Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1037
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: 263376
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
File 1 of 2
Found at i:53 original size:1 final size:1
Alignment explanation
Indices: 49--90 Score: 66
Period size: 1 Copynumber: 42.0 Consensus size: 1
39 GGGGTAGGGC
* *
49 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGTGGGCGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
91 CCACGCAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.02, G:0.95, T:0.02
Consensus pattern (1 bp):
G
Found at i:54 original size:13 final size:12
Alignment explanation
Indices: 36--90 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
26 TTGGGAGCGT
36 GGGGGGGTAGGGC
1 GGGGGGGT-GGGC
*
49 GGGGGGG-GGGG
1 GGGGGGGTGGGC
* *
60 GGGGGGGGGGGG
1 GGGGGGGTGGGC
72 GGGGGGGTGGGC
1 GGGGGGGTGGGC
84 GGGGGGG
1 GGGGGGG
91 CCACGCAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.26
12 21 0.55
13 7 0.18
ACGTcount: A:0.02, C:0.04, G:0.91, T:0.04
Consensus pattern (12 bp):
GGGGGGGTGGGC
Found at i:763 original size:51 final size:53
Alignment explanation
Indices: 697--829 Score: 180
Period size: 51 Copynumber: 2.5 Consensus size: 53
687 CCCAAAATAT
* * * *
697 GAAAAGTTGCTTGCATGTATCGATATATTTAATAGTGTATCGA-TACAT-TGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATTACATCTGG
*
748 GAAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATTACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATTACATCTGG
*
801 GCAAAATTTTTCCTGCATGTATCGATACA
1 G-AAAA-TTTGCCTGCATGTATCGATACA
830 AAGATCAATG
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
51 38 0.53
52 5 0.07
53 4 0.06
54 4 0.06
55 21 0.29
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (53 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATTACATCTGG
Found at i:840 original size:55 final size:52
Alignment explanation
Indices: 697--846 Score: 153
Period size: 51 Copynumber: 2.8 Consensus size: 52
687 CCCAAAATAT
* * * * *
697 GAAAAGTTGCTTGCATGTATCGATATATTTA-ATAGTGTATCGA-TACATTGG
1 GAAAATTTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATTACATTGG
***
748 GAAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATTACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATAAGATAATGTATCGATTACAT-TGG
*
801 GCAAAATTTTTCCTGCATGTATCGATACA-AAGATCAATGTATCGAT
1 G-AAAA-TTTGCCTGCATGTATCGATACATAAGAT-AATGTATCGAT
847 ACAATGTATC
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
50 2 0.02
51 35 0.42
52 5 0.06
53 4 0.05
54 6 0.07
55 32 0.38
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATAAGATAATGTATCGATTACATTGG
Found at i:853 original size:13 final size:13
Alignment explanation
Indices: 835--862 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
825 ATACAAAGAT
835 CAATGTATCGATA
1 CAATGTATCGATA
848 CAATGTATCGATA
1 CAATGTATCGATA
861 CA
1 CA
863 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1892 original size:67 final size:67
Alignment explanation
Indices: 1779--2027 Score: 297
Period size: 67 Copynumber: 3.9 Consensus size: 67
1769 ATTGGGTTTT
* *
1779 AAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAG-TGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1844 AGA
65 AGA
* * * *
1847 AAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGAT--A-A-GA
1 AAAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATGA
1908 -A
66 GA
* *
1909 AAAG-GAT---G-T--CAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGA
1 AAAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATGA
1967 GA
66 GA
* * * *
1969 AAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
2028 GGAAAAGGAT
Statistics
Matches: 151, Mismatches: 18, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
55 35 0.23
57 2 0.01
58 2 0.01
59 2 0.01
60 5 0.03
61 6 0.04
62 5 0.03
63 2 0.01
64 2 0.01
65 2 0.01
67 84 0.56
68 4 0.03
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (67 bp):
AAAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATGA
GA
Found at i:1936 original size:122 final size:122
Alignment explanation
Indices: 1788--2081 Score: 518
Period size: 122 Copynumber: 2.4 Consensus size: 122
1778 TAAAGATGAT
* *
1788 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGT
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGT
1852 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATAAGAA
66 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATAAGAA
1909 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGT
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGT
* *
1974 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGGA
66 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATAAGAA
* * *
2031 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG
2082 GAAAAGGTGC
Statistics
Matches: 165, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
121 5 0.03
122 160 0.97
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (122 bp):
AAAGGATGTCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGT
GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATAAGAA
Found at i:1955 original size:55 final size:55
Alignment explanation
Indices: 1858--2130 Score: 237
Period size: 55 Copynumber: 4.8 Consensus size: 55
1848 AAGTGATAAA
* * * * *
1858 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATAAGAAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGAAAAAG
* *
1913 GATGTCAATGTGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--A-A-GA-AAAAG
* * * * * *
1973 TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGGAAAAG
1 -GAT---G-T--CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGAAAAAG
* * * * *
2035 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT--GGAAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGAAAAAG
* *
2088 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
2131 GTGCCAATGT
Statistics
Matches: 179, Mismatches: 27, Indels: 27
0.77 0.12 0.12
Matches are distributed among these distances:
52 38 0.21
53 8 0.04
55 72 0.40
57 2 0.01
58 2 0.01
59 2 0.01
60 5 0.03
61 6 0.03
62 5 0.03
63 1 0.01
64 2 0.01
65 1 0.01
67 35 0.20
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (55 bp):
GATGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAGAAAAAG
Found at i:2202 original size:49 final size:49
Alignment explanation
Indices: 2040--2555 Score: 671
Period size: 49 Copynumber: 10.7 Consensus size: 49
2030 AAAAGGATGT
*
2040 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
2092 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2135 CAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGGTGAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
2184 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2233 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
2282 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
2331 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2380 CAATATGCTGATTCAAGGCCAGTTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
2423 CAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
2471 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * * *
2520 CAATATGTTGATTTAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
2556 GAAGGGTTGC
Statistics
Matches: 408, Mismatches: 44, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
43 74 0.18
45 1 0.00
46 3 0.01
47 1 0.00
48 46 0.11
49 251 0.62
52 32 0.08
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:2269 original size:98 final size:98
Alignment explanation
Indices: 1982--2555 Score: 697
Period size: 98 Copynumber: 5.9 Consensus size: 98
1972 GTGATAAAGA
* * * * * *
1982 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGGAAAAGGATGTCAATGTG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---G--AAGG-TGCCAATGTG
* *
2047 CTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
60 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGG
*
2089 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
* * *
2148 CAAGGCTAGCTACATTGGACTTAAAGGTGAGGG
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2181 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
2246 CAAGGCCAGCTACATTGGACTTAAAGATAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2279 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
2344 CAAGGCCAGCTACATTGGACTTAAAGATAAAGG
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* *
2377 TGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTT--A-AT---GGTGCCAATGTGTTGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
*
2436 CAAGGCCAGCTACATTGGACTTAAAGGTG-AGG
66 CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
* * * * * *
2468 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGTTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
* * * *
2533 TAGGGCCAGCTATATTGGGCTTA
66 CAAGGCCAGCTACATTGGACTTA
2556 GAAGGGTTGC
Statistics
Matches: 418, Mismatches: 37, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
91 37 0.09
92 83 0.20
93 1 0.00
94 3 0.01
95 41 0.10
96 5 0.01
97 35 0.08
98 179 0.43
103 1 0.00
107 33 0.08
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (98 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGT
CAAGGCCAGCTACATTGGACTTAAAGATGAAGG
Found at i:2318 original size:147 final size:144
Alignment explanation
Indices: 2040--2555 Score: 749
Period size: 147 Copynumber: 3.6 Consensus size: 144
2030 AAAAGGATGT
* *
2040 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATT
* *
2105 CAAGGCCAGCTATATTGGAC-T--TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGA
63 CAAGGCCAGCTATATTGGACTTAATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGA
2167 CTTAAAGGTGAGGGTGC
128 CTTAAAGGTGAGGGTGC
* * *
2184 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
2249 GGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
66 GGCCAGCTATATTGGACTT--A-ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGA
* *
2314 CTTAATGGTGAAGGTGC
128 CTTAAAGGTGAGGGTGC
*
2331 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * *
2396 GGCCAGTTATATTGGACTTAAT---GGTGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTT
66 GGCCAGCTATATTGGACTTAATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
2458 AAAGGTGA-GGTGC
131 AAAGGTGAGGGTGC
* * *
2471 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTTAG
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
2536 GGCCAGCTATATTGGGCTTA
66 GGCCAGCTATATTGGACTTA
2556 GAAGGGTTGC
Statistics
Matches: 340, Mismatches: 26, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
140 84 0.25
141 80 0.24
142 1 0.00
143 1 0.00
144 42 0.12
145 1 0.00
147 131 0.39
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (144 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
AAAGGTGAGGGTGC
Found at i:2657 original size:33 final size:33
Alignment explanation
Indices: 2548--2666 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
2538 CCAGCTATAT
2548 TGGGC-TTAGAAG--GGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
*
2578 TGGGCTTTAG-AGAGTGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGA-AGGTTGCCACCGACTTGTG
*
2611 TGGGCTTTGGAAGAAGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
2644 TGGGCTTTAGAAGAAGG-TGCCAC
1 TGGGCTTTAGAAGAAGGTTGCCAC
2667 GGAGTCGTGG
Statistics
Matches: 81, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.09
31 4 0.05
32 6 0.07
33 61 0.75
34 3 0.04
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (33 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:2779 original size:95 final size:95
Alignment explanation
Indices: 2642--3321 Score: 667
Period size: 95 Copynumber: 7.1 Consensus size: 95
2632 CACCGACTTG
* *
2642 TGTGGGCTTTAGAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTG
1 TGTGGGC-TTA-AA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTG
2707 TGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
63 TGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
* * *
2740 TGTGGGCTTAAAATGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGG
1 TGTGGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGG
2805 GCTTTAAAGGAAAAAAGGGTGCCACGGAGT
66 GCTTTAAAGGAAAAAAGGGTGCCACGGAGT
* * *
2835 CGTGGACTTAAAAAGGTGCCACGGAGTTGTGGGCTT---A--AAAAG-GTGCCACGGAGTTGTGG
1 TGTGGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGG
*
2894 AC-TTAAAGATGAAAAAA--GTGCCACGGAGT
66 GCTTTAAAG--GAAAAAAGGGTGCCACGGAGT
* * *
2923 TGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTG
1 TGTGGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAA-AGGAAAAGAGTGCCACGGAGTTGTG
2988 GGC-TT-------AAAAGGGTGCCACGGAGT
65 GGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
* *
3011 TATGGGCTTTAAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGA
1 TGTGGGC-TT--AAA-AAGGTGCCACGGAGTTGTGGAC-TTAAAA-GG-AAAAGAGTGCCACGGA
* *
3076 GTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
59 GTTGTGGGCTTT--AAAGGAAAAAAGGGTGCCACGGAGT
* * * *
3115 TGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAG-GTTGCCACG
1 TGTGGGC-TTAAAAAG-----GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAGAG-TGCCACG
*
3179 GAATTGTGGGCTTT-------AAAAGGGTGCCACGGAGT
57 GAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
*
3211 TGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGG
1 TGTGGGCTT---A--AA-AAGGTGCCACGGAGTTGTGGACTTAAAA-GG-AAAAGAGTGCCACGG
*
3276 AGTTGTGGGCTTTAAA--AAGAAAAAGGTGCCACGGAGT
58 AGTTGTGGGCTTTAAAGGAA-AAAAGGGTGCCACGGAGT
3313 TGTGGGCTT
1 TGTGGGCTT
3322 TGAAGAAAAG
Statistics
Matches: 495, Mismatches: 37, Indels: 96
0.79 0.06 0.15
Matches are distributed among these distances:
86 4 0.01
88 68 0.14
89 19 0.04
90 12 0.02
91 3 0.01
92 23 0.05
93 6 0.01
94 31 0.06
95 138 0.28
96 67 0.14
97 4 0.01
98 8 0.02
100 2 0.00
101 6 0.01
102 28 0.06
104 27 0.05
105 25 0.05
106 21 0.04
107 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (95 bp):
TGTGGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGG
GCTTTAAAGGAAAAAAGGGTGCCACGGAGT
Found at i:2909 original size:61 final size:59
Alignment explanation
Indices: 2816--3321 Score: 430
Period size: 61 Copynumber: 8.0 Consensus size: 59
2806 CTTTAAAGGA
*
2816 AAAAAGGGTGCCACGGAGTCGTGGACTT-----AAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
*
2871 AAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAA-A-GAAAAAGGTGCCACGGAGTTGTGGGCTT
* *
2932 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAA-A-GAAAAAGGTGCCACGGAGTTGTGGGCTT
* * * * * * *
2993 AAAAGGGTGCCACGGAGTTATGGGCTTTAAA-AAGAAGGTGCCACGGAGTCGTGGACTTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT
*
3052 AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTG
1 -------AAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAA--GAAAAAG-GTGCCACGGAGTTG
3117 TGGGCTTT
53 TGGGC-TT
* * * *
3125 AAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGC
1 AAAAAG-----GTGCCACGGAGTTGTGGAC-TT-AAAAGAAAAAGG-TGCCACGGAGTTGTGGGC
3190 TTT
58 -TT
* * *
3193 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTT
*
3253 AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGG
1 -------AAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGAAAAAGGTGCCACGGAGTTGTGG
3318 GCTT
56 GCTT
3322 TGAAGAAAAG
Statistics
Matches: 383, Mismatches: 30, Indels: 62
0.81 0.06 0.13
Matches are distributed among these distances:
54 21 0.05
55 5 0.01
58 21 0.05
59 2 0.01
60 3 0.01
61 132 0.34
62 9 0.02
63 17 0.04
66 11 0.03
67 24 0.06
68 52 0.14
69 31 0.08
70 30 0.08
72 5 0.01
73 20 0.05
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (59 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT
Found at i:2915 original size:34 final size:33
Alignment explanation
Indices: 2749--3321 Score: 487
Period size: 27 Copynumber: 17.8 Consensus size: 33
2739 TTGTGGGCTT
* * *
2749 AAAATGGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
* *
2782 -AAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTAAAAGG
* *
2815 AAAAAAGGGTGCCACGGAGTCGTGGACTT------
1 -AAAAA-GGTGCCACGGAGTTGTGGGCTTAAAAGG
2844 AAAAAGGTGCCACGGAGTTGTGGGCTT------
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
* *
2871 AAAAAGGTGCCACGGAGTTGTGGACTTAAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAA-AGG
*
2905 AAAAAAGTGCCACGGAGTTGTGGGCTTAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
* *
2937 -----GGTGCCACGGAGTTGTGGACTTAAAGATG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAA-AGG
