Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold448
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: 1056520
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:166983 original size:98 final size:98
Alignment explanation
Indices: 166846--167514 Score: 1059
Period size: 98 Copynumber: 7.0 Consensus size: 98
166836 TTAAAGATGA
* * * *
166846 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGCCAATATG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
166911 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
166944 TGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
167009 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
167042 TGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
167107 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
167140 TGAAGGTGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
*
167205 CTGATTCAATGCCAGCGATATTGGACTT--A--
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
167234 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
167297 CTGATTCAAGGCCAGCGATATTGGACTT--A--
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
167326 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
* * *
167389 CTGATTCAGGGCCAGCTATATTGGGCTT--A--
66 CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
167418 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
1 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
* *
167481 CTGATTCAAGGCCAGCTATATTGGGCTTAGAAGG
66 CTGATTCAAGGCCAGCGATATTGGACTTA-AAGG
167515 GTTGCCACCG
Statistics
Matches: 552, Mismatches: 14, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
92 268 0.49
95 1 0.00
96 1 0.00
98 282 0.51
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (98 bp):
TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTAAAGG
Found at i:167553 original size:33 final size:35
Alignment explanation
Indices: 167509--167578 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
167499 TATTGGGCTT
167509 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
167543 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
167577 AG
1 AG
167579 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:167621 original size:34 final size:33
Alignment explanation
Indices: 167583--168119 Score: 572
Period size: 34 Copynumber: 15.8 Consensus size: 33
167573 AGGAAGGGAG
* *
167583 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAA-GGAA
*
167617 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAAAG--GAA
* * *
167654 AAAGGTGCCACGGAGTTATGGACTTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAA-AGGAA
* *
167688 AAAAGTGCCACGGAGTTATGGGCTTAAAAGG--
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
167719 --A--TGCCACGGAGTTGTGGGCTTAGAAGGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGG-AA
167749 AGAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAA
1 A-AAGGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*
167786 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
167821 AAAGTGTGCCACAGAGTTGTGGGCTTCAAAA-GAA
1 AAAG-GTGCCACGGAGTTGTGGGCTT-AAAAGGAA
167855 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*
167891 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
167926 AAAGTGTGCCACAGAGTTGTGGGCTTTAAACA-GAA
1 AAAG-GTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
*
167961 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
167995 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAAA-AGGAA
*
168029 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
168063 GAAGGTGCCACGGAGTTGTGGGCTTTAAAGG-A
1 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
168095 AAAGGTGCCACGAAGCTGTGGGCTT
1 AAAGGTGCCACGGAGTTGTGGGCTT
168120 TGAAGAAAAA
Statistics
Matches: 443, Mismatches: 32, Indels: 58
0.83 0.06 0.11
Matches are distributed among these distances:
27 24 0.05
29 1 0.00
32 26 0.06
33 30 0.07
34 145 0.33
35 111 0.25
36 48 0.11
37 56 0.13
38 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:167714 original size:105 final size:102
Alignment explanation
Indices: 167563--168119 Score: 633
Period size: 105 Copynumber: 5.4 Consensus size: 102
167553 CACCGACTTG
* * * *
167563 TGTGGGCTTTAGGAAGGG-AGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTA-AAAGGGAAAAAAG-TGCCACGGAGTTGTGGGCTTAAAA-AGAAAAAGAGTGCC
167627 ACGGAGTTGTGGGCTTTAAAAGAAAAAAAAGGTGCCACGGAGT
63 ACGGAGTTGTGGGCTTTAAAAG---AAAAAGGTGCCACGGAGT
* * * *
167670 TATGGAC-TT-AAAGATGAAAAAAGTGCCACGGAGTTATGGGCTT-AAAAG-----GA-TGCCAC
1 TGTGGGCTTTAAAAG-GGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGAGTGCCAC
*
167726 GGAGTTGTGGGC-TTAGAAGGAAAAGAAGGTGCCACGGAGT
65 GGAGTTGTGGGCTTTA-AAAG-AAA-AAGGTGCCACGGAGT
*
167766 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAAAGGGAAAAA-AGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGAGTGCC
* *
167831 ACAGAGTTGTGGGCTTCAAAAGAAAAAGGTGCCACGGAGT
63 ACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
*
167871 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-AAAAGGGAAAAA-AGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGAGTGCC
*
167936 ACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
63 ACGGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGT
* * * *
167977 TGTGGGCTTTAAAA-AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAA-AGTGCCAC
1 TGTGGGCTTTAAAAGGGAAAAAAGTGCCACGGAGTTGTGGGCTTAAA-AAGAAAAAGAGTGCCAC
*
168040 GGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGT
65 GGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGT
* * *
168079 TGTGGGCTTT-AAA-GG-AAAAGGTGCCACGAAGCTGTGGGCTT
1 TGTGGGCTTTAAAAGGGAAAAAAGTGCCACGGAGTTGTGGGCTT
168120 TGAAGAAAAA
Statistics
Matches: 400, Mismatches: 30, Indels: 47
0.84 0.06 0.10
Matches are distributed among these distances:
95 4 0.01
96 23 0.06
97 23 0.06
98 8 0.02
99 23 0.06
100 25 0.06
101 9 0.02
102 55 0.14
103 29 0.07
104 12 0.03
105 121 0.30
106 41 0.10
107 25 0.06
108 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (102 bp):
TGTGGGCTTTAAAAGGGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGAGTGCCACG
GAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
Found at i:167724 original size:27 final size:27
Alignment explanation
Indices: 167693--167746 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
167683 ATGAAAAAAG
167693 TGCCACGGAGTTATGGGCTTAAAAGGA
1 TGCCACGGAGTTATGGGCTTAAAAGGA
* *
167720 TGCCACGGAGTTGTGGGCTTAGAAGGA
1 TGCCACGGAGTTATGGGCTTAAAAGGA
167747 AAAGAAGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTATGGGCTTAAAAGGA
Found at i:168135 original size:31 final size:31
Alignment explanation
Indices: 167587--168215 Score: 325
Period size: 34 Copynumber: 18.8 Consensus size: 31
167577 AGGGAGAAAG
* **
167587 ATGCCACGGAGTTGTGGACTTAAAAGGGAAAAA
1 ATGCCACGGAGTTGTGGGCTTTGAA--GAAAAA
*
167620 GAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAA
1 -A-TGCCACGGAGTTGTGGGCTTT-GAAG--AAAAA
* * * *
167656 AGGTGCCACGGAGTTATGGACTTAAAGATGAAAAA
1 A--TGCCACGGAGTTGTGGGCTT--TGAAGAAAAA
* **
167691 AGTGCCACGGAGTTATGGGC-TT--A-AAAGG
1 A-TGCCACGGAGTTGTGGGCTTTGAAGAAAAA
*
167719 ATGCCACGGAGTTGTGGGCTTAGAAGGAAAAGA
1 ATGCCACGGAGTTGTGGGCTTTGAA-GAAAA-A
*
167752 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAA
1 A--TGCCACGGAGTTGTGGGCTTT--GAA--GAAAAA
*
167789 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 -A-TGCCACGGAGTTGTGGGCTTT--GAAGAAAAA
* * **
167824 GTGTGCCACAGAGTTGTGGGCTTCAAAAGAAAAA
1 --ATGCCACGGAGTTGTGGGCTT-TGAAGAAAAA
*
167858 GGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 -ATGCCACGGAGTTGTGGGCTTTG--AA--GAAAAA
*
167894 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 -A-TGCCACGGAGTTGTGGGCTTT--GAAGAAAAA
* * *
167929 GTGTGCCACAGAGTTGTGGGCTTTAAACAGAAAAA
1 --ATGCCACGGAGTTGTGGGCTTT-GA-AGAAAAA
* *
167964 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 -ATGCCACGGAGTTGTGGGCTTT--GAAGAAAAA
* * * *
167998 GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAA
1 -ATGCCACGGAGTTGTGGGCTT--TGAAGAAAAA
168032 AGTGCCACGGAGTTGTGGGCTTTGAA-AAGAAGA
1 A-TGCCACGGAGTTGTGGGCTTTGAAGAA-AA-A
* *
168065 AGGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAG
1 A--TGCCACGGAGTTGTGGGCTTTGAA-GAAAAA
* * *
168099 GTGCCACGAAGCTGTGGGCTTTGAAGAAAAA
1 ATGCCACGGAGTTGTGGGCTTTGAAGAAAAA
* * * *
168130 ATGCCACTGAGTCGTGGACTTTG-AGACAAA
1 ATGCCACGGAGTTGTGGGCTTTGAAGAAAAA
* * * * *
168160 ATGCCACTGAGTCGTGGACTTTAAAGGAAAAG
1 ATGCCACGGAGTTGTGGGCTTTGAA-GAAAAA
* * *
168192 ATGCCACTGAGTCGTGGACTTTGA
1 ATGCCACGGAGTTGTGGGCTTTGA
168216 GCAGAGATTG
Statistics
Matches: 495, Mismatches: 59, Indels: 84
0.78 0.09 0.13
Matches are distributed among these distances:
27 17 0.03
28 5 0.01
30 29 0.06
31 25 0.05
32 55 0.11
33 24 0.05
34 133 0.27
35 109 0.22
36 36 0.07
37 55 0.11
38 7 0.01
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (31 bp):
ATGCCACGGAGTTGTGGGCTTTGAAGAAAAA
Found at i:168189 original size:93 final size:94
Alignment explanation
Indices: 168068--168371 Score: 390
Period size: 93 Copynumber: 3.3 Consensus size: 94
168058 AAGAAGAAGG
* * * * * * *
168068 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCAC-GAAG-CTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTG-AGTC-GTGGACTTTGAAGAAAGAT
*
168131 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
64 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
*
168161 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTG-AGCAGAGATT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAAG-AAAGATT
*
168225 GCCACTGGGTCGTGGACTTTGAGAAGAGAT
65 GCCACTGAGTCGTGGACTTTGAGAAGAGAT
* *
168255 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGATTGCCACTGAGTCGTGGACTTT-AAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-TGCCACTGAGTCGTGGACTTTGAAGAA-AGAT
168317 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
64 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
168348 TGCCACTGAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
168372 AGGTATTTGA
Statistics
Matches: 187, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
92 10 0.05
93 152 0.81
94 25 0.13
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (94 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAGATTG
CCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:168231 original size:31 final size:31
Alignment explanation
Indices: 168131--168368 Score: 374
Period size: 31 Copynumber: 7.7 Consensus size: 31
168121 GAAGAAAAAA
*
168131 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
168161 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-
1 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGAT
*
168193 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
168224 TGCCACTGGGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
168255 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
168286 TGCCACTGAGTCGTGGACTTTAAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
168317 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
168348 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
168369 AAAAGGTATT
Statistics
Matches: 194, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
30 26 0.13
31 143 0.74
32 24 0.12
33 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:169316 original size:1 final size:1
Alignment explanation
Indices: 169312--169336 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
169302 GGTTTTTCCC
169312 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
169337 GTGAAGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:169399 original size:16 final size:16
Alignment explanation
Indices: 169378--169419 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
169368 CTCACCGAGA
*
169378 TTTTCTGTTTTGTTTT
1 TTTTCTGTTTTCTTTT
*
169394 TTTTCTTTTTTCTTTT
