Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold91
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: 1327174
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 48727 characters in sequence are not A, C, G, or T
File 6 of 8
Found at i:884444 original size:17 final size:17
Alignment explanation
Indices: 884396--884444 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
884386 CGAGCTTAAC
884396 AAAAAGTTATAAAAATCT
1 AAAAAGTTAT-AAAATCT
*
884414 AAAAAATCTA-AAAATCT
1 AAAAAGT-TATAAAATCT
884431 AAAAAGTTATAAAA
1 AAAAAGTTATAAAA
884445 ATGAATTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.07
17 17 0.63
18 6 0.22
19 2 0.07
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAAAGTTATAAAATCT
Found at i:885146 original size:67 final size:68
Alignment explanation
Indices: 885024--885150 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
885014 ATTGGGTTTT
* * *
885024 AAAGATGATGAAGGTGCCAATATACTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATACTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
885089 AGA
66 AGA
** * * *
885092 AAAG-TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATACTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
885151 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATACTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:885268 original size:43 final size:43
Alignment explanation
Indices: 885207--885916 Score: 621
Period size: 43 Copynumber: 15.1 Consensus size: 43
885197 TAAAGATGGA
* *
885207 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
885250 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
*
885293 AAAGGTGAGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAT
1 AAA---G-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* * *
885346 GAAGGAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA--AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
885392 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
885435 AAAGATGAAGGTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
885490 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T
* *
885539 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
885585 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* *
885628 AAAGGTGAAGGTGCTAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 --A----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
885677 AAAGATGCCAAAGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
885720 AAAAAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-CTT
1 -----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT-GGACTT
*
885769 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
885812 AAAGGTGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 --A----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
885861 AAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 -----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
885911 AGAAGG
1 A-AAGG
885917 GTTGCCACCG
Statistics
Matches: 576, Mismatches: 40, Indels: 101
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.00
43 198 0.34
44 5 0.01
45 4 0.01
46 3 0.01
47 38 0.07
48 2 0.00
49 194 0.34
50 45 0.08
51 3 0.01
52 76 0.13
53 2 0.00
54 2 0.00
55 1 0.00
56 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:885465 original size:49 final size:49
Alignment explanation
Indices: 885167--885911 Score: 872
Period size: 49 Copynumber: 15.7 Consensus size: 49
885157 GGATGTCAAC
*
885167 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
885219 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
885262 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-A-GTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
885309 GTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-A--AGGTGCCAAT
* * *
885361 ATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
885404 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
885453 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
885502 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
885554 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
885597 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCTAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
885646 GTGCTGAGTCAAGGCCAGCTACATTGGACTT-AA-A-G-A--TGCCAAA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
885689 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
885738 ATGCTGATTCAAGGCCAGCGATATTAGG-C-T-----TGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATT-GGACTTAAAGATGAAGGTGCCAAT
*
885781 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
885830 ATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAAT
* * *
885880 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
885912 GAAGGGTTGC
Statistics
Matches: 606, Mismatches: 46, Indels: 85
0.82 0.06 0.12
Matches are distributed among these distances:
42 2 0.00
43 189 0.31
44 3 0.00
45 3 0.00
46 2 0.00
47 46 0.08
48 7 0.01
49 200 0.33
50 48 0.08
51 1 0.00
52 105 0.17
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:885701 original size:92 final size:92
Alignment explanation
Indices: 885207--885911 Score: 857
Period size: 92 Copynumber: 7.5 Consensus size: 92
885197 TAAAGATGGA
* * * *
885207 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
885266 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
885293 AAAGGTGAGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGAGGTGCC
1 AAA---GA-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-A--AGGTGCC
*
885358 AATATGCTGATTCAAGGCCAGCGATATTGGACTT
59 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
885392 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCTAATGTGC
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
885457 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
885484 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
1 AAAG----A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTG
885549 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
57 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
885585 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCTAATGTGC
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
885650 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * *
885677 AAAGATGCCAAAGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAAAGAAGGTGCCAATATGC
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
885742 TGATTCAAGGCCAGCGATATTAGG-CTT
66 TGATTCAAGGCCAGCTATATT-GGACTT
* * *
885769 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCCAATATGC
1 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
885834 TGATTCAAGGCCAGCAATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * *
885861 AAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 --AA-A-G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
885912 GAAGGGTTGC
Statistics
Matches: 535, Mismatches: 53, Indels: 49
0.84 0.08 0.08
Matches are distributed among these distances:
86 3 0.01
89 1 0.00
90 35 0.07
91 2 0.00
92 237 0.44
93 2 0.00
94 4 0.01
95 86 0.16
96 2 0.00
97 1 0.00
98 42 0.08
99 78 0.15
101 42 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:885892 original size:50 final size:50
Alignment explanation
Indices: 885768--885911 Score: 236
Period size: 50 Copynumber: 2.9 Consensus size: 50
885758 ATATTAGGCT
* * *
885768 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGA
*
885817 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGA
*
885867 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
885912 GAAGGGTTGC
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 41 0.47
50 47 0.53
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (50 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGA
Found at i:885955 original size:33 final size:33
Alignment explanation
Indices: 885911--886082 Score: 276
Period size: 33 Copynumber: 5.2 Consensus size: 33
885901 TATTGGGCTT
885911 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
885944 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
885976 GGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
886009 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
* *
886043 AGAAGGTTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
886076 A-AAGGGT
1 AGAAGGGT
886083 GAAAGATGCC
Statistics
Matches: 128, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
32 34 0.27
33 62 0.48
34 32 0.25
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:885988 original size:65 final size:67
Alignment explanation
Indices: 885911--886082 Score: 278
Period size: 65 Copynumber: 2.6 Consensus size: 67
885901 TATTGGGCTT
*
885911 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
885975 -G
66 AG
* *
885976 GGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
886041 AG
66 AG
* *
886043 AGAAGGTTTGCCACCGACTTATGTGGGCTTTAGA-AAGGGT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
886083 GAAAGATGCC
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
65 38 0.38
66 29 0.29
67 32 0.32
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (67 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGCTTT
AG
Found at i:886194 original size:34 final size:34
Alignment explanation
Indices: 886084--886404 Score: 369
Period size: 33 Copynumber: 9.6 Consensus size: 34
886074 AGAAAGGGTG
* * * *
886084 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
886117 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAA-GG-AA
886153 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
886187 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
886221 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
886254 AAAGAGTGCCACGTAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
886287 AAAGAGTGCCACGTAGTTATGGGCTTTA-AAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* *
886320 AAAGAGTGCCACGCAGTTGTGGGCTTTGAA--AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* * *
886352 GAAG-GTGCCACGGAGTCGTGGACTTTA-AAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* *
886384 AAAGA-TGCCACTGAGTCGTGG
1 AAAGAGTGCCACGGAGTTGTGG
886405 ACTTTGAGCA
Statistics
Matches: 258, Mismatches: 18, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
31 18 0.07
32 27 0.10
33 104 0.40
34 77 0.30
35 3 0.01
36 10 0.04
37 19 0.07
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
Found at i:886430 original size:31 final size:31
Alignment explanation
Indices: 886357--886471 Score: 151
Period size: 31 Copynumber: 3.7 Consensus size: 31
886347 GAAAAGAAGG
* * *
886357 TGCCACGGAGTCGTGGACTTTAAAGGAAAAGA-
1 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGAT
*
886389 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
886420 TGTCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
886451 TGCCACTGAGTCATGGACTTT
1 TGCCACTGAGTCGTGGACTTT
886472 AAAAAGGTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
30 5 0.07
31 49 0.66
32 20 0.27
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:886431 original size:63 final size:64
