Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 32 of 33
Found at i:4678289 original size:52 final size:51
Alignment explanation
Indices: 4678157--4678296 Score: 210
Period size: 52 Copynumber: 2.7 Consensus size: 51
4678147 AAAAGTTACT
4678157 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
* *
4678209 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGCC
*
4678261 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATTA-AT-AGTGTATCGATACA
4678297 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:4678377 original size:20 final size:20
Alignment explanation
Indices: 4678348--4678405 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
4678338 GCAGTAGCTT
4678348 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
4678367 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
4678387 TTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
4678406 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:4679408 original size:49 final size:49
Alignment explanation
Indices: 4679299--4679913 Score: 794
Period size: 49 Copynumber: 12.6 Consensus size: 49
4679289 GTCAATGTGT
* *
4679299 TGATTCAAGGCTAGCTACATTGAACTTAAAGATGAAAAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATATGC
* *
4679351 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
4679400 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * *
4679449 TGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATAC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * * *
4679498 TGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * *
4679547 TGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
4679596 TGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * * *
4679645 TGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
4679694 TGAGTCAAGGCTAGCTACATTGGATTTAAAGATGGAAAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGC
* *
4679746 TGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
4679789 TGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
4679837 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
4679886 TGATTCAAGGCCAGCTATATTGGGCTTA
1 TGATTCAAGGCCAGCTACATTGGACTTA
4679914 GAAGGGTTGC
Statistics
Matches: 497, Mismatches: 56, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
43 40 0.08
48 48 0.10
49 341 0.69
50 1 0.00
52 67 0.13
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
Found at i:4679515 original size:147 final size:147
Alignment explanation
Indices: 4679282--4679913 Score: 918
Period size: 147 Copynumber: 4.3 Consensus size: 147
4679272 AAGATGAGAA
* * * *
4679282 AAAGGATGTCAATGTGTTGATTCAAGGCTAGCTACATTGAACTTAAAGATGAAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
*
4679347 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATATGCTGAGTCAAGGCC
62 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCC
4679412 AGCTACATTGGACTTAAAGAT
127 AGCTACATTGGACTTAAAGAT
* * *
4679433 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATAC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
4679498 TGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCTAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
4679563 ACATTGGACTTAAAGAT
131 ACATTGGACTTAAAGAT
* *
4679580 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
4679645 TGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCTAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
*
4679710 ACATTGGATTTAAAGAT
131 ACATTGGACTTAAAGAT
* * *
4679727 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATG
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
* *
4679786 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGATTCAAGGCCA
63 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCA
4679850 GCTACATTGGACTTAAAGAT
128 GCTACATTGGACTTAAAGAT
* * * *
4679870 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
4679914 GAAGGGTTGC
Statistics
Matches: 450, Mismatches: 26, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
140 39 0.09
141 1 0.00
143 44 0.10
144 47 0.10
147 238 0.53
149 1 0.00
150 75 0.17
151 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (147 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
ACATTGGACTTAAAGAT
Found at i:4679791 original size:43 final size:44
Alignment explanation
Indices: 4679729--4679918 Score: 238
Period size: 43 Copynumber: 4.1 Consensus size: 44
4679719 TTAAAGATGG
*
4679729 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
4679773 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
4679816 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAA----AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
4679864 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
4679913 AGAAGG
1 AAAAGG
4679919 GTTGCCACCG
Statistics
Matches: 130, Mismatches: 6, Indels: 20
0.83 0.04 0.13
Matches are distributed among these distances:
43 41 0.32
44 6 0.05
47 1 0.01
48 41 0.32
49 38 0.29
50 1 0.01
51 1 0.01
53 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (44 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:4679957 original size:33 final size:33
Alignment explanation
Indices: 4679913--4680014 Score: 163
Period size: 32 Copynumber: 3.2 Consensus size: 33
4679903 TATTGGGCTT
4679913 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4679946 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
4679978 GGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
4680011 -GAAG
1 AGAAG
4680015 AGAGAAAGAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
32 33 0.52
33 30 0.48
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:4680088 original size:34 final size:34
Alignment explanation
Indices: 4679999--4680390 Score: 343
Period size: 34 Copynumber: 11.9 Consensus size: 34
4679989 CACCGACTTG
*
4679999 TGTGGGCTTTAGGAAGAGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA--AA-AGAAAAAGAGTGCCACGGAGT
*
4680035 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA--GAAAAAGAGTGCCACGGAGT
*
4680070 TGTGGGCTTTAAAAGAAAAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAG-AAAAAGA-GTGCCACGGAGT
*
4680106 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-A-GAAAAAGAGTGCCACGGAGT
4680140 TGTGGGC-TTAAAAG-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
*
4680167 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTA-AAAGAAAAAGAGTGCCACGGAGT
4680201 TGTGGGCTTT-----AAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
* * *
4680230 CGTGGGCTTTCAAAAGAAGAAG-GTGCCACAGAGT
1 TGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGT
*
4680264 TGTGGGCTTTGAAAAGAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGAAAAAGAGTGCCACGGAGT
4680298 TGTGGGCTTT-------AAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
* *
4680325 CGTGGGCTTTGAAAAGGGTAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA--GAAAAAGAGTGCCACGGAGT
*
4680362 TGTGCGCTTTAAACAGAAAAAG-GTGCCAC
1 TGTGGGCTTTAAA-AGAAAAAGAGTGCCAC
4680391 AGATATTTTT
Statistics
Matches: 303, Mismatches: 18, Indels: 72
0.77 0.05 0.18
Matches are distributed among these distances:
26 3 0.01
27 43 0.14
28 3 0.01
29 28 0.09
32 2 0.01
33 4 0.01
34 109 0.36
35 45 0.15
36 39 0.13
37 27 0.09
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.20
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGAAAAAGAGTGCCACGGAGT
Found at i:4680162 original size:61 final size:61
Alignment explanation
Indices: 4680087--4680313 Score: 253
Period size: 61 Copynumber: 3.6 Consensus size: 61
4680077 TTTAAAAGAA
* *
4680087 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGGTGCCACGGAGTTGTGGGCTTAAAGA-GAAAAAAGTGCCACGGAGTTGTGGGCTT
4680149 -AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAG-GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGGCTTA-AAGAGAAAAA-AGTGCCACGGAGTTGTGGGC-TT
* * * * *
4680211 AAAAAGAGTGCCACGGAGTCGTGGGCTTTCAAA-AGAAGAAGGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGGC-TT-AAAGAGAAAAAAGTGCCACGGAGTTGTGGGC-TT
4680274 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAG
1 --AAA-AAG--GGTGCCACGGAGTTGTGGGC-TTAAAGAG
4680314 TGCCACGGAG
Statistics
Matches: 143, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
60 6 0.04
61 46 0.32
62 5 0.03
63 44 0.31
64 9 0.06
65 4 0.03
66 3 0.02
67 3 0.02
68 23 0.16
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.20
Consensus pattern (61 bp):
AAAAAGGGTGCCACGGAGTTGTGGGCTTAAAGAGAAAAAAGTGCCACGGAGTTGTGGGCTT
Found at i:4680169 original size:97 final size:98
Alignment explanation
Indices: 4680051--4680343 Score: 300
Period size: 97 Copynumber: 3.1 Consensus size: 98
4680041 CTTAAAAGGG
* *
4680051 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAAGGTGCCACGGAGTTGTGGACTTA
1 AAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAG-AAAAAAAGGTGCCACGGAGTTGTGGGCTTA
*
4680116 AAGATGAAAAA-AGTGCCACGGAGTTGTGGGC-TT
65 AAGAT-AAAAAGAGTGCCACGGAGTCGTGGGCTTT
* *
4680149 -AAAAGGGTGCCACGGAGTTGTGGGC-TTAGAAG-GAAAAAGAGTGCCACGGAGTTGTGGGCTT-
1 AAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAG-GTGCCACGGAGTTGTGGGCTTA
4680210 ----TAAAAAGAGTGCCACGGAGTCGTGGGCTTT
65 AAGATAAAAAGAGTGCCACGGAGTCGTGGGCTTT
* *
4680240 CAAAAGAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAG--AAGAAGGTGCCACGGAGTTGTGG
1 --AAA-AAG--GGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAAAGGTGCCACGGAGTTGTGG
4680303 GCTT-----T--AAAGAGTGCCACGGAGTCGTGGGCTTT
60 GCTTAAAGATAAAAAGAGTGCCACGGAGTCGTGGGCTTT
*
4680335 GAAAAGGGT
1 AAAAAGGGT
4680344 AAAAGAGTGC
Statistics
Matches: 175, Mismatches: 9, Indels: 30
0.82 0.04 0.14
Matches are distributed among these distances:
89 5 0.03
90 23 0.13
91 2 0.01
92 3 0.02
93 2 0.01
94 8 0.05
95 50 0.29
96 6 0.03
97 65 0.37
98 7 0.04
99 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.20
Consensus pattern (98 bp):
AAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAAGGTGCCACGGAGTTGTGGGCTTAA
AGATAAAAAGAGTGCCACGGAGTCGTGGGCTTT
Found at i:4680235 original size:63 final size:62
Alignment explanation
Indices: 4680088--4680311 Score: 260
Period size: 63 Copynumber: 3.5 Consensus size: 62
4680078 TTAAAAGAAA
*
4680088 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAGATGAAAAA-AGTGCCACGGAGTTGTGGGC-TT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAG--GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
*
4680149 -AAAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTA-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * *
4680211 AAAAAGAGTGCCACGGAGTCGTGGGCTTTCAAAAGAAGAAG-GTGCCACAGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
4680274 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAG
1 --AAA-AAG-A-GTGCCACGGAGTTGTGGGC-TTAAAG
4680312 AGTGCCACGG
Statistics
Matches: 143, Mismatches: 8, Indels: 18
0.85 0.05 0.11
Matches are distributed among these distances:
60 11 0.08
61 41 0.29
62 5 0.03
63 44 0.31
64 10 0.07
65 4 0.03
66 3 0.02
67 4 0.03
68 21 0.15
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (62 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:4680289 original size:131 final size:127
Alignment explanation
Indices: 4680024--4680311 Score: 334
Period size: 131 Copynumber: 2.2 Consensus size: 127
4680014 GAGAGAAAGA
*
4680024 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 TGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-----AAAA
* *
4680089 AAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAG
61 AAAAGGTGCCACGGAGTCGTGGACTTAAAGATGAAAAAAGTGCCACAGAGTTGTGGGCTTAAAAG
4680154 GG
126 GG
* *
4680156 TGCCACGGAGTTGTGGGCTTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGA-
1 TGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAAG
* * *
4680218 GTGCCACGGAGTCGTGGGCTTTCAAA-A-GAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGA
66 GTGCCACGGAGTCGTGGAC-TT-AAAGATGAAAAAAGTGCCACAGAGTTGTGGGC-TT---AA-A
4680281 AGAAGG
124 AG--GG
*
4680287 TGCCACGGAGTTGTGGGCTTTAAAG
1 TGCCACGGAGTTGTGGGCTTAAAAG
4680312 AGTGCCACGG
Statistics
Matches: 136, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
124 40 0.29
125 11 0.08
126 3 0.02
128 2 0.01
129 3 0.02
131 55 0.40
132 22 0.16
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (127 bp):
TGCCACGGAGTTGTGGGCTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAAG
GTGCCACGGAGTCGTGGACTTAAAGATGAAAAAAGTGCCACAGAGTTGTGGGCTTAAAAGGG
Found at i:4680336 original size:61 final size:63
Alignment explanation
Indices: 4680252--4680374 Score: 180
Period size: 64 Copynumber: 2.0 Consensus size: 63
4680242 AAAGAAGAAG
* *
4680252 GTGCCACAGAGTTGTGGGCTTTGAAAA-G-AAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAGA
1 GTGCCACAGAGTCGTGGGCTTTGAAAAGGTAA-AAGAGTGCCACGGAGTTGTGCGCTTTAAAGA
*
4680313 GTGCCACGGAGTCGTGGGCTTTGAAAAGGGTAAAAGAGTGCCACGGAGTTGTGCGCTTTAAA
1 GTGCCACAGAGTCGTGGGCTTTGAAAA-GGTAAAAGAGTGCCACGGAGTTGTGCGCTTTAAA
4680375 CAGAAAAAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 25 0.45
63 4 0.07
64 26 0.47
ACGTcount: A:0.27, C:0.15, G:0.36, T:0.23
Consensus pattern (63 bp):
GTGCCACAGAGTCGTGGGCTTTGAAAAGGTAAAAGAGTGCCACGGAGTTGTGCGCTTTAAAGA
Found at i:4682070 original size:34 final size:33
Alignment explanation
Indices: 4682025--4682091 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
4682015 AACTTCCTAG
*
4682025 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
* *
4682059 ATGTATTGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
4682092 TTCCGTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:4682135 original size:19 final size:17
Alignment explanation
Indices: 4682109--4682211 Score: 96
Period size: 19 Copynumber: 6.2 Consensus size: 17
4682099 GGCAGTAGCT
4682109 AATTATGTATCGATACA
1 AATTATGTATCGATACA
4682126 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
4682144 -A-T-TGTATCGATACA
1 AATTATGTATCGATACA
4682158 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
4682176 -A-T-TGTATCGATACA
1 AATTATGTATCGATACA
4682190 ACATTTATGTATCGATACA
1 A-A-TTATGTATCGATACA
4682209 AAT
1 AAT
4682212 CGCTGAAATT
Statistics
Matches: 72, Mismatches: 0, Indels: 28
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.31
14 2 0.03
16 4 0.06
17 2 0.03
18 4 0.06
19 38 0.53
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:4682151 original size:13 final size:13
Alignment explanation
Indices: 4682133--4682189 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4682123 ACAATACTTA
4682133 TGTATCGATACAT
1 TGTATCGATACAT
4682146 TGTATCGATACAATACTT
1 TGTATCGATAC---A--T
4682164 ATGTATCGATACAT
1 -TGTATCGATACAT
4682178 TGTATCGATACA
1 TGTATCGATACA
4682190 ACATTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4682155 original size:32 final size:32
Alignment explanation
Indices: 4682114--4682208 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
4682104 TAGCTAATTA
4682114 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
4682146 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAATACTTATGTATCGATACAT
* *
4682178 TGTATCGATACAACATTTATGTATCGATACA
1 TGTATCGATACAATACTTATGTATCGATACA
4682209 AATCGCTGAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAATACTTATGTATCGATACAT
Found at i:4682859 original size:12 final size:12
Alignment explanation
Indices: 4682840--4682877 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
4682830 AGTCAAAAGT
4682840 AAACACAAAAAA
1 AAACACAAAAAA
4682852 CAAA-ACAAAAAA
1 -AAACACAAAAAA
4682864 AAACACAAAAAA
1 AAACACAAAAAA
4682876 AA
1 AA
4682878 GTGCAACGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 3 0.12
12 18 0.75
13 3 0.12
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACACAAAAAA
Found at i:4683214 original size:12 final size:12
Alignment explanation
Indices: 4683197--4683234 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
4683187 CCTAATCTTC
*
4683197 ACAAAAAAAGAA
1 ACAAAAAAAAAA
4683209 ACAAAAAAAAAA
1 ACAAAAAAAAAA
4683221 ACAAAAACAAAAA
1 ACAAAAA-AAAAA
4683234 A
1 A
4683235 AAAGAAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.87, C:0.11, G:0.03, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAAAA
Found at i:4683220 original size:16 final size:16
Alignment explanation
Indices: 4683199--4683242 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
4683189 TAATCTTCAC
4683199 AAAAAAAGAAACAA-AA
1 AAAAAAAGAAA-AACAA
*
4683215 AAAAAAACAAAAACAA
1 AAAAAAAGAAAAACAA
4683231 AAAAAAAGAAAA
1 AAAAAAAGAAAA
4683243 GGAAAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.89, C:0.07, G:0.05, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAACAA
Found at i:4683250 original size:22 final size:22
Alignment explanation
Indices: 4683201--4683242 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4683191 ATCTTCACAA
*
4683201 AAAAAGAAACAAAAAAAAAAAC
1 AAAAACAAACAAAAAAAAAAAC
*
4683223 AAAAACAAA-AAAAAAGAAAA
1 AAAAACAAACAAAAAAAAAAA
4683243 GGAAAAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (22 bp):
AAAAACAAACAAAAAAAAAAAC