1 TTTTCTGTTTTCTTTT
*
169410 TTTTGTGTTT
1 TTTTCTGTTT
169420 GGAAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (16 bp):
TTTTCTGTTTTCTTTT
Found at i:169918 original size:1 final size:1
Alignment explanation
Indices: 169912--169936 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
169902 TGGCAAAGGA
169912 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
169937 GTGAGAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:176696 original size:52 final size:52
Alignment explanation
Indices: 176626--176746 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
176616 GAAAATTTAT
*
176626 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
176678 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
176730 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
176747 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:176759 original size:52 final size:51
Alignment explanation
Indices: 176626--176766 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
176616 GAAAATTTAT
176626 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
176678 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
176730 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
176767 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:176773 original size:13 final size:13
Alignment explanation
Indices: 176755--176779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
176745 CAAAGATCAG
176755 TGTATCGATACAA
1 TGTATCGATACAA
176768 TGTATCGATACA
1 TGTATCGATACA
176780 TGTGAGTAAT
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:176863 original size:13 final size:13
Alignment explanation
Indices: 176845--176869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
176835 CAAAAAAATA
176845 TGTATCGATACAT
1 TGTATCGATACAT
176858 TGTATCGATACA
1 TGTATCGATACA
176870 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:176865 original size:33 final size:33
Alignment explanation
Indices: 176823--176889 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
176813 AGTAGCTTAA
176823 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
176856 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
176889 A
1 A
176890 GATCGTTGAA
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:178818 original size:115 final size:114
Alignment explanation
Indices: 178604--178834 Score: 381
Period size: 115 Copynumber: 2.0 Consensus size: 114
178594 TCATTCTTTA
*
178604 CAATTTAATCTTTCTTACTTAAATTCCTTCATTTAATTTTCAATTAAGGATTGTTATTGAAGATC
1 CAATTTAATCATTCTTACTTAAATTCCTTCATTTAATTTTCAATTAAGGATTGTTATTGAAGATC
* *
178669 CCTTAATTATTTTTTAATACATGCACGTAAAGCCATAATAAAATAATTT
66 CCTTAATTAATTTTTAATACATGCACATAAAGCCATAATAAAATAATTT
* *
178718 CAATTTATTCATTCTTACTTAAATTCCTTCATTTGATTTTCAATTAAGGATTTGTTATTGAAGAT
1 CAATTTAATCATTCTTACTTAAATTCCTTCATTTAATTTTCAATTAAGGA-TTGTTATTGAAGAT
* * *
178783 TCCTTAATTAATTTTTAATACATGCACATAAAGCCATAATTAAATATTTT
65 CCCTTAATTAATTTTTAATACATGCACATAAAGCCATAATAAAATAATTT
178833 CA
1 CA
178835 TGAATGAGAA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
114 47 0.44
115 61 0.56
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.45
Consensus pattern (114 bp):
CAATTTAATCATTCTTACTTAAATTCCTTCATTTAATTTTCAATTAAGGATTGTTATTGAAGATC
CCTTAATTAATTTTTAATACATGCACATAAAGCCATAATAAAATAATTT
Found at i:178985 original size:11 final size:12
Alignment explanation
Indices: 178961--179001 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
178951 ATTTGACATA
178961 TAAATTTTTAAT
1 TAAATTTTTAAT
178973 TAAATTTTTATTAT
1 TAAATTTTTA--AT
178987 TAATATTTTTAAT
1 TAA-ATTTTTAAT
179000 TA
1 TA
179002 TTCTTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.38
13 4 0.15
14 5 0.19
15 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TAAATTTTTAAT
Found at i:183486 original size:13 final size:13
Alignment explanation
Indices: 183468--183492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183458 TTCAACGATT
183468 TGTATCGATACAA
1 TGTATCGATACAA
183481 TGTATCGATACA
1 TGTATCGATACA
183493 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:183573 original size:13 final size:13
Alignment explanation
Indices: 183555--183579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183545 ATTACTCAAA
183555 TGTATCGATACAT
1 TGTATCGATACAT
183568 TGTATCGATACA
1 TGTATCGATACA
183580 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:183693 original size:52 final size:52
Alignment explanation
Indices: 183568--183713 Score: 208
Period size: 52 Copynumber: 2.8 Consensus size: 52
183558 ATCGATACAT
** *
183568 TGTATCGATACACTGA-TCTTTGTATCGATACATGCAGGC-AATTTGCCCAGA
1 TGTATCGATACACT-ATTCAATGTATCGATACATGCAGGCAAATGTGCCCAGA
* *
183619 TGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATGTGCCCAGA
1 TGTATCGATACACTATT-CAATGTATCGATACATGCAGGCAAATGTGCCCAGA
183671 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAAT
1 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAAT
183714 TTTCATATTT
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
50 2 0.02
51 31 0.37
52 48 0.57
53 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATGTGCCCAGA
Found at i:187801 original size:52 final size:52
Alignment explanation
Indices: 187723--187923 Score: 332
Period size: 52 Copynumber: 3.9 Consensus size: 52
187713 CGAAATATGA
*
187723 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
187775 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
* *
187827 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
187879 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
187924 ATGTATCGAT
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
51 2 0.01
52 139 0.99
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:187917 original size:20 final size:20
Alignment explanation
Indices: 187892--187957 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
187882 TTTGCCTGCA
187892 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
187912 TGTATCGATAC----A--A-
1 TGTATCGATACAAAGATCAG
187925 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
187945 TGTATCGATACAA
1 TGTATCGATACAA
187958 TGTATCGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 24 0.62
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGATCAG
Found at i:187930 original size:13 final size:13
Alignment explanation
Indices: 187912--187969 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
187902 CAAAGATCAG
187912 TGTATCGATACAA
1 TGTATCGATACAA
187925 TGTATCGATACAA
1 TGTATCGATACAA
*
187938 ---A--GAT-CAG
1 TGTATCGATACAA
187945 TGTATCGATACAA
1 TGTATCGATACAA
187958 TGTATCGATACA
1 TGTATCGATACA
187970 TTTAAGTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
10 2 0.05
12 3 0.08
13 27 0.73
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:187933 original size:33 final size:33
Alignment explanation
Indices: 187891--187969 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
187881 ATTTGCCTGC
187891 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
187924 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
187957 ATGTATCGATACA
1 ATGTATCGATACA
187970 TTTAAGTGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAGTGTATCGATACA
Found at i:188051 original size:13 final size:13
Alignment explanation
Indices: 188033--188057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
188023 AAAAAAAACA
188033 TGTATCGATACAT
1 TGTATCGATACAT
188046 TGTATCGATACA
1 TGTATCGATACA
188058 ACACTTTATG
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:188156 original size:21 final size:21
Alignment explanation
Indices: 188115--188156 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
188105 GTTGGGACCT
*
188115 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
188136 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
188157 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:189028 original size:167 final size:170
Alignment explanation
Indices: 188842--189207 Score: 594
Period size: 167 Copynumber: 2.1 Consensus size: 170
188832 ATGCTGATTC
188842 AAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGAT
1 AAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGAT
*
188907 TCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAG
66 TCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAG
188972 CTACATTGAACTTAAAGAT-G-AAGATGCCAATATGCTG-
131 CTACATTGAACTTAAAGATGGAAAGATGCCAATATGCTGT
* * *
189009 AAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAAAGTGATAAAGATGCCAATATGTTGAT
1 AAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGAT
* * *
189074 TCACGGCCAACGATATTGGGCTTAAAGCTGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAG
66 TCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAG
*
189139 CTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
131 CTACATTGAACTTAAAGATGG-AAAGATGCCAATATGCTG--T
*
189182 CAAGGCCAGCTATATTGGACTTAAAG
1 -AAGGCCAGCAATATTGGACTTAAAG
189208 GTGCCAATGT
Statistics
Matches: 182, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
167 142 0.78
168 1 0.01
170 16 0.09
174 23 0.13
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (170 bp):
AAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGAT
TCACGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAG
CTACATTGAACTTAAAGATGGAAAGATGCCAATATGCTGT
Found at i:189186 original size:52 final size:52
Alignment explanation
Indices: 189054--189265 Score: 208
Period size: 52 Copynumber: 4.2 Consensus size: 52
189044 GAAAAGTGAT
* * * * * * * *
189054 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
189108 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
189161 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* *
189204 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
189256 AAAGGTGCCA
1 AAAGGTGCCA
189266 CCGACTTGTG
Statistics
Matches: 130, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 38 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.32
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:189222 original size:43 final size:43
Alignment explanation
Indices: 189161--189250 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
189151 TAAAGATGGA
*
189161 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
189204 AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
189247 AAAG
1 AAAG
189251 ATGGAAAAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:189295 original size:30 final size:30
Alignment explanation
Indices: 189254--189604 Score: 386
Period size: 30 Copynumber: 12.1 Consensus size: 30
189244 CTTAAAGATG
* **
189254 GAAAAGG-TGCCACCGACTTGTGGGCTTCG
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
* *
189283 GAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
*
189312 G--AAGGTTGCCACTGACTTGTGGGC--TT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
* *
189338 GTAAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
**
189368 GAAAAATATGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
** *
189398 GAAAAAATATGCCACTAACTTGTGGGC-TTT
1 G-AAAAGGATGCCACTGACTTGTGGGCTTTT
*
189428 G--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
**
189456 GAAAAATATGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
* *
189486 GAAAAGGGTGCCACTAACTTGTGGGC-TTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
*
189515 G--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
**
189543 GAAAAAAATGCCACTGACTTGTGGGC-TTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
** *
189572 GAAAAAAATGCCACTGACTTGTGGACTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
189602 GAA
1 GAA
189605 GGGTGATGAA
Statistics
Matches: 281, Mismatches: 28, Indels: 25
0.84 0.08 0.07
Matches are distributed among these distances:
26 3 0.01
27 61 0.22
28 31 0.11
29 41 0.15
30 121 0.43
31 24 0.09