Alignment explanation
Indices: 886149--886477 Score: 219
Period size: 66 Copynumber: 5.1 Consensus size: 64
886139 CTTTAAAAGG
* * * * *
886149 GAAAA-AAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 GAAAAGAAG-GTGCCACGGAGTCGTGGACTTTA-AAGG-AAAAGAGTGCCACTGAGTCGTGGACT
*
886212 TA
63 TT
* * * * *
886214 GAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAGTGCCAC-GTAGTTGTGGG
1 GAA--AAGAAG-GTGCCACGGAGTCGTGGACTTTA-AAGGAAAAGAGTGCCACTG-AGTCGTGGA
*
886277 CTTA
61 CTTT
* ** * * *
886281 GAAGGAA-AAGAGTGCCACGTAGTTATGGGCTTTAAAGGAAAAGAGTGCCAC-GCAGTTGTGGGC
1 GAA--AAGAAG-GTGCCACGGAGTCGTGGACTTTAAAGGAAAAGAGTGCCACTG-AGTCGTGGAC
886344 TTT
62 TTT
886347 GAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGA-TGCCACTGAGTCGTGGACTTT
1 GAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGAGTGCCACTGAGTCGTGGACTTT
** * * * * * * *
886410 GAGCAG-AGATTGTCACTGAGTCGTGGACTTT-GA-GAAGAGATTGCCACTGAGTCATGGACTTT
1 GAAAAGAAG-GTGCCACGGAGTCGTGGACTTTAAAGGAAAAGAGTGCCACTGAGTCGTGGACTTT
*
886472 AAAAAG
1 GAAAAG
886478 GTATTTGAAG
Statistics
Matches: 234, Mismatches: 21, Indels: 21
0.85 0.08 0.08
Matches are distributed among these distances:
61 6 0.03
62 26 0.11
63 40 0.17
64 32 0.14
65 6 0.03
66 55 0.24
67 38 0.16
68 31 0.13
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (64 bp):
GAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAGGAAAAGAGTGCCACTGAGTCGTGGACTTT
Found at i:894786 original size:52 final size:52
Alignment explanation
Indices: 894708--894887 Score: 328
Period size: 52 Copynumber: 3.5 Consensus size: 52
894698 CGAAATATGA
894708 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
894760 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
894812 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
894864 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
894888 AAGATCAGTG
Statistics
Matches: 126, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
51 21 0.17
52 100 0.79
53 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:894914 original size:13 final size:13
Alignment explanation
Indices: 894896--894920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
894886 CAAAGATCAG
894896 TGTATCGATACAA
1 TGTATCGATACAA
894909 TGTATCGATACA
1 TGTATCGATACA
894921 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:894998 original size:33 final size:33
Alignment explanation
Indices: 894961--895027 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
894951 AGTAGCTTAA
894961 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
894994 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
895027 A
1 A
895028 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:895001 original size:13 final size:13
Alignment explanation
Indices: 894983--895007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
894973 CAAAAAAATA
894983 TGTATCGATACAT
1 TGTATCGATACAT
894996 TGTATCGATACA
1 TGTATCGATACA
895008 ACATTTTATG
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:895209 original size:9 final size:9
Alignment explanation
Indices: 895197--895226 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
895187 AAAAAGTTAT
895197 AAAAATCTA
1 AAAAATCTA
895206 AAAAATCT-
1 AAAAATCTA
895214 AAAAATCTA
1 AAAAATCTA
895223 AAAA
1 AAAA
895227 GTTATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATCTA
Found at i:895217 original size:7 final size:8
Alignment explanation
Indices: 895196--895226 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
895186 CAAAAAGTTA
895196 TAAAAATC
1 TAAAAATC
895204 TAAAAAATC
1 T-AAAAATC
895213 TAAAAATC
1 TAAAAATC
895221 TAAAAA
1 TAAAAA
895227 GTTATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (8 bp):
TAAAAATC
Found at i:895235 original size:17 final size:17
Alignment explanation
Indices: 895187--895235 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
895177 CGAGCTTAAC
895187 AAAAAGTTATAAAAATCT
1 AAAAAGTTAT-AAAATCT
*
895205 AAAAAATCTA-AAAATCT
1 AAAAAGT-TATAAAATCT
895222 AAAAAGTTATAAAA
1 AAAAAGTTATAAAA
895236 ATGAATTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.07
17 17 0.63
18 6 0.22
19 2 0.07
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (17 bp):
AAAAAGTTATAAAATCT
Found at i:898424 original size:29 final size:30
Alignment explanation
Indices: 898381--898446 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
898371 AGATTATCCC
*
898381 TATTTTATAAATAAATTATCAAAACAATGT
1 TATTTTATAAATAAATTACCAAAACAATGT
* *
898411 TATTTTA-AAATAAATTACCAAATCATTGT
1 TATTTTATAAATAAATTACCAAAACAATGT
898440 TGATTTT
1 T-ATTTT
898447 TCATGTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (30 bp):
TATTTTATAAATAAATTACCAAAACAATGT
Found at i:898484 original size:32 final size:32
Alignment explanation
Indices: 898439--898510 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
898429 CAAATCATTG
* *
898439 TTGAT-TTTTCATGTTAAAAATGTCATACTTA-
1 TTGATGTTTCCATGTTAAAAATGTCA-ACATAT
898470 TTGATGTTTCCATGTTAAAAATGTCAACATAT
1 TTGATGTTTCCATGTTAAAAATGTCAACATAT
898502 TTGATGTTT
1 TTGATGTTT
898511 TTGACTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 9 0.24
32 28 0.76
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (32 bp):
TTGATGTTTCCATGTTAAAAATGTCAACATAT
Found at i:899761 original size:154 final size:154
Alignment explanation
Indices: 899602--899881 Score: 345
Period size: 154 Copynumber: 1.8 Consensus size: 154
899592 AAAATACGAG
* *
899602 GTTTTCTACTCCATAAATTTCTCCAATAT-GATTTTTC-TAAATTTATAATTTCCAAAATTCT-T
1 GTTTTCTACTCCATAAATTTCTCCAAT-TCAATTTTTCAT-AATTTAAAATTTCCAAAATT-TAT
* * * *
899664 CAAATATTATTT-TTTAATTCATATTAAATTAGT-TTTGAAAATTTTAATTTATTTTACGAGTTT
63 CAAATATT-TTTATTAAATTCATATTAAATTAGTGTGTGAAAA-TTCAAGTTATTTTACGAGTTT
899727 TAGAATTTTTTCTATTACCAAGATACAAA
126 TAGAATTTTTTCTATTACCAAGATACAAA
* * ** * **
899756 GTTTTCTACTCCCTAAATTTCTTCGGTTCAATTTTTCATAGTTTAAAATTTTTAAAATTTATCAA
1 GTTTTCTACTCCATAAATTTCTCCAATTCAATTTTTCATAATTTAAAATTTCCAAAATTTATCAA
* *
899821 ATATTTTTATTAAATTTATATTAAATTAGTGTGTGAAAATTCAAGTTATTTTATGAGTTTT
66 ATATTTTTATTAAATTCATATTAAATTAGTGTGTGAAAATTCAAGTTATTTTACGAGTTTT
899882 GTGTTTTTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
153 5 0.05
154 93 0.88
155 8 0.08
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (154 bp):
GTTTTCTACTCCATAAATTTCTCCAATTCAATTTTTCATAATTTAAAATTTCCAAAATTTATCAA
ATATTTTTATTAAATTCATATTAAATTAGTGTGTGAAAATTCAAGTTATTTTACGAGTTTTAGAA
TTTTTTCTATTACCAAGATACAAA
Found at i:901428 original size:164 final size:161
Alignment explanation
Indices: 901160--901631 Score: 482
Period size: 161 Copynumber: 2.9 Consensus size: 161
901150 GGGGCAAATT
* * ** *
901160 TGTAAATATTAAAACATTTTGTTCATAGGCCAAAGGTGGTTGGCTGAATCTTTCTTGTAATTTTT
1 TGTAAATATTGAAA-ATTTTGTTCA-AGGCCAAAAGTACTTGGCTGAATCTTTCTTATAA-TTTT
* * * * *
901225 GGACCTAATTTTTGTGTTGATTTTGATATGTTCGATATTTAACTTTGTGTTTTAATTATATATAG
63 -GATCTGATTTTTGTGTTGATTTTAATATGTTTGATATTTAATTTTGTGTTTTAATTATATA-AG
*
901290 ACCAATTTGTAATTTTAAAAAGATTAGAAATTTAAG
126 ACCAATTTGAAATTTTAAAAAGATTAGAAATTTAAG
*
901326 TGTAAATATTGAAAATTTTGTTGCAAGGCCAAAAGTACTTGGCCGAATCTTTCTT-TAATTTTCA
1 TGTAAATATTGAAAATTTTGTT-CAAGGCCAAAAGTACTTGGCTGAATCTTTCTTATAATTTT--
* * * *
901390 GATTTGATTTTTGTGTGGATTTTTATATGTTTGATATTTAATTTTGTGTTTTAA-T-TATAGGAC
63 GATCTGATTTTTGTGTTGATTTTAATATGTTTGATATTTAATTTTGTGTTTTAATTATATAAGAC
* * * **
901453 TAATTTGAAATTTTAGAAAGTTTAGGCATTTAAG
128 CAATTTGAAATTTTAAAAAGATTAGAAATTTAAG
* * * * * * *
901487 TGTAGATATTGGAAATTTTGTTCCATGCCCAAAGTTACTTGGCTGAATATTTCTTATGACTTTTG
1 TGTAAATATTGAAAATTTTGTTCAAGGCCAAAAG-TACTTGGCTGAATCTTTCTTAT-AATTTTG
* * ** * **
901552 TATGTGATTTTTGGTGTTGATTTTAATATATTTGATGCTAAATTTTGTGTTTTAATTACGTAAGG
64 -ATCTGATTTTT-GTGTTGATTTTAATATGTTTGATATTTAATTTTGTGTTTTAATTATATAA-G
901617 ACCAATTTGCAAATT
126 ACCAATTTG-AAATT
901632 CAGAAAGTCT
Statistics
Matches: 256, Mismatches: 39, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
160 9 0.04
161 70 0.27
162 15 0.06
163 46 0.18
164 51 0.20
165 36 0.14
166 24 0.09
167 5 0.02
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (161 bp):
TGTAAATATTGAAAATTTTGTTCAAGGCCAAAAGTACTTGGCTGAATCTTTCTTATAATTTTGAT
CTGATTTTTGTGTTGATTTTAATATGTTTGATATTTAATTTTGTGTTTTAATTATATAAGACCAA
TTTGAAATTTTAAAAAGATTAGAAATTTAAG
Found at i:902553 original size:18 final size:21
Alignment explanation
Indices: 902510--902554 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
902500 TAAGGTATTT
902510 TATTAATATTTTTTATAATAA
1 TATTAATATTTTTTATAATAA
*
902531 AATTAA-ATTTTTTA-AA-AA
1 TATTAATATTTTTTATAATAA
902549 TATTAA
1 TATTAA
902555 GGCAACGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 2 0.09
20 8 0.36
21 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTAATATTTTTTATAATAA
Found at i:906094 original size:19 final size:19
Alignment explanation
Indices: 906058--906095 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
906048 TTTCAAATAG
**
906058 CATGGAAAAATGGGAAAAA
1 CATGGAAAAATGAAAAAAA
906077 CATGGAAAAATGAAAAAAA
1 CATGGAAAAATGAAAAAAA
906096 AAAGAAGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.21, T:0.11
Consensus pattern (19 bp):
CATGGAAAAATGAAAAAAA
Found at i:906225 original size:20 final size:19
Alignment explanation
Indices: 906202--906246 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
906192 AAAACCTTAT
* *
906202 AAAGAATAAGAGAGAGAAAA
1 AAAGAAAAAAAGA-AGAAAA
906222 AAAGAAAAAAAGAAG-AAA
1 AAAGAAAAAAAGAAGAAAA
906240 AAAGAAA
1 AAAGAAA
906247 GAAATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 2 0.09
20 11 0.48
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAAAGAAGAAAA
Found at i:910177 original size:21 final size:21
Alignment explanation
Indices: 910147--910189 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
910137 AATGGCCATC
910147 TTTCACTATCCTTTCACAATA
1 TTTCACTATCCTTTCACAATA
*
910168 TTTCATTATCCTTTCACAATA
1 TTTCACTATCCTTTCACAATA
910189 T
1 T
910190 AGAAAGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTCACTATCCTTTCACAATA
Found at i:911829 original size:81 final size:81
Alignment explanation
Indices: 911725--911875 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 81
911715 AAAGATGAAC
* * * *
911725 AAACTCTTTTCATTACCCTTTGACATGATGGTTCTTG-CCCTAGTCAAACATCTTTTCATTCCTA
1 AAACCCTTTTCATTACCATTTGACATGATGATTC-TGACCCTAGTCAAACATATTTTCATTCCTA
911789 TTTGACTGTACCTGGTT
65 TTTGACTGTACCTGGTT
* *
911806 AAACCCTTTTCATTACTATTTGACATGATGATTCTGACCCTAGTCAAACATATTTTCATTCTTAT
1 AAACCCTTTTCATTACCATTTGACATGATGATTCTGACCCTAGTCAAACATATTTTCATTCCTAT
911871 TTGAC
66 TTGAC
911876 GTGATGGTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 2 0.03
81 61 0.97
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.42
Consensus pattern (81 bp):
AAACCCTTTTCATTACCATTTGACATGATGATTCTGACCCTAGTCAAACATATTTTCATTCCTAT
TTGACTGTACCTGGTT
Found at i:911908 original size:46 final size:46
Alignment explanation
Indices: 911799--911923 Score: 123
Period size: 46 Copynumber: 2.8 Consensus size: 46
911789 TTTGACTGTA
*
911799 CCTGGTTAAAC-CCTTTTCATTAC-TATTTGACATGATGATTCTGAC
1 CCTGGTTAAACATCTTTTCATT-CTTATTTGACATGATGATTCTGAC