Found at i:4684222 original size:31 final size:30
Alignment explanation
Indices: 4684181--4684520 Score: 403
Period size: 31 Copynumber: 10.9 Consensus size: 30
4684171 ATACCTTTTT
*
4684181 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
*
4684212 AAAGTTCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TC
* *
4684244 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
*
4684275 GAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAT-CTTTTC-TC
* *
4684307 AAAGTCCATGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
4684338 AAAGTCCACGACTCAGTGGCATCATTTTCTTC
1 AAAGTCCACGACTCAGTGGCATC-TTTTC-TC
* *
4684370 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCTC
* *
4684401 GAAGTCCACGACTCAGTGGCATCCTTTTTTTC
1 AAAGTCCACGACTCAGTGGCAT-C-TTTTCTC
4684433 AAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTT-TCTC
*
4684463 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTC-TC
* * * *
4684494 AAAGCCCACAACTCCGTGGCATTTTTT
1 AAAGTCCACGACTCAGTGGCATCTTTT
4684521 TCTTTTTAAA
Statistics
Matches: 271, Mismatches: 24, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.01
30 36 0.13
31 125 0.46
32 100 0.37
33 7 0.03
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCTC
Found at i:4684253 original size:63 final size:63
Alignment explanation
Indices: 4684181--4684514 Score: 521
Period size: 63 Copynumber: 5.3 Consensus size: 63
4684171 ATACCTTTTT
*
4684181 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTTCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
* *
4684244 AAAGTCCACGACTCAGTGGCAATCTCTGCTCGAAGTCCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
* *
4684307 AAAGTCCATGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCATTTTCTTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
* * *
4684370 AAAGTCCACGACTCAGTGGCAATCTCTGCTCGAAGTCCACGACTCAGTGGCATCCTTTTTTTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
* *
4684433 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
* * *
4684494 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
4684515 TTTTTTTCTT
Statistics
Matches: 249, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
61 26 0.10
62 26 0.10
63 197 0.79
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (63 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTC
Found at i:4684532 original size:34 final size:34
Alignment explanation
Indices: 4684494--4685039 Score: 562
Period size: 34 Copynumber: 16.3 Consensus size: 34
4684484 TTTTTTCTTC
**
4684494 AAAGCCCACAACTCCGTGGCATTTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
4684528 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
4684562 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* *
4684597 -ATG-TCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
4684629 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* *
4684664 -AAGTCCACAACTCCGTGGCACC---TTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
4684694 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
** * *
4684730 AAAGCCCACAACTCCGTGGCACCTGGTGCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* ** * * *
4684764 -AAGTCCATGACTCCATGGCA---TCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
4684794 AAAGCCCACCACTCCGTGGCACC-TTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * * *
4684827 -AAGTCCACGACCCCGTGGCACCTTATTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
4684860 AAAGCCCACAACTCCATGGCACTCTTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTT-TTCTTTTT
* * * * * *
4684896 -AAGTCCACGACCCCGTGGCATCTTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
4684929 -AAGTCCACAACTCCGTGGCACCTTTTTGTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
4684962 AAAGGCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
4684996 AAAGCCCACAACTCTGTGGCACTTTTTTCTTCTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
4685030 AAAGCCCACA
1 AAAGCCCACA
4685040 CAAGTCGGTG
Statistics
Matches: 426, Mismatches: 68, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
30 11 0.03
31 36 0.08
32 30 0.07
33 85 0.20
34 187 0.44
35 45 0.11
36 32 0.08
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:4684605 original size:101 final size:101
Alignment explanation
Indices: 4684463--4685039 Score: 570
Period size: 101 Copynumber: 5.8 Consensus size: 101
4684453 ATTTTGTCTC
* * * * *
4684463 AAAGTCCACGACTCAGTGGCA-T-TTTTTCTTCAAAGCCCACAACTCCGTGGCATTTTTTTCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTCTAAGCCCACAACTCCGTGGCATCTTTTTCTTT
4684526 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
66 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
4684562 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTATG-TCACAACTCCGTGGCACCTTTTTCTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CTTCTAAGCCCACAACTCCGTGGCATCTTTTTCTT
*
4684626 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
65 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* * * *
4684664 -AAGTCCACAACTCCGTGGCAC-CTTCTT-TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTCTAAGCCCACAACTCCGTGGCA-TCTTTTT-CT
** * *
4684726 TTTTAAAGCCCACAACTCCGTGGCACCTGGTGCCTTTT
64 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* ** * * * * *
4684764 -AAGTCCATGACTCCATGGCA-TCTTCTT-TTCAAAGCCCACCACTCCGTGGCA-CCTTTTCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCTTCTAAGCCCACAACTCCGTGGCATCTTTTTCTTT
* * * * *
4684825 TT-AAGTCCACGACCCCGTGGCACCTTATTCTTTTC
66 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * * * * *
4684860 AAAGCCCACAACTCCATGGCACTCTTTGTTCCTTTTAAGTCCACGACCCCGTGGCATCTTGTTCC
1 AAAGCCCACAACTCCGTGGCACTCTTT-TT-CTTCTAAGCCCACAACTCCGTGGCATCTTTTTCT
* *
4684925 TTTT-AAGTCCACAACTCCGTGGCACCTTTTTGTTTTT
64 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
4684962 AAAGGCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCTGTGGCA-CTTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTC-TTCT-AAGCCCACAACTCCGTGGCATC-TTTTTC
* *
4685025 TTCTCAAAGCCCACA
63 TTTTTAAAGCCCACA
4685040 CAAGTCGGTG
Statistics
Matches: 398, Mismatches: 62, Indels: 33
0.81 0.13 0.07
Matches are distributed among these distances:
96 25 0.06
97 22 0.06
98 14 0.04
99 36 0.09
100 74 0.19
101 145 0.36
102 82 0.21
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (101 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCTTCTAAGCCCACAACTCCGTGGCATCTTTTTCTTT
TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:4684615 original size:67 final size:68
Alignment explanation
Indices: 4684494--4685039 Score: 566
Period size: 67 Copynumber: 8.1 Consensus size: 68
4684484 TTTTTTCTTC
* *
4684494 AAAGCCCACAACTCCGTGGCA-TTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACCTTTTTCT
4684558 TTTT
65 TTTT
* * * *
4684562 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTATG-TCACAACTCCGTGGCACCTTTTTCTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
4684626 TTT
66 TTT
*
4684629 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC---TTCTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
4684691 TTC
66 TTT
** *
4684694 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTGGTGC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAGCCCACAACTCCGTGGCACCTTTTTC
*
4684759 CTTTT
64 TTTTT
* ** * * ** *
4684764 -AAGTCCATGACTCCATGGCA-TCTTCTT--TTCAAAGCCCACCACTCCGTGGCACC-TTTTCTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
4684824 TTT
66 TTT
* * * * *
4684827 -AAGTCCACGACCCCGTGGCAC-CTTATT-CTTTTCAAAGCCCACAACTCCATGGCACTCTTTGT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT--AAGCCCACAACTCCGTGGCAC-CTTT-T
*
4684889 TCCTTTT
62 TCTTTTT
* * * * * *
4684896 -AAGTCCACGACCCCGTGGCA-TCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTGTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
4684959 TTT
66 TTT
* * * *
4684962 AAAGGCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTTTTTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCACCTTTTTCT
* *
4685026 TCTC
65 TTTT
4685030 AAAGCCCACA
1 AAAGCCCACA
4685040 CAAGTCGGTG
Statistics
Matches: 406, Mismatches: 53, Indels: 38
0.82 0.11 0.08
Matches are distributed among these distances:
63 28 0.07
64 23 0.06
65 38 0.09
66 31 0.08
67 116 0.29
68 102 0.25
69 58 0.14
70 10 0.02
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (68 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTT
TTT
Found at i:4684846 original size:63 final size:63
Alignment explanation
Indices: 4684175--4685022 Score: 448
Period size: 63 Copynumber: 13.0 Consensus size: 63
4684165 CTTCAAATAC
* * * * *
4684175 CTTTTTAAAGTCCACGACTCAGTGGCAATC-TCTTCTCAAAGTTCACGACTCAGTGGCATCCTTT
1 CTTTTT-AAGTCCACGACTCCGTGGC-ATCTTCTTTTCAAAGTCCACAACTCCGTGGCA-CCTTT
4684239 T
63 T
** * ** * * *
4684240 C-TTCAAAGTCCACGACTCAGTGGCAATC-TCTGCTCGAAGTCCACGACTCAGTGGCATCCTTTT
1 CTTTTTAAGTCCACGACTCCGTGGC-ATCTTCTTTTCAAAGTCCACAACTCCGTGGCA-CCTTTT
** * * * * * *
4684303 C-TTCAAAGTCCATGACTCAGTGGCAATC-TCTTCTCAAAGTCCACGACTCAGTGGCATCATTTT
1 CTTTTTAAGTCCACGACTCCGTGGC-ATCTTCTTTTCAAAGTCCACAACTCCGTGGCA-CCTTTT
** * ** * * *
4684366 C-TTCAAAGTCCACGACTCAGTGGCAATC-TCTGCTCGAAGTCCACGACTCAGTGGCATCCTTTT
1 CTTTTTAAGTCCACGACTCCGTGGC-ATCTTCTTTTCAAAGTCCACAACTCCGTGGCA-CCTTTT
** * * * * **
4684429 -TTTCAAAGTCCACGACTCAGTGGCAT-TT-TGTCTCAAAGTCCACGACTCAGTGGCATTTTTT
1 CTTTTTAAGTCCACGACTCCGTGGCATCTTCT-TTTCAAAGTCCACAACTCCGTGGCACCTTTT
** * * * * *
4684490 C-TTCAAAGCCCACAACTCCGTGGCATTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
1 CTTTTTAAGTCCACGACTCCGTGGCA---TCTTCTTTTCAAAGTCCACAACTCCGTGGCACC-TT
4684554 TT
62 TT
* * * * * *
4684556 CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTATGT-CACAACTCCGTGGCACCTT
1 CTTTTT-AAGTCCACGACTCCGTGGCA-TCTTCTT--TTCAAAGTCCACAACTCCGTGGCACC-T
4684620 TTT
61 TTT
* * * **
4684623 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC--
1 CTTTTT-AAGTCCACGACTCCGTGGCA-TCTTCTT--TTCAAAGTCCACAACTCCGTGGCACCTT
4684686 TT
62 TT
* * * *
4684688 CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCAC
1 CTTTT-TAAGTCCACGACTCCGTGGCA-TC---TT--CTTTTCAAAGTCCACAACTCCGTGGCAC
* *
4684752 CTGGTG
59 CT-TTT
* * * * *
4684758 CCTTTTAAGTCCATGACTCCATGGCATCTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTT
1 CTTTTTAAGTCCACGACTCCGTGGCATCTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* * * *
4684821 CTTTTTAAGTCCACGACCCCGTGGCACCTTATTCTTTTCAAAGCCCACAACTCCATGGCACTCTT
1 CTTTTTAAGTCCACGACTCCGTGGCA---TCTTCTTTTCAAAGTCCACAACTCCGTGGCAC-C-T
4684886 TGTT
61 T-TT
* * * **
4684890 CCTTTTAAGTCCACGACCCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
1 CTTTTTAAGTCCACGACTCCGTGGCATCTTCTT--TTCAAAGTCCACAACTCCGTGGCACC-TTT
4684955 T
63 T
* * * * * * * *
4684956 GTTTTTAAAGGCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTTT
1 CTTTTT-AAGTCCACGACTCCGTGGCA---TCTTCTTTTCAAAGTCCACAACTCCGTGGCACCTT
4685021 TT
62 TT
4685023 TCTTCTCAAA
Statistics
Matches: 667, Mismatches: 79, Indels: 72
0.82 0.10 0.09
Matches are distributed among these distances:
61 26 0.04
62 26 0.04
63 224 0.34
64 26 0.04
65 55 0.08
66 51 0.08
67 113 0.17
68 91 0.14
69 43 0.06
70 12 0.02
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (63 bp):
CTTTTTAAGTCCACGACTCCGTGGCATCTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:4684914 original size:232 final size:231
Alignment explanation
Indices: 4684554--4684985 Score: 609
Period size: 232 Copynumber: 1.9 Consensus size: 231
4684544 TGGCACCTTT
* * * *
4684554 TTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTATGTCACAACTCCGTGGCACCT
1 TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCACAACCCCGTGGCACCT
* * * *
4684619 TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
66 TATTCTTTTCAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACCCCGTGGCA
4684684 CCTTCTT-TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTG
131 CCTTCTTCTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTTAAAGCCCACAACTCCGTG
4684748 GCACCTGGTGCCTTTTAAGTCCATGACTCCATGGCATC
194 GCACCTGGTGCCTTTTAAGTCCATGACTCCATGGCATC
* * * *
4684786 TTCTTTTCAAAGCCCACCACTCCGTGGCAC-C-TTTTCTTTTTAAGTCCACGACCCCGTGGCACC
1 TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT-CACAACCCCGTGGCACC
*
4684849 TTATTCTTTTCAAAGCCCACAACTCCATGGCACTCTTTGTTCCTTTTAAGTCCACGACCCCGTGG
65 TTATTCTTTTCAAAGCCCACAACTCCATGGCACTCTTT-TTCCTTTTAAGTCCACAACCCCGTGG
* * ** * ** *
4684914 CATCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTGTTTTTAAAGGCCACAACTCCGT
129 CACCTTCTT-CTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGT
4684979 GGCACCT
193 GGCACCT
4684986 TTTTCTTTTT
Statistics
Matches: 175, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
230 11 0.06
231 51 0.29
232 85 0.49
233 6 0.03
234 22 0.13
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.34
Consensus pattern (231 bp):
TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCACAACCCCGTGGCACCT
TATTCTTTTCAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACCCCGTGGCA
CCTTCTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTAAAGCCCACAACTCCGTGGC
ACCTGGTGCCTTTTAAGTCCATGACTCCATGGCATC
Found at i:4685072 original size:33 final size:33
Alignment explanation
Indices: 4685022--4685283 Score: 394
Period size: 33 Copynumber: 8.0 Consensus size: 33
4685012 TGGCACTTTT
4685022 TTCTTCTCAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
*
4685056 TTCTTCTAAAGCCCACATAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
4685089 --CTTCTCAAAGCCCACACAAGTCAGTGGCAACC
1 TTCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
4685121 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
4685154 --CTTCTCAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCT-AAAGCCCACACAAGTCGGTGGCAACC
4685186 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
4685219 --CTTCCTAAAGCCCACACAAGTTGGTGGCACCC
1 TTCTT-CTAAAGCCCACACAAGTCGGTGGCAACC
4685251 ATTC-TCTAAAGCCCACACAAGTCGGTGGCAACC
1 -TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
4685284 CTTTTAAGCC
Statistics
Matches: 210, Mismatches: 8, Indels: 21
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.06
32 76 0.36
33 102 0.49
34 18 0.09
35 1 0.00
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (33 bp):
TTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:4685099 original size:65 final size:65
Alignment explanation
Indices: 4685024--4685286 Score: 458
Period size: 65 Copynumber: 4.0 Consensus size: 65
4685014 GCACTTTTTT
*
4685024 CTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACATAAGTCGGTGGCAACC
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
*
4685089 CTTCTCAAAGCCCACACAAGTCAGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
4685154 CTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
* *
4685219 CTTC-CTAAAGCCCACACAAGTTGGTGGCACCCATTC-TCTAAAGCCCACACAAGTCGGTGGCAA
1 CTTCTC-AAAGCCCACACAAGTCGGTGGCAACC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAA
4685282 CC
64 CC
4685284 CTT
1 CTT
4685287 TTAAGCCCAA
Statistics
Matches: 191, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
64 1 0.01
65 187 0.98
66 3 0.02
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (65 bp):
CTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAACC
Found at i:4685410 original size:49 final size:47
Alignment explanation
Indices: 4685286--4686116 Score: 652
Period size: 43 Copynumber: 18.0 Consensus size: 47
4685276 TGGCAACCCT
* * * * *
4685286 TTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGTACCTTTTTCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TTT-A
* *
4685336 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 --TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
4685385 TGTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----
1 --TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
4685430 TTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
4685477 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----
1 --TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
4685522 TTCAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC----
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * * * ** * *
4685565 TTCAAGTCCAAT-CAGC---AC----ATCGGCACCTT--TTCC-ATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
4685601 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACC----
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
4685644 TTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--A
* *
4685694 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----TC
1 --TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
4685739 TTCAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--A
*
4685789 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----
1 --TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
4685834 TTTAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTCT-
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-TA
* *