*
2966 AAAAAAGTGCCACGGAGTTGTGGGCTTAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
* *
2998 -----GGTGCCACGGAGTTATGGGCTTTAAA--
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
* * *
3024 AAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGC-TTAAAA-GG
3059 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGGC-TT-AAAA-GG
*
3096 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGG
* *
3131 AAAAA-GTGCCACGGAGTGGTGGGCTTTGAGAA-G
1 AAAAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGG
*
3164 AAAAAGGTTGCCACGGAATTGTGGGCTTTAAAA-G
1 AAAAAGG-TGCCACGGAGTTGTGGGC-TTAAAAGG
*
3198 -----GGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
* *
3226 AACAAGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTAAAA-GG
*
3260 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGG
3295 AAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTT
3322 TGAAGAAAAG
Statistics
Matches: 461, Mismatches: 38, Indels: 82
0.79 0.07 0.14
Matches are distributed among these distances:
27 98 0.21
28 23 0.05
29 3 0.01
31 17 0.04
32 11 0.02
33 80 0.17
34 85 0.18
35 77 0.17
36 31 0.07
37 36 0.08
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGG
Found at i:3123 original size:131 final size:126
Alignment explanation
Indices: 2642--3353 Score: 580
Period size: 122 Copynumber: 5.6 Consensus size: 126
2632 CACCGACTTG
* * * *
2642 TGTGGGCTTT-AGAAGAAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA-GAAAAG-GTGCCACGGAGT
* * * * * *
2705 TGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGTTGTGGGCTTAAAA-TGGTGCCACAGAGT
64 TGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAGGTGCCACGGAGT
* * * *
2767 TGTGGAC-TTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACG
1 TGTGGGCTTTAAAA--AGAAG-GTGCCACGGAGTTGTGGGCTTTAAA--AGAAAA-GGTGCCACG
*
2831 GAGTCGTGGACTT-------AAAAAG-GTGCCACGGAGTTGTGGGCTTAAAA-AGGTGCCACGGA
60 GAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAGGTGCCACGGA
2887 GT
125 GT
* * * *
2889 TGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAG----GGTGCCACGGAG
1 TGTGGGCTTTAA-A--AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAG
*
2949 TTGTGGACTT-AAAGATGAAAAA-AGTGCCACGGAGTTGTGGGCTTAAAAG-GGTGCCACGGAGT
63 TTGTGGACTTAAAAG-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAGGTGCCACGGAGT
* * *
3011 TATGGGCTTTAAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGA
1 TGTGGGCTTTAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA--G-AAAAG-GTGCCACGGA
* *
3076 GTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCC
62 GTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAG---AGGTGCC
3141 ACGGAGT
120 ACGGAGT
* * *
3148 GGTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTTAAAAG----GGTGCCACGGA
1 TGTGGGCTTT-A-AA-AAGAAGG-TGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGA
* *
3209 GTTGTGGACTTAAAA-GGAACAAG-GTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCC
62 GTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA--G----AG-GTGCC
3272 ACGGAGT
120 ACGGAGT
* *
3279 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAGAAAAGGATGCCACTGA
1 TGTGGGCTTTAAAAAG---AAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGG-TGCCACGGA
**
3343 GTCATGGACTT
62 GTTGTGGACTT
3354 TGAGACAAAA
Statistics
Matches: 487, Mismatches: 44, Indels: 103
0.77 0.07 0.16
Matches are distributed among these distances:
115 21 0.04
119 21 0.04
120 7 0.01
121 1 0.00
122 102 0.21
123 27 0.06
124 7 0.01
125 8 0.02
126 1 0.00
127 9 0.02
128 38 0.08
129 31 0.06
130 60 0.12
131 55 0.11
132 4 0.01
133 25 0.05
134 18 0.04
137 20 0.04
138 1 0.00
139 3 0.01
140 6 0.01
141 22 0.05
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.21
Consensus pattern (126 bp):
TGTGGGCTTTAAAAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTTG
TGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGAGGTGCCACGGAGT
Found at i:3289 original size:96 final size:96
Alignment explanation
Indices: 3097--3292 Score: 256
Period size: 96 Copynumber: 2.0 Consensus size: 96
3087 TGAAAAGGGA
* * *
3097 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGACTTTGAAA
3162 AGAAAAAGGTTGCCACGGAATTGTGGGCTTT
66 AGAAAAAGGTTGCCACGGAATTGTGGGCTTT
* * * *
3193 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TT-AA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAA-AAAGTGCCACGGAGTGGTGGACTTTGAA
*
3255 AAGGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTT
65 AA--GAAAAAG-GTTGCCACGGAATTGTGGGCTTT
3289 AAAA
1 AAAA
3293 AGAAAAAGGT
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
94 3 0.03
95 11 0.12
96 73 0.83
97 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (96 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGACTTTGAAA
AGAAAAAGGTTGCCACGGAATTGTGGGCTTT
Found at i:3368 original size:96 final size:96
Alignment explanation
Indices: 2642--3452 Score: 591
Period size: 95 Copynumber: 8.5 Consensus size: 96
2632 CACCGACTTG
** * *
2642 TGTGGGCTTT--AGAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGAAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAGAA-AAGGTGCCACGGAGTCGTGGACTT-TGAGAAAAAGAGTGCCACGGAGT
*
2705 TGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
64 TGTGGGCTTTAAAAG-AAAAA-GGTGCCACGGAGT
* * * ** * *
2740 TGTGGGC-TT--A-AAATGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTT
1 TGTGGGCTTTAAAGAAAAGGTGCCACGGAGTCGTGGACTT-TGAGAAAAAGAGTGCCACGGAGTT
*
2801 GTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAGT
65 GTGGGCTTTAAAAG-AAAAA-GGTGCCACGGAGT
* * * *
2835 CGTGGAC-TT--A-AAAAGGTGCCACGGAGTTGTGGGC-TT---AAAAAG-GTGCCACGGAGTTG
1 TGTGGGCTTTAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAGAAAAAGAGTGCCACGGAGTTG
* *
2891 TGGAC-TTAAAGATGAAAAAAGTGCCACGGAGT
66 TGGGCTTTAAA-A-GAAAAAGGTGCCACGGAGT
* * *
2923 TGTGGGC-TT--A-AAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAA-AGTGCCACGGAG
1 TGTGGGCTTTAAAGAAAAGGTGCCACGGAGTCGTGGACTT--TGA-GAAAAAGAGTGCCACGGAG
2983 TTGTGGGC-TTAAAAG-----GGTGCCACGGAGT
63 TTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
* *
3011 TATGGGCTTTAAA-AAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGG
1 TGTGGGCTTTAAAGAA-AAGGTGCCACGGAGTCGTGGACTTT----GAGAAAAAGAGTGCCACGG
3075 AGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
61 AGTTGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGT
* * * *
3115 TGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCACGG
1 TGTGGGCTTT--AAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAGAA-AAAGA-G-TGCCACGG
*
3180 AATTGTGGGCTTTAAAAG-----GGTGCCACGGAGT
61 AGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
* * * * *
3211 TGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGG
1 TGTGGGCTTTAAA-GAA-AAGGTGCCACGGAGTCGTGGACTT---TGAGAAAAAGAGTGCCACGG
3276 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
61 AGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGT
* * * * * *
3313 TGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTGAGACAAA-A-TGCCACTGAGTC
1 TGTGGGCTTTAAAGAAAAGG-TGCCACGGAGTCGTGGACTTTGAGAAAAAGAGTGCCACGGAGTT
* **
3376 GTGGACTTT-AAAG-AAAAGGATGCCACTAAGT
65 GTGGGCTTTAAAAGAAAAAGG-TGCCACGGAGT
* * * * * * *
3407 CGTGGACTTT-GAGAAGAGATTGCCACTGAGTCGTGGGCTTTGAGAA
1 TGTGGGCTTTAAAGAAAAG-GTGCCACGGAGTCGTGGACTTTGAGAA
3453 GAGATTTGAA
Statistics
Matches: 600, Mismatches: 64, Indels: 103
0.78 0.08 0.13
Matches are distributed among these distances:
88 65 0.11
89 25 0.04
90 6 0.01
91 3 0.00
92 22 0.04
93 42 0.07
94 47 0.08
95 142 0.24
96 85 0.14
97 11 0.02
98 18 0.03
99 4 0.01
100 4 0.01
101 20 0.03
102 28 0.05
103 5 0.01
104 26 0.04
105 20 0.03
106 25 0.04
107 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (96 bp):
TGTGGGCTTTAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAGAAAAAGAGTGCCACGGAGTTG
TGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
Found at i:3369 original size:30 final size:29
Alignment explanation
Indices: 3293--3452 Score: 149
Period size: 32 Copynumber: 5.1 Consensus size: 29
3283 GGCTTTAAAA
* * *
3293 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTG
1 AGAAAAA--TGCCACTGAGTCGTGGACTTTG
*
3324 AAGAAAAGGATGCCACTGAGTCATGGACTTTG
1 -AGAAAA--ATGCCACTGAGTCGTGGACTTTG
*
3356 AGACAAAATGCCACTGAGTCGTGGACTTTAA
1 AGA-AAAATGCCACTGAGTCGTGGACTTT-G
*
3387 AGAAAAGGATGCCACTAAGTCGTGGACTTTG
1 AGAAAA--ATGCCACTGAGTCGTGGACTTTG
* *
3418 AGAAGAGATTGCCACTGAGTCGTGGGCTTTG
1 AGAA-A-AATGCCACTGAGTCGTGGACTTTG
3449 AGAA
1 AGAA
3453 GAGATTTGAA
Statistics
Matches: 109, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
30 24 0.22
31 34 0.31
32 49 0.45
33 1 0.01
34 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
AGAAAAATGCCACTGAGTCGTGGACTTTG
Found at i:3390 original size:62 final size:63
Alignment explanation
Indices: 3302--3447 Score: 206
Period size: 62 Copynumber: 2.3 Consensus size: 63
3292 AAGAAAAAGG
* * * *
3302 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGGCTTTAAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGA-AGAGAA
* * *
3364 TGCCACTGAGTCGTGGACTTTAAAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTAAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGAAGAGAA
3427 TGCCACTGAGTCGTGGGCTTT
1 TGCCACTGAGTCGTGGGCTTT
3448 GAGAAGAGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 1 0.01
62 52 0.70
63 21 0.28
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGGCTTTAAAGAAAAGGATGCCACTAAGTCATGGACTTTGAGAAGAGAA
Found at i:3458 original size:31 final size:30
Alignment explanation
Indices: 3296--3457 Score: 173
Period size: 31 Copynumber: 5.2 Consensus size: 30
3286 TTTAAAAAGA
* * * *
3296 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
*
3327 AAAAGGATGCCACTGAGTCATGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
*
3358 ACAAA-ATGCCACTGAGTCGTGGACTTTAAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTT-GAG
*
3389 AAAAGGATGCCACTAAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
3420 AAGAGATTGCCACTGAGTCGTGGGCTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
3451 AAGAGAT
1 AAAAGAT
3458 TTGAAGAATT
Statistics
Matches: 113, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
30 27 0.24
31 43 0.38
32 43 0.38
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:4385 original size:1 final size:1
Alignment explanation
Indices: 4381--4453 Score: 56
Period size: 1 Copynumber: 73.0 Consensus size: 1
4371 GGGTTTTTCG
** * * * * * * *
4381 TTTTTTTTTTCCTTTTTTTTTTGTTTTTTTTGTTTCTTCTTTTTTTTTTCTTTTTTGTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
4446 CTTTTTTT
1 TTTTTTTT
4454 GGAAAAGAAC
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.86
Consensus pattern (1 bp):
T
Found at i:4391 original size:12 final size:12
Alignment explanation
Indices: 4374--4453 Score: 67
Period size: 12 Copynumber: 6.4 Consensus size: 12
4364 TGAAAAGGGG
4374 TTTTTCGTTTTT
1 TTTTTCGTTTTT
*
4386 TTTTTCCTTTTT
1 TTTTTCGTTTTT
4398 TTTTT-GTTTTTT
1 TTTTTCG-TTTTT
*
4410 TTGTTTCTTCTTTTT
1 TT-TTTC--GTTTTT
4425 TTTTTC-TTTTT
1 TTTTTCGTTTTT
4436 TGTTTT-GTTTCTT
1 T-TTTTCGTTT-TT
4449 TTTTT
1 TTTTT
4454 GGAAAAGAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
11 6 0.11
12 34 0.60
13 6 0.11
14 4 0.07
15 7 0.12
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTTTCGTTTTT
Found at i:4422 original size:27 final size:26
Alignment explanation
Indices: 4374--4453 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
4364 TGAAAAGGGG
*
4374 TTTTTCGTTTTTTTTTTC--CTTTTT
1 TTTTTCTTTTTTTTTTTCTTCTTTTT
*
4398 TTTTTGTTTTTTTTGTTTCTTCTTTTT
1 TTTTTCTTTTTTTT-TTTCTTCTTTTT
4425 TTTTTCTTTTTTGTTTTGT-TTCTTTTT
1 TTTTTCTTTTTT-TTTT-TCTTCTTTTT
4452 TT
1 TT
4454 GGAAAAGAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 12 0.25
25 4 0.08
27 29 0.60
28 3 0.06
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (26 bp):
TTTTTCTTTTTTTTTTTCTTCTTTTT
Found at i:4427 original size:30 final size:29
Alignment explanation
Indices: 4393--4453 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
4383 TTTTTTTTCC
*
4393 TTTTTTTTT-TGTTTT-TTTTGTTTCTTCT
1 TTTTTTTTTCTTTTTTGTTTTGTTTCTT-T
4421 TTTTTTTTTCTTTTTTGTTTTGTTTCTTT
1 TTTTTTTTTCTTTTTTGTTTTGTTTCTTT
4450 TTTT
1 TTTT
4454 GGAAAAGAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 9 0.30
29 10 0.33
30 11 0.37
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (29 bp):
TTTTTTTTTCTTTTTTGTTTTGTTTCTTT
Found at i:4436 original size:39 final size:40
Alignment explanation
Indices: 4373--4451 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 40
4363 GTGAAAAGGG
*
4373 GTTTTTCGTTTTTTTTTTCCTTTTTTTTTTGTTT-TTTTT
1 GTTTTTCGTTTTTTTTTTCCTTTTTGTTTTGTTTCTTTTT
*
4412 GTTTCTTC-TTTTTTTTTTCTTTTTTGTTTTGTTTCTTTTT
1 GTTT-TTCGTTTTTTTTTTCCTTTTTGTTTTGTTTCTTTTT
4452 TTGGAAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 28 0.78
40 8 0.22
ACGTcount: A:0.00, C:0.09, G:0.08, T:0.84
Consensus pattern (40 bp):
GTTTTTCGTTTTTTTTTTCCTTTTTGTTTTGTTTCTTTTT
Found at i:11680 original size:52 final size:52
Alignment explanation
Indices: 11595--11719 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
11585 ATATGAAAAG
* *
11595 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
11647 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
11699 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
11720 AAGATCAATG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:11730 original size:52 final size:52
Alignment explanation
Indices: 11595--11739 Score: 204
Period size: 52 Copynumber: 2.8 Consensus size: 52
11585 ATATGAAAAG
* * *
11595 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
***
11647 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
11699 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
11740 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 4 0.05
52 81 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:11743 original size:13 final size:13
Alignment explanation
Indices: 11725--11786 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
11715 ATACAAAGAT
11725 CAATGTATCGATA
1 CAATGTATCGATA
11738 CAATGTATCGATA
1 CAATGTATCGATA
11751 C-AT-T-T-GAGT-
1 CAATGTATCGA-TA
11760 -AATGTATCGATA
1 CAATGTATCGATA
11772 CAATGTATCGATA
1 CAATGTATCGATA
11785 CA
1 CA
11787 TTTGAGTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
9 4 0.10
10 3 0.07
11 3 0.07
12 4 0.10
13 28 0.67
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:11769 original size:34 final size:34
Alignment explanation
Indices: 11726--11807 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
11716 TACAAAGATC
11726 AATGTATCGATACAATGTATCGATACATTTGAGT
1 AATGTATCGATACAATGTATCGATACATTTGAGT
11760 AATGTATCGATACAATGTATCGATACATTTGAGT
1 AATGTATCGATACAATGTATCGATACATTTGAGT
11794 AATGTATCGATACA
1 AATGTATCGATACA
11808 TTTTTTGGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (34 bp):
AATGTATCGATACAATGTATCGATACATTTGAGT
Found at i:17857 original size:63 final size:64
Alignment explanation
Indices: 17778--17958 Score: 249
Period size: 63 Copynumber: 2.8 Consensus size: 64
17768 CGGTGCTCCG
*
17778 GCGGAGGCCCACGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTC-CAAACAT
1 GCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCTCAAACAT
* * *
17841 GCGGAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACCATCCAG-CCCTCCCCCTTCTCTAACAT
1 GCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCC-GTCCCTCCCCCCTCTCAAACAT
* * * * * *
17905 GCAGAGGGCCAAGCATGCGCAATGAGTCCCTCCCGAGCATCCGTCCCTCCCCCC
1 GCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCC
17959 CAACCAAACG
Statistics
Matches: 103, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
63 52 0.50
64 51 0.50
ACGTcount: A:0.19, C:0.46, G:0.21, T:0.14
Consensus pattern (64 bp):
GCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCTCAAACAT
Found at i:17937 original size:64 final size:63
Alignment explanation
Indices: 17781--17958 Score: 232
Period size: 64 Copynumber: 2.8 Consensus size: 63
17771 TGCTCCGGCG
* * *
17781 GAGGCCCACGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATGCG
1 GAGGCCCAAGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATGCA
* * * *
17844 GAGGCCCAAGCGTGGGCAACGAGTCCCTCCCAACCATCCAG-CCCTCCCCCTTCTCTAACATGCA
1 GAGGCCCAAGCATGCGCAACGAGTCCCTCCCAACCATCC-GTCCCTCCCCCCTC-CAAACATGCA
* * * *
17908 GAGGGCCAAGCATGCGCAATGAGTCCCTCCCGAGCATCCGTCCCTCCCCCC
1 GAGGCCCAAGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCC
17959 CAACCAAACG
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
63 49 0.49
64 51 0.51
ACGTcount: A:0.20, C:0.46, G:0.20, T:0.14
Consensus pattern (63 bp):
GAGGCCCAAGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATGCA
Found at i:20108 original size:402 final size:405
Alignment explanation
Indices: 19142--20711 Score: 2000
Period size: 402 Copynumber: 3.9 Consensus size: 405
19132 AAACCTTGTC
* * ** *
19142 GCGGTGATGGAGACCCTGCGCGGTCCAGGTGATCCGTGGCAAGGTCCCCAGTCAC--CGTATGCT
1 GCGGTGATGGAGACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCCCCAGTCACTACG--TGC-
** * ** *
19205 GTCGATCGCATGGCACGCGTGTGTGGGGTAAAATGGGCGTGGTCGTGCC-GAAAGGTTAA-GCTT
63 G-CGATCGGTTGGCACGCGTGTG-CGGGT-AACGGGGCGTGGTCGTGCCAG-AAGG-CAAGGC-T
* * * *
19268 C-CACCTGCGCTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGCA
122 CGCACCTGCGGTGATGCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTATGGCGTGGGCA
* *
19332 GAAGCTGCAGGTG-GGGCTTGGCCTGCCCATGCCCCGT-GAGCAGGGGCAGTCTCGCGGCCCTTG
187 GAAGCTGCAGGTGAGGGCTTGGCCTGGCCATGCCCC-TCGAGCAGGGGCAGTCTCGCGACCCTTG
* * * * *
19395 CTTCGGCAACGGTGGGCTCGTCCTGCCGGTTGTCTGTCGGGGATTGTGCTCGATGCACCTGGCAT
251 CATCGGCAACGGTGGGCACGTCCTACCGGTTGCCTGTCGGGGATTGTGCTCGATGCGCCTGGCAT
** *
19460 TGATCGCTTCCCGGCAGAGTGTCCCTCTCGGTTAAGATCCAGGTCGCGCGTGCCTTGCGATCGTG
316 TGATCGCGCCCCGGCAGAGTGTCCCTCTCGGTTAAAATCCAGGTCGCGCGTGCCTTGCGATCGTG
19525 GTTTTCGGTGGCCGGATGCCCAGCT
381 GTTTTCGGTGGCCGGATGCCCAGCT
* ** * * *
19550 GCGGTGACGG-GACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCATCGGTCTCTGCGTGCGCG
1 GCGGTGATGGAGACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCCCCAGTCACTACGTGCGCG
* * *
19614 ATCGGTTGGCACGTGTGTGCGGGTAACGGGGCGTGGTCATGCCGGAAGGCAAGGCTCGCACCTGC
66 ATCGGTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCAGAAGGCAAGGCTCGCACCTGC
* * *
19679 GGTGATGCTGCCAAGTTCCCAAATTCGAGTTCGTAGTCCCGGTTATGGCGTGGGCAAAAGCTGCA
131 GGTGATGCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTATGGCGTGGGCAGAAGCTGCA
*
19744 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGTGACCCTTGCATCGGCAAC
196 GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGCGACCCTTGCATCGGCAAC
* * * * * * *
19809 GGTGGGCACGTCCTACCGGTTTCCTATCGGGGATTGCGCTCCATGCGCCTAGCATGGTTCGCGCC
261 GGTGGGCACGTCCTACCGGTTGCCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTGATCGCGCC
* * * *
19874 CCGTCA-A-TGTCCTTCTCGATTAAAATCCAGGTCGCGCGAGCCTTGCGATCGTGGTTTTCGGTG
326 CCGGCAGAGTGTCCCTCTCGGTTAAAATCCAGGTCGCGCGTGCCTTGCGATCGTGGTTTTCGGTG
*
19937 ACCGGATGCCCAGCT
391 GCCGGATGCCCAGCT
* * *
19952 GCGGTGATGGAGACCCTACGCAGTCCGAGTGATCCGTGGTGAGGCCCCC-GATCACTACGTGCGC
1 GCGGTGATGGAGACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCCCCAG-TCACTACGTGCGC
* * * *
20016 GATCGTTTGGCACACGTGTGTGGGTAACGGAGCGTGGTCGTGCC-GAAGGCAAGGCTCGCACCTG
65 GATCGGTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCAGAAGGCAAGGCTCGCACCTG
*
20080 CGGTGATGCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTATGGCATGGGCAGAAGCTGC
130 CGGTGATGCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTATGGCGTGGGCAGAAGCTGC
* *
20145 AGGTGAGGGCTTGGCCTGGCTATGCCCCTCGAGCAGGGGCAGTCTCGTGACCCTTGCATCGGCAA
195 AGGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGCGACCCTTGCATCGGCAA
* *
20210 CGGTGGGCACGTCCTGCCGGTTGCCTGTCAGGGATTGTGCTCGATGCGCCTGGCATTGATCGCGC
260 CGGTGGGCACGTCCTACCGGTTGCCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTGATCGCGC
* * *
20275 CCCGGCAGAGTGTCCCTCTCGGTTAAAATCCAGGTTGCGCGTCCCTTGCGATCGTGGTTTTCAGT
325 CCCGGCAGAGTGTCCCTCTCGGTTAAAATCCAGGTCGCGCGTGCCTTGCGATCGTGGTTTTCGGT
* *
20340 GGCCGGATACCTAGCT
390 GGCCGGATGCCCAGCT
* * * ** * *
20356 GCTGTGAT-GAGACCCTTCGTGGTCCAAGTGATCCATGGTGAGGCCGTCAGTCGCTACGTGCACG
1 GCGGTGATGGAGACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCCCCAGTCACTACGTGCGCG
* * * *
20420 ATCGGTTGGCACGCGTGTGCGGGTAACGGGGTGTGGTGGTGCCAGAAGGCAAGGCTCACACTTGC
66 ATCGGTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCAGAAGGCAAGGCTCGCACCTGC
* * * * * * * *
20485 GGTGATGCTGCCAAGTTCTCC-ATTTCGAGTAGATGGTCCTGGTTGTGGCGCT-AGCAGATGCTG
131 GGTGATGCTGCCAAGTTC-CCGAATTCGAGTTGGTAGTCCCGGTTATGGCG-TGGGCAGAAGCTG
* * *
20548 CAGGTGAGGGCGTGGCCTGGCCATTGCCCCTCGAGCAGGGGCAGTCTCGCGGCCCTTGCATCTGC
194 CAGGTGAGGGCTTGGCCTGGCCA-TGCCCCTCGAGCAGGGGCAGTCTCGCGACCCTTGCATCGGC
* * * *** ** *
20613 AACGGTGGGCTCGTCTTACCGGTTGCCTGTCGGGGATTATGCTCGATGTTTCTGGCACGGGTCGC
258 AACGGTGGGCACGTCCTACCGGTTGCCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTGATCGC
* * *
20678 TCCCCGGCAGAGTGTCCCTCTCGATTGAAATCCA
323 GCCCCGGCAGAGTGTCCCTCTCGGTTAAAATCCA
20712 AGTCATGCCT
Statistics
Matches: 1014, Mismatches: 132, Indels: 35
0.86 0.11 0.03
Matches are distributed among these distances:
402 287 0.28
403 258 0.25
404 275 0.27
405 144 0.14
406 1 0.00
407 38 0.04
408 9 0.01
409 2 0.00
ACGTcount: A:0.15, C:0.28, G:0.35, T:0.23
Consensus pattern (405 bp):
GCGGTGATGGAGACCCTTCGCGGTCCAAGTGATCCGTGGTGAGGCCCCCAGTCACTACGTGCGCG
ATCGGTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCAGAAGGCAAGGCTCGCACCTGC
GGTGATGCTGCCAAGTTCCCGAATTCGAGTTGGTAGTCCCGGTTATGGCGTGGGCAGAAGCTGCA
GGTGAGGGCTTGGCCTGGCCATGCCCCTCGAGCAGGGGCAGTCTCGCGACCCTTGCATCGGCAAC
GGTGGGCACGTCCTACCGGTTGCCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTGATCGCGCC
CCGGCAGAGTGTCCCTCTCGGTTAAAATCCAGGTCGCGCGTGCCTTGCGATCGTGGTTTTCGGTG
GCCGGATGCCCAGCT
Found at i:27955 original size:63 final size:63
Alignment explanation
Indices: 27777--27955 Score: 259
Period size: 63 Copynumber: 2.8 Consensus size: 63
27767 CACTGATAGC
* * *
27777 ACATGCGGAGGCCCACGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCTCTCCCCCCTTCAA
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
* *
27840 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCCTA
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
* * * * * *
27903 ACATGCGGAGGGCCAAGCGTGTGCAATGAGTCCCTCCCCAGCATCCATCCCTC
1 ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTC
27956 TCCACCAACC
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 104 1.00
ACGTcount: A:0.20, C:0.44, G:0.21, T:0.15
Consensus pattern (63 bp):
ACATGCGGAGGCCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
Found at i:30070 original size:404 final size:403
Alignment explanation
Indices: 29203--30215 Score: 1282
Period size: 404 Copynumber: 2.5 Consensus size: 403
29193 GAGTCCCCTG
* * ** * *
29203 ATTCGAGTAGATGCTCCCGGTTGTGGCACACGCGGAAGCTGCAAATGTGGGCTTGGCCTGGCCAT
1 ATTCAAGTAGATGGTCCCGGTTGTGGC-CTGGCAGAAGCTGCAGATG-GGGCTTGGCCTGGCCAT
* **
29268 GCCTCGTGAGCAGGGGCAGTCTCGCGGCCCTTGCTTCGGCAACGGTGGGCTCGTCCCACCGGTTG
64 GCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTGCTTCGGCAACGGTGGGCTCGTCCTGCCGGTTG
* * * * *
29333 TCTATCGGGGATTGTGCTCGATGCGCCTCGCATTGATCACGCCCCGGCAGAGTGTCTCTCTAGAT
129 TCTGTCGGGGATTGTGCTCGATGCGCCTGGCATTGATCGCGCCCCGGCAGAGTGTCCCTCTCGAT
* * * * *
29398 TAAAATCTAGGTCGTGCGTGCCTTGCGATCGTGGCTTTCCCTGACCGGATGCCCAGCTGTGGTGA
194 TAAAATCCAGGTCGCGCGTCCCTTGCGATCGTGGCTTTCCCTGACCGGATGCCCAACTGCGGTGA
* * * * *
29463 TGGAGACCTTACGCGGTCCAAGTGATCCGTTGTGAGGCCCCCGGTCGCAACGTGCGCGATCGTTT
259 TCGAGACCTTACGCGGTCCAAGTGATCCATTGTAAGGCCACCGGTCGCAACGTGCGCGATCGATT
* * *
29528 GGCACGCGTGTGTGGGTAACGGGGTGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTACGGTGATT
324 GGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTACGGTGATG
29593 CTGCCAAGTTCCCAA
389 CTGCCAAGTTCCCAA
* * * * * * * *
29608 ATTCGAGTAGGTTGTCCTGATTGTGGCATGGGCAGAAGCTGCTGGTGGGGCTTGGCCTGGCCATG
1 ATTCAAGTAGATGGTCCCGGTTGTGGCCT-GGCAGAAGCTGCAGATGGGGCTTGGCCTGGCCATG
*
29673 CCCCGTGAGCAGGGGCAGTCTCGTGGCCCTTGCTTCGGCAACGGTGGGCTCGTCCTGCCGGTTGT
65 CCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTGCTTCGGCAACGGTGGGCTCGTCCTGCCGGTTGT
* *
29738 CTGTCGGGGATTATGCTCGATGCGCCTGGCATTGATCGCGCCCCGGCAGAGTGTCCCTCTCGGTT
130 CTGTCGGGGATTGTGCTCGATGCGCCTGGCATTGATCGCGCCCCGGCAGAGTGTCCCTCTCGATT
* * **
29803 AAAATCCAGGTCGCGCGTCCCTTGCGATGGTGGTTTTCGGTCG-CCGGATGCCCAACTGCGGTGA
195 AAAATCCAGGTCGCGCGTCCCTTGCGATCGTGGCTTTCCCT-GACCGGATGCCCAACTGCGGTGA
* * * **
29867 -CGAGACCCTT-CGCGGTCTAGGTGATCCA-TGTTAAGGCCATCGGTCGCTGCGTGCGCGATCGA
259 TCGAGA-CCTTACGCGGTCCAAGTGATCCATTG-TAAGGCCACCGGTCGCAACGTGCGCGATCGA
*
29929 TTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCTGGAAGGCAAGGCTCGCACCTACGGTGA
322 TTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTACGGTGA
* *
29994 TGCTGCCAAGTTCTCGA
387 TGCTGCCAAGTTCCCAA
* * * *
30011 TTTCAAGTAGATGGTCCCGGTTGTGGCGCTGGCAGATGCTGCAGACGAGGGCGTGGCCTGGCCAT
1 ATTCAAGTAGATGGTCCCGGTTGTGGC-CTGGCAGAAGCTGCAGATG-GGGCTTGGCCTGGCCA-
* * * * *
30076 TGCCCC-TCGAGTAGGGGCAGTCTCACAGCCCTTGCATCGGCAACGGTGGGCTCGTCCTGCTGGT
63 TGCCCCGT-GAGCAGGGGCAGTCTCGCGGCCCTTGCTTCGGCAACGGTGGGCTCGTCCTGCCGGT
** * ** * *
30140 TG-CTTGTCGGGGATTGTGCTCGATGTTCTTGGCACGGGTCGCGCCCCGGCTGAGTGTCCCTCTC
127 TGTC-TGTCGGGGATTGTGCTCGATGCGCCTGGCATTGATCGCGCCCCGGCAGAGTGTCCCTCTC
*
30204 GATTGAAATCCA
191 GATTAAAATCCA
30216 TGTCATGCCC
Statistics
Matches: 523, Mismatches: 76, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
402 2 0.00
403 154 0.29
404 212 0.41
405 155 0.30
ACGTcount: A:0.14, C:0.28, G:0.34, T:0.24
Consensus pattern (403 bp):
ATTCAAGTAGATGGTCCCGGTTGTGGCCTGGCAGAAGCTGCAGATGGGGCTTGGCCTGGCCATGC
CCCGTGAGCAGGGGCAGTCTCGCGGCCCTTGCTTCGGCAACGGTGGGCTCGTCCTGCCGGTTGTC
TGTCGGGGATTGTGCTCGATGCGCCTGGCATTGATCGCGCCCCGGCAGAGTGTCCCTCTCGATTA
AAATCCAGGTCGCGCGTCCCTTGCGATCGTGGCTTTCCCTGACCGGATGCCCAACTGCGGTGATC
GAGACCTTACGCGGTCCAAGTGATCCATTGTAAGGCCACCGGTCGCAACGTGCGCGATCGATTGG
CACGCGTGTGCGGGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTACGGTGATGCT
GCCAAGTTCCCAA
Found at i:34757 original size:13 final size:13
Alignment explanation
Indices: 34739--34793 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
34729 TAAAGTGTTC
34739 TATCGATACAATG
1 TATCGATACAATG
34752 TATCGATACATAAGTGTTG
1 TATCGATAC--AA----TG
34771 TATCGATACAATG
1 TATCGATACAATG
34784 TATCGATACA
1 TATCGATACA
34794 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 21 0.58
15 2 0.06
17 2 0.06
19 11 0.31
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:34774 original size:19 final size:18
Alignment explanation
Indices: 34715--34813 Score: 83
Period size: 19 Copynumber: 5.8 Consensus size: 18
34705 ATTTCAACGA
34715 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
34734 TGTTCTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
34750 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
34766 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
34782 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
34798 TTTTGTATCGATACAT
1 -TTTGTATCGATACAT
34814 TTTAAGCTAC
Statistics
Matches: 65, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.32
15 4 0.06
17 4 0.06
19 25 0.38
20 11 0.17
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:34775 original size:32 final size:32
Alignment explanation
Indices: 34717--34812 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
34707 TTCAACGATT
*
34717 TGTATCGATACATAAAGTGTTCTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
34750 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
34782 TGTATCGATACATAAGTTTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
34813 TTTTAAGCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 48 0.79
33 13 0.21
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:43156 original size:33 final size:33
Alignment explanation
Indices: 43119--43350 Score: 203
Period size: 33 Copynumber: 7.3 Consensus size: 33
43109 CCCATGGCTC
43119 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
* * * *** *
43152 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
43182 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
* * * *** *
43215 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
43245 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
* * * *** *
43278 AGTGGCATC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
*
43308 AGTGGCATATTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
43341 AGTGGCATCT
1 AGTGGCATCT
43351 CTTTCCAAAG
Statistics
Matches: 146, Mismatches: 44, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
30 53 0.36
31 15 0.10
32 15 0.10
33 63 0.43
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (33 bp):
AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
Found at i:43194 original size:63 final size:63
Alignment explanation
Indices: 43095--43382 Score: 506
Period size: 63 Copynumber: 4.6 Consensus size: 63
43085 AATTCTTCAA
*
43095 ATCTC-TTCTCAAAGCCCATGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTC-CAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
43158 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
43221 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
*
43284 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
* * * *
43347 ATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTT
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTT
43383 TTCTTTTCAA
Statistics
Matches: 217, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
63 214 0.99
64 3 0.01
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (63 bp):
ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
Found at i:43363 original size:30 final size:30
Alignment explanation
Indices: 43138--43365 Score: 177
Period size: 30 Copynumber: 7.3 Consensus size: 30
43128 TTTCCTTCTT
43138 AAAGTCCACAATTTAGTGGCATCTCTTTCC
1 AAAGTCCACAATTTAGTGGCATCTCTTTCC
* *** * * *
43168 AAAGCCCACGGCTCAGTGGCATCTTTCCTTCTT
1 AAAGTCCACAATTTAGTGGCATC--TCTTTC-C
43201 AAAGTCCACAATTTAGTGGCATCTCTTTCC
1 AAAGTCCACAATTTAGTGGCATCTCTTTCC
* *** * * *
43231 AAAGCCCACGGCTCAGTGGCATCTTTCCTTCTT
1 AAAGTCCACAATTTAGTGGCATC--TCTTTC-C
43264 AAAGTCCACAATTTAGTGGCATCTCTTTCC
1 AAAGTCCACAATTTAGTGGCATCTCTTTCC
* *** * * * *
43294 AAAGCCCACGGCTCAGTGGCATATTTCCTTCTT
1 AAAGTCCACAATTTAGTGGC--ATCTCTTTC-C
43327 AAAGTCCACAATTTAGTGGCATCTCTTTCC
1 AAAGTCCACAATTTAGTGGCATCTCTTTCC
43357 AAAGTCCAC
1 AAAGTCCAC
43366 GACTCCGTGG
Statistics
Matches: 145, Mismatches: 44, Indels: 18
0.70 0.21 0.09
Matches are distributed among these distances:
30 60 0.41
31 17 0.12
32 17 0.12
33 51 0.35
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (30 bp):
AAAGTCCACAATTTAGTGGCATCTCTTTCC
Found at i:43394 original size:34 final size:34
Alignment explanation
Indices: 43350--43579 Score: 217
Period size: 34 Copynumber: 6.9 Consensus size: 34
43340 TAGTGGCATC
* * *
43350 TCTTTCCAAAGTCCACGACTCCGTGGCACCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
43384 TCTTTTCAAAGCCCACAACTCCGTGGCA-----T
1 TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
*
43413 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
* * **
43448 TC-CTTCTAAGCCCACAACTCTATGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
* *
43482 CCCTTTT-AAAGTCCACAACTCCGTGGCACCTTTT
1 -TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
* * *
43516 CCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
* *
43551 TC-CTTCTAAGTCCC-CAACTCCGTGGCACC
1 TCTTTTCAAAG-CCCACAACTCCGTGGCACC
43580 CCCTTCCAAA
Statistics
Matches: 163, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
29 28 0.17
33 7 0.04
34 95 0.58
35 31 0.19
36 2 0.01
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (34 bp):
TCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
Found at i:43417 original size:63 final size:64
Alignment explanation
Indices: 43095--43549 Score: 414
Period size: 63 Copynumber: 7.1 Consensus size: 64
43085 AATTCTTCAA
* * * * * *
43095 ATCTC-TTCTCAAAGCCCATGGCTCAGTGGCATC-TTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTC-CAAAGCCCACGACTCAGTGGCACCTTTTCCTTCTTAAAGCCCACAACTCAGTGGC
* * * * *
43158 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATC-TTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCACCTTTTCCTTCTTAAAGCCCACAACTCAGTGGC
* * * * *
43221 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATC-TTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCACCTTTTCCTTCTTAAAGCCCACAACTCAGTGGC
* * * *
43284 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCA--TATTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCACCT-TTTCCTTCTTAAAGCCCACAACTCAGTGGC
* * * *
43347 ATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCTT-TTCAAAGCCCACAACTCCGTGGC
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCACCTTTTCCTTCTT-AAAGCCCACAACTCAGTGGC