* * * * *
911844 CCTAGTCAAACATATTTTCATTCTTATTTGACGTGATGGTTCTTG-C
1 CCTGGTTAAACATCTTTTCATTCTTATTTGACATGATGATTC-TGAC
* * *
911890 TCTGGTTAAACATCTTTTCGTTCTCATTTG-CATG
1 CCTGGTTAAACATCTTTTCATTCTTATTTGACATG
911924 TACCTTTTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
45 13 0.20
46 49 0.77
47 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (46 bp):
CCTGGTTAAACATCTTTTCATTCTTATTTGACATGATGATTCTGAC
Found at i:912039 original size:86 final size:81
Alignment explanation
Indices: 911844--912249 Score: 334
Period size: 81 Copynumber: 5.0 Consensus size: 81
911834 TGATTCTGAC
* * * * * * *
911844 CCTAGTCAAACATATTTTCATT-CTTATTTGACGTGATGGTTCTTGCTCTGGTTAAACATCTTTT
1 CCTAGTCAAAC-TCTTTTCATTAC-TGTTTGATGTGATGGTTCTCGCCCTAGTCAAACATCTTTT
* * *
911908 CGTT-CTCATTTG-CATGTA
64 CATTCCT-GTTTGAC-TATA
** * * * * * * *
911926 CCTTTTCAAACTATTTTTATTATTGTTTGATGTGATAGTTCTCGCCTTGGTTAAACATCTTTTCT
1 CCTAGTCAAACTCTTTTCATTACTGTTTGATGTGATGGTTCTCGCCCTAGTCAAACATCTTTTC-
*
911991 TTTCATTCTCGTTTGACTATA
65 ATTC---CT-GTTTGACTATA
* *
912012 CCTGGTCAAACTCTTTTCATTACTGTTTGATGTGATGGTTCTCACCCTAGTCAAACATCTTTTCA
1 CCTAGTCAAACTCTTTTCATTACTGTTTGATGTGATGGTTCTCGCCCTAGTCAAACATCTTTTCA
* *
912077 TTCCTGTTTGATTGTA
66 TTCCTGTTTGACTATA
** * * * * *
912093 CCTAGTCAAACTCTTTTCATTACCATTTGACGTGATGGTTTTTGCCCTAGTCAAATATCTTTTCG
1 CCTAGTCAAACTCTTTTCATTACTGTTTGATGTGATGGTTCTCGCCCTAGTCAAACATCTTTTCA
912158 TTCCTGTTTGACTATA
66 TTCCTGTTTGACTATA
* * ** * * **
912174 CCTAGTCAAACTTTTTTCATTTCCATTTGACGTGATGGTTCTCTCCCCGGTCAAAC-TCTTTTCA
1 CCTAGTCAAACTCTTTTCATTACTGTTTGATGTGATGGTTCTCGCCCTAGTCAAACATCTTTTCA
* *
912238 TTTCGGTTTGAC
66 TTCCTGTTTGAC
912250 ATGATGGACT
Statistics
Matches: 269, Mismatches: 48, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
80 17 0.06
81 171 0.64
82 13 0.05
85 3 0.01
86 64 0.24
87 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (81 bp):
CCTAGTCAAACTCTTTTCATTACTGTTTGATGTGATGGTTCTCGCCCTAGTCAAACATCTTTTCA
TTCCTGTTTGACTATA
Found at i:912084 original size:46 final size:42
Alignment explanation
Indices: 912016--912329 Score: 147
Period size: 45 Copynumber: 7.4 Consensus size: 42
912006 ACTATACCTG
*
912016 GTCAAACTCTTTTCATTACTGTTTGATGTGATGGTTCTCACCCTA
1 GTCAAACTCTTTTCATTCCTGTTTGA-GTGATGGTT-T-ACCCTA
912061 GTCAAACATCTTTTCATTCCTGTTTGA-T--T-G--TA-CCTA
1 GTCAAAC-TCTTTTCATTCCTGTTTGAGTGATGGTTTACCCTA
* *
912097 GTCAAACTCTTTTCATTACC-ATTTGACGTGATGGTTTTTGCCCTA
1 GTCAAACTCTTTTCATT-CCTGTTTGA-GTGATGG--TTTACCCTA
* * *
912142 GTCAAATATCTTTTCGTTCCTGTTTGACT-A-----TA-CCTA
1 GTCAAA-CTCTTTTCATTCCTGTTTGAGTGATGGTTTACCCTA
* * * **
912178 GTCAAACTTTTTTCATTTCC-ATTTGACGTGATGGTTCTCTCCCCG
1 GTCAAACTCTTTTCA-TTCCTGTTTGA-GTGATGGTT-T-ACCCTA
* * * * *
912223 GTCAAACTCTTTTCATTTCGGTTTGACATGATGGACTTTGCCCTG
1 GTCAAACTCTTTTCATTCCTGTTTGA-GTGATGG--TTTACCCTA
* * ** *
912268 GTCAAGCTCCTTTCATTTTTGTTTGACGTGATGGTCTAGCCCTA
1 GTCAAACTCTTTTCATTCCTGTTTGA-GTGATGGTTTA-CCCTA
* *
912312 GTGAACCTCTTTTCATTC
1 GTCAAACTCTTTTCATTC
912330 TCATTCAATG
Statistics
Matches: 206, Mismatches: 34, Indels: 59
0.69 0.11 0.20
Matches are distributed among these distances:
35 26 0.13
36 28 0.14
37 4 0.02
38 1 0.00
39 1 0.00
40 1 0.00
41 1 0.00
42 1 0.00
43 3 0.01
44 24 0.12
45 81 0.39
46 33 0.16
47 2 0.01
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
GTCAAACTCTTTTCATTCCTGTTTGAGTGATGGTTTACCCTA
Found at i:912715 original size:2 final size:2
Alignment explanation
Indices: 912708--912744 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
912698 CTAAGTCTCA
912708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
912745 GGCTTAGACG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:918325 original size:33 final size:32
Alignment explanation
Indices: 918279--918345 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
918269 GTTACAAGCT
*
918279 AATGTACCAATACAT-TTGGTCATGTATTGATAC
1 AATGTACCAATACATCTT-GT-ATGTATCGATAC
* *
918312 AATGTATCGATACATCTTGTATGTATCGATAC
1 AATGTACCAATACATCTTGTATGTATCGATAC
918344 AA
1 AA
918346 ACAGTTAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 13 0.43
33 15 0.50
34 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (32 bp):
AATGTACCAATACATCTTGTATGTATCGATAC
Found at i:924856 original size:13 final size:13
Alignment explanation
Indices: 924838--924862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
924828 CAATATTCTT
924838 TGTATCGATACAA
1 TGTATCGATACAA
924851 TGTATCGATACA
1 TGTATCGATACA
924863 TGGGTTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:925029 original size:20 final size:20
Alignment explanation
Indices: 924991--925030 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
924981 TTACAAATTG
924991 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
925012 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
925031 TACCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:926716 original size:20 final size:21
Alignment explanation
Indices: 926687--926772 Score: 80
Period size: 21 Copynumber: 4.4 Consensus size: 21
926677 TTATCAAAAT
926687 AAAT-TTTTATCAA-GGG-AG
1 AAATCTTTTATCAAGGGGAAG
926705 AAAATCTTTTATCAAGGGGAAG
1 -AAATCTTTTATCAAGGGGAAG
*
926727 AAATCTTTTATCAA----AAT
1 AAATCTTTTATCAAGGGGAAG
*
926744 AAAT-TTTTATCAAGGGGGAG
1 AAATCTTTTATCAAGGGGAAG
*
926764 AAATTTTTT
1 AAATCTTTT
926773 TTGAGAGCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
16 9 0.16
17 6 0.11
19 4 0.07
20 14 0.25
21 21 0.38
22 2 0.04
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (21 bp):
AAATCTTTTATCAAGGGGAAG
Found at i:927327 original size:22 final size:21
Alignment explanation
Indices: 927301--927342 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
927291 AAAGGTCAAA
*
927301 ACCCTTAAATGTATTGATACAC
1 ACCC-TAAATGTATCGATACAC
*
927323 ACCCTAGATGTATCGATACA
1 ACCCTAAATGTATCGATACA
927343 TTATGTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (21 bp):
ACCCTAAATGTATCGATACAC
Found at i:927410 original size:20 final size:19
Alignment explanation
Indices: 927359--927414 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
927349 TTTGTATTGA
927359 TACATTGTATCGATACATG
1 TACATTGTATCGATACATG
* *
927378 TTCATTATATCGATACATAG
1 TACATTGTATCGATACAT-G
927398 -ACAATTGTATCGATACA
1 TAC-ATTGTATCGATACA
927415 ACTGGCAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:927472 original size:13 final size:13
Alignment explanation
Indices: 927449--927487 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
927439 GTTTGTATCG
927449 ATATGTGATACATT
1 ATAT-TGATACATT
*
927463 ATATTGATACAAT
1 ATATTGATACATT
*
927476 GTATTGATACAT
1 ATATTGATACAT
927488 GATGAATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (13 bp):
ATATTGATACATT
Found at i:930712 original size:42 final size:43
Alignment explanation
Indices: 930665--930751 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
930655 AATATAATTT
930665 AATGTAATGTTGTAGTTA-AATTTTTATATTAGTTATTAATAA
1 AATGTAATGTTGTAGTTATAATTTTTATATTAGTTATTAATAA
*
930707 AATGTAATGTTGTAGTTATATTTTTTATATTAGTTATTAATAA
1 AATGTAATGTTGTAGTTATAATTTTTATATTAGTTATTAATAA
930750 AA
1 AA
930752 CCATATGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 18 0.42
43 25 0.58
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (43 bp):
AATGTAATGTTGTAGTTATAATTTTTATATTAGTTATTAATAA
Found at i:931776 original size:20 final size:20
Alignment explanation
Indices: 931735--931788 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
931725 ATCGATATAA
**
931735 TGTATCGATACATG-TTAAT
1 TGTATCGATACATGAACAAT
931754 TGTATCGATACATGAACAAT
1 TGTATCGATACATGAACAAT
931774 TGTATCGATACATGA
1 TGTATCGATACATGA
931789 GTTTGGCAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGAACAAT
Found at i:931858 original size:33 final size:34
Alignment explanation
Indices: 931816--931885 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
931806 CTACCACTGT
*
931816 TTGTATCGATACATG-AGATAA-TGTATCTATACA
1 TTGTATCGATACATGAAGA-AACTGTATCAATACA
931849 TTGTATCGATACATGAAGAAACTGTATCAATACA
1 TTGTATCGATACATGAAGAAACTGTATCAATACA
931883 TTG
1 TTG
931886 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 17 0.50
34 17 0.50
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (34 bp):
TTGTATCGATACATGAAGAAACTGTATCAATACA
Found at i:940634 original size:19 final size:19
Alignment explanation
Indices: 940607--940656 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
940597 ATACATTATG
**
940607 TCGATACATGTTAATTGTA
1 TCGATACATGACAATTGTA
*
940626 TCGACACATGGACAATTGTA
1 TCGATACAT-GACAATTGTA
940646 TCGATACATGA
1 TCGATACATGA
940657 GATTGGCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (19 bp):
TCGATACATGACAATTGTA
Found at i:942454 original size:18 final size:17
Alignment explanation
Indices: 942431--942488 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
942421 GAATACTTTG
942431 TATTTTGGCATAATTATA
1 TATTTTGG-ATAATTATA
* *
942449 TATTTTGGAT-ATTTTG
1 TATTTTGGATAATTATA
*
942465 TATTATTGGATAATTATT
1 TATT-TTGGATAATTATA
942483 TATTTT
1 TATTTT
942489 AGAAACTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 16 0.47
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.59
Consensus pattern (17 bp):
TATTTTGGATAATTATA
Found at i:942487 original size:34 final size:34
Alignment explanation
Indices: 942405--942496 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 34
942395 TATATTTTTA
*
942405 CATAATTATTTAGTTTGAATACTTTGTATTTTGG
1 CATAATTATTTATTTTGAATACTTTGTATTTTGG
* * *
942439 CATAATTATATATTTTGGATATTTTGTATTATTGG
1 CATAATTATTTATTTTGAATACTTTGTATT-TTGG
942474 -ATAATTATTTATTTTAGAA-ACTT
1 CATAATTATTTATTTT-GAATACTT
942497 CATTATTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
34 43 0.88
35 6 0.12
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.53
Consensus pattern (34 bp):
CATAATTATTTATTTTGAATACTTTGTATTTTGG
Found at i:943782 original size:20 final size:21
Alignment explanation
Indices: 943754--943806 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
943744 GTCAAATAGA
* *
943754 TGGCAAATGTATCAATATATT
1 TGGCTAATGTATCAATACATT
* *
943775 TTGC-AATGTATCCATACATT
1 TGGCTAATGTATCAATACATT
943795 TGGCTAATGTAT
1 TGGCTAATGTAT
943807 ACATTTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (21 bp):
TGGCTAATGTATCAATACATT
Found at i:947133 original size:17 final size:17
Alignment explanation
Indices: 947111--947146 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
947101 TGAAACAAAG
947111 TAAATAAA-AATAATAAA
1 TAAATAAATAA-AATAAA
947128 TAAATAAATAAAATAAA
1 TAAATAAATAAAATAAA
947145 TA
1 TA
947147 TACCTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAATAAATAAAATAAA
Found at i:947145 original size:13 final size:13
Alignment explanation
Indices: 947111--947148 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
947101 TGAAACAAAG
*
947111 TAAATAAAAATAA
1 TAAATAAATATAA
947124 TAAATAAATA-AA
1 TAAATAAATATAA
947136 TAAAATAAATATA
1 T-AAATAAATATA
947149 CCTTTTCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 18 0.82
14 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAATAAATATAA
Found at i:948635 original size:52 final size:51
Alignment explanation
Indices: 948553--948661 Score: 119
Period size: 52 Copynumber: 2.1 Consensus size: 51
948543 TCCCAACGAA
* * *
948553 AAAAATTAGTATTTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATG
1 AAAAATTAGTATTCTAGAAATAAAAACGGGGCTAGAGTATCCCCGATTATG
* * * * * *
948604 AAAAATTGGTGTTCTAGAAATAAAAATCGGGGTTGGAGTATCTCCGATTGTG
1 AAAAATTAGTATTCTAGAAATAAAAA-CGGGGCTAGAGTATCCCCGATTATG
*
948656 GAAAAT
1 AAAAAT
948662 CGATGCTTTA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
51 21 0.45
52 26 0.55
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAATTAGTATTCTAGAAATAAAAACGGGGCTAGAGTATCCCCGATTATG
Found at i:948674 original size:52 final size:50
Alignment explanation
Indices: 948565--948676 Score: 116
Period size: 52 Copynumber: 2.2 Consensus size: 50
948555 AAATTAGTAT
* * * *
948565 TTTAGAGATAACAACGGGGCTAGAGTATCCCCGATTATGAAAAATTGGTG
1 TTTAGAAATAAAAACGGGGCTAGAGTATCCCCGATTATGAAAAATCGATG
* * * * *
948615 TTCTAGAAATAAAAATCGGGGTTGGAGTATCTCCGATTGTGGAAAATCGATG
1 TT-TAGAAATAAAAA-CGGGGCTAGAGTATCCCCGATTATGAAAAATCGATG
948667 CTTTAGAAAT
1 -TTTAGAAAT
948677 GAGGCCGGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
50 2 0.04
51 10 0.20
52 36 0.72
53 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (50 bp):
TTTAGAAATAAAAACGGGGCTAGAGTATCCCCGATTATGAAAAATCGATG
Found at i:948768 original size:78 final size:78
Alignment explanation
Indices: 948634--948778 Score: 186
Period size: 78 Copynumber: 1.9 Consensus size: 78
948624 TAAAAATCGG
* ** *
948634 GGTTGGAGTATCTCCGATTGTGGAAAATCGATGCTTTAGAAATGAGGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATGAAACCGGAGTTGGAGTATCCC
948699 CGCGAAAATAACA
66 CGCGAAAATAACA
* * * *
948712 GGTTGGAGTATCCCCGATTGT-GAGAATTTGATGCTTTGGAAAT-ACAATCGGAGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGTGGA-AAATCGATGCTTTAGAAATGA-AACCGGAGTTGGAGTATC
948775 CCCG
64 CCCG
948779 ATTGTGAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
77 3 0.05
78 54 0.95
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (78 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATGAAACCGGAGTTGGAGTATCCC
CGCGAAAATAACA
Found at i:948805 original size:51 final size:49
Alignment explanation
Indices: 948712--948825 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 49
948702 GAAAATAACA
* * *
948712 GGTTGGAGTATCCCCGATTGTGAGAATTTGATGCTTTGGAAAT-ACAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAATTAGAT-CTTTAGAAATGA-AATCG
948762 GAGTTGGAGTATCCCCGATTGTGAAAAATTAGTAT-TTTAGAAATGAAATCG
1 G-GTTGGAGTATCCCCGATTGTG-AAAATTAG-ATCTTTAGAAATGAAATCG
948813 GGATTGGAGTATC
1 GG-TTGGAGTATC
948826 TCTCGGAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
50 2 0.04
51 45 0.80
52 7 0.12
53 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (49 bp):
GGTTGGAGTATCCCCGATTGTGAAAATTAGATCTTTAGAAATGAAATCG
Found at i:948820 original size:129 final size:129
Alignment explanation
Indices: 948587--948854 Score: 303
Period size: 129 Copynumber: 2.1 Consensus size: 129
948577 AACGGGGCTA
* * *
948587 GAGTATCCCCGATTATGAAAAATTGGTGTTCTAGAAATAAAAATCGGGGTTGGAGTATCTCCGAT
1 GAGTATCCCCGATTATGAAAAATTGATGTTCTAGAAATAAAAATCGGAGTTGGAGTATCCCCGAT
* * ** *
948652 TGTGGAAAATCGATGCTTTAGAAATGAGGCCGGGGTTGGAGTATC-CCCGCGAAAATAACAGG-T
66 TGTGAAAAATAGAT-CTTTAGAAATGAAACCGGGATTGGAGTATCTCCCG-G-AAATAACAGGAT
948715 TG
128 TG
* * * * *
948717 GAGTATCCCCGATTGTGAGAATTTGATGCTT-TGGAAAT-ACAATCGGAGTTGGAGTATCCCCGA
1 GAGTATCCCCGATTATGAAAAATTGATG-TTCTAGAAATAAAAATCGGAGTTGGAGTATCCCCGA
* * *
948780 TTGTGAAAAATTAGTAT-TTTAGAAATGAAATCGGGATTGGAGTATCTCTCGGAAATAACGGGAT
65 TTGTGAAAAA-TAG-ATCTTTAGAAATGAAACCGGGATTGGAGTATCTCCCGGAAATAACAGGAT
948844 TG
128 TG
948846 GAGTATCCC
1 GAGTATCCC
948855 TGATGACATA
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
128 9 0.08
129 69 0.59
130 35 0.30
131 4 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (129 bp):
GAGTATCCCCGATTATGAAAAATTGATGTTCTAGAAATAAAAATCGGAGTTGGAGTATCCCCGAT
TGTGAAAAATAGATCTTTAGAAATGAAACCGGGATTGGAGTATCTCCCGGAAATAACAGGATTG
Found at i:949014 original size:51 final size:51
Alignment explanation
Indices: 948953--949443 Score: 321
Period size: 51 Copynumber: 9.5 Consensus size: 51
948943 ATAACGAGGG
* *
948953 TGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAGT
* ** * * * *
949004 TAGAGTATCCCCGATTAAGAAAAATTGGTGTTTTGGAGATGAAACCAGGA-T
1 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATC-GGAGT
* * ** * * *
949055 TGGAGTATCCCCGGTTGCGGTAAATCGAG-GCTTTAGAAATAAAATCAGAGT
1 TGGAGTATCCCCGATTGTGAAAAATTG-GTGTTTTAGAAATAAAATCGGAGT
* * *
949106 TGGAGTATCCCCGATTAG-GAAAAATTGATGTTTT-GAAAATGAAACCGG-GAT
1 TGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTAG-AAATAAAATCGGAG-T
* * ** * * *
949157 TGGAGTATCCCC--TCG-GAAATAATAGG-GTTGGAGTATCCCCGATGATTAA-CGGGGT
1 TGGAGTATCCCCGATTGTGAAA-AATTGGTGTTTTAG-A-----AAT-A-AAATCGGAGT
* * * *
949212 TGGAGTATCCCCGATTGTGAGAAATTGATGTTTTTGGAAACAAAATCGGAGT
1 TGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTTAGAAATAAAATCGGAGT
* *
949264 TGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTT-GAAAATAAAA-CTGGGGT
1 TGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTAG-AAATAAAATC-GGAGT
* * * *
949315 TGGAGTATTCCCGATTGCGGAAAATTGGTG-TTTCGAAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAATCGGAGT
* * *
949366 TGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA-CTGGGGT
1 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATC-GGAGT
*
949417 TGGAGTA-CCCCTGATTATGAAAAATTG
1 TGGAGTATCCCC-GATTGTGAAAAATTG
949444 AGAAACTTAA
Statistics
Matches: 339, Mismatches: 69, Indels: 64
0.72 0.15 0.14
Matches are distributed among these distances:
48 8 0.02
49 7 0.02
50 14 0.04
51 233 0.69
52 41 0.12
53 1 0.00
54 2 0.01
55 16 0.05
56 3 0.01
57 6 0.02
58 5 0.01
59 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAGT
Found at i:949291 original size:260 final size:259
Alignment explanation
Indices: 948921--949428 Score: 638
Period size: 260 Copynumber: 2.0 Consensus size: 259
948911 TATAAAGCTG
948921 GGGTTGGAGTATCCCCACAAAAATAACGAGGGTGGAGTATCCCCAATTGTGAAAAATTGGTATTT
1 GGGTTGGAGTATCCCCACAAAAATAACGAGGGTGGAGTATCCCCAATTGTGAAAAATTGGTATTT
* * * *
948986 TAGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAGAAAAATTGGTGTTTTGGAGATGAAACCA
66 TAGAAACAAAATCGGAGTTAGAGTATCCCCGATTAAGAAAAATTGGTGTTTTGAAAATAAAACCA
* *
949051 GGATTGGAGTATCCCCGGTTGCGGTAAATCGAG-GCTTTAG-AAATAAAATCAGAGTTGGAGTAT
131 GGATTGGAGTATCCCCGATTGCGGAAAATCG-GTG-TTTAGAAAATAAAATCAGAGTTGGAGTAT
*
949114 CCCCGATTAG-GAAAAATT-GATGTTTT-GAAAATGAAACCGGGATTGGAGTATCCCCTCGGAAA
194 CCCCGATT-GTGAAAAATTAG-TGTTTTAG-AAATAAAACCGGGATTGGAGTA-CCCCTCGGAAA
949176 TAATA
255 TAATA
* ** * * *
949181 GGGTTGGAGTATCCCC-GATGATTAACG-GGGTTGGAGTATCCCCGATTGTGAGAAATTGATGT-
1 GGGTTGGAGTATCCCCACAAAAATAACGAGGG-TGGAGTATCCCCAATTGTGAAAAATTG--GTA
* *
949243 TTTTGGAAACAAAATCGGAGTTGGAGTATCCCCGATTATAG-AAAATTGGTGTTTTGAAAATAAA
63 TTTTAGAAACAAAATCGGAGTTAGAGTATCCCCGATTA-AGAAAAATTGGTGTTTTGAAAATAAA
** * * * * *
949307 ACTGGGGTTGGAGTATTCCCGATTGCGGAAAATTGGTGTTTCGAAAATAAAATCGGAGTTGGAGT
127 ACCAGGATTGGAGTATCCCCGATTGCGGAAAATCGGTGTTTAGAAAATAAAATCAGAGTTGGAGT
* * *
949372 ATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACTGGGGTTGGAGTACCCCT
192 ATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGGATTGGAGTACCCCT
949429 GATTATGAAA
Statistics
Matches: 214, Mismatches: 25, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
258 3 0.01
259 43 0.20
260 162 0.76
261 6 0.03
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (259 bp):
GGGTTGGAGTATCCCCACAAAAATAACGAGGGTGGAGTATCCCCAATTGTGAAAAATTGGTATTT
TAGAAACAAAATCGGAGTTAGAGTATCCCCGATTAAGAAAAATTGGTGTTTTGAAAATAAAACCA
GGATTGGAGTATCCCCGATTGCGGAAAATCGGTGTTTAGAAAATAAAATCAGAGTTGGAGTATCC
CCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGGATTGGAGTACCCCTCGGAAATAATA
Found at i:949441 original size:102 final size:102
Alignment explanation
Indices: 948953--949444 Score: 369
Period size: 102 Copynumber: 4.8 Consensus size: 102
948943 ATAACGAGGG
* * * * * *
948953 TGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAA-TCGGAGTTAGAGTATCCCCG
1 TGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACT-GGGGTTGGAGTATCCCCG
* * * * *
949017 ATTAAGAAAAATTGGTGTTTTGGAGATGAAACCAGGA-T
65 ATTATGAAAAATTGATGTTTTGAAAATAAAACC-GGAGT
* * * * * * *
949055 TGGAGTATCCCCGGTTGCGGTAAATCGAG-GCTTTAGAAATAAAA-TCAGAGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTGTGGAAAAT-TAGTGTTTTAGAAATAAAACT-GGGGTTGGAGTATCCCC
* *
949118 GATTAGGAAAAATTGATGTTTTGAAAATGAAACCGG-GAT
64 GATTATGAAAAATTGATGTTTTGAAAATAAAACCGGAG-T
* * * ** * *
949157 TGGAGTATCCCC---T-CGGAAATAATAGGGTTGGAGTATCCCCGATGATTAAC-GGGGTTGGAG
1 TGGAGTATCCCCGATTGTGGAAA-ATTAGTGTTTTAG-A-----AAT-A-AAACTGGGGTTGGAG
* * * * *
949217 TATCCCCGATTGTGAGAAATTGATGTTTTTGGAAACAAAATCGGAGT
57 TATCCCCGATTATGAAAAATTGATG-TTTTGAAAATAAAACCGGAGT
* * * *
949264 TGGAGTATCCCCGATTATAGAAAATTGGTGTTTT-GAAAATAAAACTGGGGTTGGAGTATTCCCG
1 TGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAG-AAATAAAACTGGGGTTGGAGTATCCCCG
** * * * *
949328 ATTGCGGAAAATTGGTGTTTCGAAAATAAAATCGGAGT
65 ATTATGAAAAATTGATGTTTTGAAAATAAAACCGGAGT
949366 TGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACTGGGGTTGGAGTA-CCCCTG
1 TGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCC-G
949430 ATTATGAAAAATTGA
65 ATTATGAAAAATTGA
949445 GAAACTTAAT
Statistics
Matches: 309, Mismatches: 58, Indels: 46
0.75 0.14 0.11
Matches are distributed among these distances:
98 7 0.02
99 6 0.02
100 1 0.00
101 5 0.02
102 179 0.58
103 33 0.11
104 2 0.01
105 2 0.01
106 31 0.10
107 29 0.09
108 1 0.00
109 2 0.01
110 7 0.02
111 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (102 bp):
TGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGA
TTATGAAAAATTGATGTTTTGAAAATAAAACCGGAGT
Found at i:952629 original size:28 final size:28
Alignment explanation
Indices: 952598--952683 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
952588 TGAGGACTAA
952598 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** *
952626 AAAG-G-CATCCTGCTC-TTTGAGGAC--TG
1 AAAGTGCCA-CCAACTCGTGTG-GG-CTTTG
952652 AAAGGTGCCACCAACTCGTGTGGGCTTTG
1 AAA-GTGCCACCAACTCGTGTGGGCTTTG
952681 AAA
1 AAA
952684 AGAAAAGGCG
Statistics
Matches: 43, Mismatches: 6, Indels: 17
0.65 0.09 0.26
Matches are distributed among these distances:
26 10 0.23
27 10 0.23
28 13 0.30
29 10 0.23
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:952661 original size:55 final size:55
Alignment explanation
Indices: 952578--953076 Score: 630
Period size: 55 Copynumber: 8.9 Consensus size: 55
952568 ATAAAGTGTA
* * *
952578 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
952633 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
* *
952694 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAAGAAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GAA-AGGCG
* * *
952755 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
952810 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
952865 TCCTACTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
952920 TCCTGCTCTTTGCGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * *
952975 TCCTGCTCTTCGAGGACT-GAAAGGTGGCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
953030 TCCTGCTCTTTGCGGACTGGAAATTGCCACCAACTTGTGTGGGCTTT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
953077 AAGAGGAAAG
Statistics
Matches: 401, Mismatches: 30, Indels: 26
0.88 0.07 0.06
Matches are distributed among these distances:
54 6 0.01
55 281 0.70
56 9 0.02
60 3 0.01
61 98 0.24
62 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:953019 original size:165 final size:166
Alignment explanation
Indices: 952578--953236 Score: 732
Period size: 165 Copynumber: 3.8 Consensus size: 166
952568 ATAAAGTGTA
*
952578 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTT
*
952643 TGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTCTTTAAG
65 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTGCTCTTTAAG
*
952708 GACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAAGAAGAGGCG
124 GACTGGAAAATGCCACCAACTTGTGTGGGCTTT----AGAAGAGGCG
* *
952755 TCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTT
* * *
952820 TGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTAAGGACTG
65 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTG
952884 GAAAATGCCACCAACTTGTGTGGGCTTT-GAA-AGGCG
129 GAAAATGCCACCAACTTGTGTGGGCTTTAGAAGAGGCG
* * *
952920 TCCTGCTCTTTGCGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTCGTGTGGGCTTTGAA-AGGCATCCTGCTCT
* * **
952984 TCGAGGACTGAAAGGTGGCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGCGGACTG
64 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTG
* *
953049 GAAATTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAGGCGAAAAGATAGAGTG
129 GAAAATGCCACCAACTTGTGTGGGCTTT--------A---G--AAG--AG-GCG
* * *
953103 TCCTGCTCTTTGAGGACTAGGAAGTGCCACAAACTTGTGTGGGCTTTGTAAAAAGAAAGCATCCT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTCGTGTGGGCTTTG---AAAG---GCATCCT
* * * *
953168 GCTCTTCGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTAAG
59 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAG
953233 GACT
124 GACT
953237 AAAGGGTGAA
Statistics
Matches: 419, Mismatches: 33, Indels: 48
0.84 0.07 0.10
Matches are distributed among these distances:
164 10 0.02
165 136 0.32
166 3 0.01
171 52 0.12
172 1 0.00
177 91 0.22
178 4 0.01
179 2 0.00
182 2 0.00
183 42 0.10
184 3 0.01
186 2 0.00
187 2 0.00
189 69 0.16
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (166 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTT
GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTAAGGACTGGA
AAATGCCACCAACTTGTGTGGGCTTTAGAAGAGGCG
Found at i:953208 original size:134 final size:128
Alignment explanation
Indices: 952974--953212 Score: 327
Period size: 134 Copynumber: 1.8 Consensus size: 128
952964 TTTAAGAGGC
* * *
952974 GTCCTGCTCTTCGAGGACTGAAAGGTGGCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTCGAGGACTGAAAGGTGCCACAAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
* * * *
953039 TTGCGGACTGGAAATTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAGGCGAAAAGATAGAGT
66 TCGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAGGCGAAAAGATAGAGT
* *
953102 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACAAACTTGTGTGGGCTTTGTAAAAAGAAAGCATC
1 GTCCTGCTCTTCGAGGACT-GAAAGGTGCCACAAACTTGTGTGGGCTTTG---AAAG---GCATC
953166 CTGCTCTTCGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
59 CTGCTCTTCGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
953213 AAGGCATCCT
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
128 41 0.43
129 3 0.03
131 4 0.04
134 47 0.49
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (128 bp):
GTCCTGCTCTTCGAGGACTGAAAGGTGCCACAAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
TCGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGAAAGGCGAAAAGATAGAGT
Found at i:954330 original size:11 final size:11
Alignment explanation
Indices: 954314--954361 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
954304 CTTTCCTCTC
*
954314 TTTTTTCTTTG
1 TTTTTTATTTG
*
954325 TTTTTTTTTTG
1 TTTTTTATTTG
* *
954336 GTTTTTATTTT
1 TTTTTTATTTG
954347 TTTTTTATTT-
1 TTTTTTATTTG
954357 TTTTT
1 TTTTT
954362 AGAAAAGAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 5 0.16
11 27 0.84
ACGTcount: A:0.04, C:0.02, G:0.06, T:0.88
Consensus pattern (11 bp):
TTTTTTATTTG
Found at i:954350 original size:22 final size:23
Alignment explanation
Indices: 954315--954357 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
954305 TTTCCTCTCT
*
954315 TTTTTCTTTGTTTTTT-TTTTGG
1 TTTTTATTTGTTTTTTATTTTGG
*
954337 TTTTTATTTTTTTTTTATTTT
1 TTTTTATTTGTTTTTTATTTT
954358 TTTTAGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.86
Consensus pattern (23 bp):
TTTTTATTTGTTTTTTATTTTGG
Found at i:954359 original size:18 final size:18
Alignment explanation
Indices: 954325--954358 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
954315 TTTTTCTTTG
*
954325 TTTTTTTTTTGGTTTTTA
1 TTTTTTTTTTAGTTTTTA
954343 TTTTTTTTTTA-TTTTT
1 TTTTTTTTTTAGTTTTT
954359 TTTAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTAGTTTTTA
Found at i:966864 original size:52 final size:51
Alignment explanation
Indices: 966755--966889 Score: 121
Period size: 52 Copynumber: 2.6 Consensus size: 51
966745 AAATTAGTAT
* * * * * **
966755 TTTAGAGATAACAAT-GGGGCTAGAGTATCCCCGATTATGAAAAATCGGTG
1 TTTAGAAATAAAAATCGGGGTTGGAGTATCCCCGATGATGAAAAATCAATG
* *
966805 TTCTAGAAATAAAAATCGGGGTTGGAGTATCCCCGATGGTGGAAAATCAATG
1 TT-TAGAAATAAAAATCGGGGTTGGAGTATCCCCGATGATGAAAAATCAATG
* ***
966857 CTTTAGAAAT-GAGGCCGGGGTTGGAGTATCCCC
1 -TTTAGAAATAAAAATCGGGGTTGGAGTATCCCC
966890 ACGAAAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
50 2 0.03
51 30 0.43
52 35 0.51
53 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (51 bp):
TTTAGAAATAAAAATCGGGGTTGGAGTATCCCCGATGATGAAAAATCAATG
Found at i:967069 original size:28 final size:28
Alignment explanation
Indices: 967002--967075 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
966992 GAAATGAAAT
967002 CGGGGTTGGAGTATCCCCTCAGAAATAA
1 CGGGGTTGGAGTATCCCCTCAGAAATAA
* * * *
967030 CGAGATTGGAGTAT-CCCTGATGACATAA
1 CGGGGTTGGAGTATCCCCTCA-GAAATAA
* *
967058 CGGGGTTAGAGTACCCCC
1 CGGGGTTGGAGTATCCCC
967076 CGATTATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 5 0.14
28 28 0.78
29 3 0.08
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAA
Found at i:967319 original size:102 final size:102
Alignment explanation
Indices: 967175--967359 Score: 289
Period size: 102 Copynumber: 1.8 Consensus size: 102
967165 AAATTGATAT
* * * *
967175 TTTAGAAATAAAATCGGAGATGGAGTATCCCCGATTAAGAAAAATTGGTGTTTTGGAGATGAAAC
1 TTTAGAAATAAAATCGGAGATGGAGTATCCCCGATTAAGAAAAATTGATGTTTCGAAAATGAAAC
967240 CGGGATTGGAGTATCCCCGGTTACGGTAAATCGAGGC
66 CGGGATTGGAGTATCCCCGGTTACGGTAAATCGAGGC
* * * *
967277 TTTAGAAATAAAATTGGAGTTGGAGTATCCCCGGTTAGGAAAAATTGATGTTTCGAAAATGAAAC
1 TTTAGAAATAAAATCGGAGATGGAGTATCCCCGATTAAGAAAAATTGATGTTTCGAAAATGAAAC
*
967342 TGGGATTGGAGTATCCCC
66 CGGGATTGGAGTATCCCC
967360 TCAAGAATAA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 74 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (102 bp):
TTTAGAAATAAAATCGGAGATGGAGTATCCCCGATTAAGAAAAATTGATGTTTCGAAAATGAAAC
CGGGATTGGAGTATCCCCGGTTACGGTAAATCGAGGC
Found at i:967351 original size:51 final size:50
Alignment explanation
Indices: 967162--967359 Score: 170
Period size: 51 Copynumber: 3.9 Consensus size: 50
967152 CCCTAATTGT
* * * *
967162 GAAAAATTGATATTTTAGAAAT-AAAATCGGAGA-TGGAGTATCCCCGATTAA
1 GAAAAATTGAT-GTTTAGAAATGAAACT-GG-GATTGGAGTATCCCCGGTTAG
* * * *
967213 GAAAAATTGGTGTTTTGGAGATGAAACCGGGATTGGAGTATCCCCGGTTACG
1 GAAAAATTGATG-TTTAGAAATGAAACTGGGATTGGAGTATCCCCGGTTA-G
* * * * *
967265 G-TAAATCGAGGCTTTAGAAAT-AAAATTGGAGTTGGAGTATCCCCGGTTAG
1 GAAAAATTGATG-TTTAGAAATGAAACTGGGA-TTGGAGTATCCCCGGTTAG
*
967315 GAAAAATTGATGTTTCGAAAATGAAACTGGGATTGGAGTATCCCC
1 GAAAAATTGATGTTTAG-AAATGAAACTGGGATTGGAGTATCCCC
967360 TCAAGAATAA
Statistics
Matches: 115, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
50 14 0.12
51 90 0.78
52 11 0.10
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.27
Consensus pattern (50 bp):
GAAAAATTGATGTTTAGAAATGAAACTGGGATTGGAGTATCCCCGGTTAG
Found at i:967530 original size:51 final size:52
Alignment explanation
Indices: 967402--967531 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 52
967392 ATTAACGAGA
* *
967402 TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAACAAAATCAGAG
1 TTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAACAAAATCAGAG
* * * *
967454 TTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAA-CTGGGG
1 TTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAACAAAATC-AGAG
* *
967505 TTGGAGTACCCCCGATTATGAAAAATT
1 TTGGAGTATCCCCGATTGTGAAAAATT
967532 GAGAAACTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 38 0.56
52 29 0.43
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (52 bp):
TTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAACAAAATCAGAG
Found at i:973686 original size:20 final size:21
Alignment explanation
Indices: 973661--973712 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
973651 TTGCTAAGGA
973661 AATGTATCGATACATTAT-TC
1 AATGTATCGATACATTATATC
*
973681 AATGTATCGATACATTGTATC
1 AATGTATCGATACATTATATC
*
973702 AATGCATCGAT
1 AATGTATCGAT
973713 CTTTGTATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTATATC
Found at i:973790 original size:34 final size:33
Alignment explanation
Indices: 973747--973814 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 33
973737 TTTACCCAGA
*
973747 TGTATCGATACATT-TTGCATTAGTATCGATACAT
1 TGTATCGATACATTGCT-CATT-GTATCGATACAT
973781 TGTATCGATACATTGCTCATTGTATCGATACAT
1 TGTATCGATACATTGCTCATTGTATCGATACAT
973814 T
1 T
973815 TTACAATGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 13 0.41
34 18 0.56
35 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGCTCATTGTATCGATACAT
Found at i:973814 original size:13 final size:13
Alignment explanation
Indices: 973764--973795 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
973754 ATACATTTTG
973764 CATTAGTATCGATA
1 CATT-GTATCGATA
973778 CATTGTATCGATA
1 CATTGTATCGATA
973791 CATTG
1 CATTG
973796 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:973835 original size:20 final size:20
Alignment explanation
Indices: 973776--973835 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
973766 TTAGTATCGA
*
973776 TACATTGTATCGATACATTGC
1 TACATTGTATCGATACATT-T
973797 T-CATTGTATCGATACATTT
1 TACATTGTATCGATACATTT
*
973816 TACAATGTATCGATACATTT
1 TACATTGTATCGATACATTT
973836 AGGCATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (20 bp):
TACATTGTATCGATACATTT
Found at i:976237 original size:28 final size:30
Alignment explanation
Indices: 976177--976249 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 30
976167 TTTCATAATC
976177 GGGG-TACTCCAACCCCGTTATGTCATCGA
1 GGGGATACTCCAACCCCGTTATGTCATCGA
