Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 192 of 221
Found at i:56496105 original size:40 final size:40
Alignment explanation
Indices: 56496050--56496153 Score: 183
Period size: 40 Copynumber: 2.6 Consensus size: 40
56496040 TTGTTGAATA
56496050 CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATG
1 CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATG
*
56496090 CACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATG
1 CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATG
*
56496130 CACATATGTG-CCCTGTTTGTACTT
1 CACATACGTGCCCCTGTTTGTACTT
56496154 TGGTAACCCT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.23
40 48 0.77
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (40 bp):
CACATACGTGCCCCTGTTTGTACTTCGATACCCCTAAATG
Found at i:56496123 original size:20 final size:20
Alignment explanation
Indices: 56496060--56496125 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
56496050 CACATACGTG
56496060 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
*** * * *
56496080 CCCCTAAATGCACATACG-TG
1 CCCCTGTTTGTAC-TTCGATA
56496100 CCCCTGTTTGTACTTCGATA
1 CCCCTGTTTGTACTTCGATA
56496120 CCCCTG
1 CCCCTG
56496126 AATGCACATA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGATA
Found at i:56497005 original size:54 final size:54
Alignment explanation
Indices: 56496871--56496990 Score: 179
Period size: 54 Copynumber: 2.2 Consensus size: 54
56496861 GTGTTCAAGC
* * *
56496871 CAGTGAGTTACACGGCCTAGCACACAGCCTGACACATGGGCGTGTGTGGTAACT
1 CAGTGAGTTACACGGCCTAGCACACGGCCTGACACACGGGCGTGTGGGGTAACT
* *
56496925 CAGAGAGTTACACGGCCTAGCACACGGCCTGACACACGGGCTTGTGGGGCT-ACT
1 CAGTGAGTTACACGGCCTAGCACACGGCCTGACACACGGGCGTGTGGGG-TAACT
56496979 CAGTGAGTTACA
1 CAGTGAGTTACA
56496991 TGGGCTGGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.19
Consensus pattern (54 bp):
CAGTGAGTTACACGGCCTAGCACACGGCCTGACACACGGGCGTGTGGGGTAACT
Found at i:56498420 original size:14 final size:14
Alignment explanation
Indices: 56498401--56498439 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
56498391 CCAGAAAAGT
56498401 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
56498415 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
56498429 AAGTCATTTTC
1 AAATCATTTTC
56498440 AATGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:56499232 original size:30 final size:31
Alignment explanation
Indices: 56499198--56499259 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
56499188 TAAAAAATAC
*
56499198 TTAA-TAGCCCAATACCTTAAATAAAAACTT
1 TTAATTAGCCCAATAACTTAAATAAAAACTT
** **
56499228 TTAATTAGTTCGGTAACTTAAATAAAAACTT
1 TTAATTAGCCCAATAACTTAAATAAAAACTT
56499259 T
1 T
56499260 CGAATAGTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (31 bp):
TTAATTAGCCCAATAACTTAAATAAAAACTT
Found at i:56499276 original size:31 final size:31
Alignment explanation
Indices: 56499207--56499289 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
56499197 CTTAATAGCC
* *
56499207 CAATACCTTAAATAAAAACTTTTAATTAGTT
1 CAATAACTTAAATAAAAACTTTGAATTAGTT
**
56499238 CGGTAACTTAAATAAAAACTTTCGAA-TAGTT
1 CAATAACTTAAATAAAAACTTT-GAATTAGTT
* *
56499269 CAATAAC-TAAATTATAACTTT
1 CAATAACTTAAATAAAAACTTT
56499290 TTTTTACTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
30 12 0.28
31 29 0.67
32 2 0.05
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTTGAATTAGTT
Found at i:56501573 original size:106 final size:104
Alignment explanation
Indices: 56501345--56501652 Score: 334
Period size: 106 Copynumber: 2.9 Consensus size: 104
56501335 CCCAAAAAAT
* ** *
56501345 AATACATGGAGATACACAAATATGCAAAACAAAGTGTATAAAAACTATAAGTCTATTTTATTAT-
1 AATACATGGAGATACACAAATATGCAAAACAAA--GTATAAAAACTATGAGTCTACATCATTATA
* * **
56501409 ACCTTGGGAAAAAGAGCCCTGCAATCACCACAATTAATCCA
64 ACCTTGGAAAAAAGAGCCATGCAATCACCACAAAGAATCCA
* * *
56501450 AATACACGGAGATACACAATTATGCAAAACAAAGTATACAAAACTATGAGCCTACATCATTATAA
1 AATACATGGAGATACACAAATATGCAAAACAAAGTATA-AAAACTATGAGTCTACATCATTATAA
* ** *
56501515 CCTTGGAAAAAAAGATCCATGCAATTGCCACAAAGAATCTA
65 CCTTGG-AAAAAAGAGCCATGCAATCACCACAAAGAATCCA
* * *
56501556 AATACATGAAGATACACAACTATGCAAAACAAAGGATATAAAACTATGAGTCTACA-CAATTATA
1 AATACATGGAGATACACAAATATGCAAAACAAAGTATA-AAAACTATGAGTCTACATC-ATTATA
* * **
56501620 ACCTTTGG-GAAAAGAGCCCTGCAGCCACCACAA
64 ACC-TTGGAAAAAAGAGCCATGCAATCACCACAA
56501653 TTAGGGGAGA
Statistics
Matches: 170, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
103 5 0.03
104 19 0.11
105 57 0.34
106 85 0.50
107 4 0.02
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (104 bp):
AATACATGGAGATACACAAATATGCAAAACAAAGTATAAAAACTATGAGTCTACATCATTATAAC
CTTGGAAAAAAGAGCCATGCAATCACCACAAAGAATCCA
Found at i:56520543 original size:21 final size:21
Alignment explanation
Indices: 56520514--56520555 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56520504 AGGTCAGCCA
56520514 TGCTATATTCAAAATCCCACG
1 TGCTATATTCAAAATCCCACG
* *
56520535 TGCTGTATTCAAAATCTCACG
1 TGCTATATTCAAAATCCCACG
56520556 AACAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (21 bp):
TGCTATATTCAAAATCCCACG
Found at i:56521986 original size:14 final size:14
Alignment explanation
Indices: 56521967--56521996 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56521957 GCTACCATTT
56521967 TACTATTATGTTGC
1 TACTATTATGTTGC
*
56521981 TACTATTTTGTTGC
1 TACTATTATGTTGC
56521995 TA
1 TA
56521997 TTGTTTAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:56522061 original size:30 final size:30
Alignment explanation
Indices: 56522027--56522088 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
56522017 ACTTATTTTA
56522027 TTGTTAATTTTGTTATCATTTTAAAGACAT
1 TTGTTAATTTTGTTATCATTTTAAAGACAT
* * *
56522057 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATCATTTTAAAGACAT
56522087 TT
1 TT
56522089 ACTTTTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATCATTTTAAAGACAT
Found at i:56522172 original size:54 final size:54
Alignment explanation
Indices: 56522113--56522215 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
56522103 ATTTATCTTA
*
56522113 GTGTTATTTAAGTCTACATATTTTTTAAAATTTATTTTCAATTTGTTGGGAAAT
1 GTGTTATTTAAGTCTACATATTTTTTAAAAATTATTTTCAATTTGTTGGGAAAT
56522167 GTGTTATTTAAGTCTACATATTTTTTAAAAATTATTTTCAATTTGTTGG
1 GTGTTATTTAAGTCTACATATTTTTTAAAAATTATTTTCAATTTGTTGG
56522216 AAGATATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (54 bp):
GTGTTATTTAAGTCTACATATTTTTTAAAAATTATTTTCAATTTGTTGGGAAAT
Found at i:56538367 original size:13 final size:12
Alignment explanation
Indices: 56538337--56538385 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 12
56538327 GTAAATAATC
56538337 TTTTTTGTATAT
1 TTTTTTGTATAT
* *
56538349 TATTTTG-GTAT
1 TTTTTTGTATAT
56538360 TTTTTT-T-TAT
1 TTTTTTGTATAT
56538370 TTTTTTGTAATAT
1 TTTTTTGT-ATAT
56538383 TTT
1 TTT
56538386 GGTAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
10 9 0.30
11 9 0.30
12 6 0.20
13 6 0.20
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTTGTATAT
Found at i:56539580 original size:132 final size:131
Alignment explanation
Indices: 56539371--56539802 Score: 666
Period size: 132 Copynumber: 3.3 Consensus size: 131
56539361 CTCCCGAAGC
* * * *
56539371 AGCAGTAGAGTAGGTCGAAGATTGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCAGATAGAAGA
1 AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
56539436 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCTTGA
66 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCC-TGA
56539501 GA
130 GA
*
56539503 AGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
1 AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
* *
56539568 CGACGAATCTTATCTTCCCAAGGTAGTAGGGAAACAGATTTAAGCCACTAGCCTTGTCTCACTGA
66 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTC-CTGA
56539633 GA
130 GA
* * * *
56539635 AGCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGAAACAGATCGAAGA
1 AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
* * * *
56539700 CGGCGAATCTTATCTTCTCAAGGTAATAAGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGA
66 CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCT-CCTGA
56539765 GA
130 GA
* * * *
56539767 AGCAATGGAGTAGGTTGAAGATAGCAGATCTTGTCT
1 AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCT
56539803 TATTGTATTG
Statistics
Matches: 277, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
132 275 0.99
133 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (131 bp):
AGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATAGAAGA
CGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTGTCTCCTGAG
A
Found at i:56539832 original size:45 final size:45
Alignment explanation
Indices: 56539783--56539982 Score: 274
Period size: 45 Copynumber: 4.4 Consensus size: 45
56539773 GGAGTAGGTT
** *
56539783 GAAGATAGCAGATCTTGTCTTATTGTATTGCCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
56539828 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
56539873 GAAGATAGCAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
56539918 GAAGATAGCATATATTGTCTTCTTATATTAGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
56539963 GAAGATTGTAGATCCTGTCT
1 GAAGATAGCAGATCTTGTCT
56539983 CCCTAAGCGA
Statistics
Matches: 137, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 137 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:56549430 original size:208 final size:208
Alignment explanation
Indices: 56549072--56549487 Score: 832
Period size: 208 Copynumber: 2.0 Consensus size: 208
56549062 TAAGTACTCA
56549072 TTGCCTCGGATTGATGATCTGTTTGACCAGTTGAAGGGTGCCACTGTATTTTCAAAGATTGATAT
1 TTGCCTCGGATTGATGATCTGTTTGACCAGTTGAAGGGTGCCACTGTATTTTCAAAGATTGATAT
56549137 CTGATCGGGCTACTATCAGTTACGGGTAAAGGAGTCAGATGTACCGAAGACAGCTTTTAGAACCA
66 CTGATCGGGCTACTATCAGTTACGGGTAAAGGAGTCAGATGTACCGAAGACAGCTTTTAGAACCA
56549202 GGTATGGGCATTACGAGTTTTTGGTTATGCCGTTTGGGCTGACTAATGCACCTGCAGTATTTATG
131 GGTATGGGCATTACGAGTTTTTGGTTATGCCGTTTGGGCTGACTAATGCACCTGCAGTATTTATG
56549267 GACCGATGAATCG
196 GACCGATGAATCG
56549280 TTGCCTCGGATTGATGATCTGTTTGACCAGTTGAAGGGTGCCACTGTATTTTCAAAGATTGATAT
1 TTGCCTCGGATTGATGATCTGTTTGACCAGTTGAAGGGTGCCACTGTATTTTCAAAGATTGATAT
56549345 CTGATCGGGCTACTATCAGTTACGGGTAAAGGAGTCAGATGTACCGAAGACAGCTTTTAGAACCA
66 CTGATCGGGCTACTATCAGTTACGGGTAAAGGAGTCAGATGTACCGAAGACAGCTTTTAGAACCA
56549410 GGTATGGGCATTACGAGTTTTTGGTTATGCCGTTTGGGCTGACTAATGCACCTGCAGTATTTATG
131 GGTATGGGCATTACGAGTTTTTGGTTATGCCGTTTGGGCTGACTAATGCACCTGCAGTATTTATG
56549475 GACCGATGAATCG
196 GACCGATGAATCG
56549488 GATATTCAGA
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 208 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (208 bp):
TTGCCTCGGATTGATGATCTGTTTGACCAGTTGAAGGGTGCCACTGTATTTTCAAAGATTGATAT
CTGATCGGGCTACTATCAGTTACGGGTAAAGGAGTCAGATGTACCGAAGACAGCTTTTAGAACCA
GGTATGGGCATTACGAGTTTTTGGTTATGCCGTTTGGGCTGACTAATGCACCTGCAGTATTTATG
GACCGATGAATCG
Found at i:56549731 original size:45 final size:45
Alignment explanation
Indices: 56549667--56549780 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
56549657 GTGGGTTTTC
*
56549667 TTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTGTA
1 TTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTATA
* * *
56549712 TTGGCAGCAAAGTAGATCGAAGATAGCAGATCTTGTCTTCTTATA
1 TTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTATA
* *
56549757 TTAGCAGCGAAGTAGATTGAAGAT
1 TTGGCAGCGAAGTAGATCGAAGAT
56549781 TGTAGATCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.29
Consensus pattern (45 bp):
TTGGCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTATA
Found at i:56549788 original size:45 final size:45
Alignment explanation
Indices: 56549670--56549799 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 45
56549660 GGTTTTCTTG
* * *
56549670 GCAGCGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTGTATTG
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTA
* *
56549715 GCAGCAAAGTAGATCGAAGATAGCAGATCTTGTCTTCTTATATTA
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTA
* * * * *
56549760 GCAGCGAAGTAGATTGAAGATTGTAGATCCTGTCTCCCTA
1 GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTA
56549800 AGCGATAGTG
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
GCAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTA
Found at i:56552867 original size:51 final size:49
Alignment explanation
Indices: 56552782--56552921 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 49
56552772 CATAGTGAAT
* * * *
56552782 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATCACAAAC
1 CTTATCTCTCTGAAGTTGCAGT-GAGCAGGTTGAAG-TATAAATCACAAAC
56552833 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA--AT--A--ACAAAC
1 CTTATCTCTCTGAAGTTGCAGT-GAGCAGGTTGAAGTATAAATCACAAAC
* * *
56552877 CTTATCCCTCTGAAGTTGCAATGAGGCAGGTTGAAGATACAAATC
1 CTTATCTCTCTGAAGTTGCAGTGA-GCAGGTTGAAG-TATAAATC
56552922 TTATCTCCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
43 2 0.03
44 36 0.49
46 1 0.01
47 1 0.01
48 2 0.03
49 1 0.01
51 30 0.41
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (49 bp):
CTTATCTCTCTGAAGTTGCAGTGAGCAGGTTGAAGTATAAATCACAAAC
Found at i:56552955 original size:44 final size:44
Alignment explanation
Indices: 56552827--56553119 Score: 202
Period size: 44 Copynumber: 6.6 Consensus size: 44
56552817 GCTATAAATC
* * * *
56552827 ACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-AT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
* * *
56552870 AACAAACCTTATC-CCTCTGAAGTTGCAAT-GAGGCAGGTTGAAGAT
1 -ACAAATCTTATCTCC-CTGAAGTTGCAGTGGA-GCAGATTGAAGAT
* *
56552915 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAAGACCGGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-----T
* * * **
56552964 ACAAATCTTATCTCCTTGAAGTCGCAGTGAAGCAGATT-AGAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGAT
* * ** * * *
56553008 ATAAACCTTATC-CCCCAAAG-TGCAGTGGGGCAGGTTGAATAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
* * * * * *
56553050 GCAAGTCTTATCTCACTGAAGTTGTAGTGGAGCAGACTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
* *
56553094 ACTAATCCTATCTCCCTGAAGTTGCA
1 ACAAATCTTATCTCCCTGAAGTTGCA
56553120 TTAGGAGCGG
Statistics
Matches: 190, Mismatches: 45, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
42 21 0.11
43 14 0.07
44 112 0.59
45 6 0.03
48 1 0.01
49 36 0.19
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT
Found at i:56555524 original size:107 final size:108
Alignment explanation
Indices: 56555310--56555610 Score: 466
Period size: 107 Copynumber: 2.8 Consensus size: 108
56555300 TCTAAATAAA
* * * * * *
56555310 GCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCAAATATGCTGAGTTTCGA-TTTCTCGT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTTCCCTAATGTGCTGGGTTTCGATTTTTTCGT
*
56555374 TCGACCAAATAGCCAAATAT-CTTTCTAAAATTTCAAAGTAAG
66 TCGACCAAATAGCCAAATATCCTTTCTAAAAATTCAAAGTAAG
*
56555416 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTTCCCTAATGTGCTGGGTTTTGATTTTTTCGT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTTCCCTAATGTGCTGGGTTTCGATTTTTTCGT
56555481 TCGACCAAATAGCCAAATATCCTTT-TAAAAATTCAAAGTAAG
66 TCGACCAAATAGCCAAATATCCTTTCTAAAAATTCAAAGTAAG
* *
56555523 GCAATATTTTGCGTTTGGAAATTCGAGAAAACATGT-CCTAATGTGCTAGGTTTCGATTTTTTCG
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGT-TCCCTAATGTGCTGGGTTTCGATTTTTTCG
*
56555587 TTTGACCAAATAGCCAAATATCCT
65 TTCGACCAAATAGCCAAATATCCT
56555611 CTTTCACCTC
Statistics
Matches: 180, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
106 50 0.28
107 125 0.69
108 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (108 bp):
GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTTCCCTAATGTGCTGGGTTTCGATTTTTTCGT
TCGACCAAATAGCCAAATATCCTTTCTAAAAATTCAAAGTAAG
Found at i:56558800 original size:19 final size:19
Alignment explanation
Indices: 56558776--56558854 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 19
56558766 CAAAATTATT
56558776 ATCTTTTAACTTTTTTAAA
1 ATCTTTTAACTTTTTTAAA
* *
56558795 ATCTTTTGACTTTCTTTATAT
1 ATCTTTTAACTTT-TTTA-AA
* *
56558816 ATTTTTTAGAATTTTTTAAAA
1 ATCTTTTA-ACTTTTTT-AAA
56558837 AT-TTTATAA-TTTTTTAAA
1 ATCTTT-TAACTTTTTTAAA
56558855 TATATAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.06
19 18 0.37
20 8 0.16
21 15 0.31
22 5 0.10
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (19 bp):
ATCTTTTAACTTTTTTAAA
Found at i:56558881 original size:26 final size:26
Alignment explanation
Indices: 56558834--56558883 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
56558824 GAATTTTTTA
* *
56558834 AAAATTTTATAATTTTTTAAATATAT
1 AAAATTTGATAATTTTTCAAATATAT
56558860 AAAATTTGA-AATTTTTACAAATAT
1 AAAATTTGATAATTTTT-CAAATAT
56558884 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
AAAATTTGATAATTTTTCAAATATAT
Found at i:56563383 original size:13 final size:13
Alignment explanation
Indices: 56563365--56563390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56563355 TAATAATTTA
56563365 TCCATCATCAATT
1 TCCATCATCAATT
56563378 TCCATCATCAATT
1 TCCATCATCAATT
56563391 CATTCTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
TCCATCATCAATT
Found at i:56563746 original size:6 final size:6
Alignment explanation
Indices: 56563711--56563756 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
56563701 CCAAACACAC
* *
56563711 CAGTAAA CAGTAA TCAGTAA CGGTAA CAGTAG CAGTAA CAGTAA CA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CA
56563757 ATATTCAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 24 0.71
7 10 0.29
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:56563807 original size:45 final size:45
Alignment explanation
Indices: 56563737--56563888 Score: 241
Period size: 45 Copynumber: 3.4 Consensus size: 45
56563727 GTAACGGTAA
* * *
56563737 CAGTAGCAGTAACAGTAACAATATTCAACACACAAAGTGCTGAAT
1 CAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAAT
* * *
56563782 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAAT
*
56563827 CGGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAAT
56563872 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
56563889 GTCGGCACAT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAAT
Found at i:56566197 original size:30 final size:31
Alignment explanation
Indices: 56566144--56566202 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
56566134 CACCCTTAAA
** *
56566144 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAACCCTTCAAATTTTTC
56566175 ATATTTACACT-TTAACCCTTCAAATTTT
1 ATATTTACACTATTAACCCTTCAAATTTT
56566203 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAAATTTTTC
Found at i:56566210 original size:30 final size:31
Alignment explanation
Indices: 56566144--56566212 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
56566134 CACCCTTAAA
** *
56566144 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAACCCTTCAACATTTTC
*
56566175 ATATTTACACT-TTAACCCTTCAA-ATTTTG
1 ATATTTACACTATTAACCCTTCAACATTTTC
56566204 AGTATTTAC
1 A-TATTTAC
56566213 TCTTGGGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAACATTTTC
Found at i:56578197 original size:14 final size:14
Alignment explanation
Indices: 56578178--56578205 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56578168 CAACTTTTAG
56578178 TTAGTATTTAGCAA
1 TTAGTATTTAGCAA
56578192 TTAGTATTTAGCAA
1 TTAGTATTTAGCAA
56578206 ATGTATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAGTATTTAGCAA
Found at i:56579364 original size:23 final size:23
Alignment explanation
Indices: 56579326--56579394 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
56579316 ATCTACCTTG
*
56579326 TTTGGACAGC-TCTTATACATCAA
1 TTTGGACAGCAT-TTATACACCAA
*
56579349 TTTGGACAGCATTTATATACCAA
1 TTTGGACAGCATTTATACACCAA
* **
56579372 ATTAAACAGCATTTATACACCAA
1 TTTGGACAGCATTTATACACCAA
56579395 AATTTAACAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (23 bp):
TTTGGACAGCATTTATACACCAA
Found at i:56579395 original size:23 final size:24
Alignment explanation
Indices: 56579354--56579414 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
56579344 ATCAATTTGG
*
56579354 ACAGCATTTATATACC-AAATTAA
1 ACAGCATTTATACACCAAAATTAA
*
56579377 ACAGCATTTATACACCAAAATTTA
1 ACAGCATTTATACACCAAAATTAA
*
56579401 ACAGCATATATACA
1 ACAGCATTTATACA
56579415 GTAAATAGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.28
Consensus pattern (24 bp):
ACAGCATTTATACACCAAAATTAA
Found at i:56579438 original size:69 final size:68
Alignment explanation
Indices: 56579355--56579712 Score: 437
Period size: 69 Copynumber: 5.2 Consensus size: 68
56579345 TCAATTTGGA
* * * **
56579355 CAGCATTTATATACCAAATTAAACAGCATTTATACACCAAAATTTAACAGCATATATACAGTAAA
1 CAGCATATACATACCAAATTGAACAGCATTT-TACACCAAAATTTAACAGCATATATACAACAAA
56579420 TAGG
65 TAGG
* * * * *
56579424 CAGCATATACATACCAATTTTAATAGCACTTTTACACCAAAATTTAACAGCATATATATAGCAAA
1 CAGCATATACATACCAAATTGAACAGCA-TTTTACACCAAAATTTAACAGCATATATACAACAAA
56579489 TAGG
65 TAGG
* * *
56579493 CAACATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAACATATATACAACAAA
1 CAGCATATACATACCAAATTGAACAGCA-TTTTACACCAAAATTTAACAGCATATATACAACAAA
*
56579558 TGGG
65 TAGG
* * * *
56579562 CATCATATACATACTAAATTGAGCAGCATTTTTACACAAAAATTTAACAGCATATATACAACAAA
1 CAGCATATACATACCAAATTGAACAGCA-TTTTACACCAAAATTTAACAGCATATATACAACAAA
56579627 TAGG
65 TAGG
* *** * * *
56579631 CAACATATACATACCAAATTGAGTTGCAATTTTACACCAAAATTGAATAGTATATATACAACAAA
1 CAGCATATACATACCAAATTGAACAGC-ATTTTACACCAAAATTTAACAGCATATATACAACAAA
*
56579696 TGGG
65 TAGG
56579700 CAGCATATACATA
1 CAGCATATACATA
56579713 ATACATCATA
Statistics
Matches: 255, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
69 251 0.98
70 4 0.02
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (68 bp):
CAGCATATACATACCAAATTGAACAGCATTTTACACCAAAATTTAACAGCATATATACAACAAAT
AGG
Found at i:56579488 original size:24 final size:23
Alignment explanation
Indices: 56579354--56579626 Score: 87
Period size: 24 Copynumber: 11.8 Consensus size: 23
56579344 ATCAATTTGG
* * * *
56579354 ACAGCATTTATATACCAAATTAA
1 ACAGCATATATACACAAAATTTA
*
56579377 ACAGCATTTATACACCAAAATTTA
1 ACAGCATATATACA-CAAAATTTA
**
56579401 ACAGCATATATACAGTAAA--TA
1 ACAGCATATATACACAAAATTTA
* * * * *
56579422 GGCAGCATATACATACCAATTTTA
1 -ACAGCATATATACACAAAATTTA
* *
56579446 ATAGCACT-TTTACACCAAAATTTA
1 ACAGCA-TATATACA-CAAAATTTA
*
56579470 ACAGCATATATATAGC-AAA--TA
1 ACAGCATATATACA-CAAAATTTA
* * * * *
56579491 GGCAACATATACATACCAAATTTA
1 -ACAGCATATATACACAAAATTTA
*
56579515 ACAGCACT-TTTACACCAAAATTTA
1 ACAGCA-TATATACA-CAAAATTTA
* **
56579539 ACAACATATATACA-ACAAA-TGG
1 ACAGCATATATACACA-AAATTTA
* * * * * *
56579561 GCATCATATACATACTAAATTGA
1 ACAGCATATATACACAAAATTTA
* * *
56579584 GCAGCATTTTTACACAAAAATTTA
1 ACAGCATATATACAC-AAAATTTA
56579608 ACAGCATATATACAACAAA
1 ACAGCATATATAC-ACAAA
56579627 TAGGCAACAT
Statistics
Matches: 179, Mismatches: 52, Indels: 37
0.67 0.19 0.14
Matches are distributed among these distances:
21 5 0.03
22 42 0.23
23 50 0.28
24 80 0.45
25 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.27
Consensus pattern (23 bp):
ACAGCATATATACACAAAATTTA
Found at i:56580566 original size:41 final size:41
Alignment explanation
Indices: 56580521--56580674 Score: 141
Period size: 41 Copynumber: 3.8 Consensus size: 41
56580511 TTGTATAAAA
* * * * *
56580521 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATT
* * *
56580562 CACCGGCACAAAGCCTGATAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATT
* * * *
56580603 CACTGGCACAGAGCCTTCT-GATATC-AAGCCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGACA-CAAAGCCTGATATAATT
* * * *
56580643 CACCAGCATAAAGCCTGCTAGGCATAAAGCCT
1 CACCGGCACAAAGCCTGCTAGACACAAAGCCT
56580675 AAACTTACAA
Statistics
Matches: 87, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
40 31 0.36
41 56 0.64
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGACACAAAGCCTGATATAATT
Found at i:56590155 original size:3 final size:3
Alignment explanation
Indices: 56590147--56590171 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56590137 AGATAAATTC
56590147 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
56590172 AAGACTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:56596638 original size:3 final size:3
Alignment explanation
Indices: 56596630--56596659 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
56596620 CCTTATTACA
*
56596630 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56596660 GCATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56597604 original size:17 final size:17
Alignment explanation
Indices: 56597575--56597624 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
56597565 TCTCCTTCTC
56597575 CTCCTTCTTCTTCTTATT
1 CTCCTT-TTCTTCTTATT
56597593 CTCCTTTTCTTCTTATT
1 CTCCTTTTCTTCTTATT
*
56597610 CT-TTTTCTCTTCTTA
1 CTCCTTT-TCTTCTTA
56597625 AACCCTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 3 0.10
17 21 0.70
18 6 0.20
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (17 bp):
CTCCTTTTCTTCTTATT
Found at i:56598720 original size:31 final size:30
Alignment explanation
Indices: 56598681--56598758 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
56598671 CATTTTAATG
*
56598681 ATAGAGTGACTAAAATTAACAACTTATCTA
1 ATAGAGTGACTAAAATCAACAACTTATCTA
* * *
56598711 ATAGAAGTGACTCAAATCAATAATTTATCTA
1 ATAG-AGTGACTAAAATCAACAACTTATCTA
* *
56598742 ACATGAGGGACTAAAAT
1 ATA-GAGTGACTAAAAT
56598759 AAAAAAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 4 0.10
31 34 0.87
32 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (30 bp):
ATAGAGTGACTAAAATCAACAACTTATCTA
Found at i:56599221 original size:20 final size:21
Alignment explanation
Indices: 56599185--56599235 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
56599175 ATAAAAAAAT
56599185 AAAAAATAATACATTAAATTA
1 AAAAAATAATACATTAAATTA
* *
56599206 AAAAAATAATTC-TTAATTTA
1 AAAAAATAATACATTAAATTA
56599226 AAGAAAATAA
1 AA-AAAATAA
56599236 ATGTAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATAATACATTAAATTA
Found at i:56600443 original size:29 final size:29
Alignment explanation
Indices: 56600410--56600468 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
56600400 TCCACCTTGA
* *
56600410 CACGAATTCTCAACGAACAAATTCTTCAC
1 CACGAACTCTCAACAAACAAATTCTTCAC
* *
56600439 CACGAACTCTCAACAAACAAGTTTTTCAC
1 CACGAACTCTCAACAAACAAATTCTTCAC
56600468 C
1 C
56600469 TCTTCCACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.32, G:0.07, T:0.24
Consensus pattern (29 bp):
CACGAACTCTCAACAAACAAATTCTTCAC
Found at i:56602831 original size:3 final size:3
Alignment explanation
Indices: 56602823--56602851 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56602813 ATGTTATTAA
56602823 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
56602852 GAAATAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:56603257 original size:17 final size:17
Alignment explanation
Indices: 56603235--56603268 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56603225 GGAAAAGAAG
56603235 GAAAGAAAGAAGA-AAAA
1 GAAAGAAA-AAGAGAAAA
56603252 GAAAGAAAAAGAGAAAA
1 GAAAGAAAAAGAGAAAA
56603269 TAGGGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAGAGAAAA
Found at i:56606295 original size:27 final size:27
Alignment explanation
Indices: 56606257--56606308 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
56606247 TCATTGAAGC
*
56606257 ATCTTCATTGCCGTCCATGCATGTATT
1 ATCTTCAATGCCGTCCATGCATGTATT
56606284 ATCTTCAATGCCGTCCATGCATGTA
1 ATCTTCAATGCCGTCCATGCATGTA
56606309 CCTACCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (27 bp):
ATCTTCAATGCCGTCCATGCATGTATT
Found at i:56606470 original size:3 final size:3
Alignment explanation
Indices: 56606462--56606496 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
56606452 TCTTAATACT
56606462 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
56606497 TAATAATACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:56606642 original size:11 final size:11
Alignment explanation
Indices: 56606622--56606661 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
56606612 AAAAAAATAC
56606622 CTTCTTTTTCT
1 CTTCTTTTTCT
*
56606633 CTTCTCTTTCT
1 CTTCTTTTTCT
56606644 C-TCTTTTTCT
1 CTTCTTTTTCT
56606654 CTTCTTTT
1 CTTCTTTT
56606662 CCGCAACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:56606649 original size:21 final size:20
Alignment explanation
Indices: 56606624--56606662 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
56606614 AAAAATACCT
56606624 TCTTTTTCTCTTCTCTTTCTC
1 TCTTTTTCTCTTCT-TTTCTC
56606645 TCTTTTTCTCTTCTTTTC
1 TCTTTTTCTCTTCTTTTC
56606663 CGCAACACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTTTTTCTCTTCTTTTCTC
Found at i:56606789 original size:27 final size:27
Alignment explanation
Indices: 56606746--56606818 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
56606736 ACACGAGTAA
*
56606746 TGCCGCCAAT-GCCTTTGGCACCATTGG
1 TGCCGCCAATCG-TTTTGGCACCATTGG
*
56606773 TGCCGCCAATCGTTTTGGCACCTTTGG
1 TGCCGCCAATCGTTTTGGCACCATTGG
56606800 TGCCGCCAATCGTTTTGGC
1 TGCCGCCAATCGTTTTGGC
56606819 GTGACCAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 42 0.98
28 1 0.02
ACGTcount: A:0.12, C:0.32, G:0.26, T:0.30
Consensus pattern (27 bp):
TGCCGCCAATCGTTTTGGCACCATTGG
Found at i:56606904 original size:22 final size:22
Alignment explanation
Indices: 56606879--56606923 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
56606869 TGTTTTTTTT
56606879 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
56606901 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGGTAAATAAAAAA
56606923 A
1 A
56606924 AGTTATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (22 bp):
ATATATTTTGGTAAATAAAAAA
Found at i:56610765 original size:24 final size:23
Alignment explanation
Indices: 56610725--56610875 Score: 99
Period size: 26 Copynumber: 6.2 Consensus size: 23
56610715 AAACGAAAAA
* * *
56610725 AAATATATAGAATAATTTGAAGT
1 AAATATATAAAACAATTTAAAGT
56610748 AAATAGTATAAAACAATTTAAAGT
1 AAATA-TATAAAACAATTTAAAGT
* *
56610772 AAATAATATGTAAAACAAATTAAAAT
1 AAAT-ATA--TAAAACAATTTAAAGT
* *
56610798 AAATAATACACAAAGCAATTTAAAAT
1 AAAT-ATATA-AAA-CAATTTAAAGT
* * *
56610824 AAATAACATATGAGACAATTTAAAAT
1 AAAT---ATATAAAACAATTTAAAGT
*
56610850 -AATATATAAAA-AATTTAAAAT
1 AAATATATAAAACAATTTAAAGT
56610871 AAATA
1 AAATA
56610876 AAATGCAAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
21 10 0.09
22 10 0.09
23 5 0.05
24 22 0.21
25 7 0.07
26 47 0.44
27 2 0.02
28 3 0.03
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.28
Consensus pattern (23 bp):
AAATATATAAAACAATTTAAAGT
Found at i:56610849 original size:22 final size:21
Alignment explanation
Indices: 56610824--56610872 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
56610814 AATTTAAAAT
* *
56610824 AAATAACATATGAGACAATTTA
1 AAATAACATAT-AAAAAATTTA
*
56610846 AAATAATATATAAAAAATTTA
1 AAATAACATATAAAAAATTTA
56610867 AAATAA
1 AAATAA
56610873 ATAAAATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
AAATAACATATAAAAAATTTA
Found at i:56610886 original size:26 final size:26
Alignment explanation
Indices: 56610757--56610991 Score: 135
Period size: 26 Copynumber: 8.9 Consensus size: 26
56610747 TAAATAGTAT
* *
56610757 AAAACAATTTAAAGTAAATAATATGT
1 AAAACAATTTAAAATAAATAATATGC
* **
56610783 AAAACAAATTAAAATAAATAATACAC
1 AAAACAATTTAAAATAAATAATATGC
*
56610809 AAAGCAATTTAAAATAAATAACATATG-
1 AAAACAATTTAAAATAAAT-A-ATATGC
*
56610836 -AGACAATTTAAAAT-AAT-ATAT--
1 AAAACAATTTAAAATAAATAATATGC
*
56610857 AAAA-AATTTAAAATAAATAAAATGC
1 AAAACAATTTAAAATAAATAATATGC
* * * *
56610882 AAAAAGAAGTTTGAAATAACTAATATAC
1 -AAAACAA-TTTAAAATAAATAATATGC
* *
56610910 AAAACAGTTTAAAAAATAAATGAGGTATAT-A
1 AAAACAATTT--AAAATAAAT-A---ATATGC
* **
56610941 AAAACAATTCAAAATAAATAATATAT
1 AAAACAATTTAAAATAAATAATATGC
* * *
56610967 ATAATAGTTTAAAAATAAATAATAT
1 AAAACAATTT-AAAATAAATAATAT
56610992 ATACAAAAAA
Statistics
Matches: 162, Mismatches: 29, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
21 10 0.06
22 9 0.06
23 3 0.02
25 7 0.04
26 63 0.39
27 22 0.14
28 26 0.16
29 10 0.06
31 8 0.05
32 4 0.02
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (26 bp):
AAAACAATTTAAAATAAATAATATGC
Found at i:56611001 original size:57 final size:54
Alignment explanation
Indices: 56610846--56611001 Score: 136
Period size: 56 Copynumber: 2.8 Consensus size: 54
56610836 AGACAATTTA
* * * **
56610846 AAATAATATATAAAAAATTT-AAAATAAATAAA-ATGCAAAAAGAAGTTTGAAAT
1 AAATAATATATAAAAAGTTTAAAAATAAATAAATATACAAAAA-AAATTCAAAAT
* * ** * *
56610899 AACTAATATACAAAACAGTTTAAAAAATAAATGAGGTATATAAAAACAATTCAAAAT
1 AAATAATATATAAAA-AGTTT-AAAAATAAAT-AAATATACAAAAAAAATTCAAAAT
*
56610956 AAATAATATATATAATAGTTTAAAAATAAATAATATATACAAAAAA
1 AAATAATATATA-AAAAGTTTAAAAATAAATAA-ATATACAAAAAA
56611002 TAGATAATAG
Statistics
Matches: 78, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
53 13 0.17
54 4 0.05
55 1 0.01
56 28 0.36
57 23 0.29
58 9 0.12
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (54 bp):
AAATAATATATAAAAAGTTTAAAAATAAATAAATATACAAAAAAAATTCAAAAT
Found at i:56611083 original size:29 final size:29
Alignment explanation
Indices: 56611051--56611122 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
56611041 GGAAAACTAG
*
56611051 AAATAAATAATAATAAAATA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-AGATTTAAAAT
*
56611080 AAAT-AATATATAAGAAAAAGGTTTAAAAT
1 AAATAAATA-ATAAGAAAAAGATTTAAAAT
56611109 AAATAAATGAATAA
1 AAATAAAT-AATAA
56611123 CAAATTCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 5 0.14
29 24 0.65
30 7 0.19
31 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAAGATTTAAAAT
Found at i:56612565 original size:17 final size:16
Alignment explanation
Indices: 56612535--56612586 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
56612525 CCTTTTTTTT
* *
56612535 AAACACGAATTTTTTA
1 AAACACAAATTTTTAA
* * *
56612551 AAATACAAGAATTTTAG
1 AAACACAA-ATTTTTAA
56612568 AAACACAAATTTTTAA
1 AAACACAAATTTTTAA
56612584 AAA
1 AAA
56612587 AACACGAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (16 bp):
AAACACAAATTTTTAA
Found at i:56612609 original size:34 final size:33
Alignment explanation
Indices: 56612530--56612642 Score: 97
Period size: 34 Copynumber: 3.3 Consensus size: 33
56612520 TTTTTCCTTT
* * * *
56612530 TTTTTAAACACGAATTTTTTAAAATACA--AGAA
1 TTTTGAAACAC-AAATTTTTAAAAAACACGAAAA
56612562 TTTTAGAAACACAAATTTTTAAAAAAACACGAAAA
1 TTTT-GAAACACAAATTTTT-AAAAAACACGAAAA
**
56612597 TTTTGAAACACAAGATTTCTT-TGAAACACGAAAA
1 TTTTGAAACACAA-ATTT-TTAAAAAACACGAAAA
56612631 TTTATGAAACAC
1 TTT-TGAAACAC
56612643 GGTCAATTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
32 11 0.16
33 13 0.19
34 23 0.34
35 19 0.28
36 2 0.03
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (33 bp):
TTTTGAAACACAAATTTTTAAAAAACACGAAAA
Found at i:56612640 original size:17 final size:17
Alignment explanation
Indices: 56612586--56612936 Score: 182
Period size: 17 Copynumber: 19.9 Consensus size: 17
56612576 ATTTTTAAAA
56612586 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
*
56612602 AAACAC-AAGATTTCTTTG
1 AAACACGAA-AATT-TTTG
*
56612620 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
**
56612637 AAACACGGTCAATTTCTT-
1 AAACAC-GAAAATTT-TTG
56612655 AAA-ACGAGAAAGTTTTTG
1 AAACACGA-AAA-TTTTTG
* **
56612673 AAAAACGGGAATTTTTTTTG
1 AAACAC--GAA-AATTTTTG
*
56612693 AAACACGAAAAATTTTG
1 AAACACGAAAATTTTTG
* *
56612710 AAACATTG-GAA-TTTTG
1 AAACA-CGAAAATTTTTG
** *
56612726 AAAACACGAGGATTTTTT
1 -AAACACGAAAATTTTTG
* *
56612744 AAATACGAAAA-ATTTG
1 AAACACGAAAATTTTTG
*
56612760 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