** * *
43411 AT-TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC-T-AAGCCCACAACTCTA-TG
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCAC-C-TTTTCCTTCTTAAAGCCCACAACTC-AGTG
43472 GC
63 GC
* * * * *
43474 A-CTCTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTCCTTTTTAAAGCCCACAACTCT
1 ATCTC-TTT-CC----AAAGCCCACGACTCAGTGGCACCTTTTCCTTCTTAAAGCCCACAACTCA
43538 GTGGC
60 GTGGC
43543 A-CTCTTT
1 ATCTCTTT
43550 TTCCTTCTAA
Statistics
Matches: 352, Mismatches: 20, Indels: 35
0.86 0.05 0.09
Matches are distributed among these distances:
63 257 0.73
64 31 0.09
65 9 0.03
67 8 0.02
68 5 0.01
69 42 0.12
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (64 bp):
ATCTCTTTCCAAAGCCCACGACTCAGTGGCACCTTTTCCTTCTTAAAGCCCACAACTCAGTGGC
Found at i:43417 original size:126 final size:126
Alignment explanation
Indices: 43120--43549 Score: 462
Period size: 126 Copynumber: 3.4 Consensus size: 126
43110 CCATGGCTCA
* * * *
43120 GTGGCATC-TTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGCCCACGGCTCAG
1 GTGGCACCTTTTCCTT-TTAAAGCCCACAACTCAGTGGCATCTCTTTCCAAAGCCCACGGCTCAG
* * * *
43184 TGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGCCCACGGCTCA
65 TGGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCC
* * * *
43246 GTGGCATC-TTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGCCCACGGCTCAG
1 GTGGCACCTTTTCCTT-TTAAAGCCCACAACTCAGTGGCATCTCTTTCCAAAGCCCACGGCTCAG
43310 TGGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCC
65 TGGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCC
* * ** ** *
43372 GTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCAT-TCTTTTTAAAGCCCACAACTCCG
1 GTGGCACCTTTTCCTTTT-AAAGCCCACAACTCAGTGGCATCTCTTTCCAAAGCCCACGGCTCAG
* * *
43436 TGGCACTCTTTTTCCTTC-T-AAGCCCACAACTCTA-TGGCA-CTCTTTTCCCTTTTAAAGTCCA
65 TGGCA---TATTTCCTTCTTAAAGTCCACAA-TTTAGTGGCATCTC-TTT-CC----AAAGTCCA
*
43497 CAACTCC
120 CGACTCC
*
43504 GTGGCACCTTTTCCTTTTTAAAGCCCACAACTCTGTGGCA-CTCTTT
1 GTGGCACCTTTTCC-TTTTAAAGCCCACAACTCAGTGGCATCTCTTT
43550 TTCCTTCTAA
Statistics
Matches: 269, Mismatches: 21, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
126 157 0.58
127 41 0.15
128 6 0.02
129 9 0.03
132 52 0.19
133 4 0.01
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (126 bp):
GTGGCACCTTTTCCTTTTAAAGCCCACAACTCAGTGGCATCTCTTTCCAAAGCCCACGGCTCAGT
GGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCC
Found at i:43425 original size:29 final size:29
Alignment explanation
Indices: 43383--43448 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
43373 TGGCACCTTT
*
43383 TTCTTTTCAAAGCCCACAACTCCGTGGCA
1 TTCTTTTTAAAGCCCACAACTCCGTGGCA
43412 TTCTTTTTAAAGCCCACAACTCCGTGGCA
1 TTCTTTTTAAAGCCCACAACTCCGTGGCA
*
43441 CTCTTTTT
1 TTCTTTTT
43449 CCTTCTAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (29 bp):
TTCTTTTTAAAGCCCACAACTCCGTGGCA
Found at i:43426 original size:189 final size:190
Alignment explanation
Indices: 43095--43446 Score: 505
Period size: 189 Copynumber: 1.9 Consensus size: 190
43085 AATTCTTCAA
* *
43095 ATCTCTTCTCAAAGCCCATGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
1 ATCTCTTCTCAAAGCCCACGGCTCAGTGGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
* * * * *
43160 CTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCATCT
66 CTCTTTCCAAAGCCCACGACTCAGTGGCACCTTTCCTTCTTAAAGCCCACAACTCAGTGGCATCT
**
43225 CTTTCCAAAGCCCACGGCTCAGTGGCA-TCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
131 CTTTCCAAAGCCCACAACTCAGTGGCACTCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
43284 ATCTCTT-TCCAAAGCCCACGGCTCAGTGGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGCA
1 ATCTCTTCT-CAAAGCCCACGGCTCAGTGGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGCA
* * * *
43348 TCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCTT-TTCAAAGCCCACAACTCCGTGGCA
65 TCTCTTTCCAAAGCCCACGACTCAGTGGCACC-TTTCCTTCTT-AAAGCCCACAACTCAGTGGCA
** *
43412 T-TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
128 TCTCTTTCCAAAGCCCACAACTCAGTGGCACTCTTT
43447 TTCCTTCTAA
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
188 1 0.01
189 113 0.79
190 29 0.20
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (190 bp):
ATCTCTTCTCAAAGCCCACGGCTCAGTGGCATATTTCCTTCTTAAAGTCCACAATTTAGTGGCAT
CTCTTTCCAAAGCCCACGACTCAGTGGCACCTTTCCTTCTTAAAGCCCACAACTCAGTGGCATCT
CTTTCCAAAGCCCACAACTCAGTGGCACTCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
Found at i:43509 original size:69 final size:67
Alignment explanation
Indices: 43357--43579 Score: 253
Period size: 69 Copynumber: 3.3 Consensus size: 67
43347 ATCTCTTTCC
* * * * *
43357 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA-----TTCTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTC-CTTCTAAGCCCACAACTCTGTGGCACTCTTTTCCT
43417 TTT
65 TTT
* *
43420 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCTATGGCACTCTTTTCCC
1 AAAGTCCACAACTCCGTGGCAC-CTTTTTCCTTCTAAGCCCACAACTCTGTGGCACTCTTTT-CC
43485 TTTT
64 TTTT
*
43489 AAAGTCCACAACTCCGTGGCACC-TTTTCCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCC-TTCT-AAGCCCACAACTCTGTGGCACTC-TTTTC
*
43553 CTTCT
63 CTTTT
*
43558 -AAGTCCCCAACTCCGTGGCACC
1 AAAGTCCACAACTCCGTGGCACC
43580 CCCTTCCAAA
Statistics
Matches: 138, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
63 41 0.30
64 7 0.05
67 6 0.04
68 27 0.20
69 53 0.38
70 4 0.03
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.32
Consensus pattern (67 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCCTTCTAAGCCCACAACTCTGTGGCACTCTTTTCCTT
TT
Found at i:43546 original size:103 final size:97
Alignment explanation
Indices: 43373--43579 Score: 283
Period size: 103 Copynumber: 2.1 Consensus size: 97
43363 CACGACTCCG
*
43373 TGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCATTCTTTTTAAAGCCCACAACTCCGTG
1 TGGCACCTTTTCCTTTTCAAAGCCCACAACTCCGTGGCATTCTTTTTAAAGCCCACAACTCCGTG
43438 GCACTCTTTTTCCTTCTAAG-CCCACAACTCTA
66 GCACTCTTTTTCCTTCTAAGTCCC-CAACTCTA
*
43470 TGGCACTCTTTTCCCTTTT-AAAGTCCACAACTCCGTGGCACCTTTTCCTTTTTAAAGCCCACAA
1 TGGCAC-CTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCA----TT-CTTTTTAAAGCCCACAA
* **
43534 CTCTGTGGCACTCTTTTTCCTTCTAAGTCCCCAACTCCG
59 CTCCGTGGCACTCTTTTTCCTTCTAAGTCCCCAACTCTA
43573 TGGCACC
1 TGGCACC
43580 CCCTTCCAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
97 6 0.06
98 25 0.26
99 5 0.05
102 3 0.03
103 55 0.57
104 3 0.03
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (97 bp):
TGGCACCTTTTCCTTTTCAAAGCCCACAACTCCGTGGCATTCTTTTTAAAGCCCACAACTCCGTG
GCACTCTTTTTCCTTCTAAGTCCCCAACTCTA
Found at i:43625 original size:33 final size:33
Alignment explanation
Indices: 43582--43884 Score: 403
Period size: 33 Copynumber: 9.4 Consensus size: 33
43572 GTGGCACCCC
*
43582 CTTCCAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
43615 CTTCTAAAGCCCACACAAGTCGGTGGCAACC--
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
43646 CTTCTCAAAGCCCACACAAGTCGGTGGCAAACCTT
1 CTTCT-AAAGCCCACACAAGTCGGTGGC-AACCTT
*
43681 C-TCTAAAGCCCACACAAGTCGGTGGCAACTTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
* *
43713 CTTCTAATGCCTACACAAGTCGGTGGCAACCCTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
43747 -TTC-AAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
* * * *
43778 TTTC-AAAGCCCACACAAATCGGTGGTAACCCT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
* *
43810 C-TCTAAAGCCCACACAAATTGGTGGCAACCATT
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACC-TT
43843 C-TCTAAAGCCCACACAAGTCGGTGGCAACC--
1 CTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
43873 CTTCT-AAGCCCA
1 CTTCTAAAGCCCA
43885 ATATAGCTGG
Statistics
Matches: 244, Mismatches: 16, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
30 8 0.03
31 14 0.06
32 102 0.42
33 113 0.46
34 6 0.02
35 1 0.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (33 bp):
CTTCTAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:43660 original size:65 final size:65
Alignment explanation
Indices: 43580--43884 Score: 403
Period size: 65 Copynumber: 4.8 Consensus size: 65
43570 CCGTGGCACC
43580 CCCTTC-CAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
43644 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAAACCTTC-TCTAAAGCCCACACAAGTCGGTGGCA
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGC-AACCTTCTTCTAAAGCCCACACAAGTCGGTGGCA
43708 A
65 A
* * *
43709 -CTTTCTTCTAATGCCTACACAAGTCGGTGGCAACCCTT-TTC-AAAGCCCACACAAGTCGGTGG
1 CCCTTC-TC-AAAGCCCACACAAGTCGGTGGCAA-CCTTCTTCTAAAGCCCACACAAGTCGGTGG
43771 CAA
63 CAA
* * * * * * *
43774 CCTTTTTCAAAGCCCACACAAATCGGTGGTAACCCTC-TCTAAAGCCCACACAAATTGGTGGCAA
1 CCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
43838 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAACC--CTTCT-AAGCCCA
1 CCCTTCTC-AAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCA
43885 ATATAGCTGG
Statistics
Matches: 215, Mismatches: 15, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
63 13 0.06
64 61 0.28
65 104 0.48
66 37 0.17
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (65 bp):
CCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:43661 original size:32 final size:33
Alignment explanation
Indices: 43580--43877 Score: 414
Period size: 32 Copynumber: 9.2 Consensus size: 33
43570 CCGTGGCACC
43580 CCCTTC-C-AAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
43611 -CCTTCTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
43644 CCCTTCTC-AAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
43676 ACCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* * *
43709 -CTTTCTTCTAATGCCTACACAAGTCGGTGGCAA
1 CCCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
*
43742 CCCTTTTC-AAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* * * *
43774 CCTTTTTC-AAAGCCCACACAAATCGGTGGTAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* *
43806 CCC-TCTCTAAAGCCCACACAAATTGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
43838 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
43871 CCCTTCT
1 CCCTTCT
43878 AAGCCCAATA
Statistics
Matches: 239, Mismatches: 19, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
30 5 0.02
31 3 0.01
32 113 0.47
33 110 0.46
34 8 0.03
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.20
Consensus pattern (33 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:43986 original size:43 final size:43
Alignment explanation
Indices: 43925--44288 Score: 449
Period size: 43 Copynumber: 8.0 Consensus size: 43
43915 ACCTTCATCC
* *
43925 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* *
43968 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----CT
* *
44017 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGAACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* *
44060 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
*
44109 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* *
44152 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
*
44201 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
*
44244 TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT
1 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
44287 TT
1 TT
44289 TCCATCTTTA
Statistics
Matches: 280, Mismatches: 23, Indels: 36
0.83 0.07 0.11
Matches are distributed among these distances:
43 158 0.56
44 1 0.00
45 2 0.01
47 2 0.01
48 1 0.00
49 116 0.41
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
Found at i:44039 original size:92 final size:92
Alignment explanation
Indices: 43872--44341 Score: 764
Period size: 92 Copynumber: 5.1 Consensus size: 92
43862 CGGTGGCAAC
* * * * *
43872 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCCTTAAGTTCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
43937 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
43965 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
*
44030 AGCTGGCCTTGAATCAGCACATTGGAA
66 AGCTGGCCTTGAATCAGCACATTGGCA
44057 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGTCCAATG
44121 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
44149 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCT-TCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGTCCAATG
44213 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* *
44241 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTT--ATCTTTAAGTCCAA
* *
44306 TGTAGCTGGCCTTGAATCAGCATATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
44336 TCCTTT
1 -CCTTT
44342 TTCTCATCTT
Statistics
Matches: 358, Mismatches: 13, Indels: 9
0.94 0.03 0.02
Matches are distributed among these distances:
92 306 0.85
93 7 0.02
95 40 0.11
96 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:44377 original size:55 final size:53
Alignment explanation
Indices: 44242--44392 Score: 205
Period size: 52 Copynumber: 2.8 Consensus size: 53
44232 ACATTGGCAC
44242 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTTCCAT
* * *
44294 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCC-TTTTC-CAT
* * * * *
44349 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATC
44393 TTTATCACTT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
52 39 0.46
53 2 0.02
54 5 0.06
55 39 0.46
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCCTTTTCCAT
Found at i:44453 original size:67 final size:68
Alignment explanation
Indices: 44345--44471 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
44335 ATCCTTTTTC
* * *
44345 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
44409 TCT
66 TCT
* * * *
44412 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
44472 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:45295 original size:13 final size:13
Alignment explanation
Indices: 45277--45333 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
45267 CATAAAGTGT
45277 TGTATCGATACAA
1 TGTATCGATACAA
45290 TGTATCGATACATAA
1 TGTATCGATAC--AA
45305 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
45322 TGTATCGATACA
1 TGTATCGATACA
45334 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:45312 original size:32 final size:32
Alignment explanation
Indices: 45257--45354 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
45247 TTCAATGATT
45257 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
45290 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
45322 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
45354 T
1 T
45355 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:45314 original size:19 final size:18
Alignment explanation
Indices: 45255--45352 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
45245 ATTTCAATGA
45255 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
45274 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
45290 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
45306 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
45322 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
45338 TTTTGTATCGATACA
1 -TTTGTATCGATACA
45353 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:45413 original size:13 final size:13
Alignment explanation
Indices: 45395--45419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45385 ATTACTCAAA
45395 TGTATCGATACAT
1 TGTATCGATACAT
45408 TGTATCGATACA
1 TGTATCGATACA
45420 CAGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:53652 original size:63 final size:63
Alignment explanation
Indices: 53560--53720 Score: 232
Period size: 63 Copynumber: 2.6 Consensus size: 63
53550 CACGCGTGCA
* *
53560 CAACGAGTCCCTTCCAACCATCCGTCCCTCCCCCCTCCAAACATGCGGAGGCCCAAGCGTGAG
1 CAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATGCGAAGGCCCAAGCGTGAG
* * * * *
53623 CAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCCTCCTAACATGCGAAGGGCCAAGGGTGTG
1 CAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATGCGAAGGCCCAAGCGTGAG
* * *
53686 CAACGAGTCCTTCCCCAGCATCCGTCCCTCCCCCC
1 CAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCC
53721 CAACCAAACG
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 87 1.00
ACGTcount: A:0.20, C:0.47, G:0.19, T:0.15
Consensus pattern (63 bp):
CAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAAACATGCGAAGGCCCAAGCGTGAG
Found at i:54434 original size:64 final size:62
Alignment explanation
Indices: 54323--54461 Score: 176
Period size: 64 Copynumber: 2.2 Consensus size: 62
54313 GAGCCCCACA
* *
54323 CATGTGCAACGAG-TCCATCCCAAAGCATCCGTCCCCCCCTCCAAACATGTAGAGGGCCGAG