* *
976206 --GGATACTCCAATCCCGTTAT-T-TTCGA
1 GGGGATACTCCAACCCCGTTATGTCATCGA
*
976232 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
976250 ATTTTATTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 4 0.11
27 3 0.08
28 30 0.81
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (30 bp):
GGGGATACTCCAACCCCGTTATGTCATCGA
Found at i:978579 original size:4 final size:4
Alignment explanation
Indices: 978570--978606 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
978560 TATTTTGAGG
978570 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T
978607 TTTTTGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:983315 original size:79 final size:79
Alignment explanation
Indices: 983184--983484 Score: 342
Period size: 79 Copynumber: 3.8 Consensus size: 79
983174 TCATTGATGT
* * *
983184 TTTTATTTCTAAAATA-TCGATTTTCCACCATCGGGGATACTCCAATCC-CATTATTTTTGAGGG
1 TTTTATTTCTAAAACACT-GATTTTCCACCATCGGGGATACTCCAA-CCTCATTATTTCTAAGGG
983247 GATACTCTAACCTCGA
64 GATACTCTAACCTCGA
* * * **
983263 TTTTATTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAACCTCATTATTTCCGAGGGGA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACCTCATTATTTCTAAGGGGA
* *
983328 TACTCCAA-CTCCA
66 TACTCTAACCTCGA
* * * ** *
983341 GTTTTATTCCTAAAACACTGATTTTTCACTATCGAAGATACTCCTAACCT-TTTATTTCTAAGGG
1 -TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCC-AACCTCATTATTTCTAAGGG
*
983405 GATACTTTAACCTCGA
64 GATACTCTAACCTCGA
* * *
983421 TTTTATTTCTAAAACACTGA-TTTCCTACCATCGGGGATACTCCAACCCCGTTATTTTTAAGGGG
1 TTTTATTTCTAAAACACTGATTTTCC-ACCATCGGGGATACTCCAACCTCATTATTTCTAAGGGG
983485 TAATCCAACC
Statistics
Matches: 188, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
78 14 0.07
79 164 0.87
80 10 0.05
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTGATTTTCCACCATCGGGGATACTCCAACCTCATTATTTCTAAGGGGA
TACTCTAACCTCGA
Found at i:983519 original size:28 final size:27
Alignment explanation
Indices: 983454--983521 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
983444 CCTACCATCG
*
983454 GGGATACTCCAACCCCGTTATTTTTAA
1 GGGATACTCCAACCCCATTATTTTTAA
* * *
983481 GGGGTAATCCAACCCTATTATTTTTGAA
1 GGGATACTCCAACCCCATTATTTTT-AA
*
983509 GGGACACTCCAAC
1 GGGATACTCCAAC
983522 TCTGGTTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (27 bp):
GGGATACTCCAACCCCATTATTTTTAA
Found at i:983716 original size:264 final size:264
Alignment explanation
Indices: 983224--983740 Score: 602
Period size: 264 Copynumber: 2.0 Consensus size: 264
983214 TCGGGGATAC
* * * *
983224 TCCAATCCCATTATTTTTGAGGGGATACTCTAACCTCGATTTTATTTCTAAAACATTAATTTTTC
1 TCCAATCCCATTATTTTTGAAGGGACACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTC
* *
983289 ACCATCGGGGATACTCCAACCTCATTATTTCCGAGGGGATACTCCAACTCCAGTTTTATTCCTAA
66 ACCATCAGGGATACTCCAACCTCATTATTTCCGAAGGGATACTCCAACTCCAGTTTTATTCCTAA
* * ** * **
983354 AACACTGATTTTTCACTATCGAAGATACTCCTAACCTTTTATTTCTAAGGGGATACTTTAACCTC
131 AACACTAATTTTCCACTATCGAAGATACTCCTAACCTTCAATTTCGAAGGGGATACTCCAACCTC
* * *
983419 GATTTTATTTCTAAAACACTGATTTCCTACCATCGGGGATACTCCAACCCCGTTATTTTTAAGGG
196 GATTTTATTTCTAAAACACTAATTTCCTACCATCGGGGATACTCAAACCCCATTATTTTTAAGGG
983484 GTAA
261 GTAA
* * *
983488 TCCAA-CCCTATTATTTTTGAAGGGACACTCCAA-CTCTGGTTTTATTTCTGAAATATCAA-TTT
1 TCCAATCCC-ATTATTTTTGAAGGGACACTCCAACCTC-GATTTTATTTCTAAAACATCAATTTT
* * * * *
983550 TCTACCTTTAGGGATACTTCAATCCT-GTTATTTCCGAAGGGATACTCCAACCTCGA-TTTTATT
64 TC-ACCATCAGGGATACTCCAA-CCTCATTATTTCCGAAGGGATACTCCAA-CTCCAGTTTTATT
* * * *
983613 TCTAAAATA-TCAATTTTCCACTATCGAGGATATTCC-AACCTCGTCAATTTCGAA-GGGATACT
126 CCTAAAACACT-AATTTTCCACTATCGAAGATACTCCTAACCT--TCAATTTCGAAGGGGATACT
* ** *
983675 CCAACCTC-AGTTTTATTTCTAAATCACTAATTTTTTACCATCGGGGATACTCAAACCTCATTAT
188 CCAACCTCGA-TTTTATTTCTAAAACACTAATTTCCTACCATCGGGGATACTCAAACCCCATTAT
983739 TT
252 TT
983741 CTGATGGGAT
Statistics
Matches: 212, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
263 18 0.08
264 179 0.84
265 15 0.07
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (264 bp):
TCCAATCCCATTATTTTTGAAGGGACACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTC
ACCATCAGGGATACTCCAACCTCATTATTTCCGAAGGGATACTCCAACTCCAGTTTTATTCCTAA
AACACTAATTTTCCACTATCGAAGATACTCCTAACCTTCAATTTCGAAGGGGATACTCCAACCTC
GATTTTATTTCTAAAACACTAATTTCCTACCATCGGGGATACTCAAACCCCATTATTTTTAAGGG
GTAA
Found at i:983776 original size:158 final size:158
Alignment explanation
Indices: 983506--983884 Score: 419
Period size: 158 Copynumber: 2.4 Consensus size: 158
983496 TATTATTTTT
* * * *
983506 GAAGGGACACTCCAA-CTCTGGTTTTATTTCTGAAAT-ATCAATTTTCTACCTTTAGGGATACTT
1 GAAGGGATACTCCAACCTC-GGTTTTATTTCT-AAATCATCAATTTTTTACCATTGGGGATAC-T
* * * *
983569 CAATCCTGTTATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCT-AAAATATCAATTTTCCA
63 CAAACCTATTATTTCCGAAGGGATACTCCAACCTAGATTTTATTTCTAAAAACATCAATTTTCCA
* *
983633 CTATCGAGGATATTCCAACCTCGTCAATTTC
128 CCATCGAGGATACTCCAACCTCGTCAATTTC
* *
983664 GAAGGGATACTCCAACCTCAGTTTTATTTCTAAATCA-CTAATTTTTTACCATCGGGGATACTCA
1 GAAGGGATACTCCAACCTCGGTTTTATTTCTAAATCATC-AATTTTTTACCATTGGGGATACTCA
* * * * *
983728 AACCTCATTATTTCTGATGGGATACTCTAACCTTAG-TTTTATTTCTAAAAACATCGATTTTTCA
65 AACCT-ATTATTTCCGAAGGGATACTCCAACC-TAGATTTTATTTCTAAAAACATCAATTTTCCA
* * * * * *
983792 CCATTGGGGATACTCCAACCTTGTTATTTTT
128 CCATCGAGGATACTCCAACCTCGTCAATTTC
* * * *
983823 GAGGGGATACTCCAACCTTGGTTTTATTTCTAAA-CATCGATTTTTCACCATTGGGGATACTC
1 GAAGGGATACTCCAACCTCGGTTTTATTTCTAAATCATCAATTTTTTACCATTGGGGATACTC
983885 TAATCCCGTT
Statistics
Matches: 185, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
157 12 0.06
158 99 0.54
159 74 0.40
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (158 bp):
GAAGGGATACTCCAACCTCGGTTTTATTTCTAAATCATCAATTTTTTACCATTGGGGATACTCAA
ACCTATTATTTCCGAAGGGATACTCCAACCTAGATTTTATTTCTAAAAACATCAATTTTCCACCA
TCGAGGATACTCCAACCTCGTCAATTTC
Found at i:983830 original size:80 final size:79
Alignment explanation
Indices: 983488--983884 Score: 374
Period size: 79 Copynumber: 5.0 Consensus size: 79
983478 TAAGGGGTAA
* * * * * *
983488 TCCAACCCTATTATTTTTGAAGGGACACTCCAA-CTCTGGTTTTATTTCTGAAATATCAA-TTTT
1 TCCAACCTTGTTATTTTTGAAGGGATACTCCAACCT-TAGTTTTATTTCTAAAACATCAATTTTT
* *
983551 CTACCTTTAGGGATAC
65 C-ACCATTGGGGATAC
* ** * *
983567 TTCAATCC-TGTTATTTCCGAAGGGATACTCCAACC-TCGATTTTATTTCTAAAATATCAATTTT
1 TCCAA-CCTTGTTATTTTTGAAGGGATACTCCAACCTTAG-TTTTATTTCTAAAACATCAATTTT
* * * * *
983630 CCACTATCGAGGATAT
64 TCACCATTGGGGATAC
* * * * * *
983646 TCCAACCTCGTCAATTTCGAAGGGATACTCCAACCTCAGTTTTATTTCTAAATCA-CTAATTTTT
1 TCCAACCTTGTTATTTTTGAAGGGATACTCCAACCTTAGTTTTATTTCTAAAACATC-AATTTTT
* *
983710 TACCATCGGGGATAC
65 CACCATTGGGGATAC
* ** * * * *
983725 TCAAACCTCATTATTTCTGATGGGATACTCTAACCTTAGTTTTATTTCTAAAAACATCGATTTTT
1 TCCAACCTTGTTATTTTTGAAGGGATACTCCAACCTTAGTTTTATTTCT-AAAACATCAATTTTT
983790 CACCATTGGGGATAC
65 CACCATTGGGGATAC
* * *
983805 TCCAACCTTGTTATTTTTGAGGGGATACTCCAACCTTGGTTTTATTTCT-AAACATCGATTTTTC
1 TCCAACCTTGTTATTTTTGAAGGGATACTCCAACCTTAGTTTTATTTCTAAAACATCAATTTTTC
983869 ACCATTGGGGATAC
66 ACCATTGGGGATAC
983883 TC
1 TC
983885 TAATCCCGTT
Statistics
Matches: 261, Mismatches: 48, Indels: 19
0.80 0.15 0.06
Matches are distributed among these distances:
78 36 0.14
79 150 0.57
80 74 0.28
81 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (79 bp):
TCCAACCTTGTTATTTTTGAAGGGATACTCCAACCTTAGTTTTATTTCTAAAACATCAATTTTTC
ACCATTGGGGATAC
Found at i:997389 original size:61 final size:61
Alignment explanation
Indices: 997291--997977 Score: 692
Period size: 61 Copynumber: 11.3 Consensus size: 61
997281 AACTTTTTAT
* * * ** *
997291 CCTTTTAGCCCTAAAAAAGTAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
997352 TATTTTAGTCCTCAAAGAGTAAGACACCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
997413 CCTTTTAGTCCTCAAAAAGTAGGACACCCTTTCATTTTAGAGCGCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
997474 CCTTTTAGTCCTCAAAGAGCAGGCCA-C-TTTCCATTTAAAGCCCGCACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
997533 CTTTTTAGTCCTCAAAGAGTAGGACATCTTTCCCCTTTAAAGCACAAACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * **
997594 CCTTCCAGTCCTCAAAGAGTAGGACACCTTCTCCTTCCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * *
997655 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCACACAAATTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
997716 CCTTTTAGTCCCCAAAGAGCATGACA--TTTTCCTTTCAAAGCCTACATAAGTCGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
997775 CCTTTTAGTCCTCAAAGAGTAGGACACTTCTTTT--TTTCAAAACCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACAC--CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
997836 CCTTCTAGTCCTCAAAAAGCAAGATA--TTTTCCTTTCT-AAGCCCACACTAGTTGATGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * * ** *
997895 CCTTTTAGTCCTCGAAA-AGCAAGACATTTCTTTTATTTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTC-AAAGAGTAGGACA--CCTTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
997959 CATTCTAGTCCTTAAAGAG
1 CCTTTTAGTCCTCAAAGAG
997978 CCGGATGCCT
Statistics
Matches: 515, Mismatches: 94, Indels: 31
0.80 0.15 0.05
Matches are distributed among these distances:
57 4 0.01
59 141 0.27
60 5 0.01
61 319 0.62
63 12 0.02
64 34 0.07
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:997555 original size:120 final size:118
Alignment explanation
Indices: 997321--997978 Score: 676
Period size: 120 Copynumber: 5.4 Consensus size: 118
997311 AGGATGCCTT
** * *
997321 TTTCTTTTAAAGCCCACACAAGTTGGTGGCATATTTTAGTCCTCAAAGAGTAAGACACCTTTTCC
1 TTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACA-C-TTTCC
* * *
997386 TTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGACACCC
64 -TTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACTC
* * * * *
997442 TTTCATTTTAGAGCGCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGCCACTTTCCA
1 TTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACACTTTCC-
* *
997507 TTTAAAGCCCGCACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGACA-TC
64 TTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACTC
* * * * * * *
997561 TTTCCCCTTTAAAGCACAAACGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACACCTTCT
1 TTT--CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACA-CTT-T
* **
997626 CCTTCCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGC-C
62 CCTT-TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACTC
* * * * *
997683 TTCTCCTTTTAAAGCCCACACAAATTGGTGGCACCTTTTAGTCCCCAAAGAGCATGACATTTTCC
1 TT-T-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACACTTTCC
* * *
997748 TTTCAAAGCCTACATAAGTCGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACTTC
64 TTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACAC-TC
* * * * *
997805 TTT-TTTTCAAAACCCACACAAGCTGGTGGCACCTTCTAGTCCTCAAAAAGCAAGATATTTTCCT
1 TTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACACTTTCCT
* * * * * *
997869 TTCTAAGCCCACACTAGTTGATGGCACCTTTTAGTCCTCGAAA-AGCAAGACATTTCTT
65 TT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC-AAAGAGTAGGACA---CTC
* * * *