4685881 TCCTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC----
1 T--TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * * * * *
4685926 TTCAATTCTAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTTA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
4685973 TCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA-C--T-
1 --TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* *
4686018 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTTCCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--A
* * * * *
4686068 TCTTTAAGTTCAGTGTAACTGGCCTTGAATCAGCACATTGACATCCTTT
1 --TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
4686117 TTCTCATCTT
Statistics
Matches: 650, Mismatches: 70, Indels: 118
0.78 0.08 0.14
Matches are distributed among these distances:
33 2 0.00
35 9 0.01
36 11 0.02
37 3 0.00
39 1 0.00
40 1 0.00
42 3 0.00
43 284 0.44
44 10 0.02
45 1 0.00
46 3 0.00
47 3 0.00
48 2 0.00
49 154 0.24
50 3 0.00
52 158 0.24
53 2 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (47 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTA
Found at i:4685451 original size:43 final size:43
Alignment explanation
Indices: 4685390--4686062 Score: 660
Period size: 43 Copynumber: 15.0 Consensus size: 43
4685380 CTTTATGTTT
*
4685390 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
*
4685433 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--T-TC
*
4685479 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTC
1 ---AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
4685525 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
* * * * ** * *
4685568 AAGTCCAAT-CAGC---AC----ATCGGCACCTTTTCCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCA-CATTGGCACCTTC
* *
4685604 AAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTTC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
*
4685647 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC---T---TC
* *
4685696 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTC
1 ---AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
4685742 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC---T---TC
* *
4685791 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTT
1 ---AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
* *
4685837 AAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTCTTCC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--CTT-C
* *
4685884 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 --AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
* * * * *
4685929 AATTCTAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTTATC
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--T-TC
* * * *
4685975 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACTTTT
1 ---AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
* *
4686021 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
4686063 TTCCATCTTT
Statistics
Matches: 529, Mismatches: 56, Indels: 90
0.78 0.08 0.13
Matches are distributed among these distances:
35 6 0.01
36 17 0.03
37 3 0.01
39 1 0.00
40 1 0.00
42 3 0.01
43 279 0.53
44 7 0.01
45 3 0.01
46 18 0.03
47 2 0.00
48 1 0.00
49 112 0.21
52 76 0.14
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC
Found at i:4685491 original size:92 final size:92
Alignment explanation
Indices: 4685334--4685566 Score: 430
Period size: 92 Copynumber: 2.5 Consensus size: 92
4685324 GTACCTTTTT
* * *
4685334 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATGTTTAAGTCCAAT
1 CACCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
4685399 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
4685426 CACCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
1 CACCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
4685491 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
*
4685518 CACCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CACCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
4685567 CAAGTCCAAT
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 137 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (92 bp):
CACCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGG
Found at i:4685523 original size:21 final size:21
Alignment explanation
Indices: 4685499--4685566 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
4685489 ATGTAGCTGG
4685499 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
4685520 CCTTCAAGTC--CA-ATATAGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
4685542 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
4685563 CCTT
1 CCTT
4685567 CAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:4685669 original size:122 final size:119
Alignment explanation
Indices: 4685455--4685688 Score: 405
Period size: 122 Copynumber: 1.9 Consensus size: 119
4685445 GCTGGCCTTG
* * *
4685455 AATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 AATCAGCACATCGGCACCTTTATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA
4685520 CCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCC
66 CCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCC
4685574 AATCAGCACATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTG
1 AATCAGCACATCGGCACC-TTT--ATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTG
*
4685639 GCACCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
63 GCACCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
4685689 TTCCATCTTT
Statistics
Matches: 108, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
119 16 0.15
120 3 0.03
122 89 0.82
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (119 bp):
AATCAGCACATCGGCACCTTTATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA
CCTTCAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCC
Found at i:4685742 original size:95 final size:95
Alignment explanation
Indices: 4685574--4686107 Score: 839
Period size: 95 Copynumber: 5.7 Consensus size: 95
4685564 CTTCAAGTCC
* * *
4685574 AATCAGCACATCGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTG
1 AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
4685639 GCACCTTCAAGTCCAATATAGCTGGCCTTG
66 GCACCTTCAAGTCCAATATAGCTGGCCTTG
4685669 AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1 AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
*
4685734 GCATCTTCAAGTCCAATATAGCTGGCCTTG
66 GCACCTTCAAGTCCAATATAGCTGGCCTTG
*
4685764 AATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1 AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
*
4685829 GCACCTTTAAGTCCAATATAGCTGGCCTTG
66 GCACCTTCAAGTCCAATATAGCTGGCCTTG
* *
4685859 AATCAGTATATTGGCACCTTCTT-C--C-TTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATT
1 AATCAGCATATTGGCACCTT-TTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
* * *
4685920 GGCACCTTCAATTCTAATATCGCTGGCCTTG
65 GGCACCTTCAAGTCCAATATAGCTGGCCTTG
* *
4685951 AATCAGCATATTGGTACC-TTT--ATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTG
1 AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
* *
4686013 GCACTTTTAAGTCCAATATAGCTGGCCTTG
66 GCACCTTCAAGTCCAATATAGCTGGCCTTG
* * * *
4686043 AATCAGCATATTGACACCTTTTCCATCTTTAAGTTCAGTGTAACTGGCCTTGAATCAGCACATTG
1 AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
4686108 ACATCCTTTT
Statistics
Matches: 403, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
90 2 0.00
91 2 0.00
92 154 0.38
93 4 0.01
95 239 0.59
96 2 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (95 bp):
AATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
GCACCTTCAAGTCCAATATAGCTGGCCTTG
Found at i:4686228 original size:67 final size:68
Alignment explanation
Indices: 4686120--4686246 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
4686110 ATCCTTTTTC
* * * *
4686120 TCATCTTTAAGCCCAATATCGTTGGTCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
4686184 CCT
66 CCT
* * * *
4686187 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
4686247 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
CCT
Found at i:4686271 original size:227 final size:228
Alignment explanation
Indices: 4686035--4686448 Score: 579
Period size: 227 Copynumber: 1.8 Consensus size: 228
4686025 CCAATATAGC
* * * *
4686035 TGGCCTTGAATCAGCATATTGACACCTTTTC-CATCTTTAAGT-TCAGTGTAACTGGCCTTGAAT
1 TGGCCTTGAATCAGCACATTGACA-CTTTTCTCATCTTCAAGTCT-AATGTAACTGACCTTGAAT
* *
4686098 CAGCACATTGACATCCTTTTTCTCATCTTT-AAGCCCAATATCGTTGGTCGTGAATCAACATATT
64 CAGCACATTGACATCCTTTTTCTCATCTTTGAA-CCCAATATCGTTGGCCGGGAATCAACATATT
* * * *
4686162 GG-CATCTTTATCACTTTTC-TCAC-CTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGC
128 GGTCAT-TTTATCACTCTTCATC-CTCATCATCTTTAAGTCCAATATGGCAGGCCTTGAATCAGC
4686224 ATATTGGCACCTTCATCATCTTTAAAACCCAATGTTGT
191 ATATTGGCACCTTCATCATCTTTAAAACCCAATGTTGT
* * **
4686262 TGGCCTTGAATCAGCACATTGGCATTTTTCTCATCTTCAAGTCTAATGTCGCTGACCTTGAATCA
1 TGGCCTTGAATCAGCACATTGACACTTTTCTCATCTTCAAGTCTAATGTAACTGACCTTGAATCA
*
4686327 GCACATTGACATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGGGAATCAACGTATTGGT
66 GCACATTGACATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGGGAATCAACATATTGGT
* * *
4686392 CCTTTTATCACTCTTCATCCTCATCATCTTTAAGTCCAGTGTGGCAGGCCTTGAATC
131 CATTTTATCACTCTTCATCCTCATCATCTTTAAGTCCAATATGGCAGGCCTTGAATC
4686449 TGCACAGTGG
Statistics
Matches: 163, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
226 5 0.03
227 120 0.74
228 38 0.23
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.36
Consensus pattern (228 bp):
TGGCCTTGAATCAGCACATTGACACTTTTCTCATCTTCAAGTCTAATGTAACTGACCTTGAATCA
GCACATTGACATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGGGAATCAACATATTGGT
CATTTTATCACTCTTCATCCTCATCATCTTTAAGTCCAATATGGCAGGCCTTGAATCAGCATATT
GGCACCTTCATCATCTTTAAAACCCAATGTTGT
Found at i:4686296 original size:53 final size:52
Alignment explanation
Indices: 4686187--4686373 Score: 160
Period size: 53 Copynumber: 3.5 Consensus size: 52
4686177 TTTCTCACCT
** * * **
4686187 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCA-CCTTC
1 TCATCTTTAAACCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTTTTC
* * *
4686238 ATCATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTC
1 -TCATCTTT-AAACCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTTTTC
* ** * * * *
4686292 TCATCTTCAAGTCTAATGTCGCTGACCTTGAATCAGCACATTGACATCCTTTTTC
1 TCATCTTTAAACCCAATATCGCTGGCCTTGAATCAGCACATTGGCA---TTTTTC
* *
4686347 TCATCTTTGAACCCAATATCGTTGGCC
1 TCATCTTTAAACCCAATATCGCTGGCC
4686374 GGGAATCAAC
Statistics
Matches: 107, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 39 0.36
53 40 0.37
54 3 0.03
55 25 0.23
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (52 bp):
TCATCTTTAAACCCAATATCGCTGGCCTTGAATCAGCACATTGGCATTTTTC
Found at i:4686825 original size:13 final size:13
Alignment explanation
Indices: 4686807--4686831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4686797 TATAAAGTGT
4686807 TGTATCGATACAA
1 TGTATCGATACAA
4686820 TGTATCGATACA
1 TGTATCGATACA
4686832 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4686829 original size:33 final size:33
Alignment explanation
Indices: 4686787--4686853 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
4686777 TTCAACGATT
*
4686787 TGTATCGATATATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
4686820 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
4686853 T
1 T
4686854 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:4686912 original size:13 final size:13
Alignment explanation
Indices: 4686894--4686918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4686884 ATTACTCAAA
4686894 TGTATCGATACAT
1 TGTATCGATACAT
4686907 TGTATCGATACA
1 TGTATCGATACA
4686919 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4692932 original size:52 final size:52
Alignment explanation
Indices: 4692839--4692967 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
4692829 CGAAATATGA
* * * *
4692839 AAATTTACCTGCATGTATCGATACATGTAATAGTGTGTCGATACGTCTGGGC
1 AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTGGGC
* *
4692891 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTGGGC
*
4692943 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4692968 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTGGGC
Found at i:4692980 original size:52 final size:51
Alignment explanation
Indices: 4692839--4692988 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 51
4692829 CGAAATATGA
* * *
4692839 AAATTTACCTGCATGTATCGATAC-ATGTAATAGTGTGTCGATACGTCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATG--ATAGTGTATCGATACATCTGGGC
* * *
4692891 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-ATGATAGTGTATCGATACATCTGGGC
* *
4692943 AAATTTGCCTACATGTATCGATACAAAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACAATGAT-AGTGTATCGATACAT
4692989 TGTATCGATA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
51 2 0.02
52 81 0.96
54 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATGATAGTGTATCGATACATCTGGGC
Found at i:4692994 original size:13 final size:13
Alignment explanation
Indices: 4692976--4693002 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4692966 CAAAGATCAG
4692976 TGTATCGATACAT
1 TGTATCGATACAT
4692989 TGTATCGATACAT
1 TGTATCGATACAT
4693002 T
1 T
4693003 TGAGTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4696583 original size:21 final size:21
Alignment explanation
Indices: 4696559--4696626 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
4696549 AAAGATGATA
4696559 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* *
4696580 AAGGCCTG-CGATAT--TGGACTTA
1 AAGG--TGCCAATATGCT-GA-TTC
*
4696602 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTC
4696623 AAGG
1 AAGG
4696627 CCAACGACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
20 3 0.09
21 16 0.46
22 13 0.37
23 3 0.09
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:4696821 original size:49 final size:49
Alignment explanation
Indices: 4696446--4697396 Score: 936
Period size: 43 Copynumber: 20.1 Consensus size: 49
4696436 CTTAGGAATG
* * *
4696446 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
**
4696495 TTAAAGATGACAAAGACGCCAATATG-TAGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCT-GATTCAAGGCCAGCGATATTGGAC
*
4696547 TTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCTGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4696599 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTAGG-C
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGAC
* * * *
4696642 TTAAAAGATGAGGGTCCCAATATGCTGATTCAAGGCCAGCGATATTTGAT
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
** * **
4696692 TTGGAGTTGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4696744 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
4696787 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
4696836 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAAGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4696888 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
4696931 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4696980 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
4697023 TTAAAGATGAAGATGCCAATATGCTAATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4697072 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* ** *
4697115 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4697164 TTAGAAG--G--GTTGCCAATGTGCTGATTCAAGGCCAACGATATTGGAC
1 TTA-AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4697210 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
4697253 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4697302 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
4697345 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
4697394 TTA
1 TTA
4697397 GAAGGGTTGC
Statistics
Matches: 754, Mismatches: 88, Indels: 120
0.78 0.09 0.12
Matches are distributed among these distances:
43 257 0.34
44 2 0.00
45 3 0.00
46 36 0.05
47 6 0.01
48 5 0.01
49 251 0.33
50 36 0.05
51 1 0.00
52 156 0.21
53 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:4696824 original size:92 final size:93
Alignment explanation
Indices: 4696454--4697398 Score: 827
Period size: 92 Copynumber: 10.0 Consensus size: 93
4696444 TGTTAAAGAT
* * * * **
4696454 GAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGACGCCAATA
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-G----AGGTGCCAATA
4696519 TG-TAGATTCAAGGCCAGCGATATTGGACTTAAAGA
61 TGCT-GATTCAAGGCCAGCGATATTGGACTT--AGA
* * *
4696554 TGATAAAGGTGCCAATATGCTGATTCAAGGCCTGCGATATTGGACTT--A-A-AGGTGCCAATGT
1 -G---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAGGTGCCAATAT
* *
4696615 GCTGATTCAAGGCCAACGACATTAGG-CTTAAAAGA
62 GCTGATTCAAGGCCAGCGATATT-GGACTT---AGA
* * * * **
4696650 TGAGGGTCCCAATATGCTGATTCAAGGCCAGCGATATTTGATTTGGAGTTGACA-A-AGGCACCA
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAGC--TA--T-A-TTGGACTT-AAAGAGAGGTGCCA