56612778 AAATACGAAAATTTTAG
1 AAACACGAAAATTTTTG
56612795 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
56612812 AAACAC-AGAAGTTTTTAG
1 AAACACGA-AAATTTTT-G
*
56612830 AAAACACGAAAAATTTTG
1 -AAACACGAAAATTTTTG
* **
56612848 AAA-ATTGGAATTTTTTTG
1 AAACA--CGAAAATTTTTG
*
56612866 AAAACACGAGAATTTTTG
1 -AAACACGAAAATTTTTG
*
56612884 AAAAACATGAAAATTTTTG
1 --AAACACGAAAATTTTTG
* *
56612903 CAACACTG-GAATTTTTG
1 AAACAC-GAAAATTTTTG
56612920 AAAACACGAAAAATTTT
1 -AAACACG-AAAATTTT
56612937 CCGATTTTTT
Statistics
Matches: 253, Mismatches: 50, Indels: 61
0.70 0.14 0.17
Matches are distributed among these distances:
15 2 0.01
16 19 0.08
17 110 0.43
18 64 0.25
19 42 0.17
20 14 0.06
21 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:56613082 original size:20 final size:22
Alignment explanation
Indices: 56613042--56613084 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
56613032 TGTTACCTTA
56613042 TTTTTGAAAAACACGAGAAATT
1 TTTTTGAAAAACACGAGAAATT
*
56613064 TTTTTG-AAGACACGA-AAATT
1 TTTTTGAAAAACACGAGAAATT
56613084 T
1 T
56613085 CGAAACCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 8 0.40
22 6 0.30
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (22 bp):
TTTTTGAAAAACACGAGAAATT
Found at i:56613456 original size:15 final size:14
Alignment explanation
Indices: 56613436--56613505 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 14
56613426 ATTGAACCTC
56613436 TTTTTTCTTTTTTCT
1 TTTTTTCTTTTTT-T
56613451 TTTTTTCCTTCTTTTT
1 TTTTTT-CTT-TTTTT
* *
56613467 TCCTTCTCTTTTTTT
1 T-TTTTTCTTTTTTT
56613482 TCTTTTTCTTTTCTTT
1 T-TTTTTCTTTT-TTT
56613498 TTTTTTCT
1 TTTTTTCT
56613506 CTGCTGGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
15 28 0.60
16 12 0.26
17 7 0.15
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:56613467 original size:11 final size:10
Alignment explanation
Indices: 56613436--56613505 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 10
56613426 ATTGAACCTC
56613436 TTTT-TTCTT
1 TTTTCTTCTT
56613445 TTTTCTT-TT
1 TTTTCTTCTT
*
56613454 TTTCCTTCTT
1 TTTTCTTCTT
56613464 TTTTCCTTCTCT
1 TTTT-CTTCT-T
*
56613476 TTTTTTTCTT
1 TTTTCTTCTT
*
56613486 TTTCTTTTCTT
1 TTT-TCTTCTT
*
56613497 TTTTTTTCT
1 TTTTCTTCT
56613506 CTGCTGGGCC
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
9 12 0.23
10 17 0.32
11 19 0.36
12 5 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:56613506 original size:32 final size:30
Alignment explanation
Indices: 56613436--56613507 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 30
56613426 ATTGAACCTC
56613436 TTTTTTCT-TTTTTCTTTTTTTCCTTCTTT
1 TTTTTTCTCTTTTTCTTTTTTTCCTTCTTT
* * *
56613465 TTTCCTTCTCTTTTTTTTCTTTTTCTTTTCTTT
1 TTT-TTTCTCTTTTTCTT-TTTTTC-CTTCTTT
56613498 TTTTTTCTCT
1 TTTTTTCTCT
56613508 GCTGGGCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 3 0.09
30 4 0.11
31 7 0.20
32 12 0.34
33 9 0.26
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (30 bp):
TTTTTTCTCTTTTTCTTTTTTTCCTTCTTT
Found at i:56613791 original size:3 final size:3
Alignment explanation
Indices: 56613785--56613830 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
56613775 TTTTTTTTCT
*
56613785 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
56613831 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:56613814 original size:10 final size:10
Alignment explanation
Indices: 56613799--56613827 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
56613789 TCTTCCTCTT
56613799 TTCTTCTTCC
1 TTCTTCTTCC
56613809 TTCTTCTTCC
1 TTCTTCTTCC
56613819 TTCTTCTTC
1 TTCTTCTTC
56613828 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:56613815 original size:13 final size:13
Alignment explanation
Indices: 56613785--56613830 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
56613775 TTTTTTTTCT
56613785 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
56613797 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
56613809 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
56613822 TTCTTCTTC
1 TTCTTCTTC
56613831 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:56614232 original size:29 final size:29
Alignment explanation
Indices: 56614199--56614315 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
56614189 TGTAATTTTT
*
56614199 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
56614228 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
56614258 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
56614287 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
56614316 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:56614254 original size:30 final size:30
Alignment explanation
Indices: 56614214--56614315 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
56614204 ATTTAGGATT
*
56614214 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
56614244 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
56614274 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
56614304 AAAATGCAATTT
1 AAAATGAAATTT
56614316 TTATTTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:56614762 original size:54 final size:55
Alignment explanation
Indices: 56614587--56614804 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
56614577 CACGTGAGCC
* *
56614587 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
* *
56614642 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAA
* *
56614693 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
56614747 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
56614802 AAG
1 AAG
56614805 TAGAAATTGA
Statistics
Matches: 148, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
50 14 0.09
51 33 0.22
52 1 0.01
54 52 0.35
55 36 0.24
56 6 0.04
57 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:56614802 original size:14 final size:14
Alignment explanation
Indices: 56614783--56614817 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56614773 GAGTTGATTT
56614783 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
56614797 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
56614811 TTGAAAA
1 TTGAAAA
56614818 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:56614889 original size:14 final size:14
Alignment explanation
Indices: 56614870--56614904 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56614860 GAGTTGATTT
56614870 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
56614884 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
56614898 TTGAAAA
1 TTGAAAA
56614905 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:56614894 original size:87 final size:87
Alignment explanation
Indices: 56614748--56615260 Score: 471
Period size: 87 Copynumber: 5.7 Consensus size: 87
56614738 AGAAATTAAA
*
56614748 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGCAGAAATT
56614813 GAAAATACCTCAGCGTGCCCTG
66 GAAAATACCTCAGCGTGCCCTG
*
56614835 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGCAGAAATT
56614900 GAAAATACCTCAGCGTGCCCTG
66 GAAAATACCTCAGCGTGCCCTG
* * * * *
56614922 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTGAAACACTGAAATTAAAAAAACAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGAAAAACAGAAATT-GAAAAGCAG
* * ** * * *
56614987 AAATTAAAAACAGAATTTGAAAAGACCT-CAGCGTG
61 AAATT-GAAA-A-TACCT---CAG-CGTGC--CCTG
* * * ** *
56615022 TGGCCTGAGACTCAACTCACCTCTTGCAATATGAGTTGA--TTTGAAAAGTAG-AATTAGTAAAG
1 AGG-CTCA-ACT-----CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-GAAAAG
*
56615084 CAGAAATTGAAAATACCTCAGCGTGCCTTG
58 CAGAAATTGAAAATACCTCAGCGTGCCCTG
* * * * * *
56615114 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATAGATTGAAAAAAACATAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG--AAAAGCAGAAA
*
56615179 TTGAAAATACCTCAGCATGTGAGCC-G
64 TTGAAAATACCTCAGC--GTG-CCCTG
* *
56615205 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATT-AAAAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAG
56615261 GCTTAACTCA
Statistics
Matches: 349, Mismatches: 47, Indels: 59
0.77 0.10 0.13
Matches are distributed among these distances:
85 20 0.06
87 129 0.37
88 7 0.02
89 24 0.07
90 3 0.01
91 70 0.20
92 17 0.05
93 5 0.01
94 4 0.01
95 2 0.01
97 2 0.01
98 4 0.01
99 5 0.01
100 21 0.06
101 11 0.03
102 3 0.01
107 22 0.06
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGCAGAAATT
GAAAATACCTCAGCGTGCCCTG
Found at i:56615009 original size:192 final size:192
Alignment explanation
Indices: 56614786--56615150 Score: 547
Period size: 192 Copynumber: 1.9 Consensus size: 192
56614776 TTGATTTTTG
** * *
56614786 AAAAACAGAAATTGAAAAGTAGAAATTGAAAATACCTCAGC-GTGCCCTGAGGCTCAACTCACCT
1 AAAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCGGTGCCCTGAGACTCAACTCACCT
*
56614850 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-GAAAAGTAGAAATTGAAAATACCTCAGC
66 CTCGCAATATGAGTTGA--TTTGAAAAACAG-AATTAGAAAAGCAGAAATTGAAAATACCTCAGC
* *
56614914 GTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTGAAACACTGAAATTAA
128 GTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAACACTGAAATTAA
* *
56614979 AAAAACAGAAATT-AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACC
1 AAAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCG-GTGCCCTGAGACTCAACTCACC
* ** *
56615043 TCTTGCAATATGAGTTGATTTGAAAAGTAGAATTAGTAAAGCAGAAATTGAAAATACCTCAGCGT
65 TCTCGCAATATGAGTTGATTTGAAAAACAGAATTAGAAAAGCAGAAATTGAAAATACCTCAGCGT
*
56615108 GCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT
130 GCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT
56615151 GAAAAGCATA
Statistics
Matches: 155, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
191 4 0.03
192 101 0.65
193 13 0.08
194 37 0.24
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (192 bp):
AAAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCGGTGCCCTGAGACTCAACTCACCT
CTCGCAATATGAGTTGATTTGAAAAACAGAATTAGAAAAGCAGAAATTGAAAATACCTCAGCGTG
CCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAACACTGAAATTAA
Found at i:56615138 original size:85 final size:87
Alignment explanation
Indices: 56614992--56615239 Score: 308
Period size: 85 Copynumber: 2.8 Consensus size: 87
56614982 AACAGAAATT
* * *
56614992 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
56615057 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
56615079 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
56615142 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
56615168 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
56615232 GTTGATTT
64 GTTGATTT
56615240 TTGAAAAACA
Statistics
Matches: 138, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 31 0.22
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:56615185 original size:15 final size:16
Alignment explanation
Indices: 56615152--56615185 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56615142 TTGATTTTTG
* *
56615152 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
56615168 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
56615184 AA
1 AA
56615186 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:56615227 original size:91 final size:88
Alignment explanation
Indices: 56614992--56615246 Score: 324
Period size: 91 Copynumber: 2.9 Consensus size: 88
56614982 AACAGAAATT
* * *
56614992 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
56615057 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
56615079 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
56615142 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
*
56615168 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
56615232 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
56615247 ACAAAAATTA
Statistics
Matches: 145, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.22
88 3 0.02
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:56615257 original size:279 final size:277
Alignment explanation
Indices: 56614751--56615259 Score: 747
Period size: 279 Copynumber: 1.8 Consensus size: 277
56614741 AATTAAAAGG
*
56614751 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATTGAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTGAAAAGCAGAAATTGAA
*
56614816 AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
65 AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAG
**
56614881 AAATTGAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATA
130 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATA
* **
56614946 TGAGTTGATTTTTTTTTGAAACACTGAAATTAAAAAAACAGAAATTAAAAACAGAATTTGAAAAG
195 TGAGTTGA---TTTTTTGAAAAACAAAAATTAAAAAAACAGAAATTAAAAACAGAATTTGAAAAG
56615011 ACCTCAGCGTGTGGCCTGAGA
257 ACCTCAGCGTGTGGCCTGAGA
* ** *
56615032 CTCAACTCACCTCTTGCAATATGAGTTGA-TTTGAAAAGTAG-AATTAGTAAAGCAGAAATTGAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATT-GAAAAGCAGAAATTGAA
* * *
56615095 AATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCAT
65 AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAG
* * *
56615160 AGATTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTG
130 AAATTG--AAAAACAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTTG
56615224 CAATATGAGTTGA-TTTTTGAAAAACAAAAATTAAAA
190 CAATATGAGTTGATTTTTTGAAAAACAAAAATTAAAA
56615260 GGCTTAACTC
Statistics
Matches: 205, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
278 4 0.02
279 111 0.54
281 52 0.25
283 36 0.18
284 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (277 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTGAAAAGCAGAAATTGAAA
ATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAACAGA
AATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATAT
GAGTTGATTTTTTGAAAAACAAAAATTAAAAAAACAGAAATTAAAAACAGAATTTGAAAAGACCT
CAGCGTGTGGCCTGAGA
Found at i:56615408 original size:73 final size:74
Alignment explanation
Indices: 56615291--56615436 Score: 222
Period size: 73 Copynumber: 2.0 Consensus size: 74
56615281 TATGAGTCAA
* **
56615291 TTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTTAAAACAAAAACTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAG
56615356 TTGATTTTT
66 TTGATTTTT
* * **
56615365 TTTAAAA-AAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTTAAAACAAAAACTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAG
56615429 TTGATTTT
66 TTGATTTT
56615437 GAAAAACAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 58 0.89
74 7 0.11
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (74 bp):
TTTAAAACAAAAACTAAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAG
TTGATTTTT
Found at i:56615448 original size:73 final size:70
Alignment explanation
Indices: 56615259--56615454 Score: 216
Period size: 73 Copynumber: 2.7 Consensus size: 70
56615249 AAAAATTAAA
* ** * * * * **
56615259 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
56615323 CCCCG
66 CCCCG
56615328 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAA-AAAAATTAAAAATACCTCAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA----TTTTAAAACAAAAATTAAAAATACCTCAA
* **
56615392 CGTGTCTTG
62 CGTGCCCCG
56615401 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT--AAAACAAAAATTAAAA
56615455 GGCTTAACTC
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
69 29 0.27
70 2 0.02
71 4 0.04
72 11 0.10
73 54 0.50
74 7 0.07
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (70 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:56615696 original size:192 final size:192
Alignment explanation
Indices: 56615204--56616586 Score: 2635
Period size: 192 Copynumber: 7.2 Consensus size: 192
56615194 CATGTGAGCC
** *
56615204 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
56615269 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* *
56615334 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAAATTAAAAATACCTCAACGTGTCT
130 AACTCACTTCTCGCAATATGAGTTGA-TTTTTTT--AAAAAATTTAAAAATACCTCAACGTGTCT
56615399 T
192 T
56615400 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
56615465 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
56615530 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
56615592 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
56615657 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
56615722 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
56615784 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
56615849 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
56615914 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
56615976 AAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
56616041 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
56616106 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
56616167 GAGGCTCCACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
56616232 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCACGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
56616297 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
56616359 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
56616424 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
56616489 ACTCACTTCTCGTAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
56616550 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
56616587 CCTTGGAAAG
Statistics
Matches: 1174, Mismatches: 12, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
191 254 0.22
192 762 0.65
194 7 0.01
195 121 0.10
196 30 0.03
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (192 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:56616225 original size:122 final size:122
Alignment explanation
Indices: 56616099--56616325 Score: 296
Period size: 122 Copynumber: 1.9 Consensus size: 122
56616089 GCGTGCCCCG
* * * * **
56616099 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAA-A-AATTTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCAACGT
* ** * *
56616162 GTCTTGAGGCTCCACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 GCCACGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* **
56616221 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
56616286 CACGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CACGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
56616326 TTTAAAAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
120 6 0.07
121 3 0.03
122 80 0.90
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
CACGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:56616366 original size:383 final size:384
Alignment explanation
Indices: 56615204--56616586 Score: 2635
Period size: 383 Copynumber: 3.6 Consensus size: 384
56615194 CATGTGAGCC
** *
56615204 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
56615269 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* *
56615334 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAAAAAAATTAAAAATACCTCAACGTGTCT
130 AACTCACTTCTCGCAATATGAGTTGA-TTTTTTT--AAAAAATTTAAAAATACCTCAACGTGTCT
56615399 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACT
192 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACT
56615464 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
257 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
56615529 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
322 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
56615592 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
56615657 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
56615722 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
56615787 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
56615852 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
261 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
56615917 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
326 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
56615976 AAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
56616041 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
56616106 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
*
56616170 GCTCCACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
*
56616235 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCACGAGGCTCAACT
261 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
56616300 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
326 CACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
56616359 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
56616424 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
56616489 ACTCACTTCTCGTAATATGAGTTGATTTTTTT-AAAAATTTAAAAATACCTCAACGTGTCTTGAG
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
56616553 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
56616587 CCTTGGAAAG
Statistics
Matches: 983, Mismatches: 11, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
383 444 0.45
384 381 0.39
386 7 0.01
387 121 0.12
388 30 0.03
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (384 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGAG
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
CACTTCTCGCAATATGAGTTGATTTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:56626124 original size:192 final size:192
Alignment explanation
Indices: 56625796--56626788 Score: 1896
Period size: 193 Copynumber: 5.2 Consensus size: 192
56625786 CTTTCCAAGG
56625796 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
56625861 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
*
56625926 TTTATGTTTTAAATTGACTTATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
56625988 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* * *
56626053 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTTAT
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
56626118 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
56626180 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAA-ATTT
56626245 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
65 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
56626310 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
56626373 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
56626438 TAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 T-TAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
56626503 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
56626566 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
56626631 TAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 T-TAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
56626696 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
56626759 AAAATCAACTCATATTGCGAGAAATGAGTT
1 AAAATCAACTCATATTGCGAGAAATGAGTT
56626789 AACCTCGGGG
Statistics
Matches: 789, Mismatches: 10, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
192 253 0.32
193 536 0.68
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:56626202 original size:122 final size:122
Alignment explanation
Indices: 56626058--56626286 Score: 309
Period size: 122 Copynumber: 1.9 Consensus size: 122
56626048 ATTTTTTAAA
* ** *
56626058 AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCGGGGCACGCTGAGGTATTTTT-ATTTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTT-
* ** *
56626122 TGTTT-TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
65 T-TTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
56626180 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTTT
*
56626245 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
66 TTT--AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
56626287 CGGGGCACGC
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
121 3 0.03
122 53 0.58
123 5 0.05
124 31 0.34
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTTT
TTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:56626279 original size:71 final size:68
Alignment explanation
Indices: 56626174--56626355 Score: 204
Period size: 71 Copynumber: 2.6 Consensus size: 68
56626164 TTAATTTTTG
* * **
56626174 TTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
1 TTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
56626239 ATT
66 ATT
** *
56626242 TTTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTT
1 TTTTTT---AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTT
*
56626307 TTAGTT
63 TTAATT
** * *
56626313 TATGTTTT-AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 T-T-TTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
56626356 TTTAATTTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
68 5 0.05
69 31 0.32
71 56 0.58
72 1 0.01
73 4 0.04
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (68 bp):
TTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTA
ATT
Found at i:56626834 original size:121 final size:123
Alignment explanation
Indices: 56626636--56626952 Score: 521
Period size: 121 Copynumber: 2.6 Consensus size: 123
56626626 ATTTTTAAAA
56626636 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
56626701 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
56626759 -AAAATCAACTCATATTGCGAGAAATGAGTT-AACCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
56626822 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * ** * * *
56626880 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAC--GCCGAGGTATTTTTAGTT
56626945 TATGTTTT
64 TATGTTTT
56626953 TTTCAATCTA
Statistics
Matches: 179, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
121 90 0.50
122 56 0.31
123 10 0.06
125 23 0.13
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (123 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:56626957 original size:16 final size:17
Alignment explanation
Indices: 56626936--56626969 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
56626926 TGCTGAGGTA
*
56626936 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
56626952 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
56626969 T
1 T
56626970 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:56627080 original size:176 final size:183
Alignment explanation
Indices: 56626875--56627283 Score: 476
Period size: 189 Copynumber: 2.2 Consensus size: 183
56626865 TAATTTTTGT
* *
56626875 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGATGAGGTATTT
* * * *
56626939 TCAATTTATG-TTTT-TTTC-AATCTAT-GCT-TTTC-AAAAATCAACTTATATTGCGAGAGGTG
64 TCAAATTATGTTTTTATTTCTAATCTATAACTGTTTCAAAAAATCAACTCATATTGCAAGAGGTG
*
56626998 AGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAA-TTCTAC
129 AGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTAC-AATTTCTAC
* *
56627053 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGATGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGATGAGGTATTTTC
* ** * * *
56627117 AAATTCTGTTTTTAATTTCTGTTTTTTTTTAATTGTTTCAAAAAAAAATCAACTCATATTGCAAG
66 AAATTATGTTTTT-ATTTC---TAATCTATAACTGTTTC---AAAAAATCAACTCATATTGCAAG
* * **
56627182 AGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTACTTTTCAATTTCTGT
124 AGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
*
56627242 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
56627284 TTTAATTTCT
Statistics
Matches: 193, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
176 57 0.30
177 7 0.04
178 5 0.03
179 4 0.02
183 3 0.02
184 1 0.01
185 4 0.02
188 2 0.01
189 77 0.40
191 33 0.17
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (183 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGATGAGGTATTTTC
AAATTATGTTTTTATTTCTAATCTATAACTGTTTCAAAAAATCAACTCATATTGCAAGAGGTGAG
TTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
Found at i:56627133 original size:85 final size:88
Alignment explanation
Indices: 56626875--56627133 Score: 300
Period size: 91 Copynumber: 2.9 Consensus size: 88
56626865 TAATTTTTGT
*
56626875 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
*
56626939 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
56626966 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
56627028 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* * *
56627053 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGATGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
56627117 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
56627134 TCTGTTTTTT
Statistics
Matches: 147, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 28 0.19
88 2 0.01
89 31 0.21
91 41 0.28
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:56627311 original size:54 final size:55
Alignment explanation
Indices: 56627227--56627441 Score: 318
Period size: 54 Copynumber: 4.0 Consensus size: 55
56627217 TCAATTTCTA
*
56627227 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
56627282 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
56627336 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
56627387 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
56627442 ATTGGCTTAC
Statistics
Matches: 147, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 12 0.08
51 35 0.24
52 2 0.01
53 2 0.01
54 48 0.33
55 39 0.27
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:56627760 original size:30 final size:30
Alignment explanation
Indices: 56627720--56627821 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
56627710 TTTTAAATAA
* *
56627720 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
56627750 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
56627780 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
56627810 AAATTTCATTTT
1 AAATTTCATTTT
56627822 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.06
30 58 0.94
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:56628232 original size:21 final size:21
Alignment explanation
Indices: 56628203--56628251 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
56628193 CTAGACTTTG
*
56628203 AAGAAGAAGAAGGAAGAAAAA
1 AAGAAGAAGAAGAAAGAAAAA
*
56628224 AAGAGGAAGAAGAAAGAAAAA
1 AAGAAGAAGAAGAAAGAAAAA
56628245 AA-AAGAA
1 AAGAAGAA
56628252 AAATCTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAGAAGAAGAAGAAAGAAAAA
Found at i:56628237 original size:24 final size:23
Alignment explanation
Indices: 56628205--56628250 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
56628195 AGACTTTGAA
*
56628205 GAAGAAGAAGGAAGAAAAAAAGAG
1 GAAGAAGAAAGAA-AAAAAAAGAG
56628229 GAAGAAGAAAGAAAAAAAAAGA
1 GAAGAAGAAAGAAAAAAAAAGA
56628251 AAAATCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (23 bp):
GAAGAAGAAAGAAAAAAAAAGAG
Found at i:56628352 original size:6 final size:6
Alignment explanation
Indices: 56628341--56628372 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
56628331 AGAAAAAAAC
56628341 AACAAA AACAAA AACAAA AACAAA AACAAA AA
1 AACAAA AACAAA AACAAA AACAAA AACAAA AA
56628373 GAAACAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:56628552 original size:15 final size:15
Alignment explanation
Indices: 56628532--56628601 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 15
56628522 GGCCCAGCAG
56628532 AGAAAAAAA-AAGAAA
1 AGAAAAAAAGAA-AAA
56628547 AGAAAAAGAAGAAAAA
1 AGAAAAA-AAGAAAAA
* *
56628563 GAGAAGGAAAA-AAGAA
1 -AGAA-AAAAAGAAAAA
*
56628579 GGAAAAAAAGAAAAA
1 AGAAAAAAAGAAAAA
56628594 AGAAAAAA
1 AGAAAAAA
56628602 GACGTTCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 4 0.09
15 21 0.48
16 9 0.20
17 8 0.18
18 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAGAAAAA
Found at i:56628558 original size:14 final size:13
Alignment explanation
Indices: 56628544--56628603 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
56628534 AAAAAAAAAG
56628544 AAAAGAAAAAGAAGA
1 AAAAGAAAAAG-A-A
* *
56628559 AAAAGAGAAGGAA
1 AAAAGAAAAAGAA
**
56628572 AAAAGAAGGA-AA
1 AAAAGAAAAAGAA
56628584 AAAAGAAAAAAGAA
1 AAAAG-AAAAAGAA
56628598 AAAAGA
1 AAAAGA
56628604 CGTTCAATTC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
12 7 0.20
13 11 0.31
14 8 0.23
15 9 0.26
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:56628574 original size:32 final size:30
Alignment explanation
Indices: 56628537--56628597 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 30
56628527 AGCAGAGAAA
56628537 AAAAAAGAAAAGAAAAAGAAGAAAAAGAGAAGG
1 AAAAAAG-AAAGAAAAA-AAGAAAAA-AGAAGG
*
56628570 AAAAAAGAAGGAAAAAAAGAAAAAAGAA
1 AAAAAAGAAAGAAAAAAAGAAAAAAGAA
56628598 AAAAGACGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 8 0.30
32 8 0.30
33 7 0.26
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (30 bp):
AAAAAAGAAAGAAAAAAAGAAAAAAGAAGG
Found at i:56628771 original size:17 final size:16
Alignment explanation
Indices: 56628738--56628786 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
56628728 TTTATGCATT
56628738 TTTATATTTATATTTTTAA
1 TTTA-ATTTA-ATTTTT-A
56628757 TTTAATTTAATTTTTA
1 TTTAATTTAATTTTTA
* *
56628773 TTTTATTTTATTTT
1 TTTAATTTAATTTT
56628787 AAATAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 13 0.46
17 6 0.21
18 5 0.18
19 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTAATTTAATTTTTA
Found at i:56628976 original size:20 final size:22
Alignment explanation
Indices: 56628951--56628993 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
56628941 TCGGGTTTCG
56628951 AAATTT-TCGTG-TCTTCAAAA
1 AAATTTCTCGTGTTCTTCAAAA
*
56628971 AAATTTCTCGTGTTTTTCAAAA
1 AAATTTCTCGTGTTCTTCAAAA
56628993 A
1 A
56628994 TAAGGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 5 0.25
22 9 0.45
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (22 bp):
AAATTTCTCGTGTTCTTCAAAA
Found at i:56629128 original size:18 final size:18
Alignment explanation
Indices: 56629107--56629457 Score: 154
Period size: 17 Copynumber: 20.0 Consensus size: 18
56629097 GAAAAATTTT
56629107 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
56629125 TCGTGTTTTCAAAAAAATTC
1 TCGTGTTTTC--AAAAATTC
** * *
56629145 -C-AATTTTCAAAATTTT
1 TCGTGTTTTCAAAAATTC
56629161 TCGTGTTTTCTAAAAACTTC
1 TCGTGTTTTC-AAAAA-TTC
*
56629181 T-GTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
* *
56629197 TCGTG-TTTCTAAAATTT
1 TCGTGTTTTCAAAAATTC
*
56629214 TCGT-ATTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
** * *
56629231 TTTTGTTTTC-AAATTTT
1 TCGTGTTTTCAAAAATTC
* * *
56629248 TCGT-ATTTAAAAAATCC
1 TCGTGTTTTCAAAAATTC
*
56629265 TTGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTC
* *
56629282 -CAGTG-TTTCAAAATTTT
1 TC-GTGTTTTCAAAAATTC
56629299 TCGTG-TTTCAAAAAAATTC
1 TCGTGTTTTC--AAAAATTC
*
56629318 ACGT-TTTTCAAAAACTT-
1 TCGTGTTTTCAAAAA-TTC
*
56629335 TCGCGTTTT-AAGAAATTGAC
1 TCGTGTTTTCAA-AAATT--C
* *
56629355 -CGTG-TTTCATAAATTT
1 TCGTGTTTTCAAAAATTC
*
56629371 TCGTG-TTTCAAAGAAATC
1 TCGTGTTTTCAAA-AATTC
*
56629389 TCGTG-TTTC-AAAATTT
1 TCGTGTTTTCAAAAATTC
*
56629405 TCGTGTTCTTTTAAAAATT-
1 TCGTG-T-TTTCAAAAATTC
*
56629424 T-GTG-TTTCTAAAATTC
1 TCGTGTTTTCAAAAATTC
* * *
56629440 TTGTATTTTAAAAAATTC
1 TCGTGTTTTCAAAAATTC
56629458 GTGTTTAAAA
Statistics
Matches: 250, Mismatches: 50, Indels: 66
0.68 0.14 0.18
Matches are distributed among these distances:
15 9 0.04
16 25 0.10
17 96 0.38
18 74 0.30
19 29 0.12
20 17 0.07
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTC
Found at i:56629202 original size:17 final size:17
Alignment explanation
Indices: 56629098--56629411 Score: 176
Period size: 17 Copynumber: 17.9 Consensus size: 17
56629088 AAAAAAATCG
56629098 AAAAATTTTTCGTGTTTTC
1 AAAAA-TTTTCGTG-TTTC
*
56629117 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
56629135 AAAAAAATTCCAAT-TTTC
1 -AAAAATTTTC-GTGTTTC
*
56629153 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
56629171 TAAAAA-CTTCTGTGTTTC
1 -AAAAATTTTC-GTGTTTC
56629189 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
56629206 TAAAATTTTCGTATTTC
1 AAAAATTTTCGTGTTTC
*
56629223 AAAAATTCTT-TTGTTTTC
1 AAAAATT-TTCGTG-TTTC
* * *
56629241 -AAATTTTTCGTATTTA
1 AAAAATTTTCGTGTTTC
*
56629257 AAAAATCCTT-GTGTTTTC
1 AAAAAT-TTTCGTG-TTTC
*
56629275 -AAAA-TTCCAGTGTTTC
1 AAAAATTTTC-GTGTTTC
*
56629291 AAAATTTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
** *
56629308 AAAAAAATTCACGTTTTTC
1 --AAAAATTTTCGTGTTTC
* * *
56629327 AAAAACTTTCGCGTTTT
1 AAAAATTTTCGTGTTTC
**
56629344 AAGAAATTGACCGTGTTTC
1 AA-AAATT-TTCGTGTTTC
*
56629363 ATAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
56629380 AAAGAAATCTCGTGTTTC
1 AAA-AATTTTCGTGTTTC
56629398 -AAAATTTTCGTGTT
1 AAAAATTTTCGTGTT
56629412 CTTTTAAAAA
Statistics
Matches: 221, Mismatches: 52, Indels: 47
0.69 0.16 0.15
Matches are distributed among these distances:
15 1 0.00
16 20 0.09
17 95 0.43
18 65 0.29
19 39 0.18
20 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:56629337 original size:36 final size:36
Alignment explanation
Indices: 56629108--56629411 Score: 149
Period size: 36 Copynumber: 8.6 Consensus size: 36
56629098 AAAAATTTTT
* *
56629108 CGTGTTTTCAAAAATTCTCGTGTTTTCAAAAAAATTC-
1 CGTG-TTTCAAAAATTTTCGTG-TTTCAAAGAAATTCA
* * *
56629145 CAAT-TTTCAAAATTTTTCGTGTTTTCTAAA-AACTTC-
1 C-GTGTTTCAAAAATTTTCGTG-TTTC-AAAGAAATTCA
* * **
56629181 TGTGTTTCAAAAATTTTCGTGTTTC-TA-AAATTTT
1 CGTGTTTCAAAAATTTTCGTGTTTCAAAGAAATTCA
* * * **
56629215 CGTATTTCAAAAATTCTT-TTGTTTTC--A-AATTTTT
1 CGTGTTTCAAAAATT-TTCGTG-TTTCAAAGAAATTCA
* * *
56629249 CGTATTTAAAAAATCCTT-GTGTTTTC--A-AAATTC-
1 CGTGTTTCAAAAAT-TTTCGTG-TTTCAAAGAAATTCA
* *
56629282 CAGTGTTTCAAAATTTTTCGTGTTTCAAAAAAATTCA
1 C-GTGTTTCAAAAATTTTCGTGTTTCAAAGAAATTCA
* * * * *
56629319 CGTTTTTCAAAAACTTTCGCGTTT-TAAGAAATTGA
1 CGTGTTTCAAAAATTTTCGTGTTTCAAAGAAATTCA
* *
56629354 CCGTGTTTCATAAATTTTCGTGTTTCAAAGAAA-TCT
1 -CGTGTTTCAAAAATTTTCGTGTTTCAAAGAAATTCA
56629390 CGTGTTTC-AAAATTTTCGTGTT
1 CGTGTTTCAAAAATTTTCGTGTT
56629412 CTTTTAAAAA
Statistics
Matches: 214, Mismatches: 38, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
33 12 0.06
34 75 0.35
35 28 0.13
36 87 0.41
37 11 0.05
38 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (36 bp):
CGTGTTTCAAAAATTTTCGTGTTTCAAAGAAATTCA
Found at i:56630110 original size:46 final size:46
Alignment explanation
Indices: 56630009--56630298 Score: 347
Period size: 46 Copynumber: 6.6 Consensus size: 46
56629999 TACATATGAT
* *
56630009 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
* *
56630052 CACTTATCACTTTGTCACTTGATCAGATAGGAGTAGCTAGGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
* * *
56630098 CACTTATCACTTTCTCACTTGATCAGATAA-ATGTAACTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGA-GTAGCTAAGGCTAC
56630144 CACTTATCACTTTGTCACTTGATCAGAT-A-AGTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
* * *
56630180 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
* * *
56630226 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
*
56630272 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
56630299 AGTACTCAAA
Statistics
Matches: 216, Mismatches: 17, Indels: 25
0.84 0.07 0.10
Matches are distributed among these distances:
36 27 0.12
37 1 0.00
38 3 0.01
40 2 0.01
41 2 0.01
42 2 0.01
43 10 0.05
44 8 0.04
45 21 0.10
46 140 0.65
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
Found at i:56630185 original size:36 final size:36
Alignment explanation
Indices: 56630144--56630216 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
56630134 CTAAGGCTAA
56630144 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
56630180 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
56630216 C
1 C
56630217 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:56630235 original size:82 final size:82
Alignment explanation
Indices: 56630098--56630262 Score: 267
Period size: 82 Copynumber: 2.0 Consensus size: 82
56630088 CTAGGGCTAC
*
56630098 CACTTATCACTTTCTCACTTGATCAGATAAATGTAACTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAATGTAACTAAAGCTAACACTTATCACTTTGTCACT
56630163 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
* * * * *
56630180 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAATGTAACTAAAGCTAACACTTATCACTTTGTCACT
*
56630245 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
56630262 C
1 C
56630263 TAATGCTACC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTCTCACTTGATCAGATAAATGTAACTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAG
Found at i:56630247 original size:128 final size:128
Alignment explanation
Indices: 56630052--56630298 Score: 386
Period size: 128 Copynumber: 1.9 Consensus size: 128
56630042 GCTAGGCTAC
* **
56630052 CACTTATCACTTTGTCACTTGATCAGATAGGAGTAGCTAGGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACT
*
56630117 TGATCAGATAAATGTAACTAAGGCTAACACTTATCACTTTGTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAATGTAACTAAGGCTAACACTTATCACTTTATCACTTGATCAGATAAGTATAG
* * * *
56630180 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACT
* * * *
56630245 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATCAGA
66 TGATCAGATAAATGTAACTAAGGCTAACACTTATCACTTTATCACTTGATCAGA
56630299 AGTACTCAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
128 107 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (128 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCACTTTCTCACT
TGATCAGATAAATGTAACTAAGGCTAACACTTATCACTTTATCACTTGATCAGATAAGTATAG
Found at i:56632978 original size:25 final size:26
Alignment explanation
Indices: 56632949--56632997 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
56632939 TTTTAGGCTA
56632949 ATTGGGCTTAAGTTAGT-TTTGGGTT
1 ATTGGGCTTAAGTTAGTATTTGGGTT
* * *
56632974 ATTGGGTTTTAGTTTGTATTTGGG
1 ATTGGGCTTAAGTTAGTATTTGGG
56632998 CTGTCTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.51
Consensus pattern (26 bp):
ATTGGGCTTAAGTTAGTATTTGGGTT
Found at i:56633281 original size:44 final size:44
Alignment explanation
Indices: 56633225--56633894 Score: 244
Period size: 44 Copynumber: 14.8 Consensus size: 44
56633215 AACTTATCGT
* *
56633225 TTCAAT-TCGCTCCACTGCAACTTCAGAGAGATAGGATTAGTAGC
1 TTCAATCT-GCTCCACTGCAACTTCAGGGAGATAGGATTGGTAGC
* * * * *
56633269 TTTAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTAGC
* ** * *
56633313 TTCAGTCTGCTCCACCACAACTTCAGGGAGATAAGG-CTGGTGGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTGGTAGC
* * *
56633357 TTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AG----G-----ATTGGTAGC
* * * * * *
56633411 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATT-GGTAGC
* * * * * *
56633456 TTCAGTCTGCTGCACTGCAACTTCAGGGAGATAAGACTAGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTAGC
* * * * * *
56633500 TTCAACCTACTTCACTACAACTTCAGGGAGATAAGGTTTGATA--
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTGGTAGC
* * * * ** **
56633543 -T-GATCTGCTCTATTGCGACTTCAGAGAGATAAGATCTATAATTTATAGC
1 TTCAATCTGCTCCACTGCAACTTCAG-G-G---AGA--TAGGATTGGTAGC
** ** * * * *
56633592 TTCAATCTATTTTACTGCAACTTCAGGGAAATAAGATTCGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATT-GGTAGC
* * * * * *
56633637 TTCAATCTACTCCACTGTAACTTCAGGGAGATAAGACTAGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTAGC
* * *
56633681 TTCAACCTGCTCCACTGCAACTTCAAGGAGATAATGATT-G-A-C
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AGGATTGGTAGC
* * * * ** **
56633723 AT-GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATAATTTATAGC
1 TTCAATCTGCTCCACTGCAACTTCAG-G-G---AGA--TAGGATTGGTAGC
* * * * *
56633773 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATT-GGTAGC
** * * * * *
56633818 TTCAATCTTTTCCACTGCAACTTCAAGGAGATAAGACTAGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTAGC
* * * * *
56633862 TTAAACCTACTCCACTGTAACTTCAAGGAGATA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATA
56633895 AGGTTTGATA
Statistics
Matches: 465, Mismatches: 122, Indels: 78
0.70 0.18 0.12
Matches are distributed among these distances:
41 33 0.07
42 5 0.01
43 3 0.01
44 203 0.44
45 119 0.26
46 10 0.02
47 11 0.02
48 3 0.01
49 4 0.01
50 5 0.01
51 36 0.08
53 1 0.00
54 32 0.07
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTAGC
Found at i:56633490 original size:45 final size:44
Alignment explanation
Indices: 56633414--56633896 Score: 296
Period size: 45 Copynumber: 10.7 Consensus size: 44
56633404 TTGTAGCTTT
* * *
56633414 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTC
* * * *
56633459 AGTCTGCTGCACTGCAACTTCAGGGAGATAAGACTAGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
* * * * * * *
56633503 AACCTACTTCACTACAACTTCAGGGAGATAAGGTTTG-AT-AT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
* * * * * *
56633544 GATCTGCTCTATTGCGACTTCAGAGAGATAAGATCTATAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-GTAT--CTTC
** ** * *
56633595 AATCTATTTTACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTC
* * * *
56633640 AATCTACTCCACTGTAACTTCAGGGAGATAAGACTAGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
* * *
56633684 AACCTGCTCCACTGCAACTTCAAGGAGATAATGATT-G-A-CAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTAGTATCTTC
* * * * *
56633725 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-GTAT--CTTC
* * *
56633776 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTC
** * * * *
56633821 AATCTTTTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
* * * *
56633865 AACCTACTCCACTGTAACTTCAAGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG
56633897 GTTTGATATG
Statistics
Matches: 333, Mismatches: 81, Indels: 49
0.72 0.17 0.11
Matches are distributed among these distances:
40 2 0.01
41 48 0.14
42 4 0.01
43 4 0.01
44 103 0.31
45 104 0.31
47 9 0.03
48 2 0.01
49 2 0.01
50 3 0.01
51 52 0.16
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTC
Found at i:56633522 original size:143 final size:142
Alignment explanation
Indices: 56633264--56633534 Score: 371
Period size: 143 Copynumber: 1.9 Consensus size: 142
56633254 GATAGGATTA
* * * *
56633264 GTAGCTTTAATTTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTATCTTCAGTCTGCTCCACC
1 GTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTATCTTCAGTCTGCTCCACC
* * ** * * **
56633329 ACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGAT
66 ACAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAGGAAGATAAGAT
56633394 CTGCCATAATTT
131 CTGCCATAATTT
* *
56633406 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTGCAC
1 GTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT-GCTATCTTCAGTCTGCTCCAC
** * *
56633471 TGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTTCACTACAACTTCAGGGAGATAAG
65 CACAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAGGAAGATAAG
56633535 GTTTGATATG
Statistics
Matches: 110, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
142 39 0.35
143 71 0.65
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (142 bp):
GTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTATCTTCAGTCTGCTCCACC
ACAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAGGAAGATAAGAT
CTGCCATAATTT
Found at i:56633635 original size:181 final size:181
Alignment explanation
Indices: 56633235--56633910 Score: 845
Period size: 181 Copynumber: 3.7 Consensus size: 181
56633225 TTCAATTCGC
* * * * * * * *
56633235 TCCACTGCAACTTCAGAGAGATAGGATTAG-TAGCTTTAATTTGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * ** * * * * * *
56633299 ATAAGATTGGTATCTTCAGTCTGCTCCACCACAACTTCAGGGAGATAAGGCTGGTGGCT-TCAAT
66 ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGG-T--TTGATAT-GAT
* * * *
56633363 CTGCTCCACTGTAACTTCAG-GAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGT
127 CTGCTCTACTGCAACTTCAGAG-AGATAAGATCT---ATAATTTATAGCTTCAATCTGT
* *
56633421 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTGCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* *
56633486 ATAAGACTAGTAACTTCAACCTACTTCACTACAACTTCAGGGAGATAAGGTTTGATATGATCTGC