997927 TTATTTTTTAAAGCCCACACAAGCTGGTGGCACATTCTAGTCCTTAAAGAGC
1 TT-TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
997979 CGGATGCCTC
Statistics
Matches: 454, Mismatches: 65, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
119 8 0.02
120 235 0.52
121 17 0.04
122 148 0.33
123 42 0.09
124 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (118 bp):
TTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACACTTTCCTT
TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACTC
Found at i:997644 original size:181 final size:178
Alignment explanation
Indices: 997321--997921 Score: 667
Period size: 181 Copynumber: 3.3 Consensus size: 178
997311 AGGATGCCTT
* ** *
997321 TTTCTTTTAAAGCCCACACAAGTTGGTGGCATATTTTAGTCCTCAAAGAGTAAGACACCTTTTCC
1 TTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACATC-TTTCC
* * *
997386 TTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGACACCCTT-TCATTT
65 CTTTAAAGCACATAC-AGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA-CCTTCTCATTT
* * * *
997450 TAGAGCGCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGCCAC
128 CAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACAC
* * *
997501 TTTCCATTTAAAGCCCGCACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGACATCTTTCC
1 TTTCC-TTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACATCTTT-C
* ** * *
997566 CCTTTAAAGCACAAACGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACACCTTCTCCTTC
64 CCTTTAAAGCACATAC-AGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTCTCATTT
*
997631 CAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGC-C
128 CAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA--CAC
* * * *
997683 TTCTCCTTTTAAAGCCCACACAAATTGGTGGCACCTTTTAGTCCCCAAAGAGCATGACAT-TTT-
1 TT-TCC-TTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACATCTTTC
* **
997746 CCTTTCAAAGCCTACATA-AGTCGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA-CTTCTTTT
64 CCTTT-AAAG-C-ACATACAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTC-TCA
* * * * * * *
997809 TTTCAAAACCCACACAAGCTGGTGGCACCTTCTAGTCCTCAAAAAGCAAGATAT
125 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACAC
* * * *
997863 TTTCCTTTCTAAGCCCACACTAGTTGATGGCACCTTTTAGTCCTCGAAA-AGCAAGACAT
1 TTTCCTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC-AAAGAGTAAGACAT
997922 TTCTTTTATT
Statistics
Matches: 360, Mismatches: 48, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
178 3 0.01
179 43 0.12
180 25 0.07
181 227 0.63
182 7 0.02
183 55 0.15
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (178 bp):
TTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGACATCTTTCCC
TTTAAAGCACATACAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTCTCATTTCAA
AGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACAC
Found at i:1005500 original size:163 final size:165
Alignment explanation
Indices: 1005301--1005705 Score: 491
Period size: 163 Copynumber: 2.5 Consensus size: 165
1005291 TTGATGCAAC
* * *
1005301 TTTTATATTGGTTTTGATATATTTGATACTTAATTTTGTATTTTAATTGTGTGAA-TACTAATTT
1 TTTTATATTGGTTTTGATATATTTGATGCTTAATTTTGTATTTTAATTATGT-AAGGACTAATTT
* * *
1005365 TTAATTTTAAAAAGTTTA-AGGGTTTATTT-TAATATATTGAAAAATTCATCCTAA-GCCAAAGG
65 ATAATTTTAAAAAGTTTAGA-GGTTTATTTGTAA-ATAATGAAAAATTCATCCTAAGGCCAAAAG
*
1005427 TAATTGGTCGAACCTCT-TTGTAACTTTTGGATATGAT
128 TAATTGATCGAACCTCTCTTGTAACTTTTGGATATGAT
* * * * *
1005464 TTTTATCTTGATTTTGATATATTTGATGGTTAATTTTTTGTTTTAATTATGTAAGGACTAATTTA
1 TTTTATATTGGTTTTGATATATTTGATGCTTAATTTTGTATTTTAATTATGTAAGGACTAATTTA
* ** *
1005529 TATTTTTAAAAAGTTTAGAGGTTTATTTGTAAATAATGAAAAATTTGTCCTAAGGCCAAAAGTAG
66 TAATTTTAAAAAGTTTAGAGGTTTATTTGTAAATAATGAAAAATTCATCCTAAGGCCAAAAGTAA
* * *
1005594 TTGATCGAATCTTTCTTGTAACTTTTGGATCTGAT
131 TTGATCGAACCTCTCTTGTAACTTTTGGATATGAT
* * * *
1005629 TTTTGTGTTGGTTTTCG-TATATTTGATGCTTAATTTTGTGA-TTTAATTATGTAGGGACCAATT
1 TTTTATATTGGTTTT-GATATATTTGATGCTTAATTTTGT-ATTTTAATTATGTAAGGACTAATT
* *
1005692 TGTAAATTTAAAAA
64 TATAATTTTAAAAA
1005706 AAAATTTAAG
Statistics
Matches: 205, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
162 2 0.01
163 96 0.47
164 24 0.12
165 82 0.40
166 1 0.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.48
Consensus pattern (165 bp):
TTTTATATTGGTTTTGATATATTTGATGCTTAATTTTGTATTTTAATTATGTAAGGACTAATTTA
TAATTTTAAAAAGTTTAGAGGTTTATTTGTAAATAATGAAAAATTCATCCTAAGGCCAAAAGTAA
TTGATCGAACCTCTCTTGTAACTTTTGGATATGAT
Found at i:1008541 original size:20 final size:19
Alignment explanation
Indices: 1008496--1008542 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
1008486 AATCATTTTC
1008496 AATTTTTAATTTTGAAGTT
1 AATTTTTAATTTTGAAGTT
*
1008515 ACTTTTTTATATTTTG-AGTTT
1 A-ATTTTTA-ATTTTGAAG-TT
1008536 AATTTTT
1 AATTTTT
1008543 GAAACTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 1 0.04
20 13 0.57
21 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (19 bp):
AATTTTTAATTTTGAAGTT
Found at i:1008541 original size:21 final size:20
Alignment explanation
Indices: 1008498--1008542 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
1008488 TCATTTTCAA
*
1008498 TTTTTAATTTTGAAGTTACT
1 TTTTTAATTTTGAAGTTAAT
1008518 TTTTTATATTTTG-AGTTTAAT
1 TTTTTA-ATTTTGAAG-TTAAT
1008539 TTTT
1 TTTT
1008543 GAAACTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTTTAATTTTGAAGTTAAT
Found at i:1010833 original size:13 final size:13
Alignment explanation
Indices: 1010815--1010839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1010805 CAATTTTTGG
1010815 TGTATCGATACAA
1 TGTATCGATACAA
1010828 TGTATCGATACA
1 TGTATCGATACA
1010840 TATTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1010855 original size:32 final size:33
Alignment explanation
Indices: 1010792--1010859 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1010782 CGTTACAAGC
*
1010792 CAATGTATCGATACAATTTTTGGTGTATCGATA
1 CAATGTATCGATACAATTTATGGTGTATCGATA
1010825 CAATGTATCGATAC-ATATTAT-GTGTATCGATA
1 CAATGTATCGATACAAT-TTATGGTGTATCGATA
1010857 CAA
1 CAA
1010860 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 16 0.48
33 17 0.52
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACAATTTATGGTGTATCGATA
Found at i:1010970 original size:20 final size:20
Alignment explanation
Indices: 1010945--1010995 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1010935 ATAGATACAA
1010945 TGTATCGATACAATGC-AATC
1 TGTATCGATAC-ATGCAAATC
* *
1010965 TGTATCGATACATTCAAATG
1 TGTATCGATACATGCAAATC
1010985 TGTATCGATAC
1 TGTATCGATAC
1010996 TTTTTAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGCAAATC
Found at i:1013234 original size:20 final size:21
Alignment explanation
Indices: 1013205--1013245 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1013195 TGTTTTTGTT
1013205 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
1013224 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
1013246 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:1013395 original size:13 final size:13
Alignment explanation
Indices: 1013377--1013401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1013367 ATAATCCCCT
1013377 TGTATCGATACAC
1 TGTATCGATACAC
1013390 TGTATCGATACA
1 TGTATCGATACA
1013402 GCGAATACTG
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1017918 original size:3 final size:3
Alignment explanation
Indices: 1017910--1017943 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1017900 TTTGAGTCAC
* *
1017910 CAT CAT CAT CAT CAT CTT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1017944 CTTGATGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:1017924 original size:9 final size:9
Alignment explanation
Indices: 1017910--1017943 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1017900 TTTGAGTCAC
*
1017910 CATCATCAT
1 CATCATCTT
1017919 CATCATCTT
1 CATCATCTT
1017928 CATCATCTT
1 CATCATCTT
1017937 CATCATC
1 CATCATC
1017944 CTTGATGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (9 bp):
CATCATCTT
Found at i:1019564 original size:13 final size:13
Alignment explanation
Indices: 1019546--1019570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1019536 CAATTTTTGG
1019546 TGTATCGATACAA
1 TGTATCGATACAA
1019559 TGTATCGATACA
1 TGTATCGATACA
1019571 TATTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1019586 original size:32 final size:33
Alignment explanation
Indices: 1019523--1019590 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1019513 CGTTACAAGC
*
1019523 CAATGTATCGATACAATTTTTGGTGTATCGATA
1 CAATGTATCGATACAATTTGTGGTGTATCGATA
1019556 CAATGTATCGATAC-ATATTGT-GTGTATCGATA
1 CAATGTATCGATACAAT-TTGTGGTGTATCGATA
1019588 CAA
1 CAA
1019591 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 16 0.48
33 17 0.52
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACAATTTGTGGTGTATCGATA
Found at i:1024475 original size:13 final size:13
Alignment explanation
Indices: 1024457--1024482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1024447 ACATTTCTTC
1024457 ATGTATCGATACA
1 ATGTATCGATACA
1024470 ATGTATCGATACA
1 ATGTATCGATACA
1024483 TTCTACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1024475 original size:33 final size:33
Alignment explanation
Indices: 1024437--1024503 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1024427 GTTACAAGCT
*
1024437 ATGTATCGATACATTTCT-TCATGTATCGATACA
1 ATGTATCGATACA-TTCTACCATGTATCGATACA
*
1024470 ATGTATCGATACATTCTACCATGTATTGATACA
1 ATGTATCGATACATTCTACCATGTATCGATACA
1024503 A
1 A
1024504 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (33 bp):
ATGTATCGATACATTCTACCATGTATCGATACA
Found at i:1024571 original size:13 final size:13
Alignment explanation
Indices: 1024553--1024579 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1024543 ACAATTGTCC
1024553 ATGTATCGATACA
1 ATGTATCGATACA
1024566 ATGTATCGATACA
1 ATGTATCGATACA
1024579 A
1 A
1024580 AGCAACGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1025217 original size:67 final size:67
Alignment explanation
Indices: 1025109--1025243 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 67
1025099 TATCAAAGTT
* *
1025109 TTCATATTTCTCCCCTTAACAAATTCTCCCCCTTAAACGATTATCTCCTTC-TTTATAAAAAATT
1 TTCATATTTCTCCCCTTAAAAAATTCTCCCCCTTAAACGATTATCTCC-TCATTTATAAAAAATC
1025173 TTC
65 TTC
*
1025176 TTCATTTTTCTCCCCTTAAAAAATTCTCCCCCTTAAACGATTATCTCCTCATTTATAAAAAATCT
1 TTCATATTTCTCCCCTTAAAAAATTCTCCCCCTTAAACGATTATCTCCTCATTTATAAAAAATCT
1025241 TC
66 TC
1025243 T
1 T
1025244 CTCCCTTTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 2 0.03
67 62 0.97
ACGTcount: A:0.29, C:0.28, G:0.01, T:0.41
Consensus pattern (67 bp):
TTCATATTTCTCCCCTTAAAAAATTCTCCCCCTTAAACGATTATCTCCTCATTTATAAAAAATCT
TC
Found at i:1033036 original size:20 final size:20
Alignment explanation
Indices: 1033011--1033076 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1033001 GTTACAAGCT
1033011 ATGTATCGATACATTTCCTC
1 ATGTATCGATACATTTCCTC
1033031 ATGTATCGATACA-------
1 ATGTATCGATACATTTCCTC
1033044 ATGTATCGATACATTTCCTC
1 ATGTATCGATACATTTCCTC
1033064 ATGTATCGATACA
1 ATGTATCGATACA
1033077 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.33
20 26 0.67
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTTCCTC
Found at i:1033049 original size:13 final size:13
Alignment explanation
Indices: 1033031--1033094 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 13
1033021 ACATTTCCTC
1033031 ATGTATCGATACA
1 ATGTATCGATACA
1033044 ATGTATCGATAC-
1 ATGTATCGATACA
*
1033056 AT-T-TC-CT-C-
1 ATGTATCGATACA
1033064 ATGTATCGATACA
1 ATGTATCGATACA
1033077 ATGTATCGATACA
1 ATGTATCGATACA
*
1033090 TTGTA
1 ATGTA
1033095 CCATGTATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 4 0.09
11 2 0.05
12 3 0.07
13 29 0.67
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1033049 original size:33 final size:33
Alignment explanation
Indices: 1033011--1033107 Score: 169
Period size: 33 Copynumber: 2.9 Consensus size: 33
1033001 GTTACAAGCT
1033011 ATGTATCGATACATTTCCTCATGTATCGATACA
1 ATGTATCGATACATTTCCTCATGTATCGATACA
1033044 ATGTATCGATACATTTCCTCATGTATCGATACA
1 ATGTATCGATACATTTCCTCATGTATCGATACA
*
1033077 ATGTATCGATACATTGTAC-CATGTATCGATA
1 ATGTATCGATACATT-TCCTCATGTATCGATA
1033108 TAAATAGTGA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
33 60 0.97
34 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTTCCTCATGTATCGATACA
Found at i:1034089 original size:20 final size:20
Alignment explanation
Indices: 1034042--1034133 Score: 73
Period size: 20 Copynumber: 4.5 Consensus size: 20
1034032 GCCAATCACC
*
1034042 TGTATCGATACATTTTTAACA
1 TGTATCGATACATTTGT-ACA
*
1034063 AGTATCGATACATTTGGT-CA
1 TGTATCGATACATTT-GTACA
* * *
1034083 TGTATCGATAC-TGTGCAATA
1 TGTATCGATACATTTG-TACA
*
1034103 TGTATCGATACATTTG-ACGG
1 TGTATCGATACATTTGTAC-A
1034123 TGTATCGATAC
1 TGTATCGATAC
1034134 TTTTAAGGGT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.02
19 3 0.05
20 35 0.61
21 17 0.30
22 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTTGTACA
Found at i:1034893 original size:22 final size:22
Alignment explanation
Indices: 1034868--1034911 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1034858 ACATCATATG
1034868 ATAAATCAAACGTCAAAGTACA
1 ATAAATCAAACGTCAAAGTACA
1034890 ATAAATCAAACGTCAAAGTACA
1 ATAAATCAAACGTCAAAGTACA
1034912 CCAAGTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (22 bp):
ATAAATCAAACGTCAAAGTACA
Found at i:1034920 original size:22 final size:22
Alignment explanation
Indices: 1034870--1034920 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1034860 ATCATATGAT
*
1034870 AAATCAAACGTCAAAGTACAAT
1 AAATCAAACGTCAAAGTACAAC
*
1034892 AAATCAAACGTCAAAGTACACC
1 AAATCAAACGTCAAAGTACAAC
*
1034914 AAGTCAA
1 AAATCAA
1034921 GCAAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.53, C:0.22, G:0.10, T:0.16
Consensus pattern (22 bp):
AAATCAAACGTCAAAGTACAAC
Found at i:1042678 original size:13 final size:13
Alignment explanation
Indices: 1042660--1042685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1042650 ACATTTTGGG
1042660 ATGTATCGATACA
1 ATGTATCGATACA
1042673 ATGTATCGATACA
1 ATGTATCGATACA
1042686 TCTTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1042680 original size:33 final size:32
Alignment explanation
Indices: 1042638--1042705 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
1042628 TGTTACAAGC
*
1042638 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATCTTGGG-TGTATCGATA
*
1042671 CAATGTATCGATACATCTTGTGTGTATCGATA
1 CAATGTATCGATACATCTTGGGTGTATCGATA
1042703 CAA
1 CAA
1042706 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGGGTGTATCGATA
Found at i:1042793 original size:20 final size:20
Alignment explanation
Indices: 1042746--1042798 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
1042736 GCCAATCACC
*
1042746 TGTATCGATACATTTTTAACA
1 TGTATCGATACATTTGT-ACA
*
1042767 AGTATCGATACATTTGGT-CA
1 TGTATCGATACATTT-GTACA
1042787 TGTATCGATACA
1 TGTATCGATACA
1042799 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.46
21 14 0.50
22 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTGTACA
Found at i:1042804 original size:13 final size:13
Alignment explanation
Indices: 1042786--1042810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1042776 ACATTTGGTC
1042786 ATGTATCGATACA
1 ATGTATCGATACA
1042799 ATGTATCGATAC
1 ATGTATCGATAC
1042811 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1046151 original size:20 final size:21
Alignment explanation
Indices: 1046122--1046173 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1046112 ACATGGTCCA
* *
1046122 GTATCAATACATTCACTTA-T
1 GTATCGATACATTAACTTATT
*
1046142 GTATTGATACATTAACTTATT
1 GTATCGATACATTAACTTATT
1046163 GTATCGATACA
1 GTATCGATACA
1046174 AATTATAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (21 bp):
GTATCGATACATTAACTTATT
Found at i:1047461 original size:32 final size:36
Alignment explanation
Indices: 1047378--1047464 Score: 110
Period size: 36 Copynumber: 2.5 Consensus size: 36
1047368 CTAAGTGATT
**
1047378 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAAGGA
1 GAGAGGTTCTATCTTAGCCCATGAAAAAGATAAGGA
*
1047414 GAGAGGTTCTATCTTAGCCCATG-AAATGAT-AGG-
1 GAGAGGTTCTATCTTAGCCCATGAAAAAGATAAGGA
*
1047447 GA-AGTTTCTATCTTAGCC
1 GAGAGGTTCTATCTTAGCC
1047465 TTGAAAGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
32 15 0.32
33 2 0.04
34 3 0.06
35 6 0.13
36 21 0.45
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCCATGAAAAAGATAAGGA
Found at i:1049038 original size:21 final size:21
Alignment explanation
Indices: 1049014--1049055 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1049004 TAATATTCTT
*
1049014 GAAAAGA-AATTAAGTGAATTA
1 GAAAAGACAA-TAAATGAATTA
1049035 GAAAAGACAATAAATGAATTA
1 GAAAAGACAATAAATGAATTA
1049056 AAGGAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.02, G:0.17, T:0.21
Consensus pattern (21 bp):
GAAAAGACAATAAATGAATTA
Found at i:1051472 original size:122 final size:122
Alignment explanation
Indices: 1051264--1051500 Score: 393
Period size: 122 Copynumber: 1.9 Consensus size: 122
1051254 AAAAGGGAAT
* *
1051264 GAATAGATTTGGCCTAATAGAAAGGGGGAGAAAAGATATGTTTCACAAAAGGGGAGAATTCATAG
1 GAATAGATTTGGCCTAATAGAAAGGGGGAGAAAAGAGATGCTTCACAAAAGGGGAGAATTCATAG
1051329 AAAAATAGAATTGATTATTTGTTATAAAGGAAGAAATTGGAAAAAGTGAAAGGAAGA
66 AAAAATAGAATTGATTATTTGTTATAAAGGAAGAAATTGGAAAAAGTGAAAGGAAGA
* * * *
1051386 GAATAGATTTGGCCTAATAGACAGGGGGAGAAAAGAGATGCTTCATAAAGGGGGAGAATTCGTAG
1 GAATAGATTTGGCCTAATAGAAAGGGGGAGAAAAGAGATGCTTCACAAAAGGGGAGAATTCATAG
* * *
1051451 AGAAATATAATTGATTATTTGTTATAAAGGAAGAAATTGGAAAAATTGAA
66 AAAAATAGAATTGATTATTTGTTATAAAGGAAGAAATTGGAAAAAGTGAA
1051501 GAAAATTGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
122 106 1.00
ACGTcount: A:0.45, C:0.05, G:0.27, T:0.24
Consensus pattern (122 bp):
GAATAGATTTGGCCTAATAGAAAGGGGGAGAAAAGAGATGCTTCACAAAAGGGGAGAATTCATAG
AAAAATAGAATTGATTATTTGTTATAAAGGAAGAAATTGGAAAAAGTGAAAGGAAGA
Found at i:1054009 original size:13 final size:13
Alignment explanation
Indices: 1053991--1054015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1053981 AATTTTATGG
1053991 TGTATCGATACAA
1 TGTATCGATACAA
1054004 TGTATCGATACA
1 TGTATCGATACA
1054016 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1054010 original size:33 final size:32
Alignment explanation
Indices: 1053968--1054035 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
1053958 CATTACAAGC
**
1053968 CAATGTATCGATAAATTTTATGGTGTATCGATA
1 CAATGTATCGATAAATACTAT-GTGTATCGATA
* *
1054001 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCGATAAATACTATGTGTATCGATA
1054033 CAA
1 CAA
1054036 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATAAATACTATGTGTATCGATA
Found at i:1058619 original size:7 final size:7
Alignment explanation
Indices: 1058609--1058700 Score: 184
Period size: 7 Copynumber: 13.1 Consensus size: 7
1058599 TTTGGCTAAT
1058609 TAAACCC
1 TAAACCC
1058616 TAAACCC
1 TAAACCC
1058623 TAAACCC
1 TAAACCC
1058630 TAAACCC
1 TAAACCC
1058637 TAAACCC
1 TAAACCC
1058644 TAAACCC
1 TAAACCC
1058651 TAAACCC
1 TAAACCC
1058658 TAAACCC
1 TAAACCC
1058665 TAAACCC
1 TAAACCC
1058672 TAAACCC
1 TAAACCC
1058679 TAAACCC
1 TAAACCC
1058686 TAAACCC
1 TAAACCC
1058693 TAAACCC
1 TAAACCC
1058700 T
1 T
1058701 TAAAAGTATC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 85 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:1060427 original size:13 final size:13
Alignment explanation
Indices: 1060409--1060446 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1060399 CAGCATTCTC
*
1060409 TGTATCGATACAT
1 TGTATCGATACAG
1060422 TGTATCGATACAG
1 TGTATCGATACAG
*
1060435 TGTATCAATACA
1 TGTATCGATACA
1060447 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1062319 original size:16 final size:16
Alignment explanation
Indices: 1062300--1062331 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1062290 GTGATTAAAA
*
1062300 GAAATTGTTAATTTGC
1 GAAATTGTTAAATTGC
1062316 GAAATTGTTAAATTGC
1 GAAATTGTTAAATTGC
1062332 TTTATTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (16 bp):
GAAATTGTTAAATTGC
Found at i:1062901 original size:20 final size:20
Alignment explanation
Indices: 1062876--1062930 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1062866 CAAAACCCTT
1062876 AAATGTATCGATACACTTTC
1 AAATGTATCGATACACTTTC
1062896 AAATGTATCGATACACTTTC
1 AAATGTATCGATACACTTTC
1062916 AAATGTATCGATACA
1 AAATGTATCGATACA
1062931 TAATGCACAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (20 bp):
AAATGTATCGATACACTTTC
Found at i:1062979 original size:20 final size:19
Alignment explanation
Indices: 1062876--1062982 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 19
1062866 CAAAACCCTT
*
1062876 AAATGTATCGATACACTTTC
1 AAATGTATCGATACA-TATC
*
1062896 AAATGTATCGATACACTTTC
1 AAATGTATCGATACA-TATC
1062916 AAATGTATCGATACATAATGC
1 AAATGTATCGATACAT-AT-C
*
1062937 ACA-GTATCGATACAT-T-
1 AAATGTATCGATACATATC
1062953 --A--TATCGATACATGATC
1 AAATGTATCGATACAT-ATC
1062969 AAATGTATCGATAC
1 AAATGTATCGATAC
1062983 TTACAAAGAA
Statistics
Matches: 76, Mismatches: 2, Indels: 18
0.79 0.02 0.19
Matches are distributed among these distances:
13 11 0.14
14 1 0.01
15 1 0.01
18 2 0.03
19 1 0.01
20 57 0.75
21 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
AAATGTATCGATACATATC
Found at i:1063080 original size:10 final size:10
Alignment explanation
Indices: 1063065--1063098 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
1063055 TCGATACATT
1063065 GGCTTGTAAC
1 GGCTTGTAAC
1063075 GGCTTGTAAC
1 GGCTTGTAAC
*
1063085 GGCTAGTAAC
1 GGCTTGTAAC
1063095 GGCT
1 GGCT
1063099 ATATTTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (10 bp):
GGCTTGTAAC
Found at i:1064402 original size:20 final size:19
Alignment explanation
Indices: 1064362--1064412 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
1064352 TTTTGCTTAT
1064362 TATCGATACATATTCATTG
1 TATCGATACATATTCATTG
1064381 TATCGATACATCATGT-ATTG
1 TATCGATACAT-AT-TCATTG
1064401 TATCGATACATA
1 TATCGATACATA
1064413 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 12 0.40
20 17 0.57
21 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (19 bp):
TATCGATACATATTCATTG
Done.