4696713 ATATGCTGATTCAAGGCCAGCGATATTGGACTT-G-
58 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAGA
* *
4696747 G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGGTGCCAATATGC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-GA-GGTGCCAATATGC
*
4696811 TGATTCAAGGCCAGCGATATTAGACTTAAAGA
64 TGATTCAAGGCCAGCGATATTGGACTT--AGA
* * * *
4696843 TGACAAAGGCGCCAATATGCTGATTCAAAGCCAGCGATATTGGACTT---G-GAGGTGCCAATGT
1 -G---AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAGGTGCCAATAT
* *
4696904 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA
62 GCTGATTCAAGGCCAGCGATATTGGACTT--AG-A
* *
4696939 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-AGGTGCCAATGTGCTG
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAGGTGCCAATATGCTG
* *
4697000 ATTCAAGGCCAGCTACATTGGACTTAAAGA
66 ATTCAAGGCCAGCGATATTGGACTT--AGA
* * * *
4697030 TGAAGATGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT--A-A-AGGTGCCAATGTGCT
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAGGTGCCAATATGCT
* *
4697091 GATTCAAGGCCAGCTACATTGGACTTAAAGAA
65 GATTCAAGGCCAGCGATATTGGACTT--AG-A
* * * *
4697123 GAAGGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGGCTTAGAAG-G-GTTGCCAATGTGCT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGAGAGGTGCCAATATGCT
*
4697186 GATTCAAGGCCAACGATATTGGACTT--A
65 GATTCAAGGCCAGCGATATTGGACTTAGA
* *
4697213 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-G-AGGTGCCAATATGC
*
4697277 TGATTCAAGGCCAGCGATATTAGACTT--A
64 TGATTCAAGGCCAGCGATATTGGACTTAGA
* *
4697305 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG-AG-AGGTGCCAATATGC
* *
4697369 TGATTCAAGGCCAGCTATATTGGGCTTAGA
64 TGATTCAAGGCCAGCGATATTGGACTTAGA
4697399 AGGGTTGCCA
Statistics
Matches: 737, Mismatches: 61, Indels: 99
0.82 0.07 0.11
Matches are distributed among these distances:
88 5 0.01
89 47 0.06
90 3 0.00
91 2 0.00
92 371 0.50
93 31 0.04
94 1 0.00
95 137 0.19
96 14 0.02
97 2 0.00
98 3 0.00
99 7 0.01
101 40 0.05
102 36 0.05
104 38 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (93 bp):
GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAGAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAGA
Found at i:4697440 original size:33 final size:33
Alignment explanation
Indices: 4697396--4697725 Score: 471
Period size: 32 Copynumber: 10.2 Consensus size: 33
4697386 TATTGGGCTT
*
4697396 AGAAGGGTTGCCACGGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4697429 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
4697462 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4697494 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
4697527 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
4697559 AAGAA-GGTTACCACCGACTTGTGTGGGCTTT-G
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4697591 AAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4697624 AG-AGGGTTGCCATCGACTTGTGTCGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
4697655 AGAAGGGTTGCCACCGACTTTTATGGGATTT--
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
4697686 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
4697718 AGAAGGGT
1 AGAAGGGT
4697726 GAAAGATGCC
Statistics
Matches: 266, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
31 34 0.13
32 140 0.53
33 91 0.34
34 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:4697474 original size:65 final size:64
Alignment explanation
Indices: 4697389--4697725 Score: 459
Period size: 65 Copynumber: 5.2 Consensus size: 64
4697379 CCAGCTATAT
* * * *
4697389 TGGGCTTAGA-AGGGTTGCCACGGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
* *
4697452 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTT-GAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
*
4697517 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTACCACCGACTTGT
1 TGGGCTTT-GAGAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGGTTGCCACCGACTTGT
4697581 G
64 G
* * *
4697582 TGGGCTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCATCGACTTGTG
1 TGGGCTTTG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
* * * *
4697646 TCGGCTTTGAGAAGGGTTGCCACCGACTTTTATGGGATTT--AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
4697709 TGGGCTTTGAGAAGGGT
1 TGGGCTTTGAG-AGGGT
4697726 GAAAGATGCC
Statistics
Matches: 251, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
62 2 0.01
63 44 0.18
64 53 0.21
65 148 0.59
66 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (64 bp):
TGGGCTTTGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
Found at i:4697924 original size:34 final size:33
Alignment explanation
Indices: 4697727--4698348 Score: 536
Period size: 34 Copynumber: 18.8 Consensus size: 33
4697717 GAGAAGGGTG
* * *
4697727 AAAGATGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
4697760 CAAGGTGCCACGAAGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAA-AGAA
* *
4697795 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG--
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAA
*
4697828 -AAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * * *
4697860 CAAGGTGCCACGGGGTTCTGGACTTTAAAAG--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
4697891 ---GGTGCCACAGAGTTGTGGACTTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
*
4697921 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAA
** * *
4697956 AAAGGTGCCATAGAGTTGTGGACTTAGAACGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
**
4697989 AAAGAGTGCCATAGAGTTGTAGG-CTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGT-GGAC-TTAAAAAGAA
* *
4698024 AAAGGTGCCACGGAGTTGTGGACTTAGAACGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
4698057 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG--
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAA
* *
4698090 -AATGTGCCACGGAGTCGTGGACTTAAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTT-AAAAAGAA
* * * *
4698123 AAAAGTGTCACAGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
*
4698157 AAAGGTTG-CACGGAGTTGTGGGCTTAAAAAAGAA
1 AAAGG-TGCCACGGAGTTGTGGACTT-AAAAAGAA
* * *
4698191 AAAGATGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
*
4698224 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAGAA
* * *
4698259 AAAGGTGCCACAGAGTTGTGGGCTTTAAAACGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
** * **
4698293 AAAAATGCCACGGAGTTGTGGGCTT-TGAAGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
4698325 AAA-ATGCCACTGAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
4698349 TGAGACAAAA
Statistics
Matches: 491, Mismatches: 69, Indels: 60
0.79 0.11 0.10
Matches are distributed among these distances:
28 22 0.04
30 9 0.02
31 57 0.12
32 12 0.02
33 90 0.18
34 223 0.45
35 55 0.11
36 23 0.05
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
Found at i:4698121 original size:167 final size:167
Alignment explanation
Indices: 4697727--4698318 Score: 514
Period size: 167 Copynumber: 3.6 Consensus size: 167
4697717 GAGAAGGGTG
* * * * * * * *
4697727 AAAGA-TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTTAAAAG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAA--AAGAATGTGCCACGGAGTCGTGGAC-TTAAAAA
* * *
4697791 GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG---AAGG-TGCCACGGAGTTGT-GGACT
63 AGAAAAA-AGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTTG-CACAGAGTTGTAGG-CT
* * * * * *
4697851 T-AAAAGGAACAAGGTGCCACGGGGTTCTGGACTT------TA
125 TAAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAGAACGAA
* * * * * * * *
4697887 AAAGGGTGCCACAGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTA-AA--AAGAA-TGTGCCACGGAGTCGTGGACTTAAAA
* * * * *
4697951 AAGAAAAAGGTGCCATAGAGTTGTGGAC-TTAGAACGAAAAAGAG-TGCCATAGAGTTGTAGGCT
62 AAGAAAAAAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAG-GTTG-CACAGAGTTGTAGGCT
* *
4698014 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAACGAA
125 TAAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAGAACGAA
*
4698057 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAATGTGCCACGGAGTCGTGGACTTAAAAAAGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAATGTGCCACGGAGTCGTGGACTTAAAAAAGA
* * * *
4698122 AAAAAGTGTCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTTGCACGGAGTTGTGGGCTTAAAAA
66 AAAAAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTTGCACAGAGTTGTAGGCTTAAAAA
*
4698187 AGAAAAAGATGCCACGGAGTTGTGGACTTAGAAGGAA
131 AGAAAAAGATGCCACGGAGTTGTGGACTTAGAACGAA
* * * * *
4698224 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG---AATGTGCCACGGAGTCGTGGACTTAAAAA
* * * *
4698289 CGAAAAAAATGCCACGGAGTTGTGGGCTTT
63 AGAAAAAAGTGCCACAGAGTTGTGGACTTT
4698319 GAAGAAAAAA
Statistics
Matches: 357, Mismatches: 54, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
159 6 0.02
160 23 0.06
161 35 0.10
162 20 0.06
163 16 0.04
164 31 0.09
167 132 0.37
168 18 0.05
170 74 0.21
171 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (167 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAATGTGCCACGGAGTCGTGGACTTAAAAAAGA
AAAAAGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTTGCACAGAGTTGTAGGCTTAAAAA
AGAAAAAGATGCCACGGAGTTGTGGACTTAGAACGAA
Found at i:4698189 original size:235 final size:235
Alignment explanation
Indices: 4697727--4698348 Score: 695
Period size: 235 Copynumber: 2.7 Consensus size: 235
4697717 GAGAAGGGTG
* * *
4697727 AAAGATGCCAC-GAAGTTGTGGACTTAAAAGGAACAAG-GTGCCAC-GAAGTTGT-GGACTTTAA
1 AAAGATGCCACAG-AGTTGTGGACTTAGAACGAAAAAGAGTGCCACAG-AGTTGTAGG-CTTTAA
* * * ** *
4697788 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAA--AAGAAGGTGCCACGGAGTTGTGGAC
63 AA-AGAAAAAG-GTGCCACAGAGTTGTGGACTTTAAAACGAAAAAAATGCCACGGAGTTGTGGGC
** ** * * * *
4697850 TTAAAAGGAACAAGGTGCCACGGGGTTC-TGGACTT-TAAAAG-----GGTGCCACAGAGTTGTG
126 TTTGAA-GAA-AAAATGCCACGGAG-TCGTGGACTTAAAAAAGAAAAAAGTGTCACAGAGTTGTG
* * *
4697908 GACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
188 GACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAAGAA
* * *
4697956 AAAGGTGCCATAGAGTTGTGGACTTAGAACGAAAAAGAGTGCCATAGAGTTGTAGGCTTTAAAAA
1 AAAGATGCCACAGAGTTGTGGACTTAGAACGAAAAAGAGTGCCACAGAGTTGTAGGCTTTAAAAA
* * *
4698021 GAAAAAGGTGCCACGGAGTTGTGGAC-TTAGAACGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG
66 GAAAAAGGTGCCACAGAGTTGTGGACTTTAAAACGAAAAA-AATGCCACGGAGTTGTGGGCTTTG
** *
4698085 AA-AAGAATGTGCCACGGAGTCGTGGACTTAAAAAAGAAAAAAGTGTCACAGAGTTGTGGGCTTT
130 AAGAA-AAAATGCCACGGAGTCGTGGACTTAAAAAAGAAAAAAGTGTCACAGAGTTGTGGAC-TT
4698149 AAAAAGAAAAAG-GTTG-CACGGAGTTGTGGGCTTAAAAAAGAA
193 AAAAAGAAAAAGAG-TGCCACGGAGTTGTGGGCTTAAAAAAGAA
* * * *
4698191 AAAGATGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAAGATGCCACAGAGTTGTGGACTTAGAACGAAAAAGAGTGCCACAGAGTTGTAGGCTTTAAAAA
*
4698256 GAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAACGAAAAAAATGCCACGGAGTTGTGGGCTTTGA
66 GAAAAAGGTGCCACAGAGTTGTGGACTTTAAAACGAAAAAAATGCCACGGAGTTGTGGGCTTTGA
*
4698321 AGAAAAAATGCCACTGAGTCGTGGACTT
131 AGAAAAAATGCCACGGAGTCGTGGACTT
4698349 TGAGACAAAA
Statistics
Matches: 335, Mismatches: 39, Indels: 32
0.83 0.10 0.08
Matches are distributed among these distances:
227 2 0.01
228 21 0.06
229 58 0.17
230 30 0.09
231 25 0.07
235 171 0.51
236 28 0.08
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (235 bp):
AAAGATGCCACAGAGTTGTGGACTTAGAACGAAAAAGAGTGCCACAGAGTTGTAGGCTTTAAAAA
GAAAAAGGTGCCACAGAGTTGTGGACTTTAAAACGAAAAAAATGCCACGGAGTTGTGGGCTTTGA
AGAAAAAATGCCACGGAGTCGTGGACTTAAAAAAGAAAAAAGTGTCACAGAGTTGTGGACTTAAA
AAGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAAGAA
Found at i:4698516 original size:63 final size:62
Alignment explanation
Indices: 4698298--4698598 Score: 405
Period size: 62 Copynumber: 4.9 Consensus size: 62
4698288 ACGAAAAAAA
* * * * *
4698298 TGCCACGGAGTTGTGGGCTTTGAAGAAAA-AATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAT
* * *
4698359 TGCCACTAAGTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAG
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAT
* * *
4698421 TACCACTAAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTCGAG-CAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACA-A-AT
4698484 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACA-A-AT
* *
4698547 TGCCACTGAGTCATGGACTTTG-AGAAGA-GATTGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-TGCCACTGAGTCGTGGACTTT
4698599 AAAAAGGTTT
Statistics
Matches: 219, Mismatches: 16, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
61 28 0.13
62 110 0.50
63 81 0.37
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAT
Found at i:4698554 original size:31 final size:29
Alignment explanation
Indices: 4698297--4698598 Score: 309
Period size: 31 Copynumber: 9.8 Consensus size: 29
4698287 AACGAAAAAA
* * * *
4698297 ATGCCACGGAGTTGTGGGCTTTGAAGAAAAA
1 ATGCCACTGAGTCGTGGACTTTG-AG-AAAG
*
4698328 ATGCCACTGAGTCGTGGACTTTGAGACAAA
1 ATGCCACTGAGTCGTGGACTTTGAGA-AAG
* *
4698358 ATGCCACTAAGTCGTGGACTTTAAAGAAAAGG
1 ATGCCACTGAGTCGTGGACTTT-GAG-AAA-G
4698390 ATGCCACTGAGTCGTGGACTTTGAGACAA-
1 ATGCCACTGAGTCGTGGACTTTGAGA-AAG
* *
4698419 AGTACCACTAAGTCGTGGACTTTGAAGAAAAGG
1 A-TGCCACTGAGTCGTGGACTTTG-AG-AAA-G
* *
4698452 ATGCCACTGAGTCGTGGACTTCGAGCAGAG
1 ATGCCACTGAGTCGTGGACTTTGAG-AAAG
4698482 ATTGCCACTGAGTCGTGGACTTTGAAGAAAAGG
1 A-TGCCACTGAGTCGTGGACTTTG-AG-AAA-G
4698515 ATGCCACTGAGTCGTGGACTTTGAGAAGAG
1 ATGCCACTGAGTCGTGGACTTTGAGAA-AG
*
4698545 ATTGCCACTGAGTCATGGACTTTGAGAAGAG
1 A-TGCCACTGAGTCGTGGACTTTGAGAA-AG
4698576 ATTGCCACTGAGTCGTGGACTTT
1 A-TGCCACTGAGTCGTGGACTTT
4698599 AAAAAGGTTT
Statistics
Matches: 236, Mismatches: 20, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.01
30 53 0.22
31 110 0.47
32 68 0.29
33 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (29 bp):
ATGCCACTGAGTCGTGGACTTTGAGAAAG
Found at i:4706901 original size:52 final size:52
Alignment explanation
Indices: 4706808--4706936 Score: 186
Period size: 52 Copynumber: 2.5 Consensus size: 52
4706798 CGAAATATGA
* * * * *
4706808 AAATTTACCTGCATGTATCGATACATGTAATAGTGTGTCGATACGTCTGGGC
1 AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTAGGC
* *
4706860 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTAGGC
*
4706912 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4706937 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATGTAATAATGTATCGATACATCTAGGC
Found at i:4706949 original size:52 final size:51
Alignment explanation
Indices: 4706808--4706957 Score: 176
Period size: 52 Copynumber: 2.9 Consensus size: 51
4706798 CGAAATATGA
* * * *
4706808 AAATTTACCTGCATGTATCGATAC-ATGTAATAGTGTGTCGATACGTCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATG--ATAGTGTATCGATACATCTAGGC
* * *
4706860 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-ATGATAGTGTATCGATACATCTAGGC
* *
4706912 AAATTTGCCTACATGTATCGATACAAAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACAATGAT-AGTGTATCGATACAT
4706958 TGTATCGATA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 2 0.02
52 80 0.96
54 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATGATAGTGTATCGATACATCTAGGC
Found at i:4706963 original size:13 final size:13
Alignment explanation
Indices: 4706945--4706971 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4706935 CAAAGATCAG
4706945 TGTATCGATACAT
1 TGTATCGATACAT
4706958 TGTATCGATACAT
1 TGTATCGATACAT
4706971 T
1 T
4706972 TGAGTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4714005 original size:63 final size:63
Alignment explanation
Indices: 4713891--4714074 Score: 253
Period size: 63 Copynumber: 2.9 Consensus size: 63
4713881 CATTTGGTTG
* * *
4713891 AGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCACACGCCTGGCCCTCCGCATGTTAGGA
1 AGGGGGAGGGACGGATGGTTGGGAGGGACTCGTTGCACACGCCTGGGCCTCCGCATGTTAGGA
* * * * * *
4713954 ATGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCCCACACTTGGGCCTCCGCATGTTTGGA
1 AGGGGGAGGGACGGATGGTTGGGAGGGACTCGTTGCACACGCCTGGGCCTCCGCATGTTAGGA
* *
4714017 GGGGGGAGGGACGGATGGTTGGGAGGGACTCGTTGCGCACGCGC-GGGCCTCCGCATGT
1 AGGGGGAGGGACGGATGGTTGGGAGGGACTCGTTGCACACGC-CTGGGCCTCCGCATGT
4714075 GCTATCGGTA
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 105 1.00
ACGTcount: A:0.15, C:0.23, G:0.45, T:0.18
Consensus pattern (63 bp):
AGGGGGAGGGACGGATGGTTGGGAGGGACTCGTTGCACACGCCTGGGCCTCCGCATGTTAGGA
Found at i:4714928 original size:25 final size:24
Alignment explanation
Indices: 4714882--4714929 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
4714872 TCCACTTTGT
*
4714882 GAAAGGGGAGGGACGGAGCGAAGG
1 GAAAGGGGAGGGACGAAGCGAAGG
*
4714906 GAAAGAGGGAGGGACGAATCGAAG
1 GAAAG-GGGAGGGACGAAGCGAAG
4714930 CGACAAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.38, C:0.08, G:0.52, T:0.02
Consensus pattern (24 bp):
GAAAGGGGAGGGACGAAGCGAAGG
Found at i:4719063 original size:58 final size:61
Alignment explanation
Indices: 4718924--4719082 Score: 209
Period size: 64 Copynumber: 2.6 Consensus size: 61
4718914 CGTTTGGGGG
*
4718924 GGGAGGGACTCGTTGCACATGCTCGGGCCTCCGCATGTTTGGAGGGGGGGAGGAACGAATGCTT
1 GGGAGGGACTCGTTGCACACGCTCGGGCCTCCGCATGTTTGGA---GGGGAGGAACGAATGCTT
* *
4718988 GGGAGGGACTCGTTGCACACGCTCGGGCCTCCGTATGTTTGGA-GGG-GG-ACGGATGCTT
1 GGGAGGGACTCGTTGCACACGCTCGGGCCTCCGCATGTTTGGAGGGGAGGAACGAATGCTT
*
4719046 TGGAGGGACTCGTTGCACACACGCT-GGGCCTCCGCAT
1 GGGAGGGACTCGTTG--CACACGCTCGGGCCTCCGCAT
4719083 TGCTATCCGG
Statistics
Matches: 88, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
58 23 0.26
59 13 0.15
60 11 0.12
64 41 0.47
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.21
Consensus pattern (61 bp):
GGGAGGGACTCGTTGCACACGCTCGGGCCTCCGCATGTTTGGAGGGGAGGAACGAATGCTT
Found at i:4720298 original size:60 final size:61
Alignment explanation
Indices: 4720230--4720418 Score: 165
Period size: 60 Copynumber: 3.1 Consensus size: 61
4720220 GGGCAGCCGA
4720230 TGCGTGCCTCGCCCACCCTCGGGTGCGGGCGGCTGAGGCACACCCCCGGCCAGGTGCAC-G
1 TGCGTGCCTCGCCCACCCTCGGGTGCGGGCGGCTGAGGCACACCCCCGGCCAGGTGCACGG
* * * * * * ** **
4720290 TGCGTGCCT-GCCCACCCCCTGGTGTGGGGGCGGCCGGGGCGCACACCATG-C-GAAGCACCGG
1 TGCGTGCCTCGCCCACCCTC-GG-GTGCGGGCGGCTGAGGCACACCCCCGGCCAGGTGCA-CGG
** * *
4720351 TGCGCACCTCGCCCACCCTCGGCTGCGGGC-GTTCGAGGCACA-CCCCGGCCAGGTGCACGG
1 TGCGTGCCTCGCCCACCCTCGGGTGCGGGCGGCT-GAGGCACACCCCCGGCCAGGTGCACGG
*
4720411 CGCGTGCC
1 TGCGTGCC
4720419 CTGCCCGCCC
Statistics
Matches: 94, Mismatches: 27, Indels: 16
0.69 0.20 0.12
Matches are distributed among these distances:
59 17 0.18
60 34 0.36
61 34 0.36
62 9 0.10
ACGTcount: A:0.11, C:0.41, G:0.37, T:0.12
Consensus pattern (61 bp):
TGCGTGCCTCGCCCACCCTCGGGTGCGGGCGGCTGAGGCACACCCCCGGCCAGGTGCACGG
Found at i:4720456 original size:122 final size:121
Alignment explanation
Indices: 4720236--4720504 Score: 416
Period size: 122 Copynumber: 2.2 Consensus size: 121
4720226 CCGATGCGTG
* *
4720236 CCTCGCCCACCCTCGGGTGCGGGCGGCTGAGGCACACCCCCGGCCAGGTGCACGTGCGTGCCTGC
1 CCTCGCCCACCCTCGGCTGCGGGCGGCTGAGGCACACCCCCGGCCAGGTGCACGCGCGTGCCTGC
*
4720301 CCACCCCCTGGTGTGGGGGCGGCCGGGGCGCACACCATGCGAAGCACCGGTGCGCA
66 CCACCCCCTGGTGTGGGGGCGGCCGAGGCGCACACCATGCGAAGCACCGGTGCGCA
*
4720357 CCTCGCCCACCCTCGGCTGCGGGC-GTTCGAGGCACA-CCCCGGCCAGGTGCACGGCGCGTGCCC
1 CCTCGCCCACCCTCGGCTGCGGGCGGCT-GAGGCACACCCCCGGCCAGGTGCAC-GCGCGTG-CC
* * *
4720420 TGCCCGCCCCCTGGTGTGGGGGCGGCCGAGGCGCACACCATGCGGAGCATCGGTGCGCA
63 TGCCCACCCCCTGGTGTGGGGGCGGCCGAGGCGCACACCATGCGAAGCACCGGTGCGCA
* *
4720479 CCTCGCCCACCCTCGGTTGGGGGCGG
1 CCTCGCCCACCCTCGGCTGCGGGCGG
4720505 GAGAACAGTG
Statistics
Matches: 135, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
120 18 0.13
121 37 0.27
122 79 0.59
123 1 0.01
ACGTcount: A:0.10, C:0.41, G:0.37, T:0.12
Consensus pattern (121 bp):
CCTCGCCCACCCTCGGCTGCGGGCGGCTGAGGCACACCCCCGGCCAGGTGCACGCGCGTGCCTGC
CCACCCCCTGGTGTGGGGGCGGCCGAGGCGCACACCATGCGAAGCACCGGTGCGCA
Found at i:5446240 original size:14 final size:16
Alignment explanation
Indices: 5446208--5446237 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5446198 CCTCCCCCCC
5446208 CTTCTCTCTTTTCCTT
1 CTTCTCTCTTTTCCTT
5446224 CTTCTCT-TTTTCCT
1 CTTCTCTCTTTTCCT
5446238 CTTTCCCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (16 bp):
CTTCTCTCTTTTCCTT
Found at i:5446288 original size:26 final size:25
Alignment explanation
Indices: 5446250--5446302 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
5446240 TTCCCCTTCC
*
5446250 TTCCTCTCTCTCCCTTTCTTTCTTCTT
1 TTCCTCTCCCT-CCTTT-TTTCTTCTT
*
5446277 TTCC-CTCCCTCCTTTTTTTTTCTT
1 TTCCTCTCCCTCCTTTTTTCTTCTT
5446301 TT
1 TT
5446303 TCCTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 5 0.21
26 5 0.21
27 4 0.17
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (25 bp):
TTCCTCTCCCTCCTTTTTTCTTCTT
Found at i:5446306 original size:17 final size:17
Alignment explanation
Indices: 5446286--5446342 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
5446276 TTTCCCTCCC
5446286 TCCTTTTTTTTTCTTTT
1 TCCTTTTTTTTTCTTTT
5446303 TCCTTTTTTTCCTTTCTTTCTT
1 TCC-TTTTTT--TTTC-TT-TT
*
5446325 TCCTTTTTTTCTCTTTT
1 TCCTTTTTTTTTCTTTT
5446342 T
1 T
5446343 TTTCCTTCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 6 0.18
18 8 0.24
19 3 0.09
20 4 0.12
21 8 0.24
22 5 0.15
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TCCTTTTTTTTTCTTTT
Found at i:5446311 original size:9 final size:9
Alignment explanation
Indices: 5446286--5446349 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 9
5446276 TTTCCCTCCC
5446286 TCCTTTTTT
1 TCCTTTTTT
5446295 T--TTCTTTT
1 TCCTT-TTTT
5446303 TCCTTTTTT
1 TCCTTTTTT
5446312 TCCTTTCTTTCTT
1 TCC--T-TTT-TT
5446325 TCCTTTTTT
1 TCCTTTTTT
5446334 TCTCTTTTTTT
1 TC-C-TTTTTT
5446345 TCCTT
1 TCCTT
5446350 CTCCTCTCCC
Statistics
Matches: 46, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
7 2 0.04
8 5 0.11
9 14 0.30
10 7 0.15
11 10 0.22
12 3 0.07
13 5 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TCCTTTTTT
Found at i:5446380 original size:21 final size:21
Alignment explanation
Indices: 5446351--5446415 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
5446341 TTTTTCCTTC
5446351 TCCTCTCCCCTTCCTCCCCTCT
1 TCCT-TCCCCTTCCTCCCCTCT
*
5446373 TCCTTCCCCTTCCCCCCCCCTCT
1 TCCTTCCCCTT--CCTCCCCTCT
*
5446396 T-CTTCCCCCTCTCTCCCCTC
1 TCCTTCCCCTTC-CTCCCCTC
5446416 CTCCCTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.38
22 12 0.32
23 10 0.27
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (21 bp):
TCCTTCCCCTTCCTCCCCTCT
Found at i:5446454 original size:24 final size:25
Alignment explanation
Indices: 5446421--5446496 Score: 77
Period size: 24 Copynumber: 3.0 Consensus size: 25
5446411 CCCTCCTCCC
5446421 TTTTCTTTCCCTCCCTT-TTTCTCTT
1 TTTTC-TTCCCTCCCTTCTTTCTCTT
* *
5446446 TTTTCTTCCCTTCTCTTCTTTCTCCT
1 TTTTCTTCCC-TCCCTTCTTTCTCTT
*
5446472 TCTTC-TCTCCT-CCTTCTTTCTCTT
1 TTTTCTTC-CCTCCCTTCTTTCTCTT
5446496 T
1 T
5446497 CCCCCCCTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
24 17 0.40
25 13 0.30
26 13 0.30
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTCTTCCCTCCCTTCTTTCTCTT
Found at i:5446492 original size:15 final size:15
Alignment explanation
Indices: 5446454--5446494 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
5446444 TTTTTTCTTC
*
5446454 CCTTCTCTTCT-TTCT
1 CCTTCT-TTCTCTCCT
5446469 CCTTC-TTCTCTCCT
1 CCTTCTTTCTCTCCT
5446483 CCTTCTTTCTCT
1 CCTTCTTTCTCT
5446495 TTCCCCCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 8 0.35
15 11 0.48
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (15 bp):
CCTTCTTTCTCTCCT
Found at i:5446535 original size:20 final size:19
Alignment explanation
Indices: 5446465--5446532 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
5446455 CTTCTCTTCT
*
5446465 TTCTCCTTCTTCTCTCCTCC
1 TTCTCCTT-TTCCCTCCTCC
* *
5446485 TTCTTTCTCTTTCCCCCCCTCTC
1 TTC--TC-CTTTTCCCTCCTC-C
5446508 TTCTCCTTTTCCCTCCTCC
1 TTCTCCTTTTCCCTCCTCC
5446527 TTCTCC
1 TTCTCC
5446533 CTTCCCTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.18
20 14 0.36
21 2 0.05
22 9 0.23
23 7 0.18
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (19 bp):
TTCTCCTTTTCCCTCCTCC
Found at i:5446691 original size:43 final size:43
Alignment explanation
Indices: 5446622--5446707 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
5446612 CTTTCCTCTC
*
5446622 CCTTCTCTTTTCCCCTTTCTTCTTCTTTCC-TCCTTCCCCCCTT
1 CCTTCTCTTTTCCCCTCTCTTCTTC-TTCCTTCCTTCCCCCCTT
*
5446665 CCTTCTTCTTTTCTCCC-CTCTT-TTCTTCCTTCCTTCTCCCCTT
1 CCTTC-TCTTTTC-CCCTCTCTTCTTCTTCCTTCCTTCCCCCCTT
5446708 TTCCCTTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 4 0.11
43 20 0.53
44 11 0.29
45 3 0.08
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (43 bp):
CCTTCTCTTTTCCCCTCTCTTCTTCTTCCTTCCTTCCCCCCTT
Found at i:5446719 original size:23 final size:24
Alignment explanation
Indices: 5446611--5446738 Score: 74
Period size: 23 Copynumber: 5.3 Consensus size: 24
5446601 CCCCCCTCCT
*
5446611 TCTTTCCTCTCCCTTCTCTTTTCCCC
1 TCTTTCCT-T-CCTTCTCTTCTCCCC
* *
5446637 T-TTCTTCTTCTTTCCTCCTTC-CCCC
1 TCTT-TCCTTCCTT-CT-CTTCTCCCC
*
5446662 -C-TTCCTT-CTTCTTTTCTCCCC
1 TCTTTCCTTCCTTCTCTTCTCCCC
*
5446683 TCTTTTCTTCCTTC-CTTCTCCCC
1 TCTTTCCTTCCTTCTCTTCTCCCC
*
5446706 T-TTTCCCTTTCTTCTCTTC-CCTTCC
1 TCTTT-CCTTCCTTCTCTTCTCC--CC
5446731 TCTTTCCT
1 TCTTTCCT
5446739 CCCTCTTCTC
Statistics
Matches: 79, Mismatches: 10, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
20 3 0.04
21 6 0.08
22 6 0.08
23 27 0.34
24 12 0.15
25 15 0.19
26 10 0.13
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (24 bp):
TCTTTCCTTCCTTCTCTTCTCCCC
Found at i:5446743 original size:11 final size:11
Alignment explanation
Indices: 5446719--5446805 Score: 54
Period size: 11 Copynumber: 7.7 Consensus size: 11
5446709 TCCCTTTCTT
* *
5446719 CTCTTCCCTTC
1 CTCTTTCCTCC
5446730 CTCTTTCCTCC
1 CTCTTTCCTCC
*
5446741 CTCTTCTCTTTCC
1 CTCTT-TC-CTCC
5446754 CTCCTTTCC-CTC
1 CT-CTTTCCTC-C
*
5446766 CTCTTTCCTCT
1 CTCTTTCCTCC
5446777 CT-TTTCC-CTC
1 CTCTTTCCTC-C
*
5446787 CTCTTTCCCCC
1 CTCTTTCCTCC
*
5446798 CTCCTTCC
1 CTCTTTCC
5446806 CCCCCCTCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
9 1 0.02
10 7 0.11
11 36 0.59
12 7 0.11
13 7 0.11
14 3 0.05
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTTTCCTCC
Found at i:5446768 original size:25 final size:25
Alignment explanation
Indices: 5446707--5446770 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
5446697 CTTCTCCCCT
*
5446707 TTTCCCT-TTCTTCTCTTCCCTTCC
1 TTTCCCTCCTCTTCTCTTCCCTTCC
*
5446731 TCTTTCCTCCCTCTTCTCTTTCCC-TCC
1 T-TTCCCT-CCTCTTCTC-TTCCCTTCC
5446758 TTTCCCTCCTCTT
1 TTTCCCTCCTCTT
5446771 TCCTCTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 1 0.03
25 11 0.33
26 5 0.15
27 11 0.33
28 5 0.15
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTCCCTCCTCTTCTCTTCCCTTCC
Found at i:5446784 original size:21 final size:20
Alignment explanation
Indices: 5446746--5446795 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
5446736 CCTCCCTCTT
5446746 CTCTTTCCCTCCTTTCCCTC
1 CTCTTTCCCTCCTTTCCCTC
*
5446766 CTCTTTCCTCTCTTTTCCCTC
1 CTCTTTCC-CTCCTTTCCCTC
5446787 CTCTTTCCC
1 CTCTTTCCC
5446796 CCCTCCTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (20 bp):
CTCTTTCCCTCCTTTCCCTC
Found at i:5446924 original size:25 final size:27
Alignment explanation
Indices: 5446863--5446927 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
5446853 AGACTCCCAG
*
5446863 CCCTCTCCC-TTCTTTTTCCCTCTCTTC
1 CCCTTTCCCTTTCTTTTT-CCTCTCTTC
* *
5446890 CCCCTCCCCTTTCTTTTT-CT-TCTTC
1 CCCTTTCCCTTTCTTTTTCCTCTCTTC
5446915 CCCTTTCCCTTTC
1 CCCTTTCCCTTTC
5446928 CCTCCTTTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 16 0.50
26 2 0.06
27 6 0.19
28 8 0.25
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (27 bp):
CCCTTTCCCTTTCTTTTTCCTCTCTTC
Found at i:5450970 original size:403 final size:403
Alignment explanation
Indices: 5450223--5451503 Score: 2007
Period size: 403 Copynumber: 3.2 Consensus size: 403
5450213 GAGCCTTGCC
5450223 ATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACC
1 ATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACC
5450288 GCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGA
66 GCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGA
5450353 GAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGG
131 GAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGG
*
5450418 CAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCCCGAGGGGCATGGCCA
196 CAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGCCA
* *
5450483 GGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACAACCTACTCGAATTCGGGAA
261 GGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGGAA
5450548 CTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCACA
326 CTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCACA
5450613 CGCGTGCCAAACG
391 CGCGTGCCAAACG
5450626 ATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACC
1 ATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACC
5450691 GCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGA
66 GCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGA
5450756 GAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGG
131 GAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGG
5450821 CAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGCCA
196 CAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGCCA
* *
5450886 GGCCAAGCCCTCACCTGCAGCCTCTGCCCACGCCACAACCGGGACTACCGACTCGAATTCGGGAA
261 GGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGGAA
*
5450951 CTTGGCAGCATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCACA
326 CTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCACA
*
5451016 CGCGTGCCAACCG
391 CGCGTGCCAAACG
* * ** * *
5451029 ATCGCGCACGCAGAGACCGACGGCCTCACCACGGATCACTTGGACCGCGAAGGGTC-CCGTCACC
1 ATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACC
* * * * * *
5451093 GCAGCTGGGCATCCGGCCACCAAAAAACCAGGATCGCAAGGCACGCGCGACCTGGATCTTAACCG
66 GCAGCTGGGCATCCGGTCACC-GAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCG
* * * * * *
5451158 AGAGGGACACTCTGCCGTGGCGCGATCAATGCCAGGCGCATCGAGCACAATCCCCGACAGACAAC
130 AGAGGGACA--CTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAAC
* * * * * *
5451223 TGGCGGGACGAGCCCACCGTTGCCGAAGCAAGGGCCGCGAGACTGCCCTTGCTC-ACGGGGCATG
193 CGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGA-GGGGCATG
5451287 GCCAGGCCAAGCCC-CACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCG
257 GCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCG
* * ** * *
5451351 GGAACTTGGCAAAATCAGCGCAGGTGAAAG-CTTAACCCTT-CGGCACGACCACGCCCCTTGTAC
322 GGAACTTGGCAGAATCACCGCAGGTGCGAGCCTT--GCCTTCCGGCACGACCACGCCCCGT-TA-
* **
5451414 CCCACACACGCGTGCCATGCG
383 CCCGCACACGCGTGCCAAACG
* * ** * *
5451435 ATCG-GCAGCATACGGCGACCGGGGACCTTGCCACGGATCACCTGGACCGCGCAGGGTCTCCATC
1 ATCGCGCA-CGTA--GCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATC
5451499 ACCGC
63 ACCGC
5451504 GACAAGGTTT
Statistics
Matches: 813, Mismatches: 53, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
402 27 0.03
403 498 0.61
404 92 0.11
405 127 0.16
406 24 0.03
408 36 0.04
409 9 0.01
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.13
Consensus pattern (403 bp):
ATCGCGCACGTAGCGACCGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACC
GCAGCTGGGCATCCGGTCACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGA
GAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGG
CAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCCTGCTCGAGGGGCATGGCCA
GGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACTACCAACTCGAATTCGGGAA
CTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCACGACCACGCCCCGTTACCCGCACA
CGCGTGCCAAACG
Found at i:5454442 original size:403 final size:406
Alignment explanation
Indices: 5453622--5454444 Score: 1521
Period size: 403 Copynumber: 2.0 Consensus size: 406
5453612 AACGGCAAGG
* *
5453622 CGAGACTG-CCCTGCTCGAGGGGCAATGGCCAGGCCACGCCCTCACCTGCAGCATCTGCCAGCGC
1 CGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCTGCCAGCGC
*
5453686 CCACAACCGGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACTGCAGGTGCGAGCCTTG
66 CCACAACCGGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
*
5453751 CCTTTCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGACC
131 CCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGACC
5453816 GGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTC
196 GGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTC
5453881 ACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAGAGGGACACTGCCGGGGC
261 ACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAGAGGGACACTGCCGGGGC
5453946 GCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTT
326 GCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTT
5454011 GCCGATGCAAGGGCCA
391 GCCGATGCAAGGGCCA
*
5454027 CGAGACTGCCCCTGCCCGAGGGGC-ATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCA-CG
1 CGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCTG-CCAGCG
*
5454090 -CCACAACC-GGGACAACCTACTCGAATTCGGGAACTTGGTAGAATCACCGCAGGTGCGAGCCTT
65 CCCACAACCGGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAGCCTT
*
5454153 GCCTTCCGGCACGACCACGCCCCGTTACCCGCACACGCGTGCCAAACGATCGCGCACGTAGCGAC
130 GCCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGAC
5454218 CGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGT
195 CGGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGT
*
5454283 CACCGAAAATCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAGAGGGACACTGCCGGGG
260 CACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAGAGGGACACTGCCGGGG
5454348 CGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGT
325 CGCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGT
5454413 TGCCGATGCAAGGGCCA
390 TGCCGATGCAAGGGCCA
*
5454430 CGAGATTGCCCCTGC
1 CGAGACTGCCCCTGC
5454445 TCGTGGGACT
Statistics
Matches: 407, Mismatches: 9, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
403 341 0.84
404 8 0.02
405 41 0.10
406 17 0.04
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.13
Consensus pattern (406 bp):
CGAGACTGCCCCTGCCCGAGGGGCAATGGCCAGGCCAAGCCCTCACCTGCAGCATCTGCCAGCGC
CCACAACCGGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAGCCTTG
CCTTCCGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGACC
GGGGGCCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTC
ACCGAAAACCACGATCGCAAGGCTCGCGCGACCTGGATTTTAATCGAGAGGGACACTGCCGGGGC
GCGAACCATGCCAGGCGCATGGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTT
GCCGATGCAAGGGCCA
Found at i:5456187 original size:103 final size:101
Alignment explanation
Indices: 5456035--5456223 Score: 297
Period size: 103 Copynumber: 1.9 Consensus size: 101
5456025 CGGCCCGGGG
*
5456035 GCGCCCTTCCCGCCCCCGTGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
1 GCGCCCTTCCCGCCCCCGGGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
5456100 CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
66 CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
* * * *
5456136 GCGCCCTTCCCGCCCCCTGGGGTGGGGGGCGGTCGGGGCGCCCACCTCGCGGGGCGCCGGTGCGC
1 GCGCCCTTCCCGCCCCC-GGGGT-GGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGC
* *
5456201 GCCTCGCCCGCCCTCTGGTGCGG
64 GCCTCGCCCACCCTCGGGTGCGG
5456224 GCGGCCGCGG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 17 0.22
102 4 0.05
103 58 0.73
ACGTcount: A:0.05, C:0.43, G:0.42, T:0.11
Consensus pattern (101 bp):
GCGCCCTTCCCGCCCCCGGGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
Found at i:5456463 original size:64 final size:64
Alignment explanation
Indices: 5456384--5456505 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
5456374 CGTTTGGTTG
*
5456384 GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAGA
1 GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCCCACGCTTGGCCCTCCGCATGTTAGAGA
* * * *
5456448 GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCCCACGCTTGGGCCTCCGCATGT
1 GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCCCACGCTTGGCCCTCCGCATGT
5456506 GCTATCGGTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (64 bp):
GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCCCACGCTTGGCCCTCCGCATGTTAGAGA
Found at i:5457013 original size:102 final size:102
Alignment explanation
Indices: 5456844--5457030 Score: 315
Period size: 102 Copynumber: 1.8 Consensus size: 102
5456834 GGCCAGGTGC
* *
5456844 ACGGTGCGCGCCCTGCCCGCCCCCTGGTGTGGGGGCGGTCGGGGCGCACACCATGCGGAGCACCG
1 ACGGTGCGCGCCCTGCCCGCCCCCTGGGGTGGGGGCGGGCGGGGCGCACACCATGCGGAGCACCG
5456909 GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA
66 GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA
*
5456946 ACGGTGCGCGCCCAT-CCCGCCCCCTGGGGTCGGGGGCGGGCGGGGCGCACGCCATGCGGAGCA-
1 ACGGTGCGCGCCC-TGCCCGCCCCCTGGGGT-GGGGGCGGGCGGGGCGCACACCATGCGGAGCAC
5457009 CGGTGCGCGCCTCGCCCACCCT
64 CGGTGCGCGCCTCGCCCACCCT
5457031 GGGGGGTGCG
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
102 49 0.61
103 31 0.39
ACGTcount: A:0.09, C:0.41, G:0.41, T:0.10
Consensus pattern (102 bp):
ACGGTGCGCGCCCTGCCCGCCCCCTGGGGTGGGGGCGGGCGGGGCGCACACCATGCGGAGCACCG
GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA
Found at i:5457101 original size:64 final size:62
Alignment explanation
Indices: 5456941--5457116 Score: 168
Period size: 64 Copynumber: 2.8 Consensus size: 62
5456931 GCTGCGGGCG
* ** *
5456941 GGAGAACGGTGCGCGCCCATCCCGCCCCCTGGGGT-CGGGGGCGG-GCGGGGCGCACGCCATGC
1 GGAGCACGGTGCGCGCCC-TCCCGCCCCCTGGGGTGC-GGGGCGGCGCGGCACGCACGCCAGGC
*
5457003 GGAGCACGGTGCGCG-CCTCGCC-CACCCTGGGGGGTGCGGGGCGGCCGCGGCACGCAC-CC-GG
1 GGAGCACGGTGCGCGCCCTC-CCGCCCCCT--GGGGTGCGGGGCGG-CGCGGCACGCACGCCAGG
5457064 CC
62 -C
5457066 AGGAGCACGGTGCGCGCCCTTCCCGCCCCCTGGGGTG-GGGGCGGTCGCGGC
1 -GGAGCACGGTGCGCGCCC-TCCCGCCCCCTGGGGTGCGGGGCGG-CGCGGC
5457117 GCACACCGTG
Statistics
Matches: 96, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
60 7 0.07
61 4 0.04
62 27 0.28
63 17 0.18
64 30 0.31
65 4 0.04
66 7 0.07
ACGTcount: A:0.08, C:0.39, G:0.45, T:0.09
Consensus pattern (62 bp):
GGAGCACGGTGCGCGCCCTCCCGCCCCCTGGGGTGCGGGGCGGCGCGGCACGCACGCCAGGC
Found at i:5464626 original size:402 final size:403
Alignment explanation
Indices: 5463809--5465389 Score: 2404
Period size: 402 Copynumber: 3.9 Consensus size: 403
5463799 CAGCTGGGCA
* * * *
5463809 CGACCTGGATTTCAATCGAGAGGGACACTCTGCCGGGGCGCGACCCGTGCGAGGAACAGGAACAT
1 CGACCTGGATTTTAATCGAGAGGGACA--CTGCCGGGGCGCGAACCATGCCAGG--C--G--CAT
* * * * *
5463874 CGAGCACAATCCCCGACAGGCAACCGGCAAGACGAGCCCACCGTTGCCGATGCAAGGGCCGCGAG
58 GGAGCGCAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAG
* *
5463939 ACTGCCCCTGCTCGAGGGGCAATGGCCAGGCCACGCCCTCACCTGCAGCATCTG-CCAGCGCCAC
123 ACTGCCCCTGCTCGAGGGGC-ATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCA-CGCCAC
* *
5464003 AGCCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTC
186 AACCGGGACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAGCCTTACCTTC
5464068 CGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGACCGGGGG
251 CGGCACGACCACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGACCGGGGG
5464133 CCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTCACCGA
316 CCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTCACCGA
5464198 AAACCACGATCGCAAGGCTCGCG
381 AAACCACGATCGCAAGGCTCGCG
5464221 CGACCTGGATTTTAATCGAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCA
1 CGACCTGGATTTTAATCGAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCA
5464286 ATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCC
66 ATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCC
*
5464351 TGCCCGAGGGGCATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACA
131 TGCTCGAGGGGCATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACA
*
5464416 ACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAGCCTTGCCTTCCGGCA-GACC
196 ACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAGCCTTACCTTCCGGCACGACC
*
5464480 ACGCCCCGTTACCCGCACACGCGTGCCAAACGATCGCGCACGTAGCGACCGGGGGCCTCACCACG
261 ACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGACCGGGGGCCTCACCACG
5464545 GATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGAT
326 GATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGAT
5464610 CGCAAGGCTCGCG
391 CGCAAGGCTCGCG
5464623 CGACCTGGATTTTAATCGAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCA
1 CGACCTGGATTTTAATCGAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCA
5464688 ATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCC
66 ATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCC
* *
5464753 TGCTCGAGGGGCATGGCCAGGCCAAGCCCTCACCTGCAGCCTCTGCCCACGCCACAACCGGGACT
131 TGCTCGAGGGGCATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACA
* * *
5464818 ACCGACTCGAATTCGGGAACTTGGCAGCATCACCGCTAGGTGCGAGCCTTGCCTTCCGGCACGAC
196 ACCTACTCGAATTCGGGAACTTGGCAGAATCACCGC-AGGTGCGAGCCTTACCTTCCGGCACGAC
* * * * **
5464883 CACGCCCCGTTACCCGCACACGCGTGCCAACCGATCGCGCACGCAGAGACCGACGGCCTCACCAC
260 CACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGACCGGGGGCCTCACCAC
* * *
5464948 GGATCACTTGGACCGCGAAGGGTC-CCGTCACCGCAGCTGGGCATCCGGCCACCGAAAACCACGA
325 GGATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGA
*
5465012 TCGCAAGGCACGCG
390 TCGCAAGGCTCGCG
* * * * * *
5465026 CGACCTGGATCTTAACCGAGAGGGACACTCTGCCGGGGCGCGATCAATGCCAGGCGCATCGAGCA
1 CGACCTGGATTTTAATCGAGAGGGACA--CTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCG
* * * * *
5465091 CAATCCCCGACAGACAACCGGCGGGACGAGCCCACCGTTGCCGAAGCAAGGGCCGCGAGACTGCC
64 CAATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCC
5465156 CCTGCTC-ACGGGGCATGGCCAGGCCAAGCCC-CACCTGCAGCTTCTGCCCACGCCACAACCGGG
129 CCTGCTCGA-GGGGCATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGG
* * * * *
5465219 ACTACCAACTCGAATTCGGGAACTTGGCAGAATCAGCGCAGGTG-GAAG-CTTAACCCTACGGCA
193 ACAACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCG-AGCCTT-ACCTTCCGGCA
** ** * *
5465282 CGACCACGCCCCTTGTGCCCCACACACGCGTGCCATGCGATCG-GCAGCATACGGCGACCGGGGA
256 CGACCACGCCCC--GTTACCCACACACGCGTGCCAAACGATCGCGCA-CGTA--GCGACCGGGGG
** * *
5465346 CCTTGCCACGGATCACCTGGACCGCGCAGGGTCTCCATCACCGC
316 CCTCACCACGGATCACTTGGACCGCGTAGGGTCTCCATCACCGC
5465390 GACAAGGTTT
Statistics
Matches: 1093, Mismatches: 62, Indels: 32
0.92 0.05 0.03
Matches are distributed among these distances:
402 376 0.34
403 233 0.21
404 242 0.22
405 147 0.13
406 1 0.00
407 36 0.03
408 10 0.01
410 22 0.02
412 26 0.02
ACGTcount: A:0.22, C:0.37, G:0.29, T:0.12
Consensus pattern (403 bp):
CGACCTGGATTTTAATCGAGAGGGACACTGCCGGGGCGCGAACCATGCCAGGCGCATGGAGCGCA
ATCCCCGACAGGCAACCGGCAGGACGTGCCCACCGTTGCCGATGCAAGGGCCACGAGACTGCCCC
TGCTCGAGGGGCATGGCCAGGCCAAGCCCTCACCTGCAGCTTCTGCCCACGCCACAACCGGGACA
ACCTACTCGAATTCGGGAACTTGGCAGAATCACCGCAGGTGCGAGCCTTACCTTCCGGCACGACC
ACGCCCCGTTACCCACACACGCGTGCCAAACGATCGCGCACGTAGCGACCGGGGGCCTCACCACG
GATCACTTGGACCGCGTAGGGTCTCCATCACCGCAGCTGGGCATCCGGTCACCGAAAACCACGAT
CGCAAGGCTCGCG
Found at i:5466550 original size:103 final size:101
Alignment explanation
Indices: 5466398--5466586 Score: 297
Period size: 103 Copynumber: 1.9 Consensus size: 101
5466388 CGGCCCGGGG
*
5466398 GCGCCCTTCCCGCCCCCGTGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
1 GCGCCCTTCCCGCCCCCGGGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
5466463 CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
66 CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
* * * *
5466499 GCGCCCTTCCCGCCCCCTGGGGTGGGGGGCGGTCGGGGCGCCCACCTCGCGGGGCGCCGGTGCGC
1 GCGCCCTTCCCGCCCCC-GGGGT-GGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGC
* *
5466564 GCCTCGCCCGCCCTCTGGTGCGG
64 GCCTCGCCCACCCTCGGGTGCGG
5466587 GCGGCCGCGG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 17 0.22
102 4 0.05
103 58 0.73
ACGTcount: A:0.05, C:0.43, G:0.42, T:0.11
Consensus pattern (101 bp):
GCGCCCTTCCCGCCCCCGGGGTGGGGGCGGCCGGGGCGCACACCACGCGGAGCGCCGGTGCGCGC
CTCGCCCACCCTCGGGTGCGGCCAGGAGCACGGTGC
Found at i:5466826 original size:64 final size:64
Alignment explanation
Indices: 5466747--5466996 Score: 428
Period size: 64 Copynumber: 3.9 Consensus size: 64
5466737 CGTTTGGTTG
* * * *
5466747 GGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCTGCATGTTAGAGA
1 GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAGA
5466811 GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAGA
1 GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAGA
5466875 GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAGA
1 GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAGA
* * * *
5466939 GGGGGGAGGGCCGGATGGTTGGGTGGGACTCGTTGCCCACGCTTGGGCCTCTGCATGT
1 GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGT
5466997 GCTATCGGTG
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 178 1.00
ACGTcount: A:0.13, C:0.22, G:0.46, T:0.20
Consensus pattern (64 bp):
GGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAGA
Found at i:5467708 original size:64 final size:63
Alignment explanation
Indices: 5467630--5467749 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 63
5467620 CGTTTGGTTG
* *
5467630 GGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTTCGCATGTTAGAAAA
1 GGGGGAGGGACGGATGCTGGGGAGGGACTCGTT-CCCACGCTTGGCCCTCCGCATGTTAGAAAA
* * * *
5467694 GGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTCCCACGCTTGGGCCTCCGCATGT
1 GGGGGAGGGACGGATGCTGGGGAGGGACTCGTTCCCACGCTTGGCCCTCCGCATGT
5467750 GCTATCGGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 20 0.40
64 30 0.60
ACGTcount: A:0.15, C:0.23, G:0.43, T:0.19
Consensus pattern (63 bp):
GGGGGAGGGACGGATGCTGGGGAGGGACTCGTTCCCACGCTTGGCCCTCCGCATGTTAGAAAA
Found at i:5468067 original size:755 final size:753
Alignment explanation
Indices: 5466873--5468438 Score: 2753
Period size: 755 Copynumber: 2.1 Consensus size: 753
5466863 GCATGTTAGA
* * * *
5466873 GAGGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAG
1 GAGGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAA
* * *
5466938 AGGGGGGAGGGCCGGATGGTTGGGTGGGACTCGTTGCCCACGCTTGGGCCTCTGCATGTGCTATC
66 AAGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCCCACGCTTGGGCCTCCGCATGTGCTATC
*
5467003 GGTGCCGAATTCGCGGTCCTCGGCAACGTCGCCGGAGAACCTGACCGGCGGGGGGGAGCCCCGGC
131 GGTGCCGAATTCGCGGTCCTCGGCAACATCGCCGGAGAACCTGACCGGCGGGGGGGAGCCCCGGC
5467068 GAGTGGCGGGTGGCACGCGACGGGTGCTGGGTGGCAGCCCCGCGGGGCACCCCCAGTGCCCCCCC
196 GAGTGGCGGGTGGCACGCGACGGGTGCTGGGTGGCAGCCCCGCGGGGCACCCCCAGTGCCCCCCC
5467133 TAGGTTGCTCAAGTATCACACCCCCTATAGAGCTTAAGGGGCATTTCATATCCGTTACCAGCGGA
261 TAGGTTGCTCAAGTATCACACCCCCTATAGAGCTTAAGGGGCATTTCATATCCGTTACCAGCGGA
* * *
5467198 CAGGACCATGTTCGAAACAGGGTCGGTTTTTCTGCCGCACCTAGGGTGGCGCAAGCCTGGACCAC
326 CAGGACCATGTTCGAAACAGGGTCGGTTTTTCTGCCGCACCTAGGGTGCCGCAAGCCCGCACCAC
*
5467263 CTCGCGCAGCCGGCGCGCGCCTCGCCCACCCTCGGGCGCGGGCGGCCGAGGCACACCCCCGGCCA
391 CTCGCGCAGCCGGCGCGAGCCTCGCCCACCCTCGGGCGCGGGCGGCCGAGGCACACCCCCGGCCA
5467328 GGTGCACGGTGCGCGCCCTGCCCGCCCCCTGGTGTGGGGGCGGCCGGGGCGCAAACCATGCGGAG
456 GGTGCACGGTGCGCGCCCTGCCCGCCCCCTGGTGTGGGGGCGGCCGGGGCGCAAACCATGCGGAG
*
5467393 CACCGGTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGATCGGTGCGCGCCTCGCCCACCCT
521 CACCGGTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGAACGGTGCGCGCCTCGCCCACCCT
5467458 GGGGGGTGCGGGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCTTCCCGCCCCC
586 GGGGGGTGCGGGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCTTCCCGCCCCC
* * *
5467523 TGGGGTGGGGGCGGTCGGGGCGCACACC-TCGCGGG-GCACCGGGTGCGCACCGTTGTCGGGGTA
651 TGGGGTGGGGGCGGTCGCGGCGCACACCGT-G-GGGAGCACCGGGTGCGCACAGTTGCCGGGGTA
* *
5467586 CCCAACCGACCGACGCAACGCTAAGGGACGAACACGTTTG
714 CCCAACCGACCGACGCAACGCTAAGGGAAGAACACGTTCG
* *
5467626 GTTGGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTTCGCATGTTAGA
1 G-AGGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGA
5467691 AAAGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTT-CCCACGCTTGGGCCTCCGCATGTGCTAT
65 AAAGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCCCACGCTTGGGCCTCCGCATGTGCTAT
*
5467755 CGGTGCCGAATTCGCGGTCCTCGGCACCATCGCCGGAGAACCTGACCGGCGGTGGGGGGAGCCCC
130 CGGTGCCGAATTCGCGGTCCTCGGCAACATCGCCGGAGAACCTGACCGGC-G-GGGGGGAGCCCC
5467820 GGCGAGTGGCGGGTGGCACGCGACGGGTGCTGGGTGGCAGCCCCGCGGGGCACCCCCAGTGCCCC
193 GGCGAGTGGCGGGTGGCACGCGACGGGTGCTGGGTGGCAGCCCCGCGGGGCACCCCCAGTGCCCC
5467885 CCCTAGGTTGCTCAAGTATCACACCCCCTATAGAGCTTAAGGGGCATTTCATATCCGTTACCAGC
258 CCCTAGGTTGCTCAAGTATCACACCCCCTATAGAGCTTAAGGGGCATTTCATATCCGTTACCAGC
5467950 GGACAGGACCATGTTCGAAACAGGGTCGGTTTTTCTGCCGCACCTAGGGTGCCGCAAGCCCGCAC
323 GGACAGGACCATGTTCGAAACAGGGTCGGTTTTTCTGCCGCACCTAGGGTGCCGCAAGCCCGCAC
* *
5468015 CACCTCGGGCAGCCGGCGCGAGCCTCGCCCACTCTCGGGCGCGGGCGGCCGAGGCACACCCCCGG
388 CACCTCGCGCAGCCGGCGCGAGCCTCGCCCACCCTCGGGCGCGGGCGGCCGAGGCACACCCCCGG
* * * *
5468080 CCGGGTGCACGGTGCGCGCCCTGCCTGCCCCCTGGTGTGGGGGCGGTCGGGGCGCACACCATGCG
453 CCAGGTGCACGGTGCGCGCCCTGCCCGCCCCCTGGTGTGGGGGCGGCCGGGGCGCAAACCATGCG
5468145 GAGCACCGGTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGAACGGTGCGCGCCTCGCCCAC
518 GAGCACCGGTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGAACGGTGCGCGCCTCGCCCAC
5468210 CCTGGGGGGTGCGGGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCTTCCCGCC
583 CCTGGGGGGTGCGGGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCTTCCCGCC
5468275 CCCTGGGGTGGGGGCGGTCGCGGCGCACACCGTGGGGAGCACCGGGTGCGCACAGTTGCCGGGGT
648 CCCTGGGGTGGGGGCGGTCGCGGCGCACACCGTGGGGAGCACCGGGTGCGCACAGTTGCCGGGGT
*
5468340 ACCCAACCGACCGGCGCAACGCTAAGGGAAGAACACGTTCG
713 ACCCAACCGACCGACGCAACGCTAAGGGAAGAACACGTTCG
* * *
5468381 GAGCGGGGAGGGACGGATGGCCGGGGGAGGGACTCGTTGCGCATGCGTTGG-CCTCCGC
1 GAGGGGGGAGGGACGGAT-G-CTGGGGAGGGACTCGTTGCGCACGC-TTGGCCCTCCGC
5468439 CCGTTTGGTG
Statistics
Matches: 772, Mismatches: 33, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
753 76 0.10
754 110 0.14
755 552 0.72
756 30 0.04
757 4 0.01
ACGTcount: A:0.14, C:0.34, G:0.39, T:0.14
Consensus pattern (753 bp):
GAGGGGGGAGGGACGGATGCTGGGGAGGGACTCGTTGCGCACGCTTGGCCCTCCGCATGTTAGAA
AAGGGGGAGGGCCGGATGGTTGGGAGGGACTCGTTGCCCACGCTTGGGCCTCCGCATGTGCTATC
GGTGCCGAATTCGCGGTCCTCGGCAACATCGCCGGAGAACCTGACCGGCGGGGGGGAGCCCCGGC
GAGTGGCGGGTGGCACGCGACGGGTGCTGGGTGGCAGCCCCGCGGGGCACCCCCAGTGCCCCCCC
TAGGTTGCTCAAGTATCACACCCCCTATAGAGCTTAAGGGGCATTTCATATCCGTTACCAGCGGA
CAGGACCATGTTCGAAACAGGGTCGGTTTTTCTGCCGCACCTAGGGTGCCGCAAGCCCGCACCAC
CTCGCGCAGCCGGCGCGAGCCTCGCCCACCCTCGGGCGCGGGCGGCCGAGGCACACCCCCGGCCA
GGTGCACGGTGCGCGCCCTGCCCGCCCCCTGGTGTGGGGGCGGCCGGGGCGCAAACCATGCGGAG
CACCGGTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGAACGGTGCGCGCCTCGCCCACCCT
GGGGGGTGCGGGGCGGCCGCGGCACGCACCCGGCCAGGAGCACGGTGCGCGCCCTTCCCGCCCCC
TGGGGTGGGGGCGGTCGCGGCGCACACCGTGGGGAGCACCGGGTGCGCACAGTTGCCGGGGTACC
CAACCGACCGACGCAACGCTAAGGGAAGAACACGTTCG
Found at i:5473254 original size:13 final size:13
Alignment explanation
Indices: 5473236--5473260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5473226 CATAAAGTGT
5473236 TGTATCGATACAA
1 TGTATCGATACAA
5473249 TGTATCGATACA
1 TGTATCGATACA
5473261 TTTTTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5473340 original size:13 final size:13
Alignment explanation
Indices: 5473322--5473346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5473312 ATCACTTAAA
5473322 TGTATCGATACAT
1 TGTATCGATACAT
5473335 TGTATCGATACA
1 TGTATCGATACA
5473347 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5473411 original size:52 final size:52
Alignment explanation
Indices: 5473355--5473483 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
5473345 CACTGATCTT
* *
5473355 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* **
5473407 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTTTCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5473459 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
5473484 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5487326 original size:9 final size:8
Alignment explanation
Indices: 5487313--5487482 Score: 145
Period size: 8 Copynumber: 20.9 Consensus size: 8
5487303 CGGCGTCCTC
5487313 CAAAAAAA
1 CAAAAAAA
5487321 CCAAAAAAA
1 -CAAAAAAA
5487330 -AAAAACAA
1 CAAAAA-AA
*
5487338 AAAAAAAA
1 CAAAAAAA
5487346 CGAAAAAAA
1 C-AAAAAAA
5487355 CCAAAAAAA
1 -CAAAAAAA
*
5487364 AAAACAAAA
1 CAAA-AAAA
5487373 CAAAAAAA
1 CAAAAAAA
*
5487381 -AACGAAAA
1 CAA-AAAAA
**
5487389 -AAATGAA
1 CAAAAAAA
5487396 -AAAAAAA
1 CAAAAAAA
5487403 CAAAAAAA
1 CAAAAAAA
5487411 CAAAAACAA
1 CAAAAA-AA
*
5487420 AAAAAAAA
1 CAAAAAAA
5487428 CAAAAAAA
1 CAAAAAAA
5487436 CAAAAAAA
1 CAAAAAAA
5487444 -AAAAACAA
1 CAAAAA-AA
*
5487452 AAAAAAAA
1 CAAAAAAA
5487460 CAAAAACAA
1 CAAAAA-AA
*
5487469 -ACAAAAA
1 CAAAAAAA
5487476 CAAAAAA
1 CAAAAAA
5487483 GGGGGTCCGG
Statistics
Matches: 135, Mismatches: 14, Indels: 25
0.78 0.08 0.14
Matches are distributed among these distances:
7 21 0.16
8 65 0.48
9 48 0.36
10 1 0.01
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.01
Consensus pattern (8 bp):
CAAAAAAA
Found at i:5487327 original size:1 final size:1
Alignment explanation
Indices: 5487323--5487482 Score: 131
Period size: 1 Copynumber: 160.0 Consensus size: 1
5487313 CAAAAAAACC
* ** ** * * **
5487323 AAAAAAAAAAAACAAAAAAAAAACGAAAAAAACCAAAAAAAAAAACAAAACAAAAAAAAACGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * * * * *
5487388 AAAATGAAAAAAAAACAAAAAAACAAAAACAAAAAAAAAACAAAAAAACAAAAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
5487453 AAAAAAACAAAAACAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5487483 GGGGGTCCGG
Statistics
Matches: 122, Mismatches: 37, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 122 1.00
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:5487330 original size:11 final size:11
Alignment explanation
Indices: 5487325--5487481 Score: 160
Period size: 11 Copynumber: 13.9 Consensus size: 11
5487315 AAAAAACCAA
5487325 AAAAAAAAAAC
1 AAAAAAAAAAC
5487336 AAAAAAAAAAC
1 AAAAAAAAAAC
* *
5487347 -GAAAAAAACC
1 AAAAAAAAAAC
5487357 AAAAAAAAAAAC
1 -AAAAAAAAAAC
5487369 AAAACAAAAAA-
1 AAAA-AAAAAAC
*
5487380 AAACGAAAAAAATG
1 AAA--AAAAAAA-C
*
5487394 AAAAAAAAACAA
1 AAAAAAAAA-AC
5487406 AAAAACAAAAAC
1 AAAAA-AAAAAC
5487418 AAAAAAAAAAC
1 AAAAAAAAAAC
*
5487429 AAAAAAACAA-
1 AAAAAAAAAAC
5487439 AAAAAAAAAAC
1 AAAAAAAAAAC
5487450 AAAAAAAAAAC
1 AAAAAAAAAAC
*
5487461 -AAAAACAAAC
1 AAAAAAAAAAC
5487471 AAAAACAAAAA
1 AAAAA-AAAAA
5487482 AGGGGGTCCG
Statistics
Matches: 124, Mismatches: 10, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
10 26 0.21
11 48 0.39
12 41 0.33
13 6 0.05
14 3 0.02
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.01
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:5487374 original size:38 final size:37
Alignment explanation
Indices: 5487323--5487482 Score: 184
Period size: 38 Copynumber: 4.2 Consensus size: 37
5487313 CAAAAAAACC
5487323 AAAAAAAAAAAACAAAAAAAAAACGAAAAA-AACCAAAA
1 AAAAAAAAAAAACAAAAAAAAAAC-AAAAACAA-CAAAA
* *
5487361 AAAAAAACAAAAC-AAAAAAAAACGAAAAA-AATGAAAA
1 AAAAAAAAAAAACAAAAAAAAAAC-AAAAACAA-CAAAA
*
5487398 AAAAACAAAAAAACAAAAACAAAAA-AAAAACAAAAAAA
1 AAAAA-AAAAAAACAAAAA-AAAAACAAAAACAACAAAA
5487436 CAAAAAAAAAAAACAAAAAAAAAACAAAAACAAACAAAA
1 -AAAAAAAAAAAACAAAAAAAAAACAAAAAC-AACAAAA
*
5487475 ACAAAAAA
1 AAAAAAAA
5487483 GGGGGTCCGG
Statistics
Matches: 108, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
37 32 0.30
38 54 0.50
39 17 0.16
40 5 0.05
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.01
Consensus pattern (37 bp):
AAAAAAAAAAAACAAAAAAAAAACAAAAACAACAAAA
Found at i:5489012 original size:57 final size:57
Alignment explanation
Indices: 5488932--5489440 Score: 407
Period size: 57 Copynumber: 8.6 Consensus size: 57
5488922 TCAAAAGTCT
*
5488932 ACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGTCC
1 ACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
*
5488989 ACAAGTTAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
1 ACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
** * * **
5489046 ACAAGTCAGTGGCA-A-CCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCC
1 ACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCC
* * * * * * * ** * *
5489103 ACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTACGCTC
1 ACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCA-AC-----C-TTTAAAAGCCC
* * * ** * *
5489167 ACAACTCTA-TAGCACTCTTTTTCTTTTTCAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCC
1 ACAAGTC-AGTGGCA-TATTTTTC----AAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCC
5489231 ACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
1 ACAAGTCAGTGGCATATTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
* *** **
5489289 ACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 ACAAGTCAGTGGCATATTTTTC-AAAGCCCACAAGTCAGTGGCA-ACCTTT-AAAAGCCC
* ** * *
5489349 ACAAGTTAGTGGCA-ACCTTTAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCC
1 ACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
* ** * *
5489404 ACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTC
1 ACAAGTCAGTGGCA-TATTTTTCAAAGCCCACAAGTC
5489441 GGTGACACAT
Statistics
Matches: 365, Mismatches: 65, Indels: 44
0.77 0.14 0.09
Matches are distributed among these distances:
55 44 0.12
56 6 0.02
57 103 0.28
58 69 0.19
59 31 0.08
60 43 0.12
63 13 0.04
64 28 0.08
65 12 0.03
68 1 0.00
69 15 0.04
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
ACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCC
Found at i:5489103 original size:30 final size:30
Alignment explanation
Indices: 5488921--5489440 Score: 392
Period size: 30 Copynumber: 17.6 Consensus size: 30
5488911 TTCATCACCC
* * ***
5488921 TTCAAAAGTCTACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5488951 TTC-AAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * ***
5488979 TT-AAAAGTCCACAAGTTAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5489008 TTC-AAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5489036 TT-AAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5489063 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
** * *
5489092 TTCCGAAGCCCACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
5489121 TTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAC-CCTT
** * * * * *
5489152 TTCTTTTGTACGCTCACAACTCTA-TAGCACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAC-CCTT
*** *
5489187 TTCTTTTTCAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCACCCTT
***
5489220 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5489250 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5489279 TT-AAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
***
5489308 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
5489338 TTCAAAAGCCCACAAGTTAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5489367 TT-AAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5489394 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
**
5489423 TTCCGAAGCCCACAAGTC
1 TTCAAAAGCCCACAAGTC
5489441 GGTGACACAT
Statistics
Matches: 401, Mismatches: 67, Indels: 44
0.78 0.13 0.09
Matches are distributed among these distances:
27 48 0.12
28 96 0.24
29 80 0.20
30 125 0.31
31 5 0.01
33 7 0.02
34 17 0.04
35 23 0.06
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:5489310 original size:58 final size:59
Alignment explanation
Indices: 5489196--5489440 Score: 320
Period size: 58 Copynumber: 4.2 Consensus size: 59
5489186 TTTCTTTTTC
* * ***
5489196 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAA
1 AGCCCACAAGTCAGTGGCAACC-TTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
5489256 AGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTTAGTGGCACCCTTTTCAAA
1 AGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
** * *
5489314 AGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTTAGTGGCAACC-TTT-AAA
1 AGCCCACAAGTCAGTGGCA-ACCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* **
5489372 AGCCCACAAGTCAGTGGCAACC-TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGA
1 AGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
5489429 AGCCCACAAGTC
1 AGCCCACAAGTC
5489441 GGTGACACAT
Statistics
Matches: 165, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
55 21 0.13
56 6 0.04
57 14 0.08
58 70 0.42
59 10 0.06
60 44 0.27
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (59 bp):
AGCCCACAAGTCAGTGGCAACCTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
Found at i:5489345 original size:88 final size:88
Alignment explanation
Indices: 5489196--5489440 Score: 388
Period size: 88 Copynumber: 2.8 Consensus size: 88
5489186 TTTCTTTTTC
5489196 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
5489261 ACAAGTCAGTGGCAACCTTTAAA
66 ACAAGTCAGTGGCAACCTTTAAA
5489284 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
*
5489349 ACAAGTTAGTGGCAACCTTTAAA
66 ACAAGTCAGTGGCAACCTTTAAA
* * * *** **
5489372 AGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCC
1 AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
5489434 ACAAGTC
66 ACAAGTC
5489441 GGTGACACAT
Statistics
Matches: 147, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
85 37 0.25
86 3 0.02
88 107 0.73
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (88 bp):
AGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCC
ACAAGTCAGTGGCAACCTTTAAA
Found at i:5489513 original size:49 final size:49
Alignment explanation
Indices: 5489455--5489732 Score: 337
Period size: 49 Copynumber: 5.9 Consensus size: 49
5489445 ACACATTTTC
* *
5489455 CATCTTTAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
5489504 CATCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
5489549 C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
**
5489596 TTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A----
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
5489639 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT
*
5489690 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 -CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
5489733 ACATCCTTTT
Statistics
Matches: 194, Mismatches: 20, Indels: 27
0.80 0.08 0.11
Matches are distributed among these distances:
43 74 0.38
44 1 0.01
45 2 0.01
47 1 0.01
48 1 0.01
49 77 0.40
52 38 0.20
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:5489574 original size:43 final size:43
Alignment explanation
Indices: 5489507--5489688 Score: 247
Period size: 43 Copynumber: 4.1 Consensus size: 43
5489497 GCACCTTCAT
* *
5489507 CTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
5489550 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C
* *
5489594 TTTTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
5489642 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
5489685 CTTT
1 CTTT
5489689 TCCATCTTTA
Statistics
Matches: 122, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
43 82 0.67
44 1 0.01
48 1 0.01
49 38 0.31
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:5489615 original size:92 final size:92
Alignment explanation
Indices: 5489458--5489741 Score: 442
Period size: 92 Copynumber: 3.0 Consensus size: 92
5489448 CATTTTCCAT
* * * * **
5489458 CTTTAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTA
* *
5489523 GCTAGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGACAC
*
5489550 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTA
5489615 GCTGGCCTTGAATCAGCACATTGACAC
66 GCTGGCCTTGAATCAGCACATTGACAC
*
5489642 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT---TCTTTAAGTCCAAT
5489707 GTAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGACA-C
5489738 CTTT
1 CTTT
5489742 TTCTCATCTT
Statistics
Matches: 177, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
92 130 0.73
95 42 0.24
96 5 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGACAC
Found at i:5489720 original size:52 final size:53
Alignment explanation
Indices: 5489642--5489795 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 53
5489632 ACATTGACAC
5489642 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
5489694 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * *
5489749 CTTTAAG-CCTAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
5489796 ATCACTTTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 7 0.08
55 35 0.41
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:5490687 original size:13 final size:13
Alignment explanation
Indices: 5490669--5490693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5490659 ATCACTTAAA
5490669 TGTATCGATACAT
1 TGTATCGATACAT
5490682 TGTATCGATACA
1 TGTATCGATACA
5490694 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5490758 original size:52 final size:52
Alignment explanation
Indices: 5490702--5490830 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
5490692 CACTGATCTT
* *
5490702 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
5490754 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5490806 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
5490831 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5506961 original size:61 final size:60
Alignment explanation
Indices: 5506800--5506961 Score: 141
Period size: 61 Copynumber: 2.6 Consensus size: 60
5506790 GGTACGGCCA
* * *
5506800 GGAGCACGGTGCGCGCCCTTCCCGCCCCCTGGGGTGGGGGGCGGTCGGGGCGCCCACCTCGCGG
1 GGAGCACGGTGCGCGCCCTTCCCGCCCCCT-GGGT---GGGCGGCCGCGGCACCCACCTCGCGG
* * * ** *
5506864 GGCGC-CGGTGCGCG-CCTCGCCCGCCCTCTGGTGTGGGCGGCCGCGGCACGGACC-CGGGCG
1 GGAGCACGGTGCGCGCCCT-TCCCGCCCCCTGG-GTGGGCGGCCGCGGCACCCACCTCGCG-G
*
5506924 GGAGCACGGGGCGCGCCCTTCCCGCCCCCTAGGGTGGG
1 GGAGCACGGTGCGCGCCCTTCCCGCCCCCT-GGGTGGG
5506962 GGCGGTCGGG
Statistics
Matches: 79, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
59 3 0.04
60 20 0.25
61 22 0.28
62 10 0.13
63 20 0.25
64 4 0.05
ACGTcount: A:0.05, C:0.40, G:0.44, T:0.10
Consensus pattern (60 bp):
GGAGCACGGTGCGCGCCCTTCCCGCCCCCTGGGTGGGCGGCCGCGGCACCCACCTCGCGG
Found at i:5516477 original size:52 final size:52
Alignment explanation
Indices: 5516392--5516516 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
5516382 ATATGAAAAG
* *
5516392 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
5516444 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
5516496 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
5516517 AAGATCAATG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:5516527 original size:52 final size:52
Alignment explanation
Indices: 5516392--5516536 Score: 204
Period size: 52 Copynumber: 2.8 Consensus size: 52
5516382 ATATGAAAAG
* * *
5516392 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
***
5516444 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
5516496 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
5516537 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 4 0.05
52 81 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:5516540 original size:13 final size:13
Alignment explanation
Indices: 5516522--5516549 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5516512 ATACAAAGAT
5516522 CAATGTATCGATA
1 CAATGTATCGATA
5516535 CAATGTATCGATA
1 CAATGTATCGATA
5516548 CA
1 CA
5516550 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:5516627 original size:12 final size:12
Alignment explanation
Indices: 5516610--5516634 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5516600 ACAAAAAAAT
5516610 ATGTATCGATAC
1 ATGTATCGATAC
5516622 ATGTATCGATAC
1 ATGTATCGATAC
5516634 A
1 A
5516635 ACACTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:5517568 original size:67 final size:67
Alignment explanation
Indices: 5517446--5517694 Score: 279
Period size: 67 Copynumber: 3.9 Consensus size: 67
5517436 ATTGGGTTTT
* * * *
5517446 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGATG
1 AAAG-TGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
5517511 AGA
65 AGA
* * * *
5517514 AAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGAT---GA-GA
1 AAAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATGA
5517575 -A
66 GA
* *
5517576 AAAG-GAT---G-T--CAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGA
1 AAAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATGA
5517634 GA
66 GA
* * * *
5517636 AAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
5517695 GAAAAAGGAT
Statistics
Matches: 149, Mismatches: 20, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
55 35 0.23
57 1 0.01
58 3 0.02
59 2 0.01
60 5 0.03
61 6 0.04
62 5 0.03
63 2 0.01
64 3 0.02
65 1 0.01
67 82 0.55
68 4 0.03
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (67 bp):
AAAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATGA
GA
Found at i:5517605 original size:122 final size:121
Alignment explanation
Indices: 5517463--5517748 Score: 518
Period size: 122 Copynumber: 2.3 Consensus size: 121
5517453 ATGAAGGTGC
*
5517463 CAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGATGAGAAAAGTGATAAAGAT
1 CAATGTGCTGATTCAAGGCCAGCAATATT-GACTTAAAGATGAAGATGAGAAAAGTGATAAAGAT
5517528 GCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
65 GCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
5517585 CAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGAT
1 CAATGTGCTGATTCAAGGCCAGCAATATT-GACTTAAAGATGAAGATGAGAAAAGTGATAAAGAT
5517650 GCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
65 GCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
* *
5517707 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 CAATGTGCTGATTCAAGGCCAGCAATATTG-ACTTAAAGATG
5517749 GAAAAGGTGC
Statistics
Matches: 159, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
121 1 0.01
122 158 0.99
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (121 bp):
CAATGTGCTGATTCAAGGCCAGCAATATTGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATG
CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
Found at i:5517622 original size:55 final size:55
Alignment explanation
Indices: 5517525--5517797 Score: 264
Period size: 55 Copynumber: 4.8 Consensus size: 55
5517515 AAGTGATAAA
* * * * *
5517525 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAAAAG
* *
5517580 GATGTCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GA-GA-AAAAG
* * * *
5517640 TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 -GAT---G-T--CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAAAAG
* * * *
5517702 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAAAAG
* *
5517755 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
5517798 GTGCCAATGT
Statistics
Matches: 181, Mismatches: 25, Indels: 27
0.78 0.11 0.12
Matches are distributed among these distances:
52 38 0.21
53 6 0.03
54 1 0.01
55 73 0.40
57 1 0.01
58 3 0.02
59 2 0.01
60 5 0.03
61 6 0.03
62 5 0.03
63 2 0.01
64 3 0.02
65 1 0.01
67 35 0.19
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (55 bp):
GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAGAAAAAG
Found at i:5517964 original size:49 final size:49
Alignment explanation
Indices: 5517707--5518269 Score: 724
Period size: 49 Copynumber: 11.7 Consensus size: 49
5517697 AAAAGGATGT
*
5517707 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
5517759 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
5517802 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
5517850 CAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
5517898 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
5517947 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
5517996 CAATATGCTGATTCAAGGCTAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
5518045 CAATTTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
5518094 CAATATACTTATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
5518137 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
5518185 CAATGTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * * *
5518234 GAATATGATGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
5518270 GAAGGGTTGC
Statistics
Matches: 452, Mismatches: 46, Indels: 29
0.86 0.09 0.06
Matches are distributed among these distances:
43 75 0.17
45 1 0.00
46 3 0.01
47 1 0.00
48 139 0.31
49 201 0.44
52 32 0.07
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:5518371 original size:33 final size:33
Alignment explanation
Indices: 5518262--5518380 Score: 158
Period size: 33 Copynumber: 3.7 Consensus size: 33
5518252 CCAGCTATAT
5518262 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
* * *
5518292 TGGGATTTAG-AGAGTGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAAGA-AGGTTGCCACCGACTTGTG
*
5518325 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
5518358 TGGGCTTTAGAAGAAGG-TGCCAC
1 TGGGCTTTAGAAGAAGGTTGCCAC
5518381 GAAGTCGTGG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
30 6 0.08
31 4 0.05
32 6 0.08
33 58 0.75
34 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.27
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:5518433 original size:33 final size:32
Alignment explanation
Indices: 5518356--5518964 Score: 460
Period size: 33 Copynumber: 18.8 Consensus size: 32
5518346 CACCGACTTG
*
5518356 TGTGGGCTTT--A-GAAGAAGGTGCCACGAAGT
1 TGTGGGCTTTAAAGGAA-AAGGTGCCACGGAGT
* * * *
5518386 CGTGGACTTAAAAGGAAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAGGAAAAG-GTGCCACGGAGT
5518419 TGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGG--AAAA-GGTGCCACGGAGT
* * *
5518454 TGTAGGC-TT--A--AAATGGTGCCACAGAGT
1 TGTGGGCTTTAAAGGAAAAGGTGCCACGGAGT
* * * *
5518481 TGTGGACTTAAAAGGAAAAGAATGCCACGTAGT
1 TGTGGGCTTTAAAGGAAAAG-GTGCCACGGAGT
*
5518514 TGTGGGCTTTAAAGGAAAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTAAAGG--AAAA-GGTGCCACGGAGT
* *
5518549 CGTGGAC-TT--A--AAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGGTGCCACGGAGT
*
5518576 TGTGGGC-TTAGAAAGAGAAAGGTGCCACGGAGT
1 TGTGGGCTTTA-AAGGA-AAAGGTGCCACGGAGT
*
5518609 TGTGGGC-TT--A--AAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGGTGCCACGGAGT
5518636 TGTGGGCTTTAAA--AAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAA-AAGGTGCCACGGAGT
** *
5518667 CATGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAA-GG-AAAAG-GTGCCACGGAGT
5518703 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT--AAA-GG-AAAAG-GTGCCACGGAGT
* *
5518740 TGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGT
1 TGTGGGCTTT-AAAGGAAAAGGTGCCACGGAGT
* * *
5518773 GGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAAT
1 TGTGGGCTTT-A-AAGGAAAAGG-TGCCACGGAGT
*
5518808 TGTGGGCTTT--A--AAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAAAAGGTGCCACGGAGT
* *
5518836 TGTGGACTTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAGGAA-AAGGTGCCACGGAGT
* *
5518869 TGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAA-GG-AAAAG-GTGCCACGGAGT
*
5518904 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTT--AAAGGAAAAGGTGCCACGGAGT
*
5518938 TGTGGGCTTTGAA-GAAAAGGATGCCAC
1 TGTGGGCTTTAAAGGAAAAGG-TGCCAC
5518965 TAAGTCATGG
Statistics
Matches: 478, Mismatches: 55, Indels: 90
0.77 0.09 0.14
Matches are distributed among these distances:
27 58 0.12
28 29 0.06
29 5 0.01
30 14 0.03
31 28 0.06
32 24 0.05
33 122 0.26
34 42 0.09
35 89 0.19
36 28 0.06
37 39 0.08
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (32 bp):
TGTGGGCTTTAAAGGAAAAGGTGCCACGGAGT
Found at i:5518474 original size:27 final size:27
Alignment explanation
Indices: 5518436--5518683 Score: 113
Period size: 27 Copynumber: 8.3 Consensus size: 27
5518426 TTTAAAGGAA
*
5518436 AAAAGGGTGCCACGGAGTTGTAGG-CTT
1 AAAAGGGTGCCACAGAGTTGT-GGACTT
*
5518463 AAAATGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
*
5518490 AAAAGGAAAAGAATGCCAC-GTAGTTGTGGGCTTT
1 AAAAGG----G--TGCCACAG-AGTTGTGGAC-TT
*
5518524 AAAGGAAAAAAGGGTGCCACAGAGTCGTGGACTT
1 -------AAAAGGGTGCCACAGAGTTGTGGACTT
* * *
5518558 AAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTGTGGACTT
* *
5518585 AGAAAGAGAAAGGTGCCACGGAGTTGTGGGCTT
1 --AAA-AG---GGTGCCACAGAGTTGTGGACTT
* *
5518618 AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACAGAGTTGTGGAC-TT
* **
5518646 AAAAAGAAGGTGCCACGGAGTCATGGACTTT
1 -AAAAG--GGTGCCACAGAGTTGTGGAC-TT
5518677 AAAAGGG
1 AAAAGGG
5518684 AAAAAGAGTG
Statistics
Matches: 180, Mismatches: 14, Indels: 53
0.73 0.06 0.21
Matches are distributed among these distances:
26 2 0.01
27 70 0.39
28 4 0.02
29 8 0.04
30 8 0.04
31 24 0.13
32 1 0.01
33 37 0.21
34 4 0.02
35 14 0.08
36 1 0.01
37 1 0.01
41 6 0.03
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTGTGGACTT
Found at i:5518489 original size:95 final size:93
Alignment explanation
Indices: 5518356--5518946 Score: 544
Period size: 95 Copynumber: 6.1 Consensus size: 93
5518346 CACCGACTTG
* * *
5518356 TGTGGGCTTTAGAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTG
1 TGTGGGC-TTA-AA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTG
5518421 TGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
63 TGGGCTTTAAA--AAAAAAGGGTGCCACGGAGT
* * * * *
5518454 TGTAGGCTTAAAATGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGAATGCCACGTAGTTGTGG
1 TGTGGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGG
*
5518519 GCTTTAAAGGAAAAAAGGGTGCCACAGAGT
66 GCTTTAAA--AAAAAAGGGTGCCACGGAGT
* * *
5518549 CGTGGACTTAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAA-GAGAAAG-GTGCCACGGAGTTGT
1 TGTGGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTA-AAAGGA-AAAGAGTGCCACGGAGTTGT
5518612 GGGC-TT-----AAAAGGGTGCCACGGAGT
64 GGGCTTTAAAAAAAAAGGGTGCCACGGAGT
**
5518636 TGTGGGCTTTAAAAAGAAGGTGCCACGGAGTCATGGACTTTAAAAGGGAAAAAGAGTGCCACGGA
1 TGTGGGC-TT--AAA-AAGGTGCCACGGAGTTGTGGAC-TTAAAA-GG-AAAAGAGTGCCACGGA
*
5518701 GTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
59 GTTGTGGGCTTT-AAAA---AAAAAGGGTGCCACGGAGT
* * * *
5518740 TGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAG-GTTGCCACG
1 TGTGGGC-TTAAAAAG-----GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAGAG-TGCCACG
*
5518804 GAATTGTGGGCTTT-----AAAAGGGTGCCACGGAGT
57 GAGTTGTGGGCTTTAAAAAAAAAGGGTGCCACGGAGT
*
5518836 TGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGG
1 TGTGGGCTT---A--AA-AAGGTGCCACGGAGTTGTGGACTTAAAA-GG-AAAAGAGTGCCACGG
*
5518901 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
58 AGTTGTGGGCTTTAAAAA-AAAAGGGTGCCACGGAGT
5518938 TGTGGGCTT
1 TGTGGGCTT
5518947 TGAAGAAAAG
Statistics
Matches: 413, Mismatches: 37, Indels: 82
0.78 0.07 0.15
Matches are distributed among these distances:
87 22 0.05
88 2 0.00
90 3 0.01
91 22 0.05
92 3 0.01
93 5 0.01
94 25 0.06
95 134 0.32
96 74 0.18
97 4 0.01
98 7 0.02
100 2 0.00
101 6 0.01
102 28 0.07
104 28 0.07
105 25 0.06
106 20 0.05
107 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.21
Consensus pattern (93 bp):
TGTGGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGG
GCTTTAAAAAAAAAGGGTGCCACGGAGT
Found at i:5518780 original size:164 final size:161
Alignment explanation
Indices: 5518371--5518946 Score: 623
Period size: 164 Copynumber: 3.6 Consensus size: 161
5518361 GCTTTAGAAG
* * *
5518371 AAGGTGCCACGAAGTCGTGGACTTAAAA-GG-AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA--
* * * * *
5518434 AA-AAAAGGGTGCCACGGAGTTGTAGGCTTAAAATGGTGCCACAGAGTTGTGGAC-TTAAAAGGA
64 AAGAAAA-AGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAA--A
* * * * *
5518497 AAAGAATGCCACGTAGTTGTGGGCTTT-AAAGGAAAA
126 GAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
* * *
5518533 AAGGGTGCCACAGAGTCGTGGACTT-------AAAAAG-GTGCCACGGAGTTGTGGGC-TTAGAA
1 AA-GGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
*
5518589 AGAGAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
65 AGA-AAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
**
5518654 GGTGCCACGGAGTCATGGACTTTAAAAGGGAAA
129 GGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
*
5518687 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
5518752 AAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTT
63 AAAGAAAAAGTGCCACGGAGTTGTGGGC-TT-------AAAAGGGTGCCACGGAGTTGTGGGCTT
*
5518817 T-AAAAG--GGTGCCACGGAGTTGTGGAC-TTAAAA-GGAAC
120 TAAAAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAA
5518854 AAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
5518919 GAAAAAGGTGCCACGGAGTTGTGGGCTT
66 GAAAAA-GTGCCACGGAGTTGTGGGCTT
5518947 TGAAGAAAAG
Statistics
Matches: 359, Mismatches: 28, Indels: 52
0.82 0.06 0.12
Matches are distributed among these distances:
153 18 0.05
154 32 0.09
155 46 0.13
156 13 0.04
157 18 0.05
158 5 0.01
162 2 0.01
163 26 0.07
164 89 0.25
165 30 0.08
166 18 0.05
167 7 0.02
168 6 0.02
169 18 0.05
171 5 0.01
172 26 0.07
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (161 bp):
AAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
GAAAAAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGG
TGCCACGGAGTTGTGGACTTTAAAAGGGAAA
Found at i:5518888 original size:96 final size:96
Alignment explanation
Indices: 5518722--5518917 Score: 256
Period size: 96 Copynumber: 2.0 Consensus size: 96
5518712 TGAAAAGGGA
* * *
5518722 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGACTTTGAAA
5518787 AGAAAAAG-GTTGCCACGGAATTGTGGGCTTT
66 AGAAAAAGAG-TGCCACGGAATTGTGGGCTTT
* * * *
5518818 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TT-AA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAA-AAAGTGCCACGGAGTGGTGGACTTTGAA
*
5518880 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
65 AA--GAAAAAGAGTGCCACGGAATTGTGGGCTTT
5518914 AAAA
1 AAAA
5518918 AGAAAAAGGT
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
94 3 0.03
95 11 0.12
96 73 0.83
97 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (96 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGACTTTGAAA
AGAAAAAGAGTGCCACGGAATTGTGGGCTTT
Found at i:5518993 original size:96 final size:96
Alignment explanation
Indices: 5518356--5519077 Score: 492
Period size: 95 Copynumber: 7.5 Consensus size: 96
5518346 CACCGACTTG
* ** * *
5518356 TGTGGGCTTT--AGAAGAAGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAGAA-AAGGTGCCACGGAGTCGTGGACTT-TGAGAAAAAGAGTGCCACGGAGT
*
5518419 TGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
64 TGTGGGCTTTAAAAG-AAAAA-GGTGCCACGGAGT
* * * * ** * * *
5518454 TGTAGGC-TT--A-AAATGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGAATGCCACGTAGTT
1 TGTGGGCTTTAAAGAAAAGGTGCCACGGAGTCGTGGACTT-TGAGAAAAAGAGTGCCACGGAGTT
* *
5518515 GTGGGCTTTAAAGGAAAAAAGGGTGCCACAGAGT
65 GTGGGCTTTAAAAG-AAAAA-GGTGCCACGGAGT
* * * * * *
5518549 CGTGGAC-TT--A-AAAAGGTGCCACGGAGTTGTGGGCTTAGAAAGAGAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAGAAAAGGTGCCACGGAGTCGTGGACTTTG--AGAAAAAGAGTGCCACGGAGT
5518609 TGTGGGC-TTAAAAG-----GGTGCCACGGAGT
64 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
* *
5518636 TGTGGGCTTTAAA-AAGAAGGTGCCACGGAGTCATGGACTTTAAAAGGGAAAAAGAGTGCCACGG
1 TGTGGGCTTTAAAGAA-AAGGTGCCACGGAGTCGTGGACTTT----GAGAAAAAGAGTGCCACGG
5518700 AGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
61 AGTTGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGT
* * * *
5518740 TGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCACGG
1 TGTGGGCTTT--AAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAGAA-AAAGA-G-TGCCACGG
*
5518805 AATTGTGGGCTTTAAAAG-----GGTGCCACGGAGT
61 AGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
* * * * *
5518836 TGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGG
1 TGTGGGCTTTAAA-GAA-AAGGTGCCACGGAGTCGTGGACTT---TGAGAAAAAGAGTGCCACGG
5518901 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
61 AGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGT
* ** * * * *
5518938 TGTGGGCTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGACAAA-A-TGCCACTGAGTC
1 TGTGGGCTTTAAAGAAAAGG-TGCCACGGAGTCGTGGACTTTGAGAAAAAGAGTGCCACGGAGTT
* * *
5519001 GTGGACTTT-GAAG-AAAAGGATGCCACTGAGT
65 GTGGGCTTTAAAAGAAAAAGG-TGCCACGGAGT
* * * * * * *
5519032 CGTGGACTTT-GAGAAGAGATTGCCACTGAGTCGTGGGCTTTGAGAA
1 TGTGGGCTTTAAAGAAAAG-GTGCCACGGAGTCGTGGACTTTGAGAA
5519078 GAGATTTGAA
Statistics
Matches: 515, Mismatches: 68, Indels: 87
0.77 0.10 0.13
Matches are distributed among these distances:
87 17 0.03
88 2 0.00
90 3 0.01
91 21 0.04
93 40 0.08
94 50 0.10
95 130 0.25
96 91 0.18
97 11 0.02
98 17 0.03
99 4 0.01
100 4 0.01
101 19 0.04
102 28 0.05
103 5 0.01
104 27 0.05
105 20 0.04
106 24 0.05
107 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.21
Consensus pattern (96 bp):
TGTGGGCTTTAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAGAAAAAGAGTGCCACGGAGTTG
TGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
Done.