66 ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGGTTTGATATGATCTGC
* * *
56633551 TCTATTGCGACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTAT
131 TCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
** * *
56633602 TTTACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
56633667 ATAAGACTAGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAATGATTGACATGATCTGC
66 ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGGTTTGATATGATCTGC
*
56633732 TCTACTGCAACTTTAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
131 TCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
** *
56633783 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTTTTCCACTGCAACTTCAAGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
* **
56633848 ATAAGACTAGTAACTTAAACCTACTCCACTGTAACTTCAAGGAGATAAGGTTTGATATGATCT
66 ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGGTTTGATATGATCT
56633911 TCAATCCATC
Statistics
Matches: 430, Mismatches: 57, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
181 299 0.70
184 32 0.07
185 2 0.00
186 27 0.06
187 70 0.16
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (181 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTAGTAACTTCAACCTACTCCACTACAACTTCAAGGAGATAAGGTTTGATATGATCTGC
TCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGT
Found at i:56633793 original size:92 final size:91
Alignment explanation
Indices: 56633512--56633810 Score: 297
Period size: 92 Copynumber: 3.3 Consensus size: 91
56633502 CAACCTACTT
* * * * * *
56633512 CACTACAACTTCAGGGAGATAAGGTTTGATATGATCTGCTCTATTGCGACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAAATAA-GATTGACATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* *
56633577 TCTATAATTTATAGCTTCAATCTATTT
65 TCTATAATTTATAGCTTCAATCTGTTC
* * * * * * *
56633604 TACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGTAACTTCAGGGAGAT
1 CACTGCAACTTCAGGGAAATAAGATT-G--A-CAT-GATCTGCTCTACTGCAACTTCAGAGAGAT
* * *
56633669 AAGA-C--T-A-GTA-A-CTTCAACCTGCTC
61 AAGATCTATAATTTATAGCTTCAATCTGTTC
* * *
56633693 CACTGCAACTTCAAGGAGATAATGATTGACATGATCTGCTCTACTGCAACTTTAGAGAGATAAGA
1 CACTGCAACTTCAGGGAAATAA-GATTGACATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
56633758 TCTATAATTTATAGCTTCAATCTGTTC
65 TCTATAATTTATAGCTTCAATCTGTTC
56633785 CACTGCAACTTCAGGGAAATAAGATT
1 CACTGCAACTTCAGGGAAATAAGATT
56633811 CGCTATCTTC
Statistics
Matches: 161, Mismatches: 33, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
85 27 0.17
86 3 0.02
87 1 0.01
88 1 0.01
89 30 0.19
90 7 0.04
91 10 0.06
92 52 0.32
93 1 0.01
94 1 0.01
95 2 0.01
96 26 0.16
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (91 bp):
CACTGCAACTTCAGGGAAATAAGATTGACATGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTATAATTTATAGCTTCAATCTGTTC
Found at i:56639997 original size:22 final size:21
Alignment explanation
Indices: 56639972--56640020 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
56639962 AATTTAAAAT
*
56639972 AAATAACATATTAGACAA-TTTA
1 AAATAACATA-TA-AAAAGTTTA
*
56639994 AAATAATATATAAAAAGTTTA
1 AAATAACATATAAAAAGTTTA
56640015 AAATAA
1 AAATAA
56640021 ATAATATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.50
22 9 0.38
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
AAATAACATATAAAAAGTTTA
Found at i:56640034 original size:26 final size:25
Alignment explanation
Indices: 56639870--56640162 Score: 141
Period size: 26 Copynumber: 11.2 Consensus size: 25
56639860 AAACGAAACA
* * * *
56639870 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATACA-AAAAATTTAAAAT
* * *
56639896 GAATAATATA-AAATAATTTAAAGT
1 AAATAATATACAAAAAATTTAAAAT
** *
56639920 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATACAAAA-AATTTAAAAT
* *
56639946 AAATAATACACAAAGCAATTTAAAAT
1 AAATAATATACAAA-AAATTTAAAAT
* * * *
56639972 AAATAACATATTAGACAATTTAAAAT
1 AAATAATATA-CAAAAAATTTAAAAT
*
56639998 -AAT-ATAT--AAAAAGTTTAAAAT
1 AAATAATATACAAAAAATTTAAAAT
* *
56640019 AAATAATATGCAAAAAGAATTTTCAAAT
1 AAATAATATAC-AAAA-AA-TTTAAAAT
*
56640047 AAATAATATACAAAATAGTTTAAAAAAAT
1 AAATAATATACAAAA-AATTT---AAAAT
*
56640076 AAATGATGTATATA-AAAACAATTCAAAAT
1 AAAT-A---ATATACAAAA-AATTTAAAAT
* * *
56640105 AAATAATATATATAACAGTTTAAAAAT
1 AAATAATATACA-AAAAATTT-AAAAT
*
56640132 AAATAATATACAAAATAGTTTAAAA-
1 AAATAATATACAAAA-AATTTAAAAT
56640157 AAATAA
1 AAATAA
56640163 ATGATGTATA
Statistics
Matches: 210, Mismatches: 35, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
21 11 0.05
22 3 0.01
23 4 0.02
24 22 0.10
25 18 0.09
26 73 0.35
27 31 0.15
28 18 0.09
29 17 0.08
30 1 0.00
32 7 0.03
33 5 0.02
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (25 bp):
AAATAATATACAAAAAATTTAAAAT
Found at i:56640069 original size:101 final size:97
Alignment explanation
Indices: 56639897--56640077 Score: 231
Period size: 101 Copynumber: 1.8 Consensus size: 97
56639887 ATTTGAAGTG
* * *
56639897 AATAATATAAAATAATTTAAAGTAAATAATATGTAAAACAAATTAAAATAAATAATACACAAAGC
1 AATAATATAAAATAATTTAAAATAAATAATATGCAAAACAAATTAAAATAAATAATACACAAAAC
56639962 AATTTAAAATAAATAACATATTAGACAATTTAA
66 AATTTAAAA-AAATAACATATTAGACAATTTAA
* *
56639995 AATAATATATAAA-AAGTTTAAAATAAATAATATGCAAAA-AGAATTTTCAAATAAATAATATAC
1 AATAATATA-AAATAA-TTTAAAATAAATAATATGCAAAACA-AA--TTAAAATAAATAATACAC
* *
56640058 AAAATAGTTTAAAAAAATAA
61 AAAACAATTTAAAAAAATAA
56640078 ATGATGTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
98 12 0.17
99 26 0.37
100 6 0.08
101 27 0.38
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (97 bp):
AATAATATAAAATAATTTAAAATAAATAATATGCAAAACAAATTAAAATAAATAATACACAAAAC
AATTTAAAAAAATAACATATTAGACAATTTAA
Found at i:56640130 original size:27 final size:27
Alignment explanation
Indices: 56639994--56640228 Score: 174
Period size: 27 Copynumber: 8.4 Consensus size: 27
56639984 AGACAATTTA
56639994 AAATAATATATAAAA-AGTTT-AAAAT
1 AAATAATATATAAAACAGTTTAAAAAT
* * **
56640019 AAATAATATGCA-AAAAGAATTTTCAAAT
1 AAATAATAT--ATAAAACAGTTTAAAAAT
* *
56640047 AAATAATATACAAAATAGTTTAAAAAAAT
1 AAATAATATATAAAACAGTTT--AAAAAT
* * *
56640076 AAATGATGTATATAAAAACA-ATTCAAAAT
1 AAAT-A-ATATAT-AAAACAGTTTAAAAAT
*
56640105 AAATAATATATATAACAGTTTAAAAAT
1 AAATAATATATAAAACAGTTTAAAAAT
* *
56640132 AAATAATATACAAAATAGTTTAAAAAAAT
1 AAATAATATATAAAACAGTTT--AAAAAT
* * *
56640161 AAATGATGTATATAAAAACA-ATTCAAAAT
1 AAAT-A-ATATAT-AAAACAGTTTAAAAAT
* *
56640190 AAATAATATATATAACAGTATAAAAAT
1 AAATAATATATAAAACAGTTTAAAAAT
56640217 AAATAATATATA
1 AAATAATATATA
56640229 TAAAAAAATG
Statistics
Matches: 165, Mismatches: 28, Indels: 32
0.73 0.12 0.14
Matches are distributed among these distances:
25 9 0.05
26 15 0.09
27 66 0.40
28 15 0.09
29 36 0.22
30 2 0.01
31 12 0.07
32 10 0.06
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (27 bp):
AAATAATATATAAAACAGTTTAAAAAT
Found at i:56640146 original size:85 final size:85
Alignment explanation
Indices: 56640043--56640226 Score: 359
Period size: 85 Copynumber: 2.2 Consensus size: 85
56640033 AAGAATTTTC
56640043 AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAACAATTCAAAATAAA
1 AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAACAATTCAAAATAAA
*
56640108 TAATATATATAACAGTTTAA
66 TAATATATATAACAGTATAA
56640128 AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAACAATTCAAAATAAA
1 AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAACAATTCAAAATAAA
56640193 TAATATATATAACAGTATAA
66 TAATATATATAACAGTATAA
56640213 AAATAAATAATATA
1 AAATAAATAATATA
56640227 TATAAAAAAA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (85 bp):
AAATAAATAATATACAAAATAGTTTAAAAAAATAAATGATGTATATAAAAACAATTCAAAATAAA
TAATATATATAACAGTATAA
Found at i:56640162 original size:56 final size:53
Alignment explanation
Indices: 56640100--56640231 Score: 138
Period size: 58 Copynumber: 2.4 Consensus size: 53
56640090 AAAACAATTC
* *
56640100 AAAATAAATAATATATATAACAGTTTAAAAATAAATAATATACAAAATAGTTTAAA
1 AAAATAAATAATATATATAACA-ATTAAAAATAAATAATATACAAAACAG--TAAA
* * * * * *
56640156 AAAATAAATGATGTATATAAAAACAATTCAAAATAAATAATATATATAACAGTATA
1 AAAATAAAT-A-ATATAT-ATAACAATTAAAAATAAATAATATACAAAACAGTAAA
56640212 AAAATAAATAATATATATAA
1 AAAATAAATAATATATATAA
56640232 AAAAATGGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
53 3 0.05
54 5 0.08
55 1 0.02
56 21 0.33
57 1 0.02
58 27 0.43
59 5 0.08
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (53 bp):
AAAATAAATAATATATATAACAATTAAAAATAAATAATATACAAAACAGTAAA
Found at i:56640194 original size:58 final size:56
Alignment explanation
Indices: 56640100--56640234 Score: 150
Period size: 56 Copynumber: 2.4 Consensus size: 56
56640090 AAAACAATTC
* * *
56640100 AAAATAAATAATATATAT---AACAGTTTAAAAATAAATAATATACAAAATAGTTTAAA
1 AAAATAAATAATATATATAAAAACA-ATTCAAAATAAATAATATACAAAACAG--TAAA
* * * * *
56640156 AAAATAAATGATGTATATAAAAACAATTCAAAATAAATAATATATATAACAGTATA
1 AAAATAAATAATATATATAAAAACAATTCAAAATAAATAATATACAAAACAGTAAA
56640212 AAAATAAATAATATATATAAAAA
1 AAAATAAATAATATATATAAAAA
56640235 AATGGATAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
56 40 0.61
58 22 0.33
59 4 0.06
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (56 bp):
AAAATAAATAATATATATAAAAACAATTCAAAATAAATAATATACAAAACAGTAAA
Found at i:56640318 original size:29 final size:29
Alignment explanation
Indices: 56640286--56640357 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
56640276 GGAAAACTAG
*
56640286 AAATAAATAATAATAAAATA-ATTTAAAAT
1 AAATAAATAATAAGAAAA-AGATTTAAAAT
*
56640315 AAAT-AATATATAAGAAAAAGGTTTAAAAT
1 AAATAAATA-ATAAGAAAAAGATTTAAAAT
56640344 AAATAAATGAATAA
1 AAATAAAT-AATAA
56640358 CAAATTCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 5 0.14
29 24 0.65
30 7 0.19
31 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATAAATAATAAGAAAAAGATTTAAAAT
Found at i:56645256 original size:34 final size:34
Alignment explanation
Indices: 56645217--56645285 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
56645207 AAGAAGAAAG
* *
56645217 CTATTTGAATTTTTCTTCGTAGATTTGTGTTGTT
1 CTATTTGAATTTTGCTTCATAGATTTGTGTTGTT
56645251 CTATTTGAATTTTGCTTCATAGATTTGTGTTGTT
1 CTATTTGAATTTTGCTTCATAGATTTGTGTTGTT
56645285 C
1 C
56645286 AAAATTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.10, G:0.17, T:0.57
Consensus pattern (34 bp):
CTATTTGAATTTTGCTTCATAGATTTGTGTTGTT
Found at i:56648256 original size:11 final size:11
Alignment explanation
Indices: 56648242--56648267 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56648232 ATTTTTTTAA
56648242 TTTTAAAATAC
1 TTTTAAAATAC
56648253 TTTTAAAATAC
1 TTTTAAAATAC
56648264 TTTT
1 TTTT
56648268 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:56648280 original size:40 final size:40
Alignment explanation
Indices: 56648225--56648334 Score: 168
Period size: 40 Copynumber: 2.7 Consensus size: 40
56648215 AATATTTTTA
*
56648225 TTTTTTTA-TTTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTAATTTTTTTTAATTTTAAAATACTTTTAAAATAC
*
56648264 TTTTTTAATTTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTTTTTAATTTTAAAATACTTTTAAAATAC
56648304 TTTTTTAATTTTTGTTTTAATTTTTAAAATA
1 TTTTTTAA-TTTT-TTTTAA-TTTTAAAATA
56648335 AAATTTTGGT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
39 7 0.11
40 38 0.58
41 4 0.06
42 6 0.09
43 10 0.15
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.64
Consensus pattern (40 bp):
TTTTTTAATTTTTTTTAATTTTAAAATACTTTTAAAATAC
Found at i:56648682 original size:31 final size:31
Alignment explanation
Indices: 56648647--56648707 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
56648637 AGAGGTGGGA
*
56648647 TGGGAAGAGAATAAAAGTTTT-AGGAAAAAAG
1 TGGG-AGAGAATAAAAATTTTGAGGAAAAAAG
* *
56648678 TGGGAGGGAGTAAAAATTTTGAGGAAAAAA
1 TGGGAGAGAATAAAAATTTTGAGGAAAAAA
56648708 AAGGTTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.20
Consensus pattern (31 bp):
TGGGAGAGAATAAAAATTTTGAGGAAAAAAG
Done.