1 CATGTGCAACGAGTTCCATCCCAAAGCATCCGTCCCCCCCTCCAAACATGCAGAGGCCCGAG
* * *
54384 CGTGTGCAACGAGTTCCA-CCC-AAGCATCCGTCCCTCCCCCCCTCCAAACATGCGGAGGCCCTA
1 CATGTGCAACGAGTTCCATCCCAAAGCATCCG----TCCCCCCCTCCAAACATGCAGAGGCCCGA
54447 G
62 G
54448 CATGTGCAACGAGT
1 CATGTGCAACGAGT
54462 CCCTCCCCCC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
60 9 0.13
61 15 0.22
62 4 0.06
64 39 0.58
ACGTcount: A:0.24, C:0.39, G:0.22, T:0.16
Consensus pattern (62 bp):
CATGTGCAACGAGTTCCATCCCAAAGCATCCGTCCCCCCCTCCAAACATGCAGAGGCCCGAG
Found at i:54546 original size:106 final size:108
Alignment explanation
Indices: 54431--54624 Score: 288
Period size: 106 Copynumber: 1.8 Consensus size: 108
54421 CCCCCTCCAA
54431 ACATGCGGAGGCCCTA-GCATGTGCAACGAGTCCCTCCCC-C-CCCTAAACGT-GTCATCCCTTA
1 ACATGCGGAGGCCC-ACGCATGTGCAACGAGTCCCTCCCCTCTCCCT-AACGTCGTCATCCCTTA
*
54492 GCGTTGCAACGGCCGGTTGGGTACCACGAATCCACCACCGGTAGC
64 GCGTTGCAACGGCCGGATGGGTACCACGAATCCACCACCGGTAGC
* * * *
54537 ACATGCGGAGGCCCACGCGTGTGCAACGAGTCCCTCCCCTCTTCCTAACGTCTTCGTCCCTTAGC
1 ACATGCGGAGGCCCACGCATGTGCAACGAGTCCCTCCCCTCTCCCTAACGTCGTCATCCCTTAGC
*
54602 GTTGCAACGGTCGGATGGGTACC
66 GTTGCAACGGCCGGATGGGTACC
54625 CCGGCAACGG
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
105 1 0.01
106 36 0.46
107 6 0.08
108 35 0.45
ACGTcount: A:0.19, C:0.36, G:0.25, T:0.20
Consensus pattern (108 bp):
ACATGCGGAGGCCCACGCATGTGCAACGAGTCCCTCCCCTCTCCCTAACGTCGTCATCCCTTAGC
GTTGCAACGGCCGGATGGGTACCACGAATCCACCACCGGTAGC
Found at i:56683 original size:404 final size:404
Alignment explanation
Indices: 55903--58499 Score: 3414
Period size: 404 Copynumber: 6.4 Consensus size: 404
55893 TGGCACACGT
* * * * * *
55903 AGAAGCTGCAAGTGTGGGCTTAGCCAGGCCATGCCTCATGAGCAAGGGCAGTCTCGCGG-CCTTA
1 AGAAGCTGCAGGTG-GGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTT-
* * ** * *
55967 GCATCGGCAATGGTGGGCTCGTCCTACCGGTTGTCTGTCGGGGATTGTGCTCGATGCGCCTGGCA
64 GCTTCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCA
** * *
56032 TTGATCGCGCCCCGGCAGAGCATCCCTCTCTG-TTAAAATCCAAGTCATGCGTGCCTTGCGATCG
129 TTGATCGCGCCCCGGCAGAGTGTCCCTCTC-GATTAAAATCCAGGTCGTGCGTGCCTTGCGATCG
** * * * * *
56096 TGGCTTTCGATGACCGGCTGCCAAGCTGCGGTGATGGAGACCGTACGCGATCCAAGTGATCCGCG
193 TGGCTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGCG
* * * * *
56161 ATGAGGCCCCCGGTCACTACGTGCGCGATCGTTTGGCATGCGTGTGTGGGTAACGGGGCGTGGTC
258 GTGAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTC
* * * * *
56226 ATGCCGGAAGGCAAGGCTTGCACCTGCAGTGAT-TCTGCCAAGTTCCTGAATTCGAGTAAGTAGT
323 GTGCCGGAAGGCAAGGCTCGCACCTGCGGTGATGT-TGCCAAGTTCCCGAATTCGAGTAGGTAGT
*
56290 CCCTGTTGTGGCGTGGGC
387 CCCGGTTGTGGCGTGGGC
* *
56308 AGAAGCTGCAGGTAGGGCTTGGCCTGGCCATGCCCCATGAGCAGGGGCAGTCTCGCGGCCCTTGC
1 AGAAGCTGCAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTGC
*
56373 TTCGGCAATGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCATT
66 TTCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCATT
** *
56438 GATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGTGCACGCCTTGTGATCGTGG
131 GATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGTGCGTGCCTTGCGATCGTGG
* *** *
56503 CTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGCGTTCCAAGTGATCTATGGTA
196 CTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGCGGTG
*
56568 AGGCCCCCGGTCGCTGCGTGCTCGATCGGTTGGCACGCGTGTGCT-GGTAACGGGGCGTGGTCGT
261 AGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTG-TGGGTAACGGGGCGTGGTCGT
*
56632 GCCGGAAGGCAAGGCTCGCACCTGTGGTGATGTTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCC
325 GCCGGAAGGCAAGGCTCGCACCTGCGGTGATGTTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCC
56697 GGTTGTGGCGTGGGC
390 GGTTGTGGCGTGGGC
** *
56712 AGAAGCTATAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGACAGTCTCGCGGCCCTTGC
1 AGAAGCTGCAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTGC
* * * **
56777 TTCGACAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGAGGATGGTGCACAATGCGCCTAACATT
66 TTCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCATT
* * *
56842 GATCGCACCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAAGTCGTGCGTGCCTTGCGATTGTGG
131 GATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGTGCGTGCCTTGCGATCGTGG
*
56907 CTTTCCCTAACCGGATGCCCAGCTACGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGCGGTG
196 CTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGCGGTG
** * * *
56972 AGGCCCCCGGTACG-TGCGT----GATCATTTGGCATGTGTGTGTGGGTAACAGGGCGTGGTCGT
261 AGGCCCCCGGT-CGCTGCGTGCGCGATCGGTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTCGT
* * * * * * *
57032 GTCGAAAAGCAAGGCTCGTACCTGCGATGATGCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCTC
325 GCCGGAAGGCAAGGCTCGCACCTGCGGTGATGTTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCC
57097 GGTTGTGGCGTGGGC
390 GGTTGTGGCGTGGGC
57112 AGAAGCTGTC-GGT-GGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTG
1 AGAAGCTG-CAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTG
* ** * * * *
57175 CTTCGGTAATAGTGGGCTCGTCCCACCGGTTTTTTATCGGGGATGGTGCTCAATGCGCCTGGCAT
65 CTTCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCAT
* * *
57240 T-ATCGCGCCCCGGCAAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGTGTGCCTTGCGATCGTG
130 TGATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGTGCGTGCCTTGCGATCGTG
* ** * * * * * *
57304 GTTTTCGGTGGCCGGATGCCCATCTACGGTGACGG-GACCCTTC-CTGGGCCAAGTGATCCGTGG
195 GCTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGC-GGTCCAAGTGATCCGCGG
*
57367 TGAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGGGTAACGGGGCGTGGTCG
259 TGAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTCG
*
57432 TGCCGGAAGGCAAGGCTCGCACCTGTGGTGATGTTGCCAAGTTCCCGAATTCGAGTAGGTAGTCC
324 TGCCGGAAGGCAAGGCTCGCACCTGCGGTGATGTTGCCAAGTTCCCGAATTCGAGTAGGTAGTCC
57497 CGGTTGTGGCGTGGGC
389 CGGTTGTGGCGTGGGC
* * *
57513 AGAAGCTACAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGACAGTCTCGCAGCCCTTGC
1 AGAAGCTGCAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTGC
* * * *
57578 TTCGACAACGGCGGGCTCGTTCCGCCCGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCATT
66 TTCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCATT
* * * * *
57643 CATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCTAGGTCGTGCGTGCCCTACGATCATGG
131 GATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGTGCGTGCCTTGCGATCGTGG
* * *
57708 CTTTCCCTGACCAGATGCCCAGCTGCGGTGATGGAGACCCTACGCGATCCAAGTGATCCGCGGTG
196 CTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGCGGTG
* * * * *
57773 AGGCCCCTGGTCGCTACGTGCGTGATCGTTTGGCACGCGTGTGTGGGTAACGGGGTGTGGTCGTG
261 AGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTCGTG
* *
57838 CTGGAAGGAAAGGCTCGCACCTGCGGTGAT-TCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCC
326 CCGGAAGGCAAGGCTCGCACCTGCGGTGATGT-TGCCAAGTTCCCGAATTCGAGTAGGTAGTCCC
57902 GGTTGTGGCGTGGGC
390 GGTTGTGGCGTGGGC
*
57917 AGAAGCTGCAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCACGGCCCTTGC
1 AGAAGCTGCAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTGC
* * * * *
57982 TTCGGTAACAGTGGGCTCGTCCCACCTGTTGTCTGTCGGGGATGGTGCTTAATGCGCCTGGCATT
66 TTCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCATT
* * * * *
58047 GATCGCGCCCCGACAAAGTGTCCCTCTCGGTTAAAATCCAGGTCGCGTGTGCCTTGCGATCGTGG
131 GATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGTGCGTGCCTTGCGATCGTGG
* ** * * * * * * * *
58112 TTTTCGGTGGCCGGATGCCCATCTGCGATGACGG-GACCCTTC-CTGGGCCAAGTGATCCGTGGT
196 CTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGC-GGTCCAAGTGATCCGCGGT
* ** * * *
58175 GAGGTCGTCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGGGTAACGGGGCCTGGTCAT
260 GAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTCGT
* * * * * * * * *
58240 GCCGAAAGGTAAGGCTCGCACCTGCGGTGATGCTGCCAAGTTCTCTATTTCGAGTTGATGGTCCC
325 GCCGGAAGGCAAGGCTCGCACCTGCGGTGATGTTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCC
58305 GGTTGTGGCGCT-GGC
390 GGTTGTGGCG-TGGGC
* * * *
58320 AGATGCTGCAAGTGAGGGCGTAGCCTGGCCATTGCCCC-TCGAGCAGGGGCAGTCTCGCGGCCCT
1 AGAAGCTGCAGGTG-GGGCTTGGCCTGGCCA-TGCCCCGT-GAGCAGGGGCAGTCTCGCGGCCCT
* * * * * * *
58384 TGCATCGGCAACGGTGGGCTCGTCCTGCCGGTTGCCTGTCAGGGATTGTGCTCGATGTGCCTGGC
63 TGCTTCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGC
** ** ** *
58449 ACGGGCCGCGCCCCTTCAGAGTGTCCCTCTCGGTTAAAATCCAGGTCGTGC
128 ATTGATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGTGC
58500 CCAGCTGCGG
Statistics
Matches: 1921, Mismatches: 246, Indels: 50
0.87 0.11 0.02
Matches are distributed among these distances:
396 3 0.00
397 41 0.02
398 85 0.04
399 104 0.05
400 117 0.06
401 117 0.06
402 104 0.05
403 241 0.13
404 964 0.50
405 145 0.08
ACGTcount: A:0.15, C:0.28, G:0.34, T:0.23
Consensus pattern (404 bp):
AGAAGCTGCAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCGCGGCCCTTGC
TTCGGCAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCATT
GATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGTGCGTGCCTTGCGATCGTGG
CTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGCGGTG
AGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGTGGGTAACGGGGCGTGGTCGTG
CCGGAAGGCAAGGCTCGCACCTGCGGTGATGTTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCG
GTTGTGGCGTGGGC
Found at i:57528 original size:801 final size:803
Alignment explanation
Indices: 55903--58499 Score: 3681
Period size: 801 Copynumber: 3.2 Consensus size: 803
55893 TGGCACACGT
* * * * *
55903 AGAAGCTGCAAGTGTGGGCTTAGCCAGGCCATGCCTCATGAGCAAGGG-CAGTCTCGCGG-CCTT
1 AGAAGCTACAAGTGAGGGCTTAGCCTGGCCATGCCCCGTGAGC-AGGGACAGTCTCGCGGCCCTT
* * ** * * *
55966 AGCATCGGCAATGGTGGGCTCGTCCTACCGGTTGTCTGTCGGGGATTGTGCTCGATGCGCCTGGC
65 -GCATCGACAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGAGGATGGTGCTCAATGCGCCTGGC
** *
56031 ATTGATCGCGCCCCGGCAGAGCATCCCTCTCTG-TTAAAATCCAAGTCATGCGTGCCTTGCGATC
129 ATTGATCGCGCCCCGGCAGAGTGTCCCTCTC-GATTAAAATCCAAGTCGTGCGTGCCTTGCGATC
** * * *
56095 GTGGCTTTCGATGACCGGCTGCCAAGCTGCGGTGATGGAGACCGTACGCGATCCAAGTGATCCGC
193 GTGGCTTTCCCTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGATCCAAGTGATCCGC
* *
56160 GATGAGGCCCCCGGTCACTACGTGCGCGATCGTTTGGCATGCGTGTGTGGGTAACGGGGCGTGGT
258 GGTGAGGCCCCCGG----TACGTGCGTGATCGTTTGGCATGCGTGTGTGGGTAACGGGGCGTGGT
* * * *
56225 CATGCCGGAAGGCAAGGCTTGCACCTGC-AGTGATTCTGCCAAGTTCCTGAATTCGAGTAAGTAG
319 CGTG-CGGAAGGCAAGGCTCGCACCTGCGA-TGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAG
* *
56289 TCCCTGTTGTGGCGTGGGCAGAAGCTGCAGGTAGGGCTTGGCCTGGCCATGCCCCATGAGCAGGG
382 TCCCGGTTGTGGCGTGGGCAGAAGCTGCAGGTAGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGG
* * *
56354 GCAGTCTCGCGGCCCTTGCTTCGGCAATGGTGGGCTCGTCCCGCCGGTTGTCTGTCGGGGATGGT
447 GCAGTCTCGCGGCCCTTGCTTCGGTAATAGTGGGCTCGTCCCACCGGTTGTCTGTCGGGGATGGT
* *
56419 GCTCAATGCGCCTGGCATTGATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAGGTCGT
512 GCTCAATGCGCCTGGCATTGATCGCGCCCCGGCAAAGTGTCCCTCTCGATTAAAATCCAGGTCGC
*** * * ** * * * *
56484 GCACGCCTTGTGATCGTGGCTTTCCCTGACCGGATGCCCAGCTACGGTGATGGAGACCCTACGC-
577 GTGTGCCTTGCGATCGTGGTTTTCGGTGGCCGGATGCCCATCTACGGTGACGG-GACCCTTC-CT
** ** * * *
56548 GTTCCAAGTGATCTATGGTAAGGCCCCCGGTCGCTGCGTGCTCGATCGGTTGGCACGCGTGTGCT
640 GGGCCAAGTGATCCGTGGTGAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCG
56613 GGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGTGGTGATGTTGCCAAGTTCCCG
705 GGTAACGGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGTGGTGATGTTGCCAAGTTCCCG
56678 AATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGC
770 AATTCGAGTAGGTAGTCCCGGTTGTGGCGTGGGC
* * *
56712 AGAAGCTATAGGTG-GGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGACAGTCTCGCGGCCCTTG
1 AGAAGCTACAAGTGAGGGCTTAGCCTGGCCATGCCCCGTGAGCAGGGACAGTCTCGCGGCCCTTG
* * **
56776 CTTCGACAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGAGGATGGTGCACAATGCGCCTAACAT
66 CATCGACAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGAGGATGGTGCTCAATGCGCCTGGCAT
* *
56841 TGATCGCACCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAAGTCGTGCGTGCCTTGCGATTGTG
131 TGATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAAGTCGTGCGTGCCTTGCGATCGTG
* * *
56906 GCTTTCCCTAACCGGATGCCCAGCTACGGTGATGGAGACCCTACGCGGTCCAAGTGATCCGCGGT
196 GCTTTCCCTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGATCCAAGTGATCCGCGGT
* * *
56971 GAGGCCCCCGGTACGTGCGTGATCATTTGGCATGTGTGTGTGGGTAACAGGGCGTGGTCGTGTCG
261 GAGGCCCCCGGTACGTGCGTGATCGTTTGGCATGCGTGTGTGGGTAACGGGGCGTGGTCGTG-CG
* * * * *
57036 AAAAGCAAGGCTCGTACCTGCGATGATGCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCTCGGTT
325 GAAGGCAAGGCTCGCACCTGCGATGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTT
57101 GTGGCGTGGGCAGAAGCTGTC-GGT-GGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCT
390 GTGGCGTGGGCAGAAGCTG-CAGGTAGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCT
* * *
57164 CGCGGCCCTTGCTTCGGTAATAGTGGGCTCGTCCCACCGGTTTTTTATCGGGGATGGTGCTCAAT
454 CGCGGCCCTTGCTTCGGTAATAGTGGGCTCGTCCCACCGGTTGTCTGTCGGGGATGGTGCTCAAT
57229 GCGCCTGGCATT-ATCGCGCCCCGGCAAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGTGTGCC
519 GCGCCTGGCATTGATCGCGCCCCGGCAAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGTGTGCC
57293 TTGCGATCGTGGTTTTCGGTGGCCGGATGCCCATCTACGGTGACGGGACCCTTCCTGGGCCAAGT
584 TTGCGATCGTGGTTTTCGGTGGCCGGATGCCCATCTACGGTGACGGGACCCTTCCTGGGCCAAGT
57358 GATCCGTGGTGAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGGGTAACGGG
649 GATCCGTGGTGAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGGGTAACGGG
57423 GCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGTGGTGATGTTGCCAAGTTCCCGAATTCGAGT
714 GCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGTGGTGATGTTGCCAAGTTCCCGAATTCGAGT
57488 AGGTAGTCCCGGTTGTGGCGTGGGC
779 AGGTAGTCCCGGTTGTGGCGTGGGC
* * *
57513 AGAAGCTACAGGTG-GGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGACAGTCTCGCAGCCCTTG
1 AGAAGCTACAAGTGAGGGCTTAGCCTGGCCATGCCCCGTGAGCAGGGACAGTCTCGCGGCCCTTG
* * * * *
57577 CTTCGACAACGGCGGGCTCGTTCCGCCCGTTGTCTGTCGGGGATGGTGCTCAATGCGCCTGGCAT
66 CATCGACAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGAGGATGGTGCTCAATGCGCCTGGCAT
* * * * * *
57642 TCATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCTAGGTCGTGCGTGCCCTACGATCATG
131 TGATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAAGTCGTGCGTGCCTTGCGATCGTG
*
57707 GCTTTCCCTGACCAGATGCCCAGCTGCGGTGATGGAGACCCTACGCGATCCAAGTGATCCGCGGT
196 GCTTTCCCTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGATCCAAGTGATCCGCGGT
* * *
57772 GAGGCCCCTGGTCGCTACGTGCGTGATCGTTTGGCACGCGTGTGTGGGTAACGGGGTGTGGTCGT
261 GAGGCCCC----CGGTACGTGCGTGATCGTTTGGCATGCGTGTGTGGGTAACGGGGCGTGGTCGT
* *
57837 GCTGGAAGGAAAGGCTCGCACCTGCGGTGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCC
322 GC-GGAAGGCAAGGCTCGCACCTGCGATGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCC
*
57902 GGTTGTGGCGTGGGCAGAAGCTGCAGGTGGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAG
386 GGTTGTGGCGTGGGCAGAAGCTGCAGGTAGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAG
* * * *
57967 TCTCACGGCCCTTGCTTCGGTAACAGTGGGCTCGTCCCACCTGTTGTCTGTCGGGGATGGTGCTT
451 TCTCGCGGCCCTTGCTTCGGTAATAGTGGGCTCGTCCCACCGGTTGTCTGTCGGGGATGGTGCTC
* *
58032 AATGCGCCTGGCATTGATCGCGCCCCGACAAAGTGTCCCTCTCGGTTAAAATCCAGGTCGCGTGT
516 AATGCGCCTGGCATTGATCGCGCCCCGGCAAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGTGT
* *
58097 GCCTTGCGATCGTGGTTTTCGGTGGCCGGATGCCCATCTGCGATGACGGGACCCTTCCTGGGCCA
581 GCCTTGCGATCGTGGTTTTCGGTGGCCGGATGCCCATCTACGGTGACGGGACCCTTCCTGGGCCA
* **
58162 AGTGATCCGTGGTGAGGTCGTCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGGGTAAC
646 AGTGATCCGTGGTGAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGGGTAAC
* * * * * * * * *
58227 GGGGCCTGGTCATGCCGAAAGGTAAGGCTCGCACCTGCGGTGATGCTGCCAAGTTCTCTATTTCG
711 GGGGCGTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGTGGTGATGTTGCCAAGTTCCCGAATTCG
* * *
58292 AGTTGATGGTCCCGGTTGTGGCGCT-GGC
776 AGTAGGTAGTCCCGGTTGTGGCG-TGGGC
* * * *
58320 AGATGCTGCAAGTGAGGGCGTAGCCTGGCCATTGCCCC-TCGAGCAGGGGCAGTCTCGCGGCCCT
1 AGAAGCTACAAGTGAGGGCTTAGCCTGGCCA-TGCCCCGT-GAGCAGGGACAGTCTCGCGGCCCT
* * * * * *
58384 TGCATCGGCAACGGTGGGCTCGTCCTGCCGGTTGCCTGTC-AGGGATTGTGCTCGATGTGCCTGG
64 TGCATCGACAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGA-GGATGGTGCTCAATGCGCCTGG
** ** ** * *
58448 CACGGGCCGCGCCCCTTCAGAGTGTCCCTCTCGGTTAAAATCCAGGTCGTGC
128 CATTGATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAAGTCGTGC
58500 CCAGCTGCGG
Statistics
Matches: 1608, Mismatches: 161, Indels: 38
0.89 0.09 0.02
Matches are distributed among these distances:
800 1 0.00
801 410 0.25
802 86 0.05
803 109 0.07
804 126 0.08
805 131 0.08
806 109 0.07
807 267 0.17
808 231 0.14
809 138 0.09
ACGTcount: A:0.15, C:0.28, G:0.34, T:0.23
Consensus pattern (803 bp):
AGAAGCTACAAGTGAGGGCTTAGCCTGGCCATGCCCCGTGAGCAGGGACAGTCTCGCGGCCCTTG
CATCGACAACGGTGGGCTCGTCCCGCCGGTTGTCTGTCGAGGATGGTGCTCAATGCGCCTGGCAT
TGATCGCGCCCCGGCAGAGTGTCCCTCTCGATTAAAATCCAAGTCGTGCGTGCCTTGCGATCGTG
GCTTTCCCTGACCGGATGCCCAGCTGCGGTGATGGAGACCCTACGCGATCCAAGTGATCCGCGGT
GAGGCCCCCGGTACGTGCGTGATCGTTTGGCATGCGTGTGTGGGTAACGGGGCGTGGTCGTGCGG
AAGGCAAGGCTCGCACCTGCGATGATTCTGCCAAGTTCCCGAATTCGAGTAGGTAGTCCCGGTTG
TGGCGTGGGCAGAAGCTGCAGGTAGGGCTTGGCCTGGCCATGCCCCGTGAGCAGGGGCAGTCTCG
CGGCCCTTGCTTCGGTAATAGTGGGCTCGTCCCACCGGTTGTCTGTCGGGGATGGTGCTCAATGC
GCCTGGCATTGATCGCGCCCCGGCAAAGTGTCCCTCTCGATTAAAATCCAGGTCGCGTGTGCCTT
GCGATCGTGGTTTTCGGTGGCCGGATGCCCATCTACGGTGACGGGACCCTTCCTGGGCCAAGTGA
TCCGTGGTGAGGCCCCCGGTCGCTGCGTGCGCGATCGGTTGGCACGCGTGTGCGGGTAACGGGGC
GTGGTCGTGCCGGAAGGCAAGGCTCGCACCTGTGGTGATGTTGCCAAGTTCCCGAATTCGAGTAG
GTAGTCCCGGTTGTGGCGTGGGC
Found at i:59711 original size:25 final size:25
Alignment explanation
Indices: 59677--59737 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
59667 TGGCCGTTGG
*
59677 GGATTGCGCTCCATGCGCCTGGCAT
1 GGATCGCGCTCCATGCGCCTGGCAT
59702 GGATCGCGCTCCATGCGCCTGGCAT
1 GGATCGCGCTCCATGCGCCTGGCAT
59727 GGATCGCGCTC
1 GGATCGCGCTC
59738 GGGCTGAGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.11, C:0.34, G:0.33, T:0.21
Consensus pattern (25 bp):
GGATCGCGCTCCATGCGCCTGGCAT
Found at i:67536 original size:63 final size:61
Alignment explanation
Indices: 67351--67542 Score: 162
Period size: 63 Copynumber: 3.0 Consensus size: 61
67341 CTGTGCGTAC
* * *
67351 CCGGTGCTCCCCACTGTGTGCACCCCGACCGCCCCC-ACCCCAGGGGGCGGGAAGGGCGCGCA
1 CCGGTGCTCCGCA-TGGGTGCGCCCCGACCGCCCCCGACCCCAGGGGGCGGG-AGGGCGCGCA
* * * *
67413 CC-GTGCTCCTGGC-CGGGTGCGTGCCGCGGCCG-CCCCGCACCCCCTAGGGTGG-GCGA-GGCG
1 CCGGTGCTCC--GCATGGGTGC--GCCCCGACCGCCCCCG-A-CCCC-AGGG-GGCGGGAGGGCG
67473 CGCA
58 CGCA
*
67477 CCGGTGCTCCGCATGGCGTGCGCCCCGCCCGCCCCCGACCCCAGGGGGCGGGATGGGCGCGCA
1 CCGGTGCTCCGCATGG-GTGCGCCCCGACCGCCCCCGACCCCAGGGGGCGGGA-GGGCGCGCA
67540 CCG
1 CCG
67543 TTCTCCCGCC
Statistics
Matches: 103, Mismatches: 11, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
60 2 0.02
61 19 0.18
62 10 0.10
63 30 0.29
64 18 0.17
65 16 0.16
66 6 0.06
67 2 0.02
ACGTcount: A:0.09, C:0.44, G:0.38, T:0.09
Consensus pattern (61 bp):
CCGGTGCTCCGCATGGGTGCGCCCCGACCGCCCCCGACCCCAGGGGGCGGGAGGGCGCGCA
Found at i:68063 original size:63 final size:63
Alignment explanation
Indices: 67964--68084 Score: 190
Period size: 63 Copynumber: 1.9 Consensus size: 63
67954 CACCGATAGC
*
67964 ACATGCGGAGGCCAATGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
1 ACATGCGAAGGCCAATGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
* * *
68027 ACATGCGAAGGCCCAA-GCATGGGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCCC
1 ACATGCGAAGG-CCAATGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCC
68085 CAACCAAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 49 0.92
64 4 0.08
ACGTcount: A:0.21, C:0.46, G:0.19, T:0.13
Consensus pattern (63 bp):
ACATGCGAAGGCCAATGCATGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
Found at i:68930 original size:62 final size:62
Alignment explanation
Indices: 68779--68960 Score: 240
Period size: 62 Copynumber: 2.9 Consensus size: 62
68769 CACCGATAGC
* * *
68779 ACATGTGGAGGCCCATGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCCTCCAA
1 ACATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCT-CCCCCTCCAA
* * * * *
68842 ATATACGGA-GGCCAAAGCGTGGGCAACGAGTCCCTCCCAACCATCCGGCCCTCCCCCTCCTA
1 ACATGCGGAGGGCC-AAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCTCCAA
* * *
68904 ACATGCGGAGGGCCAAGCGTGTGCAACGAGTCCCTCCCCAGCATCCGTCCCTCCCCC
1 ACATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCC
68961 CAACCAAACG
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
62 58 0.56
63 45 0.44
ACGTcount: A:0.20, C:0.44, G:0.21, T:0.15
Consensus pattern (62 bp):
ACATGCGGAGGGCCAAGCGTGCGCAACGAGTCCCTCCCAACCATCCGTCCCTCCCCCTCCAA
Found at i:72021 original size:13 final size:13
Alignment explanation
Indices: 72003--72027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71993 TTTTATAATT
72003 TGTATCAATACAA
1 TGTATCAATACAA
72016 TGTATCAATACA
1 TGTATCAATACA
72028 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:78773 original size:147 final size:151
Alignment explanation
Indices: 78424--78788 Score: 375
Period size: 153 Copynumber: 2.4 Consensus size: 151
78414 ACTAGGCAAA
* * * ** *
78424 TACCAAAATGCTCTTGGGTATACCTTCGATGTGAAAGTATCTCGAAAACCCTAAGGGACACAAAA
1 TACCAAAATGCCCTTAGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTAAAGGACACAAAA
* * *
78489 ATATCGTTAAAGGTCAAACCTATCCTTAATGTAGACCTTTGGCATAAAAGCGATCCAGTGACAAC
66 AGATCGTAAAAGGTCAAACCTATCCTTAATGTACACCTTTGGCATAAAAGCGATCCAGTGACAAC
**
78554 CTAAGACTTAGTTCTATTAAAAT
131 CTAAGACTTAG-T-TAAAAAAAT
* * * * * * *
78577 TACCAAAATG-CCTTTGGATATACCTCCAACATGAAAATATCTCGGTAACCTTAAAGGACACGAA
1 TACCAAAATGCCCTTAGG-TATACCTTCGACGTGAAAGTATCTCGGTAACCCTAAAGGACACAAA
* * * * * *
78641 AGGATTGTAAAAGGTCAAACCTATCC-TACATGTACACTTTTGGCAT-AAAGTGACTCGA-TGGC
65 AAGATCGTAAAAGGTCAAACCTATCCTTA-ATGTACACCTTTGGCATAAAAGCGA-TCCAGTGAC
* *
78703 GACCTAGGA-TT-G-TAAAAAAAT
128 AACCTAAGACTTAGTTAAAAAAAT
* * *
78724 TACCAAAATGCCCTTAAGTATACCTTTGACGTGAAAGTATCTCGGTAACCCTAAAAGACACAAAA
1 TACCAAAATGCCCTTAGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTAAAGGACACAAAA
78789 CCACTATGAA
Statistics
Matches: 173, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
147 56 0.32
148 5 0.03
150 1 0.01
151 2 0.01
152 23 0.13
153 86 0.50
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (151 bp):
TACCAAAATGCCCTTAGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTAAAGGACACAAAA
AGATCGTAAAAGGTCAAACCTATCCTTAATGTACACCTTTGGCATAAAAGCGATCCAGTGACAAC
CTAAGACTTAGTTAAAAAAAT
Found at i:79021 original size:29 final size:28
Alignment explanation
Indices: 78876--79051 Score: 113
Period size: 29 Copynumber: 6.1 Consensus size: 28
78866 AAGTTCTTAG
* * * *
78876 ACTTTTCAAAACTACGCATCGACCCTTAA
1 ACTTTTCAAAATTACACTTTGACCC-TAA
* * *
78905 ACTTTCCAAAAGTACGCTTTGACCTCTAA
1 ACTTTTCAAAATTACACTTTGACC-CTAA
* * *
78934 ACTCTTT-GAAATTACACATTGATCCCCAA
1 ACT-TTTCAAAATTACACTTTGA-CCCTAA
* ** * *
78963 ACATTTCAAAATTA-TGTGTTAATCCATAA
1 ACTTTTCAAAATTACACT-TTGA-CCCTAA
*
78992 ACTTTTTAAAATTACACTTTGAGCCCTAA
1 ACTTTTCAAAATTACACTTTGA-CCCTAA
*
79021 ACTTTTCATAATTACACTTTGACCCTGAA
1 ACTTTTCAAAATTACACTTTGACCCT-AA
79050 AC
1 AC
79052 ATTAAAATGC
Statistics
Matches: 113, Mismatches: 27, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
28 7 0.06
29 100 0.88
30 6 0.05
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (28 bp):
ACTTTTCAAAATTACACTTTGACCCTAA
Found at i:81950 original size:34 final size:35
Alignment explanation
Indices: 81900--82015 Score: 102
Period size: 34 Copynumber: 3.5 Consensus size: 35
81890 AGGTAAAAAA
* *
81900 AAAAGGTTGACCAGGGTGAAACCATCATGTCAACT
1 AAAAGGTTGACTAGGGTGAAACCATCAAGTCAACT
*
81935 AAAAGG-TGACTAGGGTGAAACC-T-AAGTTAA--
1 AAAAGGTTGACTAGGGTGAAACCATCAAGTCAACT
* * *
81965 AAAGGGGTTGACTAGCGTGAAACCATCACA-TCAGCT
1 AAA-AGGTTGACTAGGGTGAAACCATCA-AGTCAACT
*
82001 AATAGG-TGACTAGGG
1 AAAAGGTTGACTAGGG
82016 AAAAACCTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
30 3 0.05
31 2 0.03
32 20 0.31
33 2 0.03
34 26 0.41
35 9 0.14
36 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (35 bp):
AAAAGGTTGACTAGGGTGAAACCATCAAGTCAACT
Found at i:81985 original size:66 final size:66
Alignment explanation
Indices: 81897--82064 Score: 210
Period size: 66 Copynumber: 2.5 Consensus size: 66
81887 CCTAGGTAAA
* * * ** **
81897 AAAAAAAGGTTGACCAGGGTGAAACCATCATGTCAACTAAAAGGTGACTAGGGTGAAACCTAAGT
1 AAAAAGAGGTTGACTAGCGTGAAACCATCACATCAACTAAAAGGTGACTAGGGAAAAACCTAAGT
81962 T
66 T
* * *
81963 AAAAAGGGGTTGACTAGCGTGAAACCATCACATCAGCTAATAGGTGACTAGGGAAAAACCTAAGT
1 AAAAAGAGGTTGACTAGCGTGAAACCATCACATCAACTAAAAGGTGACTAGGGAAAAACCTAAGT
82028 T
66 T
* * **
82029 GAAAAGAGGTTGACTAGGGAAAAACCATCACATCAA
1 AAAAAGAGGTTGACTAGCGTGAAACCATCACATCAA
82065 AACCTAAGTC
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 86 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (66 bp):
AAAAAGAGGTTGACTAGCGTGAAACCATCACATCAACTAAAAGGTGACTAGGGAAAAACCTAAGT
T
Found at i:82177 original size:77 final size:78
Alignment explanation
Indices: 82007--82170 Score: 222
Period size: 78 Copynumber: 2.1 Consensus size: 78
81997 AGCTAATAGG
* * *
82007 TGACTAGGGAAAAACCTAAGTTGAAAAGAGGTTGACTAGGGAAAAACCATCACATCAAAACCTAA
1 TGACTAGGGAAAAACCGAAGTTGAAAAGAAGTTGACCAGGGAAAAACCATCACATCAAAACCTAA
82072 GTCGAAAAGAAGT
66 GTCGAAAAGAAGT
* * ** * ***
82085 TGACTGGGGCAAAACCGAAGTTGAAAAGAAGTTGACCAGGGTGAAATCATCGTGTC-AAACCTAA
1 TGACTAGGGAAAAACCGAAGTTGAAAAGAAGTTGACCAGGGAAAAACCATCACATCAAAACCTAA
82149 GTCGAAAAGAAGT
66 GTCGAAAAGAAGT
82162 TGACTAGGG
1 TGACTAGGG
82171 TGAAACCATC
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 29 0.39
78 45 0.61
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (78 bp):
TGACTAGGGAAAAACCGAAGTTGAAAAGAAGTTGACCAGGGAAAAACCATCACATCAAAACCTAA
GTCGAAAAGAAGT
Found at i:82303 original size:67 final size:66
Alignment explanation
Indices: 82141--82380 Score: 275
Period size: 66 Copynumber: 3.6 Consensus size: 66
82131 TCATCGTGTC
* * *
82141 AAACCTAAGTCGAAAAGAAGTTGACTAGGGTGAAACCATCACATCAACAAGAGGGTAACAAGGGT
1 AAACCTAAGTCGAAAAGAAGTTGACTAGGGTAAAACCATCACATCAACAAAAGGGTGACAAGGGT
*
82206 G
66 A
* * * * * *
82207 AAACCTAAGTTGAAAAGGCA-TTGATTAGGGTAAAACCATCACGTCAACAAAAACGGTGACTAGG
1 AAACCTAAGTCGAAAA-GAAGTTGACTAGGGTAAAACCATCACATCAAC-AAAAGGGTGACAAGG
*
82271 ATA
64 GTA
* * * * *
82274 AAACCTAAGGCGAAAAGAAGTTGACTAGGGCAAAACCATCACATCAATAAAAGGGTGACCAGGGC
1 AAACCTAAGTCGAAAAGAAGTTGACTAGGGTAAAACCATCACATCAACAAAAGGGTGACAAGGGT
82339 A
66 A
* * * *
82340 AAACCTTAGTCGAAAAGAGGTTGACTAAGGTGAAACCATCA
1 AAACCTAAGTCGAAAAGAAGTTGACTAGGGTAAAACCATCA
82381 TGTGAAACCT
Statistics
Matches: 143, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
66 91 0.64
67 52 0.36
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.16
Consensus pattern (66 bp):
AAACCTAAGTCGAAAAGAAGTTGACTAGGGTAAAACCATCACATCAACAAAAGGGTGACAAGGGT
A
Found at i:82379 original size:133 final size:133
Alignment explanation
Indices: 82141--82380 Score: 329
Period size: 133 Copynumber: 1.8 Consensus size: 133
82131 TCATCGTGTC
* ** * *
82141 AAACCTAAGTCGAAAAGAAGTTGACTAGGGTGAAACCATCACATCAACAAGAGGGTAACAAGGGT
1 AAACCTAAGGCGAAAAGAAGTTGACTAGGGCAAAACCATCACATCAACAAAAGGGTAACAAGGGC
* * * *
82206 GAAACCTAAGTTGAAAAGGCATTGATTAGGGTAAAACCATCACGTCAACAAAAACGGTGACTAGG
66 AAAACCTAAGTCGAAAAGGCATTGACTAAGGTAAAACCATCACGTCAACAAAAACGGTGACTAGG
82271 ATA
131 ATA
* * *
82274 AAACCTAAGGCGAAAAGAAGTTGACTAGGGCAAAACCATCACATCAATAAAAGGGTGACCAGGGC
1 AAACCTAAGGCGAAAAGAAGTTGACTAGGGCAAAACCATCACATCAACAAAAGGGTAACAAGGGC
* * *
82339 AAAACCTTAGTCGAAAAGAG-GTTGACTAAGGTGAAACCATCA
66 AAAACCTAAGTCGAAAAG-GCATTGACTAAGGTAAAACCATCA
82381 TGTGAAACCT
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
133 90 0.99
134 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.16
Consensus pattern (133 bp):
AAACCTAAGGCGAAAAGAAGTTGACTAGGGCAAAACCATCACATCAACAAAAGGGTAACAAGGGC
AAAACCTAAGTCGAAAAGGCATTGACTAAGGTAAAACCATCACGTCAACAAAAACGGTGACTAGG
ATA
Found at i:82584 original size:111 final size:110
Alignment explanation
Indices: 82274--82600 Score: 404
Period size: 111 Copynumber: 2.9 Consensus size: 110
82264 GACTAGGATA
* * ** * *
82274 AAACCTAAGGCGAAAAGAAGTTGACTAGGGCAAAACCATCACATCAATAAAAGGGTGACCAGGGC
1 AAACCTAAGTCGAAAAGAAGTTGACCAGGGCAAAACCATCATGTCAACAAAAGGGTGACCAAGGC
* ** *
82339 AAAACCTTAGTCGAAAAGAGGTTGACTAAGGTGAAACCATCATGTG
66 GAAACCTTAGTCGAAAAGAGGTTGACT-AGGTGAAACCATCACATC
* * ** *
82385 AAACCTAAGTTGAAAAGAAGTTAACCATAGCAAAACCATCATGTCAACAAAAGGGTGACTAAGGC
1 AAACCTAAGTCGAAAAGAAGTTGACCAGGGCAAAACCATCATGTCAACAAAAGGGTGACCAAGGC
* *
82450 GAAACCTTAGTCGAAAAAAGGTTGAATAGGATGAAACCATCACATC
66 GAAACCTTAGTCGAAAAGAGGTTGACTAGG-TGAAACCATCACATC
* * * *
82496 AAACCTATGTCGAAAAAAAGTTGACCAGGGCAAAACCATCATGTCAACAAGAGGGTGACCAAGGT
1 AAACCTAAGTCGAAAAGAAGTTGACCAGGGCAAAACCATCATGTCAACAAAAGGGTGACCAAGGC
* *
82561 GAAACCTTAGTC-AACAAGTGGTTGACTAGGTCAAAACCAT
66 GAAACCTTAGTCGAA-AAGAGGTTGACTAGGT-GAAACCAT
82601 TACACCAACA
Statistics
Matches: 183, Mismatches: 30, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
110 6 0.03
111 177 0.97
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (110 bp):
AAACCTAAGTCGAAAAGAAGTTGACCAGGGCAAAACCATCATGTCAACAAAAGGGTGACCAAGGC
GAAACCTTAGTCGAAAAGAGGTTGACTAGGTGAAACCATCACATC
Found at i:89487 original size:69 final size:69
Alignment explanation
Indices: 89409--89560 Score: 218
Period size: 69 Copynumber: 2.2 Consensus size: 69
89399 CGAGGATGGA
* * *
89409 GTTGGAGTATTCCCAATGATGATAATTTAAGCAAAAATAAGATTTAAACTTGACAAGCT-TAAAA
1 GTTGAAGTATCCCCAATGATGATAATTTAAGCAAAAATAAGATTTAAACTTAACAAG-TATAAAA
89473 ACAGG
65 ACAGG
** *
89478 GTTGAAGTATCCCCAATGATGATAATTTAAGTGAAAATAAGATTTAACCTTAACAAGTATAAAAA
1 GTTGAAGTATCCCCAATGATGATAATTTAAGCAAAAATAAGATTTAAACTTAACAAGTATAAAAA
89543 CAGG
66 CAGG
89547 GTT-AGAGTATCCCC
1 GTTGA-AGTATCCCC
89561 TCGAAGGAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
68 2 0.03
69 73 0.97
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (69 bp):
GTTGAAGTATCCCCAATGATGATAATTTAAGCAAAAATAAGATTTAAACTTAACAAGTATAAAAA
CAGG
Found at i:95356 original size:51 final size:54
Alignment explanation
Indices: 95292--95402 Score: 165
Period size: 53 Copynumber: 2.1 Consensus size: 54
95282 ACATCGACAA
* * *
95292 AATGTATCGATAC-ATT-TGGGTCAAAAACCTAGAATGTATTGATAAAATGGAT
1 AATGTATCAATACAATTATGAGTCAAAAACCCAGAATGTATTGATAAAATGGAT
*
95344 -ATGTATCAATACAATTATGAGTCAAAAACCCAGAATGTATTGATACAATGGAT
1 AATGTATCAATACAATTATGAGTCAAAAACCCAGAATGTATTGATAAAATGGAT
95397 AATGTA
1 AATGTA
95403 GTGATACAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
51 11 0.21
52 3 0.06
53 33 0.63
54 5 0.10
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (54 bp):
AATGTATCAATACAATTATGAGTCAAAAACCCAGAATGTATTGATAAAATGGAT
Found at i:95402 original size:20 final size:22
Alignment explanation
Indices: 95375--95432 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
95365 TCAAAAACCC
95375 AGAATGTATTGATACAA-TG-G
1 AGAATGTATTGATACAATTGTG
* *
95395 ATAATGTAGTGATACAATTGTG
1 AGAATGTATTGATACAATTGTG
*
95417 AGCATGTATTGATACA
1 AGAATGTATTGATACA
95433 TTTACTTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 2 0.06
22 14 0.45
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (22 bp):
AGAATGTATTGATACAATTGTG
Found at i:101365 original size:29 final size:29
Alignment explanation
Indices: 101332--101512 Score: 156
Period size: 29 Copynumber: 6.3 Consensus size: 29
101322 AATAAGTTCC
* *
101332 TAAACTTTTCAAAATTACGCATCGACCCT
1 TAAACTTTTCAAAATTACACATTGACCCT
* *
101361 TAAACTTTCCAAAATTACACTTTGA-CCT
1 TAAACTTTTCAAAATTACACATTGACCCT
** *
101389 CTAAA-TTCTTTGAAATTACACATTAATCCC-
1 -TAAACTT-TTCAAAATTACACATTGA-CCCT
* * *
101419 TAAACATTTGAAAATTACATC-TT-ACCCC
1 TAAACTTTTCAAAATTACA-CATTGACCCT
*
101447 TAAACTTTTCAAAATTACACTTTGACCCT
1 TAAACTTTTCAAAATTACACATTGACCCT
* * *
101476 TAAACGTTTCATAATTACACATTGACCCC
1 TAAACTTTTCAAAATTACACATTGACCCT
*
101505 AAAACTTT
1 TAAACTTT
101513 AAAATGCTTG
Statistics
Matches: 122, Mismatches: 21, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.03
28 25 0.20
29 89 0.73
30 2 0.02
31 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.34
Consensus pattern (29 bp):
TAAACTTTTCAAAATTACACATTGACCCT
Found at i:101492 original size:86 final size:85
Alignment explanation
Indices: 101330--101498 Score: 209
Period size: 86 Copynumber: 2.0 Consensus size: 85
101320 CAAATAAGTT
* *
101330 CCTAAACTTTTCAAAATTACGCATCGACCCTTAAACTTTCCAAAATTACACTTTGACCTCTAAAT
1 CCTAAACATTTCAAAATTAC-CATCGACCCCTAAACTTTCCAAAATTACACTTTGACCTCTAAA-
*
101395 TCTTTGAAATTACACATTAATC
64 TCTTTCAAATTACACATTAATC
* * *
101417 CCTAAACATTTGAAAATTA-CATCTTACCCCTAAACTTTTCAAAATTACACTTTGACC-CTTAAA
1 CCTAAACATTTCAAAATTACCATC-GACCCCTAAACTTTCCAAAATTACACTTTGACCTC-TAAA
101480 -CGTTTCATAATTACACATT
64 TC-TTTCA-AATTACACATT
101499 GACCCCAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
84 1 0.01
85 9 0.12
86 45 0.62
87 17 0.24
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (85 bp):
CCTAAACATTTCAAAATTACCATCGACCCCTAAACTTTCCAAAATTACACTTTGACCTCTAAATC
TTTCAAATTACACATTAATC
Found at i:106839 original size:16 final size:16
Alignment explanation
Indices: 106820--106853 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
106810 CTTTAGTTTC
106820 AAAATAAATAAAA-TGA
1 AAAAT-AATAAAACTGA
106836 AAAATAATAAAACTGA
1 AAAATAATAAAACTGA
106852 AA
1 AA
106854 TAGAACTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATAATAAAACTGA
Found at i:107691 original size:29 final size:29
Alignment explanation
Indices: 107673--107738 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
107663 AAATTATGTG
107673 TTCACCCCTAAACTTTTCAAAATTACAAT
1 TTCACCCCTAAACTTTTCAAAATTACAAT
* * *
107702 TTGACCCCTAAACTTTTCATAATTACACT
1 TTCACCCCTAAACTTTTCAAAATTACAAT
*
107731 TTGACCCC
1 TTCACCCC
107739 CAAAACATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.35
Consensus pattern (29 bp):
TTCACCCCTAAACTTTTCAAAATTACAAT
Found at i:109647 original size:19 final size:21
Alignment explanation
Indices: 109607--109648 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
109597 TTGATTTACT
109607 ATGAATTTAATAAAAATATTTG
1 ATGAATTT-ATAAAAATATTTG
109629 ATGAATTT-TAAAAAT-TTTG
1 ATGAATTTATAAAAATATTTG
109648 A
1 A
109649 AATAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
22 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
ATGAATTTATAAAAATATTTG
Found at i:111192 original size:111 final size:111
Alignment explanation
Indices: 110957--111268 Score: 288
Period size: 111 Copynumber: 2.8 Consensus size: 111
110947 TATTAGGGCA
* * * * * * * *
110957 AAACCTAATTCGAAAATAAGTTGACTAGGGTC-AAACCATCACGTCAACAAAAGGGTGACCAAGG
1 AAACCTAATTTGAAAAAAAGTTAACCAAGG-CAAAACCATCATGTAAACAAAAAGGTGACCAAGG
* ** *
111021 TGAAACGTTAGTCGAAAAGAGGTTGACCAGGGTGAAACCATCAAGTG
65 TGAAACGTTAGTCGAAAAGAGGTTGAACAGGGCAAAACCATCAAGTC
* * **
111068 AAATCTAATTTGAAAAGAAGTTAACCAAGGTGAAACCATCATGTAAACAAAAAGGTGACCAAGGT
1 AAACCTAATTTGAAAAAAAGTTAACCAAGGCAAAACCATCATGTAAACAAAAAGGTGACCAAGGT
* * * *
111133 GAAATGTTAGTGGAACAGAGGTTGAATAGGGCAAAACCATCACA-TC
66 GAAACGTTAGTCGAAAAGAGGTTGAACAGGGCAAAACCATCA-AGTC
* * * * * * * ***
111179 AAACCT-ATGTTGAAAAAAAGTTGACCAGGGCAAAACCATCATCTCAACAAGAGGGCGACTGGGG
1 AAACCTAAT-TTGAAAAAAAGTTAACCAAGGCAAAACCATCATGTAAACAAAAAGGTGACCAAGG
* *
111243 TGAAACCTTAGTCAAAAAGAGGTTGA
65 TGAAACGTTAGTCGAAAAGAGGTTGA
111269 CTGCGTTGAA
Statistics
Matches: 161, Mismatches: 37, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
110 2 0.01
111 158 0.98
112 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (111 bp):
AAACCTAATTTGAAAAAAAGTTAACCAAGGCAAAACCATCATGTAAACAAAAAGGTGACCAAGGT
GAAACGTTAGTCGAAAAGAGGTTGAACAGGGCAAAACCATCAAGTC
Found at i:112296 original size:6 final size:6
Alignment explanation
Indices: 112285--112315 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
112275 TTTCATCCAT
112285 TTTTTG TTTTTG TTTTTG TTTTT- TTTTTG TT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TT
112316 AAATGCCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:125075 original size:42 final size:42
Alignment explanation
Indices: 125014--125138 Score: 169
Period size: 42 Copynumber: 2.9 Consensus size: 42
125004 TCCATCTTCT
* *
125014 TCTCTCCTCCTCCAGTCATCCCTCCTCTCTCTATTATCTCTCTTG
1 TCTCTCCTCCT--A-TCATCCCTCCTCTCTCTACTATCTCTCCTG
* *
125059 TCTCTCCTCCTATCATCCCTCTTATCTCTACTATCTCTCCTG
1 TCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTG
* *
125101 TCTCTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 TCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
125139 TTGAGGGCTA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
42 60 0.83
43 1 0.01
45 11 0.15
ACGTcount: A:0.09, C:0.45, G:0.02, T:0.44
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTG
Found at i:125560 original size:21 final size:21
Alignment explanation
Indices: 125534--125584 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
125524 TCCAGTCCAC
125534 ACAATCAACCACAACCAAGTG
1 ACAATCAACCACAACCAAGTG
*
125555 ACAATCAACCACAACTAAGTG
1 ACAATCAACCACAACCAAGTG
125576 ACAATCAAC
1 ACAATCAAC
125585 TAAGTGAGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.49, C:0.31, G:0.08, T:0.12
Consensus pattern (21 bp):
ACAATCAACCACAACCAAGTG
Found at i:127463 original size:119 final size:119
Alignment explanation
Indices: 127252--127489 Score: 476
Period size: 119 Copynumber: 2.0 Consensus size: 119
127242 AACCTGTCAA
127252 CAACAAAAAATATGCTATCCTTGCCACTTTGAGACCTAGGCAACCTGTCGCAACGTGCGCTCGAC
1 CAACAAAAAATATGCTATCCTTGCCACTTTGAGACCTAGGCAACCTGTCGCAACGTGCGCTCGAC
127317 CCCGATGATAAGGACAAATGAGGCACGCCTGACTTAATATCCCTCATGATTGGG
66 CCCGATGATAAGGACAAATGAGGCACGCCTGACTTAATATCCCTCATGATTGGG
127371 CAACAAAAAATATGCTATCCTTGCCACTTTGAGACCTAGGCAACCTGTCGCAACGTGCGCTCGAC
1 CAACAAAAAATATGCTATCCTTGCCACTTTGAGACCTAGGCAACCTGTCGCAACGTGCGCTCGAC
127436 CCCGATGATAAGGACAAATGAGGCACGCCTGACTTAATATCCCTCATGATTGGG
66 CCCGATGATAAGGACAAATGAGGCACGCCTGACTTAATATCCCTCATGATTGGG
127490 GATTTCTATG
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 119 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (119 bp):
CAACAAAAAATATGCTATCCTTGCCACTTTGAGACCTAGGCAACCTGTCGCAACGTGCGCTCGAC
CCCGATGATAAGGACAAATGAGGCACGCCTGACTTAATATCCCTCATGATTGGG
Found at i:129623 original size:20 final size:20
Alignment explanation
Indices: 129559--129633 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
129549 ATCTGGGTAG
* *
129559 AATGTATGGATACATTGAAA
1 AATGTATCGATACATTAAAA
* * * **
129579 AATATATTGATACATTCATC
1 AATGTATCGATACATTAAAA
*
129599 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAA
*
129619 AATGTATCAATACAT
1 AATGTATCGATACAT
129634 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:130465 original size:32 final size:33
Alignment explanation
Indices: 130422--130485 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
130412 CATTGGGTTT
130422 AGAAAGGTTGCCACCAACTTGTGTAGGCTTTAG
1 AGAAAGGTTGCCACCAACTTGTGTAGGCTTTAG
*
130455 AGAAA-GTTGCCACCAACTTGTGTGGGCTTTA
1 AGAAAGGTTGCCACCAACTTGTGTAGGCTTTA
130486 AAAGGATGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (33 bp):
AGAAAGGTTGCCACCAACTTGTGTAGGCTTTAG
Found at i:130523 original size:28 final size:27
Alignment explanation
Indices: 130475--131257 Score: 828
Period size: 28 Copynumber: 27.8 Consensus size: 27
130465 CACCAACTTG
*
130475 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
* * * *
130503 TATGAGCTTTGAGAAGGTGCCTCTAACT
1 TGTGGGCTTTGA-AAGGTGCCACTGACT
130531 TGTGGGCTTTGAGAAGGTGCCACTGACT
1 TGTGGGCTTTGA-AAGGTGCCACTGACT
**
130559 TGTGATCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
*
130587 TGTAGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
*
130615 TGTGGGCTTTAAAAAGGTGCCACTGACT
1 TGTGGGCTTT-GAAAGGTGCCACTGACT
* * *
130643 TGTGGGCTTGGAAAAGATGCCATTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* * *
130671 TCTGGGCTTAGAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* * **
130699 TCTGGGCTTGGAAAAAATGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* * *
130727 TCTAGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* * **
130755 TATGGACTTTGAAAGGATGCCACCAACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
130783 TGTGGGCTTTGAAGAGGTGCCACTGACT
1 TGTGGGCTTTGAA-AGGTGCCACTGACT
* * ***
130811 TTTGGGCTTTGAATGGATGCTGTTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
*
130839 TGTGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTGAA-AGGTGCCACTGACT
* *
130867 TGTGGGCTTTTAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
*
130895 TGTGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTGAA-AGGTGCCACTGACT
130923 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
*
130951 TGTGGGCTTTGAATGGATGCCACTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
* *
130979 TGTAGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
** *
131007 TGTTAGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGTGCCACTGACT
* * *
131035 TGTTGGCTTTTAAAAGGATGCCGCTGACT
1 TGTGGGC-TTTGAAAGG-TGCCACTGACT
131064 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGG-TGCCACTGACT
*
131093 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGG-TGCCACTGACT
131121 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
*
131149 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAA-GGTGCCACTGACT
* *
131177 TGTGGGCTTTGAAAAAGATGTCACTAGACT
1 TGTGGGCTTTG--AAAGGTGCCACT-GACT
*
131207 TGTGGACTTTGAAAGGATGCCTACTGACT
1 TGTGGGCTTTGAAAGG-TGCC-ACTGACT
131236 TGTGGGCTTTGAAAGGATGCCA
1 TGTGGGCTTTGAAAGG-TGCCA
131258 TGAAGTTGTG
Statistics
Matches: 653, Mismatches: 81, Indels: 42
0.84 0.10 0.05
Matches are distributed among these distances:
27 11 0.02
28 528 0.81
29 95 0.15
30 19 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (27 bp):
TGTGGGCTTTGAAAGGTGCCACTGACT
Found at i:130538 original size:56 final size:56
Alignment explanation
Indices: 130475--131285 Score: 911
Period size: 56 Copynumber: 14.4 Consensus size: 56
130465 CACCAACTTG
* * * * *
130475 TGTGGGCTTTAAAAGGATGCCACTGACTTATGAGCTTTGAGAAGGTGCCTCTAACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* **
130531 TGTGGGCTTTGAGAAGG-TGCCACTGACTTGTGATCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* *
130587 TGTAGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTAAAAAGGTGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * * * *
130643 TGTGGGCTTGGAAAA-GATGCCATTGACTTCTGGGCTTAGAAAAGATGCCACTGACT
1 TGTGGGCTT-TAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * * * * *
130699 TCTGGGCTTGGAAAA-AATGCCACTGACTTCTAGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTT-TAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * * ** *
130755 TATGGACTTTGAAAGGATGCCACCAACTTGTGGGCTTTGAAGAGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *** * *
130811 TTTGGGCTTTGAATGGATGCTGTTGACTTGTGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
130867 TGTGGGCTTTTAAAGGATGCCACTAACTTGTGGGCTTTGAAGAGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* *
130923 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AATGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACT
* ** *
130979 TGTAGGCTTTGAAAA-GATGCCACTGACTTGTTAGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* *
131035 TGTTGGCTTTTAAAAGGATGCCGCTGACTTGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGC-TTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
131093 TGTGGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * * * *
131149 TGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAAGATGTCACTAGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAAGGTGCCACT-GACT
* * *
131207 TGTGGACTTTGAAAGGATGCCTACTGACTTGTGGGCTTTG-AAAGGATGCCA-TGAAGT
1 TGTGGGCTTTAAAAGGATGCC-ACTGACTTGTGGGCTTTGAAAAGG-TGCCACTG-ACT
*
131264 TGTGGAC-TTAAAAGGATGCCAC
1 TGTGGGCTTTAAAAGGATGCCAC
131286 CAAGTTGTGT
Statistics
Matches: 654, Mismatches: 86, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
55 8 0.01
56 487 0.74
57 99 0.15
58 43 0.07
59 17 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (56 bp):
TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:131290 original size:27 final size:27
Alignment explanation
Indices: 131044--131381 Score: 159
Period size: 27 Copynumber: 12.1 Consensus size: 27
131034 TTGTTGGCTT
* * *
131044 TTAAAAGGATGCCGCTG-ACTTGTGGGC
1 TTAAAAGGATGCCAC-GAAGTTGTGGAC
*
131071 TTTGAAAAGGATGCCACTG-ACTTGTGGAC
1 -TT-AAAAGGATGCCAC-GAAGTTGTGGAC
* * *
131100 TTTGAAAGGATGCCACTG-ACTTGTGGGC
1 -TTAAAAGGATGCCAC-GAAGTTGTGGAC
* * * *
131128 TTTGAAAGGGTGCCACTG-ACTTGTGGGC
1 -TTAAAAGGATGCCAC-GAAGTTGTGGAC
* * * *
131156 TTTGAAAGGGTGCCACTG-ATTTGTGGGC
1 -TTAAAAGGATGCCAC-GAAGTTGTGGAC
* * * *
131184 TTTGAAAAAGATGTCACTAGACTTGTGGAC
1 -TT-AAAAGGATGCCACGA-AGTTGTGGAC
* * *
131214 TTTGAAAGGATGCCTACTG-ACTTGTGGGC
1 -TTAAAAGGATGCC-AC-GAAGTTGTGGAC
* *
131243 TTTGAAAGGATGCCATGAAGTTGTGGAC
1 -TTAAAAGGATGCCACGAAGTTGTGGAC
* *
131271 TTAAAAGGATGCCACCAAGTTGTGTAC
1 TTAAAAGGATGCCACGAAGTTGTGGAC
* *
131298 TTAAAAGGTTGCCACGGAGTTGTGGAC
1 TTAAAAGGATGCCACGAAGTTGTGGAC
* * *
131325 TTAAAAGGTTGCCAAGAAGCTGTGGAC
1 TTAAAAGGATGCCACGAAGTTGTGGAC
* * *
131352 ATAAAAGGGTGCTACCG-AGTTGTGGAC
1 TTAAAAGGATGCCA-CGAAGTTGTGGAC
131379 TTA
1 TTA
131382 TGTAGACACC
Statistics
Matches: 264, Mismatches: 38, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
27 93 0.35
28 92 0.35
29 66 0.25
30 13 0.05
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (27 bp):
TTAAAAGGATGCCACGAAGTTGTGGAC
Found at i:131884 original size:20 final size:20
Alignment explanation
Indices: 131861--131915 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
131851 AAGTACCCAG
*
131861 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
131881 ATGTATTGATACATGTATGA
1 ATGTATCGATACATTTATCA
131901 ATGTATCGATACATT
1 ATGTATCGATACATT
131916 CTGTCTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:148287 original size:12 final size:11
Alignment explanation
Indices: 148265--148340 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
148255 AGAGAAAGAA
*
148265 GAGAGAGGAGG
1 GAGATAGGAGG
148276 GATGATAGGAGG
1 GA-GATAGGAGG
*
148288 AGAGACAGGA--
1 -GAGATAGGAGG
*
148298 GAGATAGTA--
1 GAGATAGGAGG
148307 GAGATAGGAGG
1 GAGATAGGAGG
148318 GATGATAGGAGG
1 GA-GATAGGAGG
*
148330 AGAGACAGGAG
1 -GAGATAGGAG
148341 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:148297 original size:24 final size:24
Alignment explanation
Indices: 148264--148349 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
148254 AAGAGAAAGA
*
148264 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
148288 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
148306 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
148330 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
148350 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:148316 original size:42 final size:42
Alignment explanation
Indices: 148255--148373 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
148245 TAGCCCTCAA
* *
148255 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
148297 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
148339 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
148374 GAGGAGAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:155264 original size:18 final size:18
Alignment explanation
Indices: 155241--155348 Score: 58
Period size: 21 Copynumber: 5.3 Consensus size: 18
155231 ATCTTCTTCT
155241 CTCCTCCTCCTATCATCC
1 CTCCTCCTCCTATCATCC
*
155259 CTCCT-CTCTCTATTATCTCTC
1 CTCCTCCTC-CTATCA--TC-C
155280 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
*
155301 CTCCTATCTCTACTATC-TCTC
1 CTCC--TC-CTCCTATCATC-C
155322 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
155343 CTCCTC
1 CTCCTC
155349 TCTCTTCTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 32
0.66 0.04 0.30
Matches are distributed among these distances:
17 3 0.04
18 14 0.20
19 4 0.06
20 6 0.09
21 22 0.31
22 6 0.09
23 4 0.06
24 8 0.11
25 3 0.04
ACGTcount: A:0.10, C:0.48, G:0.02, T:0.40
Consensus pattern (18 bp):
CTCCTCCTCCTATCATCC
Found at i:155296 original size:42 final size:42
Alignment explanation
Indices: 155244--155362 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
155234 TTCTTCTCTC
*
155244 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
155286 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
155328 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
155363 TTGAGGGCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:155303 original size:12 final size:11
Alignment explanation
Indices: 155277--155352 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
155267 TCTATTATCT
*
155277 CTCCTGTCTCTC
1 CTCCTATCTC-C
155289 CTCCTATCATCC
1 CTCCTATC-TCC
155301 CTCCTATCT--
1 CTCCTATCTCC
*
155310 CTACTATCT--
1 CTCCTATCTCC
*
155319 CTCCTGTCTCTC
1 CTCCTATCTC-C
155331 CTCCTATCATCC
1 CTCCTATC-TCC
*
155343 CTCCTCTCTC
1 CTCCTATCTC
155353 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:163518 original size:18 final size:18
Alignment explanation
Indices: 163495--163602 Score: 58
Period size: 21 Copynumber: 5.3 Consensus size: 18
163485 ATCTTCTTCT
163495 CTCCTCCTCCTATCATCC
1 CTCCTCCTCCTATCATCC
*
163513 CTCCT-CTCTCTATTATCTCTC
1 CTCCTCCTC-CTATCA--TC-C
163534 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
*
163555 CTCCTATCTCTACTATC-TCTC
1 CTCC--TC-CTCCTATCATC-C
163576 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
163597 CTCCTC
1 CTCCTC
163603 TCTCTTCTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 32
0.66 0.04 0.30
Matches are distributed among these distances:
17 3 0.04
18 14 0.20
19 4 0.06
20 6 0.09
21 22 0.31
22 6 0.09
23 4 0.06
24 8 0.11
25 3 0.04
ACGTcount: A:0.10, C:0.48, G:0.02, T:0.40
Consensus pattern (18 bp):
CTCCTCCTCCTATCATCC
Found at i:163550 original size:42 final size:42
Alignment explanation
Indices: 163498--163616 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
163488 TTCTTCTCTC
*
163498 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
163540 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
163582 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
163617 TTGAGGGCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:163557 original size:12 final size:11
Alignment explanation
Indices: 163531--163606 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
163521 TCTATTATCT
*
163531 CTCCTGTCTCTC
1 CTCCTATCTC-C
163543 CTCCTATCATCC
1 CTCCTATC-TCC
163555 CTCCTATCT--
1 CTCCTATCTCC
*
163564 CTACTATCT--
1 CTCCTATCTCC
*
163573 CTCCTGTCTCTC
1 CTCCTATCTC-C
163585 CTCCTATCATCC
1 CTCCTATC-TCC
*
163597 CTCCTCTCTC
1 CTCCTATCTC
163607 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:165845 original size:1 final size:1
Alignment explanation
Indices: 165839--165921 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
165829 CATTCATACC
* * * * * * * **
165839 AAAAAAAAAACAAAACAAAAAAAAACAAAAAAAACAAACAAAAAAACAAAAAACAAAGGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
165904 ATAACAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAA
165922 GGAGTCCAGA
Statistics
Matches: 60, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:165863 original size:19 final size:19
Alignment explanation
Indices: 165838--165921 Score: 91
Period size: 19 Copynumber: 4.3 Consensus size: 19
165828 TCATTCATAC
165838 CAAAAAAAAAACAAAACAAA
1 CAAAAAAAAAA-AAAACAAA
165858 -AAAAAACAAAAAAAACAAA
1 CAAAAAA-AAAAAAAACAAA
*
165877 CAAAAAAACAAAAAACAAA
1 CAAAAAAAAAAAAAACAAA
* *
165896 GGAAAAAAATAACAAAA-AAA
1 -CAAAAAAA-AAAAAAACAAA
165916 CAAAAA
1 CAAAAA
165922 GGAGTCCAGA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
19 30 0.55
20 20 0.36
21 5 0.09
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.01
Consensus pattern (19 bp):
CAAAAAAAAAAAAAACAAA
Found at i:165868 original size:24 final size:23
Alignment explanation
Indices: 165842--165920 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
165832 TCATACCAAA
165842 AAAAAAACAAAACAAAAAAAAAC
1 AAAAAAACAAAACAAAAAAAAAC
165865 AAAAAAA-ACAAAC--AAAAAAAC
1 AAAAAAACA-AAACAAAAAAAAAC
**
165886 -AAAAAACAAAGGAAAAAAATAAC
1 AAAAAAACAAAACAAAAAAA-AAC
165909 AAAAAAACAAAA
1 AAAAAAACAAAA
165921 AGGAGTCCAG
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
20 8 0.17
21 9 0.19
22 6 0.13
23 14 0.30
24 10 0.21
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (23 bp):
AAAAAAACAAAACAAAAAAAAAC
Found at i:165888 original size:31 final size:31
Alignment explanation
Indices: 165839--165921 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
165829 CATTCATACC
*
165839 AAAAAAAA-AACAAAACAAAAAA-AAACAAA
1 AAAAAAAACAAAAAAACAAAAAACAAACAAA
**
165868 AAAAACAAACAAAAAAACAAAAAACAAAGGAA
1 AAAAA-AAACAAAAAAACAAAAAACAAACAAA
*
165900 AAAAATAACAAAAAAACAAAAA
1 AAAAAAAACAAAAAAACAAAAA
165922 GGAGTCCAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 5 0.11
30 3 0.06
31 29 0.62
32 10 0.21
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.01
Consensus pattern (31 bp):
AAAAAAAACAAAAAAACAAAAAACAAACAAA
Found at i:165895 original size:43 final size:42
Alignment explanation
Indices: 165839--165919 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
165829 CATTCATACC
165839 AAAAAAAAAACAAAACAAAAAAA-AACAAAAAAAACAAACAAA
1 AAAAAAAAAACAAAACAAAAAAATAAC-AAAAAAACAAACAAA
**
165881 AAAACAAAAAACAAAGGAAAAAAATAACAAAAAAACAAA
1 AAAA-AAAAAACAAAACAAAAAAATAACAAAAAAACAAA
165920 AAGGAGTCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 4 0.11
43 28 0.80
44 3 0.09
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (42 bp):
AAAAAAAAAACAAAACAAAAAAATAACAAAAAAACAAACAAA
Found at i:167171 original size:28 final size:28
Alignment explanation
Indices: 167131--167589 Score: 523
Period size: 28 Copynumber: 16.0 Consensus size: 28
167121 ACGTTCATTT
167131 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
167159 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
167188 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
167216 TTTCAAAGCCCACAAGTCAAG-GGCACCC
1 TTTCAAAGCCCACAAGTC-AGTGGCACCC
*
167244 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
167273 TTTCGAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
167301 TTTCAAAGCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
167329 TTTCAAAGCCCACAAGTTAGTGGCACACT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
167358 TTTCAAAGCCCATAAGTCAGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
167386 TTTCAAAGCCCACAAGTAAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
167414 TTTCAAAGCCCATAAGTCAGT-GCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
167442 TTTCAAAGCCCACAAGTCAGTGGC-CCTC
1 TTTCAAAGCCCACAAGTCAGTGGCACC-C
* * *
167470 TTTCAAAGCCCATAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
167499 TTTCAAAGCCCACAAG-CTAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTC-AGTGG-CAC-CC
* *
167529 TTTCAAAGCCCGCATGAGTC-GATGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAG-TGGC-AC-CC
*
167561 TTTCAAAGCCCACTCAAGTTAGTGGCACC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACC
167590 TTTTTTTTAA
Statistics
Matches: 373, Mismatches: 38, Indels: 38
0.83 0.08 0.08
Matches are distributed among these distances:
27 6 0.02
28 213 0.57
29 99 0.27
30 20 0.05
31 3 0.01
32 28 0.08
33 2 0.01
34 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:167218 original size:57 final size:57
Alignment explanation
Indices: 167130--167593 Score: 532
Period size: 57 Copynumber: 8.1 Consensus size: 57
167120 AACGTTCATT
*
167130 TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
*
167187 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAAG-GGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC-AGTGGCACTC
* * *
167243 CTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCGAAGCCCACAAGTCAGTGGCAC-C
1 TTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * * *
167300 CTTTCAAAGCCTACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACAC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
167357 TTTTCAAAGCCCATAAGTCAGTGGTATCCTTTCAAAGCCCACAAGTAAGTGGCA-TC
1 TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
167413 CTTTCAAAGCCCATAAGTCAGT-GCACTCTTTTCAAAGCCCACAAGTCAGTGGCCCTC
1 TTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
167470 -TTTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAGCCCACAAG-CTAGTGGTAACTC
1 TTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTC-AGTGG-CACTC
* * *
167528 TTTTCAAAGCCCGCATGAGTC-GATGGCAACTCTTTTCAAAGCCCACTCAAGTTAGTGGCAC-C
1 TTTTCAAAGCCCACA--AGTCAG-TGGC-A-TCCTTTCAAAGCCCA--CAAGTCAGTGGCACTC
167590 TTTT
1 TTTT
167594 TTTTAAAAAA
Statistics
Matches: 359, Mismatches: 31, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
55 2 0.01
56 120 0.33
57 179 0.50
58 5 0.01
59 12 0.03
60 1 0.00
61 7 0.02
62 22 0.06
63 2 0.01
64 9 0.03
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (57 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:167274 original size:85 final size:85
Alignment explanation
Indices: 167131--167589 Score: 604
Period size: 85 Copynumber: 5.3 Consensus size: 85
167121 ACGTTCATTT
167131 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* *
167196 CCCACAAGTTAGTGGCATCC
66 CCCACAAGTCAGTGGCACCC
*
167216 TTTCAAAGCCCACAAGTCAAG-GGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCGAA
1 TTTCAAAGCCCACAAGTC-AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAA
167280 GCCCACAAGTCAGTGGCACCC
65 GCCCACAAGTCAGTGGCACCC
* * *
167301 TTTCAAAGCCTACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACACTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * *
167366 CCCATAAGTCAGTGGTATCC
66 CCCACAAGTCAGTGGCACCC
* * *
167386 TTTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCATAAGTCAGT-GCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
167450 CCCACAAGTCAGTGGC-CCTC
66 CCCACAAGTCAGTGGCACC-C
* * * *
167470 TTTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAGCCCACAAG-CTAGTGGTAACTCTTTTCA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTC-AGTGG-CACTCTTTTCA
* *
167534 AAGCCCGCATGAGTC-GATGGCAACTCT
63 AAGCCCACA--AGTCAG-TGGC-AC-CC
*
167561 TTTCAAAGCCCACTCAAGTTAGTGGCACC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACC
167590 TTTTTTTTAA
Statistics
Matches: 331, Mismatches: 28, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
83 1 0.00
84 55 0.17
85 217 0.66
86 3 0.01
87 18 0.05
88 1 0.00
89 8 0.02
91 13 0.04
92 2 0.01
93 13 0.04
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
CCCACAAGTCAGTGGCACCC
Found at i:167760 original size:49 final size:49
Alignment explanation
Indices: 167689--167823 Score: 225
Period size: 49 Copynumber: 2.8 Consensus size: 49
167679 GGCACCTTTA
* *
167689 TTAGCCCAATTTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
* *
167738 TTAGCCCAATGTCACTAGCCTTGAATTAGCACATTGGTCCACTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
*
167787 TTAGCCCAATGTCGCTGGCCTTGAATTGGCACATTGG
1 TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGG
167824 CACTCCTCTC
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.32
Consensus pattern (49 bp):
TTAGCCCAATGTCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCC
Found at i:168515 original size:20 final size:19
Alignment explanation
Indices: 168490--168601 Score: 125
Period size: 20 Copynumber: 5.6 Consensus size: 19
168480 TACCCAGATT
*
168490 TATCGATACAATTTTCAGTG
1 TATCGATAC-ATTTTCAATG
* *
168510 TATCGATACATGTATGAATG
1 TATCGATACAT-TTTCAATG
168530 TATCGATACATTCTTCAATG
1 TATCGATACATT-TTCAATG
**
168550 TATCGATACATTCTATCTTTG
1 TATCGATACATT-T-TCAATG
168571 TATCGATACATTTTTCAATG
1 TATCGATACA-TTTTCAATG
168591 TATCGATACAT
1 TATCGATACAT
168602 CTAGTTAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
19 4 0.05
20 58 0.73
21 15 0.19
22 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (19 bp):
TATCGATACATTTTCAATG
Found at i:168581 original size:41 final size:40
Alignment explanation
Indices: 168490--168601 Score: 145
Period size: 41 Copynumber: 2.8 Consensus size: 40
168480 TACCCAGATT
* * *
168490 TATCGATACAATTTTCAGTGTATCGATACA-TGTATGAATG
1 TATCGATAC-ATTTTCAATGTATCGATACATTCTATCAATG
**
168530 TATCGATACATTCTTCAATGTATCGATACATTCTATCTTTG
1 TATCGATACATT-TTCAATGTATCGATACATTCTATCAATG
168571 TATCGATACATTTTTCAATGTATCGATACAT
1 TATCGATACA-TTTTCAATGTATCGATACAT
168602 CTAGTTAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.05
40 25 0.39
41 34 0.53
42 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (40 bp):
TATCGATACATTTTCAATGTATCGATACATTCTATCAATG
Found at i:178420 original size:27 final size:27
Alignment explanation
Indices: 178390--178888 Score: 552
Period size: 27 Copynumber: 18.3 Consensus size: 27
178380 CGTCGCGACA
178390 ACTTAAAAGGTTGCCACGGAGTTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
* *
178417 ACTTAAAAGGTTGCCACGAAGCTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
* *
178444 ACTTAAAAGGGTGCCACAGAGTTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
*
178471 ACTGAAAAGGTTGCCACGGAGTTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
** *
178498 ACTTAAAAGGTTGCCATTGAGCTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
* * * * *
178525 GCTGAAAAGGTTACCACGAAGTTTTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
* * *
178552 ACTTTAAAAAGATGCCACGAAGTTGTGG
1 AC-TTAAAAGGTTGCCACGGAGTTGTGG
* * *
178580 GCTTTAAAAGGTTGCCACAGAGTTATGG
1 AC-TTAAAAGGTTGCCACGGAGTTGTGG
* * * *
178608 ACTTAAATGGGTGCCATGGAGTTGTAG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
*
178635 ACTTAAAAGGTTGCCATGGAGTTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
* * *
178662 ACTATAAAAGGATGCCACAGAGCTGTGG
1 ACT-TAAAAGGTTGCCACGGAGTTGTGG
* * *
178690 ACTTAAAAGGGTGTCATGGAGTTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
* * *
178717 ACTTAAAAGGATGCCACAGAGTTGTAG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
* *
178744 ACTT-AAAGGTTGCCATGGAGCTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
* *
178770 ACTTAAAA-ATGTGCCACGGAGCTGTGG
1 ACTTAAAAGGT-TGCCACGGAGTTGTGG
* *
178797 ACTTAAAAGGGTGCCACGGAGCTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
**
178824 ACTTAAAAGGTTGCCACTAAGTTGTGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGG
*
178851 ACTTTAAAAGGATGCCACGGAGTTGTGG
1 AC-TTAAAAGGTTGCCACGGAGTTGTGG
178879 ACTTTAAAAG
1 AC-TTAAAAG
178889 AAAAAGGTTG
Statistics
Matches: 393, Mismatches: 73, Indels: 11
0.82 0.15 0.02
Matches are distributed among these distances:
26 22 0.06
27 273 0.69
28 98 0.25
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (27 bp):
ACTTAAAAGGTTGCCACGGAGTTGTGG
Found at i:178650 original size:82 final size:81
Alignment explanation
Indices: 178390--178888 Score: 599
Period size: 82 Copynumber: 6.1 Consensus size: 81
178380 CGTCGCGACA
178390 ACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCAC-GAAGCTGTGGACTTAAAAGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACAG-AGCTGTGGACTTAAAAGG
*
178454 GTGCCACAGAGTTGTGG
65 GTGCCACGGAGTTGTGG
* ** * * *
178471 ACTGAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCATTGAGCTGTGGGCTGAAAAGGT
1 ACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACAGAGCTGTGGACTTAAAAGGG
* * *
178536 TACCACGAAGTTTTGG
66 TGCCACGGAGTTGTGG
* * * * * * *
178552 ACTTTAAAAAGATGCCACGAAGTTGTGGGCTTTAAAAGGTTGCCACAGAGTTATGGACTTAAATG
1 AC-TTAAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCACAGAGCTGTGGACTTAAAAG
* *
178617 GGTGCCATGGAGTTGTAG
64 GGTGCCACGGAGTTGTGG
* *
178635 ACTTAAAAGGTTGCCATGGAGTTGTGGACTATAAAAGGATGCCACAGAGCTGTGGACTTAAAAGG
1 ACTTAAAAGGTTGCCACGGAGTTGTGGACT-TAAAAGGTTGCCACAGAGCTGTGGACTTAAAAGG
* *
178700 GTGTCATGGAGTTGTGG
65 GTGCCACGGAGTTGTGG
* * * ** **
178717 ACTTAAAAGGATGCCACAGAGTTGTAGACTT-AAAGGTTGCCATGGAGCTGTGGACTTAAAAATG
1 ACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACAGAGCTGTGGACTTAAAAGGG
*
178781 TGCCACGGAGCTGTGG
66 TGCCACGGAGTTGTGG
* * *
178797 ACTTAAAAGGGTGCCACGGAGCTGTGGACTTAAAAGGTTGCCACTA-AGTTGTGGACTTTAAAAG
1 ACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCAC-AGAGCTGTGGAC-TTAAAAG
*
178861 GATGCCACGGAGTTGTGG
64 GGTGCCACGGAGTTGTGG
178879 ACTTTAAAAG
1 AC-TTAAAAG
178889 AAAAAGGTTG
Statistics
Matches: 349, Mismatches: 61, Indels: 14
0.82 0.14 0.03
Matches are distributed among these distances:
80 68 0.19
81 94 0.27
82 139 0.40
83 48 0.14
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (81 bp):
ACTTAAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACAGAGCTGTGGACTTAAAAGGG
TGCCACGGAGTTGTGG
Found at i:178901 original size:34 final size:35
Alignment explanation
Indices: 178856--178926 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
178846 TGTGGACTTT
*
178856 AAAAGGATGCCACGGAGTTGTGGACTTT-AAAAGA
1 AAAAGGATGCCACAGAGTTGTGGACTTTGAAAAGA
* *
178890 AAAAGGTTGCCATAGAGTTGTGGACTTTGAAAAGA
1 AAAAGGATGCCACAGAGTTGTGGACTTTGAAAAGA
178925 AA
1 AA
178927 TGCCACTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 25 0.76
35 8 0.24
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.23
Consensus pattern (35 bp):
AAAAGGATGCCACAGAGTTGTGGACTTTGAAAAGA
Found at i:179978 original size:10 final size:10
Alignment explanation
Indices: 179959--180003 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
179949 GTGAAAAGGA
*
179959 TTTTTCTTCT
1 TTTTTTTTCT
179969 TTTTTTTTCT
1 TTTTTTTTCT
179979 TTTTTTTTC-
1 TTTTTTTTCT
*
179988 -TTTTGTTCT
1 TTTTTTTTCT
179997 TTTTTTT
1 TTTTTTT
180004 GCTAAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 7 0.23
10 23 0.77
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.87
Consensus pattern (10 bp):
TTTTTTTTCT
Done.