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (30 bp):
GAAAAGGATGCCACTGACTTGTGGGCTTTT
Found at i:189438 original size:116 final size:112
Alignment explanation
Indices: 189255--189604 Score: 385
Period size: 116 Copynumber: 3.0 Consensus size: 112
189245 TTAAAGATGG
* ** * * *
189255 AAAAGGTGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTG
1 AAAAGATGCCACTAACTTGTGGGCTT-TGAAAA--TTGCCACTGACTTGTGGGCTTTGAAGGTTG
**
189320 CCACTGACTTGTGGGCTTGTAAAGGTTGCCACTGACTTGTGGGCTTTTGA
63 CCACTGACTTGTGGGCTTGTAAAAATTGCCACTGACTTGTGGGCTTTTGA
* * *
189370 AAAATATGCCACTGACTTGTGGGCTTTTGAAAAAATATGCCACTAACTTGTGGGCTTTGAAGGTT
1 AAAAGATGCCACTAACTTGTGGGC-TTTG--AAAAT-TGCCACTGACTTGTGGGCTTTGAAGGTT
*
189435 GCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGA
62 GCCACTGACTTGTGGGCTTGT-AAAAAT-TGCCACTGACTTGTGGGCTTTTGA
* * ** ***
189488 AAAGGGTGCCACTAACTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATG
1 AAAAGATGCCACTAACTTGTGGGCTTTGAAAATTGCCACTGACTTGTGGGC-TTTG--AAGGTTG
* * *
189553 CCACTGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGGACTTTTGA
63 CCACTGACTTGTGGGC-TTGTAAAAATTGCCACTGACTTGTGGGCTTTTGA
189604 A
1 A
189605 GGGTGATGAA
Statistics
Matches: 201, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
114 17 0.08
115 29 0.14
116 72 0.36
117 37 0.18
118 46 0.23
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (112 bp):
AAAAGATGCCACTAACTTGTGGGCTTTGAAAATTGCCACTGACTTGTGGGCTTTGAAGGTTGCCA
CTGACTTGTGGGCTTGTAAAAATTGCCACTGACTTGTGGGCTTTTGA
Found at i:189525 original size:57 final size:58
Alignment explanation
Indices: 189254--189604 Score: 378
Period size: 57 Copynumber: 6.1 Consensus size: 58
189244 CTTAAAGATG
* * ** *
189254 GAAAAGG-TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGC-TTT
1 GAAAAGGATGCCACTGACTTGTGGGCTT-TGAAAA-ATTGCCACTGACTTGTGGGCTTTT
* **
189312 G--AAGGTTGCCACTGACTTGTGGGC-TTGTAAAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAAATTGCCACTGACTTGTGGGCTTTT
** *
189368 GAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAAATATGCCACTAACTTGTGGGC-TTT
1 GAAAAGGATGCCACTGACTTGTGGGC-TTTG-AAAAAT-TGCCACTGACTTGTGGGCTTTT
*
189428 G--AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGC-TTTGAAAAAT-TGCCACTGACTTGTGGGCTTTT
* * **
189486 GAAAAGGGTGCCACTAACTTGTGGGCTTTG-AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAATTGCCACTGACTTGTGGGCTTTT
** * *
189543 GAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAAAATGCCACTGACTTGTGGACTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAAATTGCCACTGACTTGTGGGCTTTT
189602 GAA
1 GAA
189605 GGGTGATGAA
Statistics
Matches: 252, Mismatches: 28, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
55 19 0.08
56 12 0.05
57 89 0.35
58 53 0.21
59 30 0.12
60 32 0.13
61 17 0.07
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (58 bp):
GAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAATTGCCACTGACTTGTGGGCTTTT
Found at i:189554 original size:87 final size:86
Alignment explanation
Indices: 189257--189606 Score: 472
Period size: 87 Copynumber: 4.0 Consensus size: 86
189247 AAAGATGGAA
* ** *** * * *
189257 AAGG-TGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTG--AAGGTT
1 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTGAAAAAGAT
* *
189319 GCCACTGACTTGTGGGCTTGTA
66 GCCACTAACTTGTGGGCTT-TG
*
189341 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAAAT
1 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGC-TTTG-AAAAAG
189406 ATGCCACTAACTTGTGGGCTTTG
64 ATGCCACTAACTTGTGGGCTTTG
* *
189429 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAGGG
1 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGC-TTTGAAAAAGA
189494 TGCCACTAACTTGTGGGCTTTG
65 TGCCACTAACTTGTGGGCTTTG
* *
189516 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAAAAT
1 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTGAAAAAGAT
* *
189581 GCCACTGACTTGTGGACTTTTG
66 GCCACTAACTTGTGGGC-TTTG
189603 AAGG
1 AAGG
189607 GTGATGAATG
Statistics
Matches: 239, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
84 4 0.02
85 41 0.17
86 28 0.12
87 86 0.36
88 59 0.25
89 21 0.09
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (86 bp):
AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTGAAAAAGAT
GCCACTAACTTGTGGGCTTTG
Found at i:191045 original size:1 final size:1
Alignment explanation
Indices: 191041--191152 Score: 80
Period size: 1 Copynumber: 112.0 Consensus size: 1
191031 CCGGACCCCC
* * * * * * ** * *
191041 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTTCCTTTTGTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** **
191106 TTTTTTTTTTTTTGGTTTTTCATTTTTTTCGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
191153 GGAGGACGCC
Statistics
Matches: 85, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 85 1.00
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:191061 original size:17 final size:15
Alignment explanation
Indices: 191041--191150 Score: 114
Period size: 17 Copynumber: 6.9 Consensus size: 15
191031 CCGGACCCCC
191041 TTTTTTGTTTTTGTTTG
1 TTTTTT-TTTTT-TTTG
191058 TTTTTTTATTGTTTTTG
1 TTTTTTT-TT-TTTTTG
191075 TTTTTTTTTTCCTTTTG
1 TTTTTTTTTT--TTTTG
*
191092 TTTTTTTGTTTTTT-
1 TTTTTTTTTTTTTTG
*
191106 TTTTTTTTTTTTTGG
1 TTTTTTTTTTTTTTG
* *
191121 TTTTTCATTTTTTTCG
1 TTTTT-TTTTTTTTTG
191137 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
191151 TTGGAGGACG
Statistics
Matches: 80, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.15
15 17 0.21
16 16 0.20
17 33 0.41
18 2 0.03
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:191079 original size:34 final size:32
Alignment explanation
Indices: 191041--191150 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 32
191031 CCGGACCCCC
191041 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTG
1 TTTTTT-TTTTT-TTTGTTTTTTTATTGTTTTTG
191075 TTTTTTTTTTCCTTTTG--TTTTT-TTGTTTTT-
1 TTTTTTTTTT--TTTTGTTTTTTTATTGTTTTTG
* *
191105 TTTTTTTTTTTTTTGGTTTTTCATT-TTTTTCG
1 TTTTTTTTTTTTTTGTTTTTTTATTGTTTTT-G
191137 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
191151 TTGGAGGACG
Statistics
Matches: 68, Mismatches: 1, Indels: 16
0.80 0.01 0.19
Matches are distributed among these distances:
28 5 0.07
30 19 0.28
31 10 0.15
32 19 0.28
33 4 0.06
34 10 0.15
35 1 0.01
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (32 bp):
TTTTTTTTTTTTTTGTTTTTTTATTGTTTTTG
Found at i:191098 original size:46 final size:45
Alignment explanation
Indices: 191039--191152 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 45
191029 ATCCGGACCC
*
191039 CCTTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTT
1 CCTTTTTTGTTTTTGTTT-TTTTTTTATTGTTTTTGGTTTTTTTTT
* * **
191085 CCTTTTGTT-TTTTTGTTTTTTTTTTTTTTTTTTTGGTTTTTCATT
1 CCTTTT-TTGTTTTTGTTTTTTTTTTATTGTTTTTGGTTTTTTTTT
* *
191130 --TTTTTCGTTTTTTTTTTTTTTTT
1 CCTTTTTTGTTTTTGTTTTTTTTTT
191153 GGAGGACGCC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
42 1 0.02
43 19 0.32
45 22 0.37
46 15 0.25
47 2 0.03
ACGTcount: A:0.02, C:0.05, G:0.09, T:0.84
Consensus pattern (45 bp):
CCTTTTTTGTTTTTGTTTTTTTTTTATTGTTTTTGGTTTTTTTTT
Found at i:191151 original size:17 final size:16
Alignment explanation
Indices: 191041--191151 Score: 102
Period size: 16 Copynumber: 6.9 Consensus size: 16
191031 CCGGACCCCC
*
191041 TTTTTTGTTTTTGTTTG
1 TTTTTT-TTTTTTTTTG
*
191058 TTTTTTTATTGTTTTTG
1 TTTTTTT-TTTTTTTTG
*
191075 TTTTTTTTTTCCTTTTG
1 TTTTTTTTTT-TTTTTG
*
191092 --TTTTTTTGTTTTT-
1 TTTTTTTTTTTTTTTG
*
191105 TTTTTTTTTTTTTTGG
1 TTTTTTTTTTTTTTTG
** *
191121 TTTTTCATTTTTTTCG
1 TTTTTTTTTTTTTTTG
191137 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTT
191152 TGGAGGACGC
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
14 4 0.05
15 18 0.24
16 28 0.37
17 25 0.33
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:200860 original size:10 final size:10
Alignment explanation
Indices: 200845--200871 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
200835 ATGTATCAAG
200845 CAAAAACAAA
1 CAAAAACAAA
200855 CAAAAACAAA
1 CAAAAACAAA
200865 CAAAAAC
1 CAAAAAC
200872 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:211084 original size:13 final size:13
Alignment explanation
Indices: 211066--211090 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
211056 ATGTTGCACA
211066 GTATCGATACATT
1 GTATCGATACATT
211079 GTATCGATACAT
1 GTATCGATACAT
211091 GACCAAATGT
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):
GTATCGATACATT
Found at i:211103 original size:20 final size:21
Alignment explanation
Indices: 211078--211130 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
211068 ATCGATACAT
**
211078 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
211098 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
211119 TGTATCGATACA
1 TGTATCGATACA
211131 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:217415 original size:13 final size:13
Alignment explanation
Indices: 217396--217434 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
217386 ACAGCATTCT
217396 CTGTATCGATACA
1 CTGTATCGATACA
*
217409 TTGTATCGATACA
1 CTGTATCGATACA
217422 CTGTATCGATACA
1 CTGTATCGATACA
217435 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:219901 original size:13 final size:13
Alignment explanation
Indices: 219883--219907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
219873 ATGTTGCACA
219883 GTATCGATACATT
1 GTATCGATACATT
219896 GTATCGATACAT
1 GTATCGATACAT
219908 GACCAAATGT
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):
GTATCGATACATT
Found at i:219920 original size:20 final size:21
Alignment explanation
Indices: 219895--219947 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
219885 ATCGATACAT
**
219895 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
219915 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
219936 TGTATCGATACA
1 TGTATCGATACA
219948 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:221956 original size:51 final size:52
Alignment explanation
Indices: 221851--221963 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 52
221841 CTACTAGTAG
* *
221851 CGATACATTTGGGTCAAAACCCCAAAATTTATCGATACAATAAAAAATGTAT
1 CGATACATTTAGGTCAAAACCCCAAAATGTATCGATACAATAAAAAATGTAT
* * *
221903 CGATACATTTAGGTCAAAA-CTCAGAATGTATCGATACAATTAAAAATGTAT
1 CGATACATTTAGGTCAAAACCCCAAAATGTATCGATACAATAAAAAATGTAT
221954 CGATACATTT
1 CGATACATTT
221964 TCATTCTAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 38 0.68
52 18 0.32
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.29
Consensus pattern (52 bp):
CGATACATTTAGGTCAAAACCCCAAAATGTATCGATACAATAAAAAATGTAT
Found at i:223377 original size:13 final size:13
Alignment explanation
Indices: 223359--223389 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
223349 ACAATTCATC
223359 ATGTATCGATACA
1 ATGTATCGATACA
223372 ATGTATCGATACA
1 ATGTATCGATACA
223385 ATGTA
1 ATGTA
223390 CCATGTATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:223384 original size:33 final size:33
Alignment explanation
Indices: 223337--223405 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
223327 TCGTTAGAAG
* * *
223337 CAATTTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCCATA
223370 CAATGTATCGATACAATGTACCATGTATCCATA
1 CAATGTATCGATACAATGTACCATGTATCCATA
223403 CAA
1 CAA
223406 GTAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCCATA
Found at i:223481 original size:19 final size:20
Alignment explanation
Indices: 223433--223486 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
223423 ACCCCAGTTT
***
223433 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTAAA
*
223453 CATTTATCGATACAA-TAAA
1 CATGTATCGATACAATTAAA
223472 CATGTATCGATACAA
1 CATGTATCGATACAA
223487 AGCATAATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTAAA
Found at i:226040 original size:20 final size:21
Alignment explanation
Indices: 226010--226048 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
226000 ATCTGGGTTT
226010 TTCAGATGTATCGATACATCC
1 TTCAGATGTATCGATACATCC
226031 TTCA-ATGTATCGATACAT
1 TTCAGATGTATCGATACAT
226049 TCTGGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (21 bp):
TTCAGATGTATCGATACATCC
Found at i:232367 original size:624 final size:624
Alignment explanation
Indices: 231488--232712 Score: 2103
Period size: 624 Copynumber: 2.0 Consensus size: 624
231478 CAAATTGGTA
231488 CTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTATACAATTCACTACAATAATTAATTA
1 CTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTATACAATTCACTACAATAATTAATTA
* *
231553 CCTTTAAGACAAAGGTATAACGTCACAAACCTTGTCTTTTAAAGGCTAAGATAACAACCTCTCAA
66 CCTTTAAGACAAAGGTATAACCTCACAAACCTTATCTTTTAAAGGCTAAGATAACAACCTCTCAA
*
231618 TCTCTTCAACAACTATACCCGAAGTTCCTAAGAAATTATCACTCAAGGTTGAACACAACCTTATG
131 TCTCTTCAACAACTATACCCCAAGTTCCTAAGAAATTATCACTCAAGGTTGAACACAACCTTATG
*
231683 TAGACAAAGAAATTATACAAACAAGAATTTCCTCTAAGTAGCCTGATGTTTGTGAAAGAATGAGC
196 TAGACAAAGAAATTATACAAACAAGAATTTCCTCTAAGTAGCCTGATGTTTGTAAAAGAATGAGC
*
231748 TCAAAACGAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATGCAAAAGCTCTTGAAAATGA
261 TCAAAACAAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATGCAAAAGCTCTTGAAAATGA
231813 GAAAACAAATCAAACTTTGAACGCTTTGATCTCTTGATGTTTCTTGCTTTATTCTCTTACAATTC
326 GAAAACAAATCAAACTTTGAACGCTTTGATCTCTTGATGTTTCTTGCTTTATTCTCTTACAATTC
* *
231878 AACTGTTGGACACTCAAATTTATAGGCTTGAATATTGACATACTCATTGGAGGTTGAATAATTGT
391 AACTGTTGGAAACTCAAATTTAT-GGCTTGAATATTGACATACTCATTAGAGGTTGAATAATTGT
* **
231943 GTTTCTAGCCGTTGTTGACTTATTTGGTGCTTGTCTCAATGCATTCCCGTAGTTATGTATCTTTA
455 GTTTCTAGCCGTTGTTGACTTATTTGGTGCTTGTCTCAATGCATTCCCGTAGCTATGTATCGATA
* ** *
232008 CAATTCATAATGTATCGATATTTGCATTTGAAATTATAG-TCGTTTATAG-CCGTTAGAAGCAAT
520 CAATTCATAATGTATCAATACATGCATTTGAAATTATAGCT-GTTTATAGTCAGTTAGAAGCAAT
* *
232071 TTATCGATACAATTTATCATGTATCGATACAATGTATTTAC
584 GTATCGATACAATATATCATGTATCGATACAATGTATTTAC
* * *
232112 CTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGGTTATCCAATTCACTACAATAATTGATTA
1 CTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTATACAATTCACTACAATAATTAATTA
*
232177 CCTTTAAGGCAAAGGTATAACCTCACAAACCTTATCTTTTAAAGGCTAAGATAACAACCTCTCAA
66 CCTTTAAGACAAAGGTATAACCTCACAAACCTTATCTTTTAAAGGCTAAGATAACAACCTCTCAA
* * *
232242 TCTCTTCAAGAACTATACCCCAAGTTCCTATGAAATTATCACTCAAGGTTGAACACAGCCTTATG
131 TCTCTTCAACAACTATACCCCAAGTTCCTAAGAAATTATCACTCAAGGTTGAACACAACCTTATG
232307 TAGACAAAGAAATTATACAAACAAGAATTTCCTCTAAGTAGCCTGATGTTTGTAAAAGAATGAGC
196 TAGACAAAGAAATTATACAAACAAGAATTTCCTCTAAGTAGCCTGATGTTTGTAAAAGAATGAGC
* *
232372 TCAAAACAAATACAAAAGAGCTTTCGAAAAATAACAGCAATGAATTCAAAAGCTCTTGAAAATGA
261 TCAAAACAAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATGCAAAAGCTCTTGAAAATGA
* * *
232437 GAAAACAAATCAAACTTTGAATGCTTTGATCTCTTGATGTTTCTTGGTTTATTCTCTTACTATTC
326 GAAAACAAATCAAACTTTGAACGCTTTGATCTCTTGATGTTTCTTGCTTTATTCTCTTACAATTC
* * *
232502 AACTGTTGGAAACTCAAATTTATGGCTTGAATGTTGACATACTCGTTAGAGGTTGAATGATTGTG
391 AACTGTTGGAAACTCAAATTTATGGCTTGAATATTGACATACTCATTAGAGGTTGAATAATTGTG
* * *
232567 TTTCTAGCCGTTGTTGACTTGTTTGGTGCTTGTTTCAATGCATTCCTGTAGCTATGTATCGATAC
456 TTTCTAGCCGTTGTTGACTTATTTGGTGCTTGTCTCAATGCATTCCCGTAGCTATGTATCGATAC
*
232632 AATTCATAATGTATCAATACATGCATTTGAAATTATAGCTGTTTATAGTCAGTTAGAAGTAATGT
521 AATTCATAATGTATCAATACATGCATTTGAAATTATAGCTGTTTATAGTCAGTTAGAAGCAATGT
232697 ATCGATACAATATATC
586 ATCGATACAATATATC
232713 GGTGCAATGT
Statistics
Matches: 564, Mismatches: 35, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
623 140 0.25
624 424 0.75
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (624 bp):
CTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTATACAATTCACTACAATAATTAATTA
CCTTTAAGACAAAGGTATAACCTCACAAACCTTATCTTTTAAAGGCTAAGATAACAACCTCTCAA
TCTCTTCAACAACTATACCCCAAGTTCCTAAGAAATTATCACTCAAGGTTGAACACAACCTTATG
TAGACAAAGAAATTATACAAACAAGAATTTCCTCTAAGTAGCCTGATGTTTGTAAAAGAATGAGC
TCAAAACAAATACAAAAGAGCTTTCGAAAAATAACAACAATGAATGCAAAAGCTCTTGAAAATGA
GAAAACAAATCAAACTTTGAACGCTTTGATCTCTTGATGTTTCTTGCTTTATTCTCTTACAATTC
AACTGTTGGAAACTCAAATTTATGGCTTGAATATTGACATACTCATTAGAGGTTGAATAATTGTG
TTTCTAGCCGTTGTTGACTTATTTGGTGCTTGTCTCAATGCATTCCCGTAGCTATGTATCGATAC
AATTCATAATGTATCAATACATGCATTTGAAATTATAGCTGTTTATAGTCAGTTAGAAGCAATGT
ATCGATACAATATATCATGTATCGATACAATGTATTTAC
Found at i:232797 original size:20 final size:19
Alignment explanation
Indices: 232772--232821 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
232762 TAGTTTCATA
* *
232772 TATCGATACAATTATCCATG
1 TATCGATACAATGA-ACATG
232792 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
232811 TATCGATACAA
1 TATCGATACAA
232822 AGCATAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:232812 original size:19 final size:20
Alignment explanation
Indices: 232772--232840 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
232762 TAGTTTCATA
* *
232772 TATCGATACAATTATCCATG
1 TATCGATACAATGATACATG
232792 TATCGATACAATGA-ACATG
1 TATCGATACAATGATACATG
*
232811 TATCGATACAAAGCATA-ATG
1 TATCGATACAATG-ATACATG
*
232831 TGTCGATACA
1 TATCGATACA
232841 TCTGGGTGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.37
20 26 0.60
21 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.29
Consensus pattern (20 bp):
TATCGATACAATGATACATG
Found at i:240328 original size:13 final size:14
Alignment explanation
Indices: 240304--240332 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
240294 TTTAGGTAGC
240304 TTTGAGTTCTTGAA
1 TTTGAGTTCTTGAA
240318 TTTGA-TTCTTGAA
1 TTTGAGTTCTTGAA
240331 TT
1 TT
240333 GATGGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (14 bp):
TTTGAGTTCTTGAA
Found at i:240544 original size:10 final size:11
Alignment explanation
Indices: 240525--240549 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
240515 TGTTTGAAAA
240525 TTTTGTTTTTT
1 TTTTGTTTTTT
240536 TTTTGTTTTTT
1 TTTTGTTTTTT
240547 TTT
1 TTT
240550 AATTTGACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:242519 original size:20 final size:20
Alignment explanation
Indices: 242494--242562 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
242484 TTTACCTAGA
242494 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
*
242514 TGTATC---A-A---TACAT
1 TGTATCGATACATTGTTCAT
242527 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
*
242547 TGTATCAATACATTGT
1 TGTATCGATACATTGT
242563 ATCAATACAG
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
13 10 0.26
16 2 0.05
17 2 0.05
20 25 0.64
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:242529 original size:13 final size:13
Alignment explanation
Indices: 242511--242586 Score: 83
Period size: 13 Copynumber: 6.3 Consensus size: 13
242501 ATACATTGTT
242511 CATTGTATCAATA
1 CATTGTATCAATA
*
242524 CATTGTATCGATA
1 CATTGTATCAATA
242537 CATTG--T---T-
1 CATTGTATCAATA
242544 CATTGTATCAATA
1 CATTGTATCAATA
242557 CATTGTATCAATA
1 CATTGTATCAATA
* *
242570 CAGTGTATCGATA
1 CATTGTATCAATA
242583 CATT
1 CATT
242587 CTGGGTTTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
7 5 0.09
8 1 0.02
9 1 0.02
11 1 0.02
12 1 0.02
13 44 0.83
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:242534 original size:33 final size:33
Alignment explanation
Indices: 242494--242571 Score: 147
Period size: 33 Copynumber: 2.4 Consensus size: 33
242484 TTTACCTAGA
242494 TGTATCGATACATTGTTCATTGTATCAATACAT
1 TGTATCGATACATTGTTCATTGTATCAATACAT
242527 TGTATCGATACATTGTTCATTGTATCAATACAT
1 TGTATCGATACATTGTTCATTGTATCAATACAT
*
242560 TGTATCAATACA
1 TGTATCGATACA
242572 GTGTATCGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGTTCATTGTATCAATACAT
Found at i:242608 original size:29 final size:29
Alignment explanation
Indices: 242573--242644 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
242563 ATCAATACAG
242573 TGTATCGATACATTCTGGGTTTACCAAGA
1 TGTATCGATACATTCTGGGTTTACCAAGA
*
242602 TGTATCGATACATTCTGGGTTTACCCAGA
1 TGTATCGATACATTCTGGGTTTACCAAGA
242631 TGTATCGATACATT
1 TGTATCGATACATT
242645 TAGGAATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (29 bp):
TGTATCGATACATTCTGGGTTTACCAAGA
Found at i:245139 original size:28 final size:28
Alignment explanation
Indices: 245100--245171 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
245090 TTTTTTCATA
245100 ATCGAGGG-TACTCCAACCCCGTTATTTC
1 ATCG-GGGATACTCCAACCCCGTTATTTC
* * *
245128 ATCGGGGATACTCCAATCCTGTTTTTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
245156 -CCAGGGGATACTCCAA
1 ATC-GGGGATACTCCAA
245172 TCCTAGCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 4 0.11
28 34 0.89
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:245218 original size:108 final size:106
Alignment explanation
Indices: 244997--245341 Score: 413
Period size: 108 Copynumber: 3.2 Consensus size: 106
244987 CAATTAGGGA
* * * * * * * **
244997 TACTCTAACCCCATTATTTCATCAGGGATACTCTAATCCCGTTTTTCTTCGAGAGGAAACTTTTT
1 TACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCCG-TTTT-TTCCAGGGGATAC--TCC
* *
245062 AACCCCGGCTTTATATCTAAAATATTGATTTTTTCATAATCGAGGG
62 AA-CCCTGCTTTATATCTAAAATATTGATTTTTTCATAATCGGGGG
* *
245108 TACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCTGTTTTTTCCCAGGGGATACTCCAAT
1 TACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCCGTTTTTT-CCAGGGGATACTCCAAC
245173 CCTAGCTTTATATCTAAAATATTGATTTTTTCATAATCGGGGG
65 CCT-GCTTTATATCTAAAATATTGATTTTTTCATAATCGGGGG
* * *
245216 TACTCGAACCCCGTTATGTCATCGGGGATACTCCAATCCCGTTTTTTCGAGGGGATACTCCAACC
1 TACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCCGTTTTTTCCAGGGGATACTCCAACC
* * ** * *
245281 CTGATTTTATGTCTAAAATACCGA-TTTTCCATAATCGGGGA
66 CTG-CTTTATATCTAAAATATTGATTTTTTCATAATCGGGGG
245322 TACTCCAACCCCGTTATTTC
1 TACTCCAACCCCGTTATTTC
245342 TGAGGGGATA
Statistics
Matches: 205, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
106 34 0.17
107 36 0.18
108 85 0.41
109 2 0.01
110 12 0.06
111 36 0.18
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (106 bp):
TACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCCGTTTTTTCCAGGGGATACTCCAACC
CTGCTTTATATCTAAAATATTGATTTTTTCATAATCGGGGG
Found at i:245367 original size:79 final size:79
Alignment explanation
Indices: 245236--245562 Score: 440
Period size: 79 Copynumber: 4.2 Consensus size: 79
245226 CCGTTATGTC
* * * * *
245236 ATCGGGGATACTCCAATCCCGTTTTTTC-GAGGGGATACTCCAACCCTGATTTTATGTCTAAAAT
1 ATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT
245300 ACCGATTTTCCATA
66 ACCGATTTTCCATA
* **
245314 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTTTAACCCCGATTTTATTTCTAAAAT
1 ATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT
* * *
245379 ATCGATTTTTCACA
66 ACCGATTTTCCATA
* * * * *
245393 ATCGAGGATACTCTAACCCCGTTATTTTTGAGGGGGTACTCCAACCTCAATTTTATTTCTAAAAT
1 ATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT
* *
245458 ACCAAATTTCCATA
66 ACCGATTTTCCATA
* * * *
245472 ATCGAGAATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAAT
1 ATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT
*
245537 ACTGATTTTCCATA
66 ACCGATTTTCCATA
245551 ATCGAGGATACT
1 ATCGAGGATACT
245563 TCAGCCCCAT
Statistics
Matches: 213, Mismatches: 35, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
78 26 0.12
79 187 0.88
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
ATCGAGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT
ACCGATTTTCCATA
Found at i:258961 original size:39 final size:39
Alignment explanation
Indices: 258902--259006 Score: 183
Period size: 39 Copynumber: 2.7 Consensus size: 39
258892 GTTGGTGGCA
*
258902 CCTTCTAGTCCTCAAAGAGCAAGACGCTCTCTCCTTTCAC
1 CCTT-TAGTCCTCAAAGAGCAAGACACTCTCTCCTTTCAC
258942 CCTTTAGTCCTCAAAGAGCAAGACACTCTCTCCTTTCAC
1 CCTTTAGTCCTCAAAGAGCAAGACACTCTCTCCTTTCAC
*
258981 CCTTTAGTCCACAAAGAGCAAGACAC
1 CCTTTAGTCCTCAAAGAGCAAGACAC
259007 CTTTCAAAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 59 0.94
40 4 0.06
ACGTcount: A:0.28, C:0.35, G:0.12, T:0.25
Consensus pattern (39 bp):
CCTTTAGTCCTCAAAGAGCAAGACACTCTCTCCTTTCAC
Found at i:259065 original size:55 final size:54
Alignment explanation
Indices: 258986--259287 Score: 327
Period size: 55 Copynumber: 5.4 Consensus size: 54
258976 TTCACCCTTT
* * * *
258986 AGTCCACAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TC
1 AGTCCTCAAAGAGCAGGACGCCTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCC
* *
259041 AGTCCTCAAAAAGCAGGACGCCTTTTAAAGCCTACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTAAAGCCCACACAAGTTGGTGGCACTTCCC
* * *
259096 AGTCCTCAAAGAGTAGGATGCCTCTTAAAACCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCT-TTAAAGCCCACACAAGTTGGTGGCACTTCCC
* *
259151 AGTCCTCAAAGAGTAGGACGCCTCTTAAAGCCAACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCT-TTAAAGCCCACACAAGTTGGTGGCACTTCCC
* * * * * *
259206 AGTCCTTAAAGAGTAGGATGCCTTCGCCTTTTAAAGCCTATACAAGTTAGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGA------CGCC-TTTAAAGCCCACACAAGTTGGTGGCACTTCCC
*
259267 AGTCCTCAAAAAGCAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
259288 TCTCTCCTTT
Statistics
Matches: 215, Mismatches: 22, Indels: 20
0.84 0.09 0.08
Matches are distributed among these distances:
54 4 0.02
55 161 0.75
56 3 0.01
61 46 0.21
62 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACGCCTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
Found at i:259179 original size:110 final size:113
Alignment explanation
Indices: 259006--259292 Score: 384
Period size: 110 Copynumber: 2.5 Consensus size: 113
258996 GAGCAAGACA
* * *
259006 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAAAGCAGGACGCCTTTTAAA
1 CCTTT-AAAACCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAAAGCAGGACGCCTCTTAAA
*
259070 GCCTACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCC-T
64 GCCAACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTT
* *
259119 -C-TTAAAACCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACGCCTCTTAAAGC
1 CCTTTAAAACCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGCCTCTTAAAGC
*
259182 CAACACAAGTTGGTGGCACTTCCCAGTCCTTAAAGAGTAGGATGCCTT
66 CAACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTT
* * * * *
259230 CGCCTTTTAAAGCCTATACAAGTTAGTGGCACTTCCTAGTCCTCAAAAAGCAGGACGCTCTCT
1 --CC-TTTAAAACCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGC-CTCT
259293 CCTTTCGTCT
Statistics
Matches: 152, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
109 3 0.02
110 95 0.62
111 3 0.02
112 1 0.01
114 1 0.01
116 45 0.30
117 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (113 bp):
CCTTTAAAACCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAAAGCAGGACGCCTCTTAAAGC
CAACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTT
Found at i:259534 original size:61 final size:62
Alignment explanation
Indices: 259301--259579 Score: 297
Period size: 61 Copynumber: 4.6 Consensus size: 62
259291 CTCCTTTCGT
* ** * * *
259301 CTTTTAGTCCTCAAAGAGTTGGACACCTTTTCCTTTT-AAAG-CTCGCACAAGCTGGTGGCAC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCT-ACACAAGTTGGTGGCAC
* * *
259362 C-TTCAATCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCTACACAAGTTGATGGCAC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCTACACAAGTTGGTGGCAC
* * *
259422 TTTTCAGTCCTC-AA-AGCAGGATG-CTTTT-TTTTTGCAAAGCCTACACAAGTTGGTGGCAC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-CAAAGCCTACACAAGTTGGTGGCAC
* * *
259481 CTTCCAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCAACACGAGTTGGTGGCAC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCTACACAAGTTGGTGGCAC
* * * * *
259542 TTTTTAGTCTTCAAAAAGCAAGACGCCTTTTCCTTTTC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTC
259580 TCTTTTGTCT
Statistics
Matches: 185, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
57 4 0.02
58 5 0.03
59 42 0.23
60 51 0.28
61 68 0.37
62 15 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (62 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCTACACAAGTTGGTGGCAC
Found at i:260345 original size:49 final size:50
Alignment explanation
Indices: 260232--260366 Score: 211
Period size: 49 Copynumber: 2.7 Consensus size: 50
260222 TTTCACAATT
*
260232 TGTATCGATACATTATTCATTGTATCGATACATTCTAGGGTTTTACCTAGA
1 TGTATCGATACATT-TTCATTGTATCGATACATTCTAGGGTTTTACCCAGA
260283 TGTATCGATACATTGTTCATTGTATCGATACATTCT-GGG-TTTACCCAGA
1 TGTATCGATACATT-TTCATTGTATCGATACATTCTAGGGTTTTACCCAGA
*
260332 TGTATCGATACATTTTGCAATGTATCGATACATTC
1 TGTATCGATACATTTT-CATTGTATCGATACATTC
260367 AAGCATTTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
48 2 0.03
49 40 0.50
50 3 0.04
51 35 0.44
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (50 bp):
TGTATCGATACATTTTCATTGTATCGATACATTCTAGGGTTTTACCCAGA
Found at i:262890 original size:110 final size:108
Alignment explanation
Indices: 262695--263072 Score: 442
Period size: 110 Copynumber: 3.5 Consensus size: 108
262685 CAATTGGGGA
* * * * * * **
262695 TACTCTAACCCCGTTATTTCATTGGGGATACTCTAATCTC-ATTTTTCTCCAAGGGGATACTCCA
1 TACTCCAACCCCGTTATTTCATTAGGGATACTCCAATCCCGTTTTTTTTCTGAGGGGATACTCCA
262759 ACCCCAGCTTTATATCTAAAATATTGATTTTTTCATAATCGCAGG
66 A-CCCAGCTTTATATCTAAAATATTGATTTTTTCATAATCG-AGG
* *
262804 TACTCCAACCCCATTATTTCATTAGGGATATTCCAATCCCGTTTTTTTTCTGAGGGGATACTCCA
1 TACTCCAACCCCGTTATTTCATTAGGGATACTCCAATCCCGTTTTTTTTCTGAGGGGATACTCCA
262869 ACCTCAGCTTTATATCTAAAATATTGATTTTTTCATAATCGAGGG
66 ACC-CAGCTTTATATCTAAAATATTGATTTTTTCATAATCGA-GG
* ** * *
262914 TACTCCAACCCCGTTATGTCATCGGGGATACTCCAATCCTG-TTTTTTTC-GATGGGATACTCCA
1 TACTCCAACCCCGTTATTTCATTAGGGATACTCCAATCCCGTTTTTTTTCTGAGGGGATACTCCA
* * * *
262977 ACCCCGATTTTATTTCTAAAATATTGA-TTTTTCATAATCGGAGA
66 ACCCAG-CTTTATATCTAAAATATTGATTTTTTCATAATC-GAGG
* * * *
263021 TACTCCAACCTCGTTATTTC-TGAGAGGATACTCCAACCCCGATTTTATTTCT
1 TACTCCAACCCCGTTATTTCATTAG-GGATACTCCAATCCCG-TTTTTTTTCT
263073 AAAATACTGA
Statistics
Matches: 232, Mismatches: 28, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
106 2 0.01
107 47 0.20
108 36 0.16
109 52 0.22
110 95 0.41
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (108 bp):
TACTCCAACCCCGTTATTTCATTAGGGATACTCCAATCCCGTTTTTTTTCTGAGGGGATACTCCA
ACCCAGCTTTATATCTAAAATATTGATTTTTTCATAATCGAGG
Found at i:263028 original size:79 final size:78
Alignment explanation
Indices: 262934--263272 Score: 432
Period size: 79 Copynumber: 4.3 Consensus size: 78
262924 CCGTTATGTC
* * *
262934 ATCGGGGATACTCCAATCCTGTT-TTTTTCGATGGGATACTCCAACCCCGATTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCT-GA-GGGATACTCCAACCCCGATTTTATTTCTAAAA
*
262998 TATTGATTTTTCATA
64 TACTGATTTTTCATA
* *
263013 ATCGGAGATACTCCAACCTCGTTATTTCTGAGAGGATACTCCAACCCCGATTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAG-GGATACTCCAACCCCGATTTTATTTCTAAAAT
*
263078 ACTGA-TTTTCTACA
65 ACTGATTTTTC-ATA
*
263092 ATCGGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTAATTTC-AAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCTGA-GGGATACTCCAACCCCGATTTT-ATTTCTAAAA
* *
263156 TATTAATTTTTCATA
64 TACTGATTTTTCATA
* * * *
263171 ATCGGGGATAATCCAACCCCGTTATTTCTGAAGGAATACTCCAACCCTGATTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTG-AGGGATACTCCAACCCCGATTTTATTTCTAAAAT
* *
263236 ACCGATTTTCCATA
65 ACTGATTTTTCATA
* *
263250 ATCGAGGATACTCCAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
263273 GTTATCTCCA
Statistics
Matches: 228, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
78 11 0.05
79 201 0.88
80 16 0.07
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGATACTCCAACCCCGATTTTATTTCTAAAATA
CTGATTTTTCATA
Found at i:263137 original size:158 final size:158
Alignment explanation
Indices: 262934--263272 Score: 486
Period size: 158 Copynumber: 2.1 Consensus size: 158
262924 CCGTTATGTC
* * * *
262934 ATCGGGGATACTCCAATCCTGTTTTTTTCGATGGGATACTCCAACCCCGATTTT-ATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTTTTCTCGAGGGGATACTCCAACCCCGATTTTAATTTC-AAAA
* * *
262998 TATTGATTTTTCATAATCGGAGATACTCCAACCTCGTTATTTCTGAGAGG-ATACTCCAACCCCG
65 TATTAATTTTTCATAATCGGAGATAATCCAACCCCGTTATTTCTGA-AGGAATACTCCAACCCCG
* * *
263062 ATTTTATTTCTAAAATACTGATTTTCTACA
129 ATTTTATTTCCAAAATACCGATTTTCCACA
*
263092 ATCGGGGATACTCTAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGATTTTAATTTCAAAA
1 ATCGGGGATACTCCAACCCCGTT-TTTCTCGAGGGGATACTCCAACCCCGATTTTAATTTCAAAA
* *
263156 TATTAATTTTTCATAATCGGGGATAATCCAACCCCGTTATTTCTGAAGGAATACTCCAACCCTGA
65 TATTAATTTTTCATAATCGGAGATAATCCAACCCCGTTATTTCTGAAGGAATACTCCAACCCCGA
*
263221 TTTTATTTCCAAAATACCGATTTTCCATA
130 TTTTATTTCCAAAATACCGATTTTCCACA
* *
263250 ATCGAGGATACTCCAGCCCCGTT
1 ATCGGGGATACTCCAACCCCGTT
263273 GTTATCTCCA
Statistics
Matches: 161, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
157 3 0.02
158 149 0.93
159 9 0.06
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (158 bp):
ATCGGGGATACTCCAACCCCGTTTTTCTCGAGGGGATACTCCAACCCCGATTTTAATTTCAAAAT
ATTAATTTTTCATAATCGGAGATAATCCAACCCCGTTATTTCTGAAGGAATACTCCAACCCCGAT
TTTATTTCCAAAATACCGATTTTCCACA
Found at i:266187 original size:17 final size:18
Alignment explanation
Indices: 266152--266195 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
266142 AAAAGCTTAG
* *
266152 AAAGAAAAAGAGAGCAAA
1 AAAGAAAAAAAAAGCAAA
266170 AAAGAAAAAAAAAG-AAA
1 AAAGAAAAAAAAAGCAAA
266187 AAAGAAAAA
1 AAAGAAAAA
266196 GCCAGCAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAGCAAA
Found at i:276174 original size:52 final size:51
Alignment explanation
Indices: 276091--276195 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 51
276081 CAGTTAGTGG
* * *
276091 CATCATCTTTAAGTCTAATGTCATTAGCCTTGAA-TCAGCACATTAGCATGCA
1 CATCATCTTTAAATCCAATGTCACTAGCCTTGAAGT-AGCACATTAGCAT-CA
* *
276143 CATCATCTTTAAATCCAATGTTACT-GCCCTTGAAGTAGCACATTGGCATCA
1 CATCATCTTTAAATCCAATGTCACTAG-CCTTGAAGTAGCACATTAGCATCA
276194 CA
1 CA
276196 GCCTCACCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
51 5 0.11
52 40 0.87
53 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.31
Consensus pattern (51 bp):
CATCATCTTTAAATCCAATGTCACTAGCCTTGAAGTAGCACATTAGCATCA
Found at i:276944 original size:11 final size:10
Alignment explanation
Indices: 276920--276955 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
276910 AATGTATCAC
276920 TTTTTTCAAA
1 TTTTTTCAAA
276930 TTTTTTCAAA
1 TTTTTTCAAA
*
276940 TTTTTTAAACA
1 TTTTTTCAA-A
276951 TTTTT
1 TTTTT
276956 CCTAAAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTCAAA
Found at i:290378 original size:28 final size:29
Alignment explanation
Indices: 290345--290409 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
290335 TGCCATCATA
* *
290345 ACATCAAT-AACATATG-CATCATGTATTC
1 ACATCAATCAACATATGTCATCAT-AACTC
*
290373 ACATC-ATCAGCATATGTCATCATAACTC
1 ACATCAATCAACATATGTCATCATAACTC
290401 ACATCAATC
1 ACATCAATC
290410 CCAGTGGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.06
28 20 0.65
29 9 0.29
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.29
Consensus pattern (29 bp):
ACATCAATCAACATATGTCATCATAACTC
Found at i:290558 original size:33 final size:31
Alignment explanation
Indices: 290477--290581 Score: 95
Period size: 33 Copynumber: 3.3 Consensus size: 31
290467 CACCCTTCCT
* *
290477 AAAGTCTACGACTGAGTGGCATC-TCTTCTC
1 AAAGTCCACGACTGAGTGGCATCTTTTTCTC
* * *
290507 CAAGTCCACAACTCAGTGGCATCCTTTTTCTTC
1 AAAGTCCACGACTGAGTGGCAT-CTTTTTC-TC
* *
290540 AAAGTCCATGACTGAGTGGTATTCTTTTTCATC
1 AAAGTCCACGACTGAGTGGCA-TCTTTTTC-TC
*
290573 AAAGCCCAC
1 AAAGTCCAC
290582 ACAAGTTGGT
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
30 18 0.31
31 1 0.02
32 4 0.07
33 34 0.59
34 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (31 bp):
AAAGTCCACGACTGAGTGGCATCTTTTTCTC
Found at i:290658 original size:32 final size:31
Alignment explanation
Indices: 290617--290688 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
290607 TTTTCCTCTT
* *
290617 AAAGCCCACACAAGCCGGTAGCAACCATTCTC
1 AAAGCCCACACAAGCTGGTGGCAACC-TTCTC
* * *
290649 AAAGCCCACACAAGCTAGTGGTAACCCTTTTC
1 AAAGCCCACACAAGCTGGTGGCAA-CCTTCTC
290681 AAAGCCCA
1 AAAGCCCA
290689 TAGTGGCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 32 0.94
33 2 0.06
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (31 bp):
AAAGCCCACACAAGCTGGTGGCAACCTTCTC
Found at i:290747 original size:32 final size:31
Alignment explanation
Indices: 290710--291019 Score: 399
Period size: 32 Copynumber: 9.8 Consensus size: 31
290700 CTTTTCTAAG
** *
290710 CTCAAAGCCCACACAAGCCGGTGGTAACCCTT
1 CTCAAAGCCCACACAAGTTGGTGGCAA-CCTT
* * *
290742 TTCAAAGCCCACACAAGTCGGTGGTAACCTT
1 CTCAAAGCCCACACAAGTTGGTGGCAACCTT
*
290773 -TCTAAAGCCCACACAAGCTGGTGGCAACCCTT
1 CTC-AAAGCCCACACAAGTTGGTGGCAA-CCTT
*** *
290805 CTCAAAGCCCACACAAGCCAGTGGCAATTCTT
1 CTCAAAGCCCACACAAGTTGGTGGCAA-CCTT
290837 CTCAAAGCCCACACAAGTTGGTGGCAACCTT
1 CTCAAAGCCCACACAAGTTGGTGGCAACCTT
*
290868 CTCAAAGTCCACACAAGTTGGTGGCAACCTT
1 CTCAAAGCCCACACAAGTTGGTGGCAACCTT
*
290899 CTCAAAAG-CCACATAAGTTGGTGGCAACCTT
1 CTC-AAAGCCCACACAAGTTGGTGGCAACCTT
*
290930 CTCAAAGCCCACACAAGTTAGTGGCAACCTT
1 CTCAAAGCCCACACAAGTTGGTGGCAACCTT
* *
290961 CTCAAAAGCCCACACAAGTTAGTGGTAACCTT
1 CTC-AAAGCCCACACAAGTTGGTGGCAACCTT
290993 CTCAAAAGCCCACACAAGTTGGTGGCA
1 CTC-AAAGCCCACACAAGTTGGTGGCA
291020 TCCCCTTCCA
Statistics
Matches: 252, Mismatches: 20, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
30 6 0.02
31 110 0.44
32 134 0.53
33 2 0.01
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (31 bp):
CTCAAAGCCCACACAAGTTGGTGGCAACCTT
Found at i:291045 original size:157 final size:157
Alignment explanation
Indices: 290710--291019 Score: 414
Period size: 157 Copynumber: 2.0 Consensus size: 157
290700 CTTTTCTAAG
** * * *
290710 CTCAAAGCCCACACAAGCCGGTGGTAACCCTTTTC-AAAGCCCACACAAGTCGGTGGTAACCTTT
1 CTCAAAG-CCACACAAGTTGGTGGCAA-CCTTCTCAAAAGCCCACACAAGTCGGTGGCAACCTTT
* *
290774 CTAAAGCCCACACAAGCTGGTGGCAACCCTTCTCAAAGCCCACACAAGCCAGTGGCAATTCTTCT
64 CTAAAGCCCACACAAGCTAGTGGCAACCCTTCTCAAAGCCCACACAAGCCAGTGGCAATCCTTCT
290839 CAAAGCCCACACAAGTTGGTGGCAACCTT
129 CAAAGCCCACACAAGTTGGTGGCAACCTT
* *
290868 CTCAAAGTCCACACAAGTTGGTGGCAACCTTCTCAAAAG-CCACATAAGTTGGTGGCAACC-TTC
1 CTCAAAG-CCACACAAGTTGGTGGCAACCTTCTCAAAAGCCCACACAAGTCGGTGGCAACCTTTC
* ** *
290931 TCAAAGCCCACACAAGTTAGTGGCAA-CCTTCTCAAAAGCCCACACAAGTTAGTGGTAA-CCTTC
65 T-AAAGCCCACACAAGCTAGTGGCAACCCTTCTC-AAAGCCCACACAAGCCAGTGGCAATCCTTC
290994 TCAAAAGCCCACACAAGTTGGTGGCA
128 TC-AAAGCCCACACAAGTTGGTGGCA
291020 TCCCCTTCCA
Statistics
Matches: 134, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
156 17 0.13
157 90 0.67
158 27 0.20
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (157 bp):
CTCAAAGCCACACAAGTTGGTGGCAACCTTCTCAAAAGCCCACACAAGTCGGTGGCAACCTTTCT
AAAGCCCACACAAGCTAGTGGCAACCCTTCTCAAAGCCCACACAAGCCAGTGGCAATCCTTCTCA
AAGCCCACACAAGTTGGTGGCAACCTT
Found at i:291172 original size:52 final size:52
Alignment explanation
Indices: 291101--291871 Score: 430
Period size: 52 Copynumber: 14.5 Consensus size: 52
291091 CCATTATCAT
** * * *
291101 TGGCCTTGAATCAATATATTGGCACCTTTACCATTTTTAAGCCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCCAATGTCGC
* *
291153 TGGCCTTGAATCAGCATATTAGCATTCTTCTAATCCTTATCATCTTTAAGTCCAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCA--C--C---T--TTATCATTTTTAAGTCCAATGTCGC
* * ** * *
291214 TAGCCTTGAATCAGCACATTGGCGA-CTTT-T--TTTCTTAAACCCAATATCGG
1 TGGCCTTGAATCAGCATATTGGC-ACCTTTATCATTT-TTAAGTCCAATGTCGC
* * * *
291264 TGGTCATGAATTAGCATATTGGCATTCTTCCCATCCTTATCATCTTTAAGTCCAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCA------CC-T--TTATCATTTTTAAGTCCAATGTCGC
* * ** ** * * *
291325 TAGCCTTGAATCAGCACATTGGCGGCTTT-T--TTTCTTAAACCCGATATCGG
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCATTT-TTAAGTCCAATGTCGC
* * ** * * * *
291375 TGGTCGTGAATCAGCATATTGGCATTTTTGTCATCTTTAAGTCCAATATCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCCAATGTCGC
* * * * * *
291427 TGGCCTTAAATCAGCATATTGGCACCTTTGTAATTTTTAAGTTCGATATCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCCAATGTCGC
* * ** * *
291479 TGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCCAATGTCGC
* * * * * * * *
291531 TGACCTTGAATTAGCACATTGGCA-TTCTTCTCATCTTCAAGTCCAATGTCAC
1 TGGCCTTGAATCAGCATATTGGCACCT-TTATCATTTTTAAGTCCAATGTCGC
* * * * *
291583 TAGCCTTAAATCAGCACATTGGCACCTTTATCATGTTTAAGTCCAATGTTGC
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCCAATGTCGC
* * * * *
291635 TAGCCTTGAATCAGCACATTGGCA-TTCTTATCATTTTTATGTCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCT-TTATCATTTTTAAGTCCAATGTCGC
* * * * * ** *
291687 TGACCTTGAATTAGCACATTGGCACCTTTGTCATCTTTAAGTCTGATATCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCCAATGTCGC
** * *
291739 TGGTTTTGAATCAGCATATTGACACTTCTATTATCATGTTTAAGTCCAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCAC--CT-TTATCATTTTTAAGTCCAATGTCGC
* * * * * * * * **
291794 TAGTCTTGAATCAGCACATTAGCA-TTCTTCTCATCTTCAAGTCCAATGTCAT
1 TGGCCTTGAATCAGCATATTGGCACCT-TTATCATTTTTAAGTCCAATGTCGC
*
291846 TAGCCTTGAATCAGC-TCATTGGCACC
1 TGGCCTTGAATCAGCAT-ATTGGCACC
291872 CTTCTCATCC
Statistics
Matches: 543, Mismatches: 139, Indels: 73
0.72 0.18 0.10
Matches are distributed among these distances:
49 5 0.01
50 63 0.12
51 5 0.01
52 339 0.62
53 4 0.01
54 5 0.01
55 40 0.07
56 2 0.00
57 2 0.00
59 3 0.01
60 1 0.00
61 71 0.13
62 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (52 bp):
TGGCCTTGAATCAGCATATTGGCACCTTTATCATTTTTAAGTCCAATGTCGC
Found at i:291281 original size:111 final size:111
Alignment explanation
Indices: 291159--291400 Score: 421
Period size: 111 Copynumber: 2.2 Consensus size: 111
291149 TCGTTGGCCT
* *
291159 TGAATCAGCATATTAGCATTCTTCTAATCCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAA
1 TGAATCAGCATATTGGCATTCTTCCAATCCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAA
291224 TCAGCACATTGGCGACTTTTTTTCTTAAACCCAATATCGGTGGTCA
66 TCAGCACATTGGCGACTTTTTTTCTTAAACCCAATATCGGTGGTCA
* *
291270 TGAATTAGCATATTGGCATTCTTCCCATCCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAA
1 TGAATCAGCATATTGGCATTCTTCCAATCCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAA
* * *
291335 TCAGCACATTGGCGGCTTTTTTTCTTAAACCCGATATCGGTGGTCG
66 TCAGCACATTGGCGACTTTTTTTCTTAAACCCAATATCGGTGGTCA
291381 TGAATCAGCATATTGGCATT
1 TGAATCAGCATATTGGCATT
291401 TTTGTCATCT
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 123 1.00
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (111 bp):
TGAATCAGCATATTGGCATTCTTCCAATCCTTATCATCTTTAAGTCCAATGTCGCTAGCCTTGAA
TCAGCACATTGGCGACTTTTTTTCTTAAACCCAATATCGGTGGTCA
Found at i:291589 original size:156 final size:156
Alignment explanation
Indices: 291308--291880 Score: 474
Period size: 156 Copynumber: 3.7 Consensus size: 156
291298 CCTTATCATC
* ** *** * * * *
291308 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGC-GGCTT-TTTTTCTTAAACCCGATA
1 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTCTTAACATTCCTAAGCCCAATG
* ** * * * * * * ** *
291371 TCGGTGGTCGTGAATCAGCATATTGGCATTTTTGTCATCTTTAAGTCCAATATCGTTGGCCTTAA
66 TCGTTGACCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCCAATATCACTAGCCTTAA
* * *
291436 ATCAGCATATTGGCACCTTTGTAATT
131 ATCAGCACATTGGCACCTTTATAATG
* * * *
291462 TTTAAGTTCGATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTTAACATTCCTAAGCCCAAT
1 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTC-TTAACATTCCTAAGCCCAAT
*
291526 GTCGTTGACCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCCAATGTCACTAGCCTTA
65 GTCGTTGACCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCCAATATCACTAGCCTTA
*
291591 AATCAGCACATTGGCACCTTTATCATG
130 AATCAGCACATTGGCACCTTTATAATG
* * * ** * *
291618 TTTAAGTCCAATGTTGCTAGCCTTGAATCAGCACATTGGCATTCTTATCATTTTTATGTCCAATG
1 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTCTTAACATTCCTAAGCCCAATG
* * * ** * * ** *
291683 TCGTTGACCTTGAATTAGCACATTGGCA-CCTTTGTCATCTTTAAGTCTGATATCGCTGGTTTTG
66 TCGTTGACCTTGAATTAGCACATTGGCATTC-TTCTCATCTTCAAGTCCAATATCACTAGCCTTA
* * *
291747 AATCAGCATATTGACACTTCTATTATCATG
130 AATCAGCACATTGGCAC--CT-TTATAATG
* * * ** * *
291777 TTTAAGTCCAATGTCGCTAGTCTTGAATCAGCACATTAGCATTCTTCTCA-TCTTCAAGTCCAAT
1 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTCTTAACATTCCT-AAGCCCAAT
* * * **
291841 GTCATT-AGCCTTGAATCAGCTCATTGGCACCCTTCTCATC
65 GTCGTTGA-CCTTGAATTAGCACATTGGCATTCTTCTCATC
291881 CTTATCATGC
Statistics
Matches: 344, Mismatches: 64, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
154 36 0.10
155 3 0.01
156 202 0.59
157 2 0.01
158 6 0.02
159 93 0.27
160 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (156 bp):
TTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCATTCTTAACATTCCTAAGCCCAATG
TCGTTGACCTTGAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCCAATATCACTAGCCTTAA
ATCAGCACATTGGCACCTTTATAATG
Found at i:293215 original size:33 final size:33
Alignment explanation
Indices: 293173--293235 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
293163 TAAAGCAATG
* *
293173 TATCGATACAATTCACCATGCATCGATACATTA
1 TATCGATACAATACACCATGCATCAATACATTA
*
293206 TATCGATACAATACACCATGTATCAATACA
1 TATCGATACAATACACCATGCATCAATACA
293236 AACAGTGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.29
Consensus pattern (33 bp):
TATCGATACAATACACCATGCATCAATACATTA
Found at i:293309 original size:19 final size:20
Alignment explanation
Indices: 293265--293310 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
293255 CTGCCAATTT
**
293265 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
293285 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
293304 CATGTAT
1 CATGTAT
293311 TAATACATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:298350 original size:24 final size:23
Alignment explanation
Indices: 298322--298375 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
298312 CGTTTATGTC
298322 GATTTTTTTCA-TAAAAAATTTATT
1 GATTTTTTT-ATTAAAAAA-TTATT
**
298346 GATTTTTTTATTTCAAAATTATT
1 GATTTTTTTATTAAAAAATTATT
298369 GATTTTT
1 GATTTTT
298376 CAACATCGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (23 bp):
GATTTTTTTATTAAAAAATTATT
Found at i:298577 original size:81 final size:80
Alignment explanation
Indices: 298351--298720 Score: 312
Period size: 81 Copynumber: 4.6 Consensus size: 80
298341 TTATTGATTT
* * * **
298351 TTTTATTT-CAAAATTATTGA--TTTTTCAACATCGGGGATACTCCAA-CCTGTTATTTCTAAGG
1 TTTTATTTCCAAAA-TATCGATTTTTTTCACCATC-AGGATACTCCAACCCCATTATTTCTAAGG
* * *
298412 GGATACTCCAAGCTTGG
64 AGATACTCCAACCTTGA
* * ** *
298429 TTTTATTTCCAAAATATTGA--TTTTTCACCATCACGGATACTCTAACCCTGTTATTTTTAAGGA
1 TTTTATTTCCAAAATATCGATTTTTTTCACCATCA-GGATACTCCAACCCCATTATTTCTAAGGA
298492 GATACTCCAACCTTGA
65 GATACTCCAACCTTGA
** * *
298508 TTTTATTTTGAAAATATCGATTTTTTTCACCAACAGGAATACCCCAACCCCATTATTTCTAAGGA
1 TTTTATTTCCAAAATATCGATTTTTTTCACCATCAGG-ATACTCCAACCCCATTATTTCTAAGGA
* **
298573 GATACTCTAACC-CCA
65 GATACTCCAACCTTGA
*** * *
298588 GTTTTATTTCCAAAATATC-AAAATTTTAACCATCGAGGATACTCCAACCCCATTATTT-TCGAG
1 -TTTTATTTCCAAAATATCGATTTTTTTCACCATC-AGGATACTCCAACCCCATTATTTCT-AAG
*
298651 G-GTATACTCCAACCCTGA
63 GAG-ATACTCCAACCTTGA
* *
298669 TTTTATTTCCAAAATATTGATTCCTTTTT-AACATCGAGGATACTCCAACCCC
1 TTTTATTTCCAAAATATCGATT--TTTTTCACCATC-AGGATACTCCAACCCC
298721 GGTTTTATTT
Statistics
Matches: 242, Mismatches: 36, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
78 35 0.14
79 53 0.22
80 62 0.26
81 66 0.27
82 22 0.09
83 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (80 bp):
TTTTATTTCCAAAATATCGATTTTTTTCACCATCAGGATACTCCAACCCCATTATTTCTAAGGAG
ATACTCCAACCTTGA
Found at i:298676 original size:161 final size:160
Alignment explanation
Indices: 298400--298690 Score: 370
Period size: 161 Copynumber: 1.8 Consensus size: 160
298390 CTCCAACCTG
* * *** ** * *
298400 TTATTTCTAAGGGGATACTCCAAGCTTGGTTTTATTTCCAAAATATTGATTTTTCACCATCACGG
1 TTATTTCTAAGGAGATACTCCAACCCCAGTTTTATTTCCAAAATATAAAATTTTAACCATCACGG
* ** * * **
298465 ATACTCTAACCCTGTTATTTTTAAGGAGATACTCCAACCTTGATTTTATTTTGAAAATATCGATT
66 ATACTCCAACCCCATTATTTTCAAGGAGATACTCCAACCCTGATTTTATTTCCAAAATATCGATT
298530 TTTTTCACCAACAGGAATACCCCAACCCCA
131 TTTTTCACCAACAGGAATACCCCAACCCCA
*
298560 TTATTTCTAAGGAGATACTCTAACCCCAGTTTTATTTCCAAAATATCAAAATTTTAACCATCGA-
1 TTATTTCTAAGGAGATACTCCAACCCCAGTTTTATTTCCAAAATAT-AAAATTTTAACCATC-AC
* *
298624 GGATACTCCAACCCCATTATTTTCGAGG-GTATACTCCAACCCTGATTTTATTTCCAAAATATTG
64 GGATACTCCAACCCCATTATTTTCAAGGAG-ATACTCCAACCCTGATTTTATTTCCAAAATATCG
298688 ATT
128 ATT
298691 CCTTTTTAAC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
160 41 0.38
161 67 0.61
162 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (160 bp):
TTATTTCTAAGGAGATACTCCAACCCCAGTTTTATTTCCAAAATATAAAATTTTAACCATCACGG
ATACTCCAACCCCATTATTTTCAAGGAGATACTCCAACCCTGATTTTATTTCCAAAATATCGATT
TTTTTCACCAACAGGAATACCCCAACCCCA
Found at i:298808 original size:79 final size:79
Alignment explanation
Indices: 298706--298931 Score: 339
Period size: 79 Copynumber: 2.9 Consensus size: 79
298696 TTAACATCGA
*
298706 GGATACTCCAACCCCGGTTTTATTTCCAAAATATTGATTTTTCACCATCAGGGATACTCCAA-CC
1 GGATACTCCAACCCTGGTTTTATTTCCAAAATATTGATTTTTCACCATCAGGGATACTCCAACCC
*
298770 TCGTTATTTCTGAGG
66 T-GTCATTTCTGAGG
* * * *
298785 GGATACTCCAACCCTGATTTTATTTCCAAAATATTGATTTTTCACCATCAAGGATACTCTAGCCC
1 GGATACTCCAACCCTGGTTTTATTTCCAAAATATTGATTTTTCACCATCAGGGATACTCCAACCC
*
298850 TGTCATTTTTGAGG
66 TGTCATTTCTGAGG
* *
298864 GGATACTCCAA-CCTCGGCTTTATTTCCAAAATATTGATTTCTCACCATCAGGGATACTCCAACC
1 GGATACTCCAACCCT-GGTTTTATTTCCAAAATATTGATTTTTCACCATCAGGGATACTCCAACC
298928 CTGT
65 CTGT
298932 ACTCTAAGGG
Statistics
Matches: 132, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
78 3 0.02
79 126 0.95
80 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCTGGTTTTATTTCCAAAATATTGATTTTTCACCATCAGGGATACTCCAACCC
TGTCATTTCTGAGG
Found at i:298812 original size:133 final size:134
Alignment explanation
Indices: 298573--298823 Score: 382
Period size: 133 Copynumber: 1.9 Consensus size: 134
298563 TTTCTAAGGA
*
298573 GATACTCTAACCCCAGTTTTATTTCCAAAATATCAAAATTTTAACCATCGAGGATACTCCAACCC
1 GATACTCCAACCCCAGTTTTATTTCCAAAATATCAAAATTTTAACCATCGAGGATACTCCAACCC
*
298638 CATTATTTTCGAGGGTATACTCCAACCCTGATTTTATTTCCAAAATATTGATTCCTTTTTAACAT
66 CATTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAATATTGATTCCTTTTTAACAT
298703 CGAG
131 CGAG
* ** * *
298707 GATACTCCAACCCCGGTTTTATTTCCAAAATAT-TGATTTTTCACCATC-AGGGATACTCCAACC
1 GATACTCCAACCCCAGTTTTATTTCCAAAATATCAAAATTTTAACCATCGA-GGATACTCCAACC
* *
298770 TCGTTA-TTTCTGAGGGGATACTCCAACCCTGATTTTATTTCCAAAATATTGATT
65 CCATTATTTTC-GAGGGGATACTCCAACCCTGATTTTATTTCCAAAATATTGATT
298824 TTTCACCATC
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
132 5 0.05
133 70 0.66
134 31 0.29
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (134 bp):
GATACTCCAACCCCAGTTTTATTTCCAAAATATCAAAATTTTAACCATCGAGGATACTCCAACCC
CATTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAATATTGATTCCTTTTTAACAT
CGAG
Found at i:305628 original size:28 final size:29
Alignment explanation
Indices: 305573--305637 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 29
305563 CACGTAGAGC
305573 TTTAATTAACTATTTTCATAATAAAATTT
1 TTTAATTAACTATTTTCATAATAAAATTT
305602 TTTAATTAAGCT-TTTT-ATACAT-AAATTT
1 TTTAATTAA-CTATTTTCATA-ATAAAATTT
305630 TTCTAATT
1 TT-TAATT
305638 TTCAACATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 11 0.33
29 20 0.61
30 2 0.06
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTAATTAACTATTTTCATAATAAAATTT
Found at i:305758 original size:19 final size:19
Alignment explanation
Indices: 305717--305758 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
305707 ATTTGATAAA
*
305717 TTTTACATGTAAATTATACT
1 TTTTACATATAAATTATA-T
305737 TTTTACATATAATATTAT-T
1 TTTTACATATAA-ATTATAT
305756 TTT
1 TTT
305759 CCTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTACATATAAATTATAT
Found at i:307790 original size:17 final size:18
Alignment explanation
Indices: 307754--307791 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
307744 TAGCCAAACT
307754 TGTATCGATACACAAAGTA
1 TGTATCGATA-ACAAAGTA
*
307773 TGTATCGAT-ACAATGTA
1 TGTATCGATAACAAAGTA
307790 TG
1 TG
307792 GATACACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (18 bp):
TGTATCGATAACAAAGTA
Found at i:307796 original size:32 final size:33
Alignment explanation
Indices: 307754--307817 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
307744 TAGCCAAACT
**
307754 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
307786 TGTATGGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
307818 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:311833 original size:15 final size:15
Alignment explanation
Indices: 311813--311843 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
311803 TAAAAATGTC
*
311813 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
311828 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
311843 C
1 C
311844 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:313926 original size:20 final size:20
Alignment explanation
Indices: 313857--313933 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
313847 ATGTCCAAAA
* *
313857 TGTATCGATACATGTTTCTG
1 TGTATCGATACATTTTTCTT
* *
313877 TGTATCGATACATCTAGAAATTCAT
1 TGTATCGATACAT-T----TTTCTT
313902 TGTATCGATACATTTTTCTT
1 TGTATCGATACATTTTTCTT
313922 TGTATCGATACA
1 TGTATCGATACA
313934 GGGGGATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 29 0.63
24 1 0.02
25 16 0.35
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTTTCTT
Found at i:314097 original size:20 final size:19
Alignment explanation
Indices: 314056--314098 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
314046 ATCTTTTACA
314056 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
314076 AAATCACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
314096 AAA
1 AAA
314099 ACCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:316418 original size:20 final size:21
Alignment explanation
Indices: 316395--316449 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
316385 ACAATTCAAA
* *
316395 GTATCGATACATGTTACA-AT
1 GTATCGATACATGTAAAAGAT
*
316415 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAAAAGAT
316436 GTATCGATACATGT
1 GTATCGATACATGT
316450 CATTGGGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (21 bp):
GTATCGATACATGTAAAAGAT
Found at i:316503 original size:19 final size:17
Alignment explanation
Indices: 316479--316542 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 17
316469 TAGCCAAACT
316479 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAA--A
316498 TGTATCGAT----AAAA
1 TGTATCGATACACAAAA
316511 TGTATCGATACACAAAAAA
1 TGTATCGATACAC--AAAA
316530 TTGTATCGATACA
1 -TGTATCGATACA
316543 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
15 3 0.08
19 13 0.34
20 12 0.32
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (17 bp):
TGTATCGATACACAAAA
Found at i:316520 original size:32 final size:33
Alignment explanation
Indices: 316479--316540 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
316469 TAGCCAAACT
**
316479 TGTATCGATACACAAAGTA-TGTATCGATAAAA
1 TGTATCGATACACAAAAAATTGTATCGATAAAA
316511 TGTATCGATACACAAAAAATTGTATCGATA
1 TGTATCGATACACAAAAAATTGTATCGATA
316541 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATAAAA
Found at i:317797 original size:130 final size:130
Alignment explanation
Indices: 317632--318037 Score: 356
Period size: 130 Copynumber: 3.1 Consensus size: 130
317622 GTGAAAATCG
* * * * * * *
317632 AGGTTAGAGCATCCCCGTGATGAAAAAATTTAATATTTTGGAAGTGATAATGGGGTTGGAGTATC
1 AGGTTAGAGTATCCTCGAGATG-AAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAATATC
* * * * * *
317697 CCCTCGAAAGTGATAGGATTGGAGTAACCCCAATGGTGAAAAATCGATATTTTGGAAATAAAAA-
65 CCCTCAAAAATAACAGGATTGGAGTAACCCCAATGGTGAAAAATCAATATTTTGAAAATAAAAAC
317761 T
130 T
* *
317762 GGGGTTGGAGTAAT-CTCGAGAT-AAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAATA
1 -AGGTTAGAGT-ATCCTCGAGATGAAAAA-TTTAATATTTTGGAAATAAAAATGGGGTTGGAATA
* * * * * * * *
317825 TCCTCTCAAAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAATTAATATTTTGAAAATAAAA
63 TCCCCTCAAAAATAACAGGATTGGAGTAACCCCAATGGTGAAAAATCAATATTTTGAAAATAAAA
317890 ACT
128 ACT
* **** *
317893 AGGTTAGAGTATCCCCTCGAGATGAAAAATTTAATATTTTGGTAATAAAAGCAAGGTTGGAGTAT
1 AGGTTAGAGTAT--CCTCGAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAATAT
* * * * * * *
317958 TCCCTCGAAAATAAC-GGGTTGGAGTATCCTCGAA--ATGAAAAATTTAATATTTTGAAAATAAA
64 CCCCTCAAAAATAACAGGATTGGAGTAACC-CCAATGGTGAAAAA-TCAATATTTTGAAAATAAA
*
318020 AACG
127 AACT
*
318024 AGGTTAAAGTATCC
1 AGGTTAGAGTATCC
318038 CCTCAGGAAT
Statistics
Matches: 226, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
129 9 0.04
130 98 0.43
131 60 0.27
132 54 0.24
133 5 0.02
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (130 bp):
AGGTTAGAGTATCCTCGAGATGAAAAATTTAATATTTTGGAAATAAAAATGGGGTTGGAATATCC
CCTCAAAAATAACAGGATTGGAGTAACCCCAATGGTGAAAAATCAATATTTTGAAAATAAAAACT
Found at i:317903 original size:51 final size:53
Alignment explanation
Indices: 317863--317965 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 53
317853 TCTCCGATTG
* *
317863 TGAAAAA-TTAATATTTTGAAAATAAAAACTAGGTTAGAGTATCCCCTCGAGA
1 TGAAAAATTTAATATTTTGAAAATAAAAACAAGGTTGGAGTATCCCCTCGAGA
** * *
317915 TGAAAAATTTAATATTTTGGTAATAAAAGCAAGGTTGGAGTATTCCCTCGA
1 TGAAAAATTTAATATTTTGAAAATAAAAACAAGGTTGGAGTATCCCCTCGA
317966 AAATAACGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 7 0.16
53 37 0.84
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (53 bp):
TGAAAAATTTAATATTTTGAAAATAAAAACAAGGTTGGAGTATCCCCTCGAGA
Found at i:317968 original size:26 final size:24
Alignment explanation
Indices: 317939--317992 Score: 56
Period size: 25 Copynumber: 2.1 Consensus size: 24
317929 TTTTGGTAAT
317939 AAAAGCAA-GGTTGGAGTATTCCCTCG
1 AAAA-CAACGGTTGGAGTA-T-CCTCG
*
317965 AAAATAACGGGTTGGAGTATCCTCG
1 AAAACAAC-GGTTGGAGTATCCTCG
317990 AAA
1 AAA
317993 TGAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 10 0.40
26 5 0.20
27 10 0.40
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (24 bp):
AAAACAACGGTTGGAGTATCCTCG
Found at i:318035 original size:131 final size:132
Alignment explanation
Indices: 317776--318041 Score: 362
Period size: 131 Copynumber: 2.0 Consensus size: 132
317766 TTGGAGTAAT
***
317776 CTCGAGATAAAAATTTTAATATTTTGGAAATAAAAATGGGGTTGGAATATCCTCTCAAAAATAAC
1 CTCGAGATAAAAATTTTAATATTTTGGAAATAAAAACAAGGTTGGAATATCCTCTCAAAAATAAC
** * *
317841 GGGGTTGGAGTATCTCCGATTGTGAAAAATTAATATTTTGAAAATAAAAACTAGGTTAGAGTATC
66 GGGGTTGGAGTATCTCCGATAATGAAAAATTAATATTTTGAAAATAAAAACGAGGTTAAAGTATC
317906 CC
131 CC
* * * *
317908 CTCGAGATGAAAAA-TTTAATATTTTGGTAATAAAAGCAAGGTTGGAGTATTCC-CTCGAAAATA
1 CTCGAGAT-AAAAATTTTAATATTTTGGAAATAAAAACAAGGTTGGAATA-TCCTCTCAAAAATA
317971 AC-GGGTTGGAGTATC-CTCGA-AATGAAAAATTTAATATTTTGAAAATAAAAACGAGGTTAAAG
64 ACGGGGTTGGAGTATCTC-CGATAATGAAAAA-TTAATATTTTGAAAATAAAAACGAGGTTAAAG
318033 TATCCC
127 TATCCC
318039 CTC
1 CTC
318042 AGGAATAAAG
Statistics
Matches: 119, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
130 8 0.07
131 55 0.46
132 48 0.40
133 8 0.07
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (132 bp):
CTCGAGATAAAAATTTTAATATTTTGGAAATAAAAACAAGGTTGGAATATCCTCTCAAAAATAAC
GGGGTTGGAGTATCTCCGATAATGAAAAATTAATATTTTGAAAATAAAAACGAGGTTAAAGTATC
CC
Found at i:318049 original size:78 final size:79
Alignment explanation
Indices: 317907--318083 Score: 196
Period size: 78 Copynumber: 2.2 Consensus size: 79
317897 TAGAGTATCC
* ** * ** *
317907 CCTCGAGATGAAAAATTTAATATTTTGGTAATAAAAGCAAGGTTGGAGTATTCCCTCGAAAATAA
1 CCTCGAAATGAAAAATTTAATATTTTGAAAATAAAAACAAGGTTAAAGTATCCCCTCGAAAATAA
* *
317972 CG-GGTTGGAGTAT
66 AGAGGTTGAAGTAT
* *
317985 CCTCGAAATGAAAAATTTAATATTTTGAAAATAAAAACGAGGTTAAAGTATCCCCTC-AGGAATA
1 CCTCGAAATGAAAAATTTAATATTTTGAAAATAAAAACAAGGTTAAAGTATCCCCTCGA-AAATA
318049 AAGAGGTTGAAGTAT
65 AAGAGGTTGAAGTAT
* * *
318064 CCCCTAAGATGAAAATTTTA
1 CCTCGAA-ATGAAAAATTTA
318084 GTGTTTTAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
77 1 0.01
78 55 0.67
79 15 0.18
80 11 0.13
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (79 bp):
CCTCGAAATGAAAAATTTAATATTTTGAAAATAAAAACAAGGTTAAAGTATCCCCTCGAAAATAA
AGAGGTTGAAGTAT
Found at i:318118 original size:80 final size:80
Alignment explanation
Indices: 317894--318262 Score: 247
Period size: 80 Copynumber: 4.6 Consensus size: 80
317884 ATAAAAACTA
* * * * * * * *
317894 GGTTAGAGTATCCCCTCGAGATGAAAAATTTAATATTTTGGTAA-TAAAAGCAAGGTTGGAGTAT
1 GGTTGGAGTATCCCCT-AAGATGAAAATTTTAGTGTTTTAG-AAGTAAAAAC-GGGTTGGAGTAT
* * * *
317958 TCCCTC-GAAAATAA-CG
63 CCCCTCAGGAATTAATGG
* * * * * * **
317974 GGTTGGAGTATCCTCGAA-ATGAAAAATTTAATATTTT-GAAAATAAAAACGAGGTTAAAGTATC
1 GGTTGGAGTATCCCCTAAGATGAAAATTTTAGTGTTTTAG-AAGTAAAAACG-GGTTGGAGTATC
* *
318037 CCCTCAGGAA-TAAAGA
64 CCCTCAGGAATTAATGG
* **
318053 GGTTGAAGTATCCCCTAAGATGAAAATTTTAGTGTTTTAGAAGTAAAGATGGGGTTAGG-GTATC
1 GGTTGGAGTATCCCCTAAGATGAAAATTTTAGTGTTTTAGAAGTAAA-AACGGGTT-GGAGTATC
* *
318117 CCCTC-GAAATTGATGG
64 CCCTCAGGAATTAATGG
* * * *
318133 GGTTGGAGTATCCCCTAAGAT-AATGGAA-TTCAATATTCTAGAAGTAAAAACGGGTTGGAGTAT
1 GGTTGGAGTATCCCCTAAGATGAA---AATTTTAGTGTTTTAGAAGTAAAAACGGGTTGGAGTAT
* *
318196 CACCTTA-GAATTAATGG
63 CCCCTCAGGAATTAATGG
* *
318213 GGTTGGAGTATCCCTTAAGATGAAAATTTTAGTGCTTTTGGAAGTAAAAA
1 GGTTGGAGTATCCCCTAAGATGAAAATTTTAGTG-TTTTAGAAGTAAAAA
318263 TTAAAAAATT
Statistics
Matches: 227, Mismatches: 45, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
77 3 0.01
78 44 0.19
79 30 0.13
80 127 0.56
81 21 0.09
82 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (80 bp):
GGTTGGAGTATCCCCTAAGATGAAAATTTTAGTGTTTTAGAAGTAAAAACGGGTTGGAGTATCCC
CTCAGGAATTAATGG
Found at i:320574 original size:31 final size:32
Alignment explanation
Indices: 320505--320574 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
320495 CATACATTGA
320505 AGAATGTATCGATACATTTGGGTTAAAAACCC
1 AGAATGTATCGATACATTTGGGTTAAAAACCC
* *
320537 AAAATGTATCGATACATTTGGG-TCAAAACCC
1 AGAATGTATCGATACATTTGGGTTAAAAACCC
*
320568 GGAATGT
1 AGAATGT
320575 CCTGATGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 13 0.38
32 21 0.62
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (32 bp):
AGAATGTATCGATACATTTGGGTTAAAAACCC
Found at i:324723 original size:13 final size:13
Alignment explanation
Indices: 324701--324790 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
324691 GGCAGTAGCT
*
324701 TTGTAGCGATACA
1 TTGTATCGATACA
324714 TTGTATCGATACAATA
1 TTGTATCGATAC---A
*
324730 CTTATGTATCGGTACA
1 --T-TGTATCGATACA
324746 TTGTATCGATATAACA
1 TTGTATCG--AT-ACA
324762 CTTATGTATCGATACA
1 --T-TGTATCGATACA
324778 TTGTATCGATACA
1 TTGTATCGATACA
324791 ACACTTATGT
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 30 0.48
14 2 0.03
15 1 0.02
16 8 0.13
17 2 0.03
18 2 0.03
19 17 0.27
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:324739 original size:19 final size:18
Alignment explanation
Indices: 324715--324809 Score: 75
Period size: 19 Copynumber: 5.7 Consensus size: 18
324705 AGCGATACAT
324715 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
*
324734 TGTATCGGTAC--A--T-
1 TGTATCGATACAAACTTA
*
324747 TGTATCGATATAACACTTA
1 TGTATCGATACAA-ACTTA
324766 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
324779 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
324798 TGTATCGATACA
1 TGTATCGATACA
324810 GTTAATGTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 24
0.68 0.05 0.27
Matches are distributed among these distances:
13 20 0.33
14 2 0.03
16 4 0.07
18 2 0.03
19 32 0.53
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:324751 original size:32 final size:32
Alignment explanation
Indices: 324702--324809 Score: 180
Period size: 32 Copynumber: 3.4 Consensus size: 32
324692 GCAGTAGCTT
* *
324702 TGTAGCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
* *
324734 TGTATCGGTACATTGTATCGATATAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
324766 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
324798 TGTATCGATACA
1 TGTATCGATACA
324810 GTTAATGTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:326136 original size:92 final size:92
Alignment explanation
Indices: 325901--326369 Score: 553
Period size: 92 Copynumber: 4.9 Consensus size: 92
325891 GCGAATATGT
* * * *
325901 TGATTCAAGGCTAGCGATATTAGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGATTCAAGGCCAGCGACATTGGACTT-AA-A-GACAAAGATGCCAATATGCTGATTCAAGGCCA
325966 GCGATATTGGACTTAAAGATGAAGGTGCCAATGTGC
63 GCGATATTGGACTT----A--AAGGTGCCAATGTGC
* * ** * * *
326002 TGATTCAAGGCCAGGGAAATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTCAAGGCCAGAG
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGCG
326067 ATATTGGACTTAAAGGTGCCAATGTGC
66 ATATTGGACTTAAAGGTGCCAATGTGC
* * * *
326094 TGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGTTGCCAATATGATGATTCAAGGCCAACG
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGCG
*
326159 ATATTGGACTTAAAGGTGCCAATGTGT
66 ATATTGGACTTAAAGGTGCCAATGTGC
* * * *
326186 TGATTCAAGGCCCA-CGACATTGGTCTTGAAGACAAAGATGACAATTTGCTGATTCAAGGCCAGC
1 TGATTCAAGG-CCAGCGACATTGGACTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGC
326250 GATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
65 GATATTGGACTT--A----AAGGTGCCAATGTGC
*** * *
326284 TGATTCAAGGCCAGCGACATTGGACTTAAAGGTGAAGATGCCAATGTGCTGATTCAAGGCCAGCT
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGCG
*
326349 ACATTGGACTTAAAGGTGCCA
66 ATATTGGACTTAAAGGTGCCA
326370 CGGAGTTGTG
Statistics
Matches: 326, Mismatches: 34, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
92 172 0.53
93 3 0.01
94 2 0.01
96 1 0.00
97 3 0.01
98 119 0.37
99 1 0.00
100 2 0.01
101 23 0.07
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (92 bp):
TGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGATGCCAATATGCTGATTCAAGGCCAGCG
ATATTGGACTTAAAGGTGCCAATGTGC
Found at i:326236 original size:141 final size:138
Alignment explanation
Indices: 325933--326317 Score: 472
Period size: 141 Copynumber: 2.7 Consensus size: 138
325923 GACTTAAAGA
325933 TGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 TGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
*
325998 GTGCTGATTCAAGGCCAGGGAAATTGGACTTAAAGATGAAGGTGCCAATATGTTGATTCAAGGCC
66 GTGCTGATTCAAGGCCAGCGAAATTGGACTT----A--AAGGTGCCAATATGTTGATTCAAGGCC
*
326063 AGAGATATTGGACT
125 AGAGACATTGGACT
* * * ** *
326077 T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGTTGCCAAT
1 TGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
* * * * * *
326139 ATGATGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGTTGATTCAAGGCCCA-CGA
66 GTGCTGATTCAAGGCCAGCGAAATTGGACTTAAAGGTGCCAATATGTTGATTCAAGG-CCAGAGA
*
326203 CATTGGTCT
130 CATTGGACT
* * * *
326212 TGAAGACAAAGATGACAATTTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCC
1 T---GACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
*
326277 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTG
63 AATGTGCTGATTCAAGGCCAGCGAAATTGGACTTAAAGGTG
326318 AAGATGCCAA
Statistics
Matches: 206, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
135 34 0.17
136 3 0.01
137 1 0.00
141 167 0.81
144 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (138 bp):
TGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
GTGCTGATTCAAGGCCAGCGAAATTGGACTTAAAGGTGCCAATATGTTGATTCAAGGCCAGAGAC
ATTGGACT
Found at i:326366 original size:49 final size:49
Alignment explanation
Indices: 325490--326363 Score: 876
Period size: 49 Copynumber: 17.8 Consensus size: 49
325480 AATAGGATGT
* * * * * *
325490 CAATGTGCTAATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAG-GTGC
* * * * * *
325542 CAATGTGCTGATTCATGGTCAACGACATTAGACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAG-GTGC
* * *
325594 CAATGTGCTGATTCAAGACCAGTGACATTGGACTTAAAGATG-ACGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
325642 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGGTTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * ** * * *
325694 CGATGTACTGATTCAAGGCCAATGACATCGGTCTTAAAGAGGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
325743 CAATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
325792 CAATATGCTGATTCAAGGCTAGCGATATTGGCCTTAAAGAGGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
325841 CAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * * * *
325893 GAATATGTTGATTCAAGGCTAGCGATATTAGACTTAAAGATGACAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* *
325945 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
325994 CAATGTGCTGATTCAAGGCCAGGGAAATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
326043 CAATATGTTGATTCAAGGCCAGAGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** *
326086 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
326135 CAATATGATGATTCAAGGCCAACGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * ** * *
326178 CAATGTGTTGATTCAAGGCCCA-CGACATTGGTCTTGAAGACAAAGATGA
1 CAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
326227 CAATTTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
326276 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
326325 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
326364 GTGCCACGGA
Statistics
Matches: 703, Mismatches: 98, Indels: 45
0.83 0.12 0.05
Matches are distributed among these distances:
43 70 0.10
44 3 0.00
45 2 0.00
47 2 0.00
48 42 0.06
49 372 0.53
50 1 0.00
51 1 0.00
52 210 0.30
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:326407 original size:34 final size:33
Alignment explanation
Indices: 326360--327156 Score: 415
Period size: 34 Copynumber: 25.8 Consensus size: 33
326350 CATTGGACTT
326360 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAA-GAA
326393 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAA-GAA
* * *
326427 AAATAGTGCCACGGAGTTATGGGCTTAAAGAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAA-AGAA
* * *
326461 AAATAGTGCCACGGAGTTGTGGACTT-TAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* * * * *
326493 GAA-A-TGCCACTGAGTCGTGGCCTTTGAAA-AA
1 AAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGAA
** * **
326524 AAAGA-TGCCACTAAGTCGTGGACTTTGAA-AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* *
326555 AAA-A-TGCCACTGAGTCGTGGACTTGAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTT-AAAAGAA
* **
326585 -AA-A-TGCCACTGAGTTGTGGACTTTGAAGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* ** *
326615 AAAGAGTGCCACGGAGTCGTGGACTT--TGGGA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* * * ** *
326646 AGAGA-TGCCACTGAGTCGTGGACTT--TGGGA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* **
326676 AAAGAGATGCCACTGAGTTGTGGACTTTGGAAGAA
1 AAAGAG-TGCCACGGAGTTGTGGAC-TTAAAAGAA
* ** *
326711 AAGGA-TGCCACTAