGAAAGAAAGGGAAGAA
52470236 AGAAAGAAAGGGAAGAA
1 AGAAAGAAAGGGAAGAA
52470253 AGAAAGAAAGGG-AGAA
1 AGAAAGAAAGGGAAGAA
52470269 A
1 A
52470270 AGGGAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 5 0.15
17 28 0.85
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGGAAGAA
Found at i:52472525 original size:21 final size:20
Alignment explanation
Indices: 52472495--52472533 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
52472485 GCATTAAAAG
*
52472495 ATCAAGAAATGATAATTGATT
1 ATCAAAAAAT-ATAATTGATT
*
52472516 ATCAAAAAATATATTTGA
1 ATCAAAAAATATAATTGA
52472534 AATCAAAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
ATCAAAAAATATAATTGATT
Found at i:52472666 original size:204 final size:204
Alignment explanation
Indices: 52472316--52472723 Score: 807
Period size: 204 Copynumber: 2.0 Consensus size: 204
52472306 AATGATAGTG
52472316 AAAAATATATTTGAAATCAAAGGTTTTCTAAAACTAGTCGGTTATTACAGAAAGATGTGGAATTG
1 AAAAATATATTTGAAATCAAAGGTTTTCTAAAACTAGTCGGTTATTACAGAAAGATGTGGAATTG
52472381 GAATGATCTGATAGACGTTAGCAAGGTTCTGATTAGTTGAAAGCTTAGTTAACTAAAGCATTTGT
66 GAATGATCTGATAGACGTTAGCAAGGTTCTGATTAGTTGAAAGCTTAGTTAACTAAAGCATTTGT
52472446 TCTGGTTTAGTCTGAAATCCAGTCAAGCTTAATGTTCTTGCATTAAAAGATCAAGAAATGATAAT
131 TCTGGTTTAGTCTGAAATCCAGTCAAGCTTAATGTTCTTGCATTAAAAGATCAAGAAATGATAAT
52472511 TGATTATCA
196 TGATTATCA
52472520 AAAAATATATTTGAAATCAAAGGTTTTCTAAAACTAGTCGGTTATTACAGAAAGATGTGGAATTG
1 AAAAATATATTTGAAATCAAAGGTTTTCTAAAACTAGTCGGTTATTACAGAAAGATGTGGAATTG
*
52472585 GAATGATCTGATAGACGTTAGCAAGGTTCTGATTAGTTGAAAGCTTAGTTAACTGAAGCATTTGT
66 GAATGATCTGATAGACGTTAGCAAGGTTCTGATTAGTTGAAAGCTTAGTTAACTAAAGCATTTGT
52472650 TCTGGTTTAGTCTGAAATCCAGTCAAGCTTAATGTTCTTGCATTAAAAGATCAAGAAATGATAAT
131 TCTGGTTTAGTCTGAAATCCAGTCAAGCTTAATGTTCTTGCATTAAAAGATCAAGAAATGATAAT
52472715 TGATTATCA
196 TGATTATCA
52472724 TCCGGAAAAG
Statistics
Matches: 203, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 203 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (204 bp):
AAAAATATATTTGAAATCAAAGGTTTTCTAAAACTAGTCGGTTATTACAGAAAGATGTGGAATTG
GAATGATCTGATAGACGTTAGCAAGGTTCTGATTAGTTGAAAGCTTAGTTAACTAAAGCATTTGT
TCTGGTTTAGTCTGAAATCCAGTCAAGCTTAATGTTCTTGCATTAAAAGATCAAGAAATGATAAT
TGATTATCA
Found at i:52483028 original size:21 final size:22
Alignment explanation
Indices: 52482988--52483029 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
52482978 AAAATTAATT
*
52482988 CCACATGGGCGTGTTGCCCCTC
1 CCACACGGGCGTGTTGCCCCTC
52483010 CCACACGGGCGTG-TGCCCCT
1 CCACACGGGCGTGTTGCCCCT
52483030 GTGTTAGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.43, G:0.29, T:0.19
Consensus pattern (22 bp):
CCACACGGGCGTGTTGCCCCTC
Found at i:52487576 original size:19 final size:19
Alignment explanation
Indices: 52487552--52487591 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
52487542 GCACTACTCG
52487552 AAATTGCCTCAACAATTCT
1 AAATTGCCTCAACAATTCT
52487571 AAATTGCCTCAACAATTCT
1 AAATTGCCTCAACAATTCT
52487590 AA
1 AA
52487592 TATTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATTGCCTCAACAATTCT
Found at i:52490539 original size:11 final size:11
Alignment explanation
Indices: 52490523--52490553 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
52490513 AGGTATGAGT
52490523 AGGTATGGGAA
1 AGGTATGGGAA
*
52490534 AGGTATGGGCA
1 AGGTATGGGAA
52490545 AGGTATGGG
1 AGGTATGGG
52490554 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:52494255 original size:89 final size:89
Alignment explanation
Indices: 52494150--52494329 Score: 360
Period size: 89 Copynumber: 2.0 Consensus size: 89
52494140 ATAATGCCTT
52494150 GTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTCTACTAAAATTTTATTGAATGAGTTTA
1 GTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTCTACTAAAATTTTATTGAATGAGTTTA
52494215 CATGGTCATTCATCGACATACTGG
66 CATGGTCATTCATCGACATACTGG
52494239 GTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTCTACTAAAATTTTATTGAATGAGTTTA
1 GTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTCTACTAAAATTTTATTGAATGAGTTTA
52494304 CATGGTCATTCATCGACATACTGG
66 CATGGTCATTCATCGACATACTGG
52494328 GT
1 GT
52494330 GCATACGTGA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (89 bp):
GTCTTCATCTTCAAATTTCTCATCCAAATTTAGCAAGTCTACTAAAATTTTATTGAATGAGTTTA
CATGGTCATTCATCGACATACTGG
Found at i:52494737 original size:18 final size:18
Alignment explanation
Indices: 52494714--52494752 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
52494704 CCCAACTACT
52494714 GTATACGTGAACAGTACC
1 GTATACGTGAACAGTACC
*
52494732 GTATACGTGAATAGTACC
1 GTATACGTGAACAGTACC
52494750 GTA
1 GTA
52494753 AACGGTCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATACGTGAACAGTACC
Found at i:52496499 original size:3 final size:3
Alignment explanation
Indices: 52496491--52496518 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
52496481 TGTATTATAG
52496491 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
52496519 CATTTTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:52521079 original size:27 final size:27
Alignment explanation
Indices: 52521039--52521092 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
52521029 TGTCATGTGA
* *
52521039 AATTGAATGGTAAATTATTGTTACATG
1 AATTGAATGGTAAATTACTATTACATG
*
52521066 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGTAAATTACTATTACATG
52521093 GGTTGGATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (27 bp):
AATTGAATGGTAAATTACTATTACATG
Found at i:52525999 original size:47 final size:47
Alignment explanation
Indices: 52525830--52526000 Score: 203
Period size: 47 Copynumber: 3.7 Consensus size: 47
52525820 TACACCTGCT
* *
52525830 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTAGTC
* * *
52525874 GATGCGTGTCCCAGACACGTCTTACACTGG--CT-ATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT--A-GTC
*
52525921 AATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTAGTC
52525967 GATGCCATGTCCCAGACATGTCTTACACTGGCAC
1 GATG-CATGTCCCAGACATGTCTTACACTGGCAC
52526001 ACAAATCACC
Statistics
Matches: 107, Mismatches: 10, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
43 5 0.05
44 28 0.26
46 6 0.06
47 58 0.54
49 2 0.02
50 8 0.07
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTAGTC
Found at i:52526014 original size:91 final size:89
Alignment explanation
Indices: 52525780--52526016 Score: 246
Period size: 91 Copynumber: 2.6 Consensus size: 89
52525770 ATATATTGCT
* * *
52525780 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATACACCTGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCACTCATAT-CACC--C-AATGCATGTCCCAGA
52525845 CATGTCTTACACTAGCACAACTCTTAGTC
61 CATGTCTTACACTAGCACAACTCTTAGTC
* * * *
52525874 GATG-CGTGTCCCAGACACGTCTTACACTGGCTATCTC-TGTCGAGGCCAATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-A-CTCATATC-A-CCCAATGCATGTCCCAGAC
* *
52525937 ATGTCTTACACTGGCACTCATCTCTGT-GTC
62 ATGTCTTACACTAGCA--CAACTCT-TAGTC
* *
52525967 GATGCCATGTCCCAGACATGTCTTACACTGGCACACAAATCACCCAATGC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCACTCATATCACCCAATGC
52526017 CTTGGCATGA
Statistics
Matches: 119, Mismatches: 15, Indels: 21
0.77 0.10 0.14
Matches are distributed among these distances:
91 37 0.31
92 18 0.15
93 30 0.25
94 34 0.29
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (89 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCACTCATATCACCCAATGCATGTCCCAGACATGT
CTTACACTAGCACAACTCTTAGTC
Found at i:52531390 original size:18 final size:18
Alignment explanation
Indices: 52531338--52531391 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
52531328 AGATTAAGAG
*
52531338 AGAAAAATAAATAAATAG
1 AGAAAAATAAATAAATAA
* **
52531356 TG-AAAGGAAATAAATAA
1 AGAAAAATAAATAAATAA
*
52531373 AGAAAAATAAATTAATAA
1 AGAAAAATAAATAAATAA
52531391 A
1 A
52531392 TCAATCAAGA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (18 bp):
AGAAAAATAAATAAATAA
Found at i:52538297 original size:46 final size:46
Alignment explanation
Indices: 52538243--52538412 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
52538233 ATATGTGTGT
* * *
52538243 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAGAGC
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATAAGAGC
* * ** *
52538289 CAGTGTAAGACATGTCTAGGACATGCATCAG-CATTGAGATAAGAGA
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCCA-CAAGATAAGAGC
* * *
52538335 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGC
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATA-A-GAGC
*
52538383 TAGTGTAAGACTTGTCTAGGACATGGCATC
1 TAGTGTAAGACATGTCTAGGACAT-GCATC
52538413 AGCTTGTTAT
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
45 2 0.02
46 68 0.67
47 2 0.02
48 24 0.24
49 5 0.05
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATAAGAGC
Found at i:52538432 original size:92 final size:90
Alignment explanation
Indices: 52538238--52538457 Score: 255
Period size: 92 Copynumber: 2.4 Consensus size: 90
52538228 GGGTGATATG
*
52538238 TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAGAGCCAGTGTAAGACATG
1 TGTG-TAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAAAGCCAGTGTAAGACATG
52538303 TCTAGGACATGCATCAGCATTGAGATA
65 TCTAGGACATGCATCAGCATT-AGATA
* * * * * * *
52538330 AGAGATAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCTAGTGTAAGACT
1 TGTG-TAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACAT-GA-AAGCCAGTGTAAGACA
*
52538395 TGTCTAGGACATGGCATCAGC-TT-GTTA
63 TGTCTAGGACAT-GCATCAGCATTAGATA
* *
52538422 TGTGTCAGTGTAAGACCTGTCTCGGACATGGCATCG
1 TGTGT-AGTGTAAGACATGTCTGGGACAT-GCATCG
52538458 ACACCGATAG
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
91 1 0.01
92 66 0.61
93 7 0.06
94 27 0.25
95 8 0.07
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (90 bp):
TGTGTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAAAGCCAGTGTAAGACATGT
CTAGGACATGCATCAGCATTAGATA
Found at i:52538532 original size:49 final size:48
Alignment explanation
Indices: 52538289--52538558 Score: 172
Period size: 49 Copynumber: 5.7 Consensus size: 48
52538279 ACATGAGAGC
* * *
52538289 CAGTGTAAGACATGTCTAGGACAT-GCATCAG---CATTGAGATAAGAGAT
1 CAGTGTAAGACCTGTCTAGGACATGGCATC-GCCTCATT-ATATAAAAG-T
* * ** *
52538336 -AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATATACAAG-
1 CAGTGTAAGACCTGTCTAGGACATGGCATC-GCCTCATTATATAAAAGT
* ** *
52538382 CTAGTGTAAGACTTGTCTAGGACATGGCATCAG-CTTGTTATGT----GT
1 C-AGTGTAAGACCTGTCTAGGACATGGCATC-GCCTCATTATATAAAAGT
* * * * *
52538427 CAGTGTAAGACCTGTCTCGGACATGGCATCGACAC-CGA-TAGATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCG-C-CTC-ATTATATAAAAGT
* * *
52538476 CAATGTAAGACCTATCTGGGACATGGCATCAGCCTCATTATATAAAAGT
1 CAGTGTAAGACCTGTCTAGGACATGGCATC-GCCTCATTATATAAAAGT
52538525 CAGTGTAAGACCTGTCTAGGACATGGCATCGCCT
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGCCT
52538559 TGATGTGTTA
Statistics
Matches: 173, Mismatches: 32, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 4 0.02
46 29 0.17
48 38 0.22
49 72 0.42
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCGCCTCATTATATAAAAGT
Found at i:52538533 original size:142 final size:143
Alignment explanation
Indices: 52538338--52538597 Score: 352
Period size: 142 Copynumber: 1.8 Consensus size: 143
52538328 TAAGAGATAG
* * * *
52538338 TGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCTAGTGTAAGACTTGTCTAGG
1 TGTAAGACATATCTGGGACATGCATCAGCCTCAAGATATAAAAGCTAGTGTAAGACCTGTCTAGG
52538403 ACATGGCATCAG-CTTGTTATGTG-T-C-AGTGTAAGACC-TGTCTCGGACATGGCATCGACACC
66 ACATGGCATC-GCCTTG--ATGTGTTACTAGTGTAAGACCATGTCTCGGACATGGCATCGACACC
52538463 GATAGATGAGAGCCAA
128 GATAGATGAGAGCCAA
* **
52538479 TGTAAGACCTATCTGGGACATGGCATCAGCCTCATTATATAAAAG-TCAGTGTAAGACCTGTCTA
1 TGTAAGACATATCTGGGACAT-GCATCAGCCTCAAGATATAAAAGCT-AGTGTAAGACCTGTCTA
*
52538543 GGACATGGCATCGCCTTGATGTGTTAGCTAGTGTAAGACCATGTCTGGGACATGG
64 GGACATGGCATCGCCTTGATGTGTTA-CTAGTGTAAGACCATGTCTCGGACATGG
52538598 TATCAGCGTC
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
140 5 0.05
141 22 0.21
142 51 0.50
143 1 0.01
144 11 0.11
145 13 0.13
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (143 bp):
TGTAAGACATATCTGGGACATGCATCAGCCTCAAGATATAAAAGCTAGTGTAAGACCTGTCTAGG
ACATGGCATCGCCTTGATGTGTTACTAGTGTAAGACCATGTCTCGGACATGGCATCGACACCGAT
AGATGAGAGCCAA
Found at i:52542997 original size:50 final size:50
Alignment explanation
Indices: 52542917--52543046 Score: 206
Period size: 50 Copynumber: 2.6 Consensus size: 50
52542907 AAGAGTGGGA
* *
52542917 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAG
1 TGCCAATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCAG
* *
52542967 TGCCAATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGG
1 TGCCAATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCAG
* *
52543017 TGTCAATGCCATGTTCCATACATGGTCTTA
1 TGCCAATGCCATGTTCCAGACATGGTCTTA
52543047 ACCGATGCCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (50 bp):
TGCCAATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCAG
Found at i:52543103 original size:79 final size:79
Alignment explanation
Indices: 52542972--52543125 Score: 299
Period size: 79 Copynumber: 1.9 Consensus size: 79
52542962 ATCAGTGCCA
*
52542972 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCATA
1 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCAGA
52543037 CATGGTCTTAACCG
66 CATGGTCTTAACCG
52543051 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCAGA
1 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCAGA
52543116 CATGGTCTTA
66 CATGGTCTTA
52543126 CACCAGCTCT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (79 bp):
ATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCAGA
CATGGTCTTAACCG
Found at i:52543126 original size:50 final size:49
Alignment explanation
Indices: 52543049--52543238 Score: 249
Period size: 50 Copynumber: 3.9 Consensus size: 49
52543039 TGGTCTTAAC
*
52543049 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGGTG
1 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
* *
52543098 TCAATGCCATGTTCCAGACATGGTCTTACACCAGCTCTCATATATCGGTG
1 -CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
* * *
52543148 CTGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCAT-TAT-GATG
1 C-GATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
* * * *
52543196 CCGATGCCATGTTCCAAACATGGTCTTGCACTGGCTCACATAT
1 -CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAT
52543239 TACCCTAGTA
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
48 36 0.29
49 6 0.05
50 81 0.66
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (49 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
Found at i:52543155 original size:129 final size:129
Alignment explanation
Indices: 52542919--52543171 Score: 409
Period size: 129 Copynumber: 2.0 Consensus size: 129
52542909 GAGTGGGATG
52542919 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATGCCATGTTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATGCCATGTTCC
** * *
52542984 AGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCATACATGGTCTTAA
66 AGACATGGTCTTACACCAGCTCTCATATATCGGTGTCAATGCCATGTCCCAGACATGGTCTTAA
* * * *
52543048 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATGCCATGTTCC
*
52543113 AGACATGGTCTTACACCAGCTCTCATATATCGGTG-CTGATGCCATGTCCCAGACATGGT
66 AGACATGGTCTTACACCAGCTCTCATATATCGGTGTC-AATGCCATGTCCCAGACATGGT
52543172 TTTACACTAG
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
128 1 0.01
129 113 0.99
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (129 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATGCCATGTTCC
AGACATGGTCTTACACCAGCTCTCATATATCGGTGTCAATGCCATGTCCCAGACATGGTCTTAA
Found at i:52555670 original size:46 final size:45
Alignment explanation
Indices: 52555578--52555791 Score: 134
Period size: 46 Copynumber: 4.6 Consensus size: 45
52555568 ACATCGACAC
* * * *
52555578 CATGTCCCAGACATGGTCTTACACT-GAC-ACATCTCGTAG-CCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTTCGTCTC-AAGACCAATG
* * * *
52555623 CATGTCCCAGGCGTGTCTTACACTAGCTTACGTCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-CGTCTCAAGACCAATG
** * * *
52555669 CATGTCTTAGACATGTCTTACACTAGCACTCGTCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TTCGTCTCAAGACCAATG
* * *
52555715 CCATGTCCCAGACATGGTCTTACACTAGC-TC-TCAT-AATGTGGCCGATA
1 -CATGTCCCAGACAT-GTCTTACACTAGCTTCGTC-TCAA---GACCAATG
*
52555763 CATGTCCAAGACATGTCTTACACTAGCTT
1 CATGTCCCAGACATGTCTTACACTAGCTT
52555792 ACACAAGTGA
Statistics
Matches: 136, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.08
45 19 0.14
46 61 0.45
47 27 0.20
48 18 0.13
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCGTCTCAAGACCAATG
Found at i:52557774 original size:85 final size:85
Alignment explanation
Indices: 52557631--52557809 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
52557621 GGCCGGCCAT
52557631 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
52557696 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
52557716 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
52557781 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
52557801 GGGCATGGG
1 GAGCATGGG
52557810 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:52559135 original size:47 final size:47
Alignment explanation
Indices: 52559081--52559674 Score: 849
Period size: 47 Copynumber: 12.6 Consensus size: 47
52559071 TATTTGAATA
* * *
52559081 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
52559128 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
52559175 GATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52559222 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
52559271 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
52559318 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52559367 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52559414 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52559461 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGAT-
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52559507 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
52559554 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
52559601 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
52559648 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
52559675 TCCCGAAGGG
Statistics
Matches: 516, Mismatches: 24, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
46 47 0.09
47 376 0.73
49 92 0.18
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:52559549 original size:24 final size:24
Alignment explanation
Indices: 52559476--52559550 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
52559466 GAACATGTGT
52559476 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * *
52559500 A--TGTGATAATG-TGAACATGTG--T
1 ATGTGTGATAAGGCCG-A-ATG-GCCA
52559522 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
52559546 ATGTG
1 ATGTG
52559551 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
21 1 0.03
22 12 0.32
23 6 0.16
24 17 0.46
25 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.27
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:52569683 original size:29 final size:28
Alignment explanation
Indices: 52569642--52569697 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
52569632 TTTAAATTTA
52569642 AAAAATAAAAAGACTAAATTCTTAAAAAT
1 AAAAATAAAAAGACTAAATT-TTAAAAAT
** *
52569671 AAAAATATGAAGATTAAATTTTAAAAA
1 AAAAATAAAAAGACTAAATTTTAAAAA
52569698 GGCAAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAAATAAAAAGACTAAATTTTAAAAAT
Found at i:52577951 original size:47 final size:47
Alignment explanation
Indices: 52577882--52577976 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
52577872 TGTGAGTTAT
*
52577882 GTGCAGATGATCACTTTGATGCCTCGATAGATCGCATGGATTATAAC
1 GTGCAGATGATCACTTTGATGCCTCGATAGATAGCATGGATTATAAC
*
52577929 GTGCAGATGATCACTTTGATGCCTGGATAGATAGCATGGATTATAAC
1 GTGCAGATGATCACTTTGATGCCTCGATAGATAGCATGGATTATAAC
52577976 G
1 G
52577977 GATCTAAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (47 bp):
GTGCAGATGATCACTTTGATGCCTCGATAGATAGCATGGATTATAAC
Found at i:52583393 original size:29 final size:29
Alignment explanation
Indices: 52583360--52583415 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
52583350 TAGTTTGTAT
*
52583360 TGTAACTGTGTTTGTCTGTTCTTATCTAG
1 TGTAACTATGTTTGTCTGTTCTTATCTAG
*
52583389 TGTAACTATGTTTGTCTTTTCTTATCT
1 TGTAACTATGTTTGTCTGTTCTTATCT
52583416 TCTTTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.55
Consensus pattern (29 bp):
TGTAACTATGTTTGTCTGTTCTTATCTAG
Found at i:52588675 original size:19 final size:19
Alignment explanation
Indices: 52588639--52588677 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
52588629 CCTATATCTC
* * *
52588639 AAATATATACAAATCTCAT
1 AAATAAATAAAAAACTCAT
52588658 AAATAAATAAAAAACTCAT
1 AAATAAATAAAAAACTCAT
52588677 A
1 A
52588678 TATTAAAAAA
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:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAATAAAAAACTCAT
Found at i:52596385 original size:26 final size:26
Alignment explanation
Indices: 52596352--52596403 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
52596342 AGTAATAACA
52596352 TTTTTTGAA-ATAATATGTTGACTTTT
1 TTTTTTGAACA-AATATGTTGACTTTT
*
52596378 TTTTTTGAACGAAATATGTTGGCTTT
1 TTTTTTGAAC-AAATATGTTGACTTT
52596404 ATTAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 13 0.57
28 1 0.04
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (26 bp):
TTTTTTGAACAAATATGTTGACTTTT
Found at i:52597493 original size:15 final size:15
Alignment explanation
Indices: 52597473--52597505 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
52597463 AATCCTTTAA
52597473 AAATTA-TAAAAATAT
1 AAATTATTAAAAAT-T
52597488 AAATTATTAAAAATT
1 AAATTATTAAAAATT
52597503 AAA
1 AAA
52597506 ATTCAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATTAAAAATT
Found at i:52602306 original size:24 final size:25
Alignment explanation
Indices: 52602274--52602323 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
52602264 AAAATATTTT
*
52602274 AATATTTATATTAATA-TAAATAAA
1 AATAATTATATTAATATTAAATAAA
52602298 AATAATTATATTAATATTAAATAAA
1 AATAATTATATTAATATTAAATAAA
52602323 A
1 A
52602324 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATAATTATATTAATATTAAATAAA
Found at i:52602826 original size:38 final size:38
Alignment explanation
Indices: 52602771--52602855 Score: 163
Period size: 38 Copynumber: 2.3 Consensus size: 38
52602761 CTGACTGGAC
52602771 TAGA-CTTGACAGTATATCAGATAGGAACCAAGAAAAA
1 TAGATCTTGACAGTATATCAGATAGGAACCAAGAAAAA
52602808 TAGATCTTGACAGTATATCAGATAGGAACCAAGAAAAA
1 TAGATCTTGACAGTATATCAGATAGGAACCAAGAAAAA
52602846 TAGATCTTGA
1 TAGATCTTGA
52602856 ATCTGTTTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.09
38 43 0.91
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (38 bp):
TAGATCTTGACAGTATATCAGATAGGAACCAAGAAAAA
Found at i:52603653 original size:58 final size:57
Alignment explanation
Indices: 52603533--52603650 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 57
52603523 AAAGAAGGTG
* * *
52603533 AAATGGAGAAATAAGAAACATTTGGAAATGATTAAGGTTTTATCCAAAATGAAAATGA
1 AAATGGAGAAAT-AGAAACATTTGGAAATAAATAAGATTTTATCCAAAATGAAAATGA
** *
52603591 AAATGGAGAAAT-GAAATCATTTGGAAATAAATGTGATTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGGAAATAAATAAGATTTTATCCAAAATGAAAATGA
52603648 AAA
1 AAA
52603651 ATGAAATTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 4 0.08
57 37 0.70
58 12 0.23
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (57 bp):
AAATGGAGAAATAGAAACATTTGGAAATAAATAAGATTTTATCCAAAATGAAAATGA
Found at i:52604571 original size:28 final size:28
Alignment explanation
Indices: 52604515--52604567 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
52604505 ATTTTTCCAA
* *
52604515 CCCCTCCCCCATCCCTCCCCTCTCCTCC
1 CCCCACCCCCATCCATCCCCTCTCCTCC
*
52604543 CCCCACCCCCAT-CATCCCCTTTCCT
1 CCCCACCCCCATCCATCCCCTCTCCT
52604568 TCCCTCTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.08, C:0.70, G:0.00, T:0.23
Consensus pattern (28 bp):
CCCCACCCCCATCCATCCCCTCTCCTCC
Found at i:52605765 original size:22 final size:22
Alignment explanation
Indices: 52605753--52605794 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
52605743 AAATATATAT
*
52605753 TTTCTTTTTTAAATATATAAGC
1 TTTCCTTTTTAAATATATAAGC
52605775 TTTCCTTTTTAAATATATAA
1 TTTCCTTTTTAAATATATAA
52605795 TATGACCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTCCTTTTTAAATATATAAGC
Found at i:52605768 original size:20 final size:21
Alignment explanation
Indices: 52605743--52605793 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
52605733 AGAAAGTTAA
* *
52605743 AAATATATA-TTTTCTTTTTT
1 AAATATATAGCTTTCCTTTTT
52605763 AAATATATAAGCTTTCCTTTTT
1 AAATATAT-AGCTTTCCTTTTT
52605785 AAATATATA
1 AAATATATA
52605794 ATATGACCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 2 0.07
22 17 0.63
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (21 bp):
AAATATATAGCTTTCCTTTTT
Found at i:52607743 original size:21 final size:21
Alignment explanation
Indices: 52607719--52607759 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52607709 TTATGTTTAA
*
52607719 TAGATATGTGTAAAAAAAATT
1 TAGATATGTCTAAAAAAAATT
* *
52607740 TAGATTTTTCTAAAAAAAAT
1 TAGATATGTCTAAAAAAAAT
52607760 ACTATTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (21 bp):
TAGATATGTCTAAAAAAAATT
Found at i:52608847 original size:12 final size:12
Alignment explanation
Indices: 52608830--52608863 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
52608820 TATTCAACAA
52608830 GTTCACCTCTGG
1 GTTCACCTCTGG
52608842 GTTCACCTCTGG
1 GTTCACCTCTGG
52608854 GTTCACCTCT
1 GTTCACCTCT
52608864 TTGTCACAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.35, G:0.21, T:0.35
Consensus pattern (12 bp):
GTTCACCTCTGG
Found at i:52609667 original size:9 final size:9
Alignment explanation
Indices: 52609653--52609677 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
52609643 ATAAGTATAA
52609653 AAATTAACC
1 AAATTAACC
52609662 AAATTAACC
1 AAATTAACC
52609671 AAATTAA
1 AAATTAA
52609678 AGTATTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATTAACC
Found at i:52614141 original size:14 final size:14
Alignment explanation
Indices: 52614118--52614156 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
52614108 TGTTACTATG
*
52614118 TTTTAGTTTTAGAC
1 TTTTACTTTTAGAC
*
52614132 TTTTACTTTTAGAT
1 TTTTACTTTTAGAC
*
52614146 TTTTATTTTTA
1 TTTTACTTTTA
52614157 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (14 bp):
TTTTACTTTTAGAC
Found at i:52614208 original size:18 final size:18
Alignment explanation
Indices: 52614185--52614222 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
52614175 ATTTTTATGA
*
52614185 TTGGGTTGGTTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
52614203 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
52614221 TT
1 TT
52614223 TGTATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.03, G:0.45, T:0.45
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:52615519 original size:30 final size:30
Alignment explanation
Indices: 52615461--52615519 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
52615451 TTTACGAGCC
* *
52615461 TAGGGGCCAAAATGCAAATATGTGAAAGTT
1 TAGGGGCCAAAATACAAATATGTAAAAGTT
* * *
52615491 TAGGGGTCAAAATATAAATTTGTAAAAGT
1 TAGGGGCCAAAATACAAATATGTAAAAGT
52615520 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (30 bp):
TAGGGGCCAAAATACAAATATGTAAAAGTT
Found at i:52616306 original size:50 final size:50
Alignment explanation
Indices: 52616134--52616518 Score: 307
Period size: 50 Copynumber: 7.7 Consensus size: 50
52616124 ATTTGTTGTG
* * *
52616134 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATA
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTA
* * * * * * ** * **
52616184 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCATAGCCA-TTAACTT-
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CCAGAT-GGTTA
* * *
52616234 CGATCACGTGTGTAGTACTAAGTATAGGCTACTACGTGTATCAGATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTA
* * *
52616285 AGTCACGTGTGTAGTACTAAGTG-CGGACTACTACGTGTACCAGATTGAT-
1 AGTCACGTGTGTAGTACTAAGTGTAGG-CTACTACGTGTACCAGATGGTTA
* * ** * * * **
52616334 AGTTCGCATGTGTAGTACTAAGTACAGGCTACTATGCT-TACCCGTTAACTT-
1 AG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACG-TGTACCAGAT-GGTTA
* * *
52616385 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTA
1 AG-TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTA
52616436 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGG-TA
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGA-TGGTTA
* *** *
52616486 GGTCGTATGTGTAGTACTAAGTGCAGGCTACTA
1 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTA
52616519 TGCATACCAG
Statistics
Matches: 261, Mismatches: 61, Indels: 26
0.75 0.18 0.07
Matches are distributed among these distances:
49 4 0.02
50 181 0.69
51 76 0.29
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTA
Found at i:52616316 original size:101 final size:101
Alignment explanation
Indices: 52616136--52616524 Score: 278
Period size: 101 Copynumber: 3.9 Consensus size: 101
52616126 TTGTTGTGAG
* * * *
52616136 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAGTAC
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATGGATAAGTCACATGTATAGTAC
52616201 TAAGTGCAGGCTACTATGCATAGCCATTAACTTCGA
66 TAAGTGCAGGCTACTATGCATAGCCATTAACTTCGA
* * * * *
52616237 TCACGTGTGTAGTACTAAGTATAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATGGATAAGTCACATGTATAGTAC
* ** *
52616302 TAAGTGC-GGACTACTACGTGTA-CCAGATTGATAGTTCG-
66 TAAGTGCAGG-CTACTATGCATAGCC--ATT-A-ACTTCGA
* * ** ** * *
52616340 -CA--TGTGTAGTACTAAGTACAGGCTACTATGCT-TACCCG-TTAACTTCGATCACGTGTGTAG
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACG-TGTACCAGATGGA-TAAG-TCACATGTATAG
* * ** * * * ** *
52616400 TACTAAGTGTAGGCTACTACGTGTATCAAAT-GGTT-AA
63 TACTAAGTGCAGGCTACTATGCATAGCCATTAACTTCGA
** * ** *
52616437 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGG-TAGGTCGTATGTGTAGT
1 -TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGA-TGGATAAGTCACATGTATAGT
52616501 ACTAAGTGCAGGCTACTATGCATA
64 ACTAAGTGCAGGCTACTATGCATA
52616525 CCAGAGAGCT
Statistics
Matches: 228, Mismatches: 42, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
97 3 0.01
99 3 0.01
100 69 0.30
101 138 0.61
102 8 0.04
103 2 0.01
104 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATGGATAAGTCACATGTATAGTAC
TAAGTGCAGGCTACTATGCATAGCCATTAACTTCGA
Found at i:52616413 original size:151 final size:150
Alignment explanation
Indices: 52616134--52616526 Score: 660
Period size: 151 Copynumber: 2.6 Consensus size: 150
52616124 ATTTGTTGTG
*
52616134 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAGT
1 AGTCACGTGTGTAGTACTAAGTGC-GGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
52616199 ACTAAGTGCAGGCTACTATGCATAGCCATTAACTTCGATCACGTGTGTAGTACTAAGTATAGGCT
65 ACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTAAGTATAGGCT
*
52616264 ACTACGTGTATCAGATGGTTA
130 ACTACGTGTATCAAATGGTTA
*
52616285 AGTCACGTGTGTAGTACTAAGTGCGGACTACTACGTGTACCAGATTGATAGTTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCGG-CTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * * *
52616350 ACTAAGTACAGGCTACTATGCTTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
65 ACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTAAGTATAGGCT
52616415 ACTACGTGTATCAAATGGTTA
130 ACTACGTGTATCAAATGGTTA
* * *
52616436 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGGTAGGTCGTATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTG-CGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
52616501 ACTAAGTGCAGGCTACTATGCATACC
65 ACTAAGTGCAGGCTACTATGCATACC
52616527 AGAGAGCTTC
Statistics
Matches: 226, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
150 2 0.01
151 222 0.98
152 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (150 bp):
AGTCACGTGTGTAGTACTAAGTGCGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTAAGTATAGGCTA
CTACGTGTATCAAATGGTTA
Found at i:52619668 original size:20 final size:20
Alignment explanation
Indices: 52619643--52619694 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
52619633 GAGGCAAAGC
*
52619643 ACACGCCCGTGTGCTTGGGG
1 ACACGCCCGTGTGCTTAGGG
*
52619663 ACACGCCTGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
*
52619683 ACACACCCGTGT
1 ACACGCCCGTGT
52619695 CCCTCACCCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTAGGG
Found at i:52619803 original size:28 final size:29
Alignment explanation
Indices: 52619751--52619805 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
52619741 TACAGGGGTT
*
52619751 TTCACATGGCCAAGCACACGCCCGTGTCC
1 TTCACACGGCCAAGCACACGCCCGTGTCC
*
52619780 TTCACACGGCCTAG-ACACGCCCGTGT
1 TTCACACGGCCAAGCACACGCCCGTGT
52619806 TGTCGCTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.20, C:0.40, G:0.22, T:0.18
Consensus pattern (29 bp):
TTCACACGGCCAAGCACACGCCCGTGTCC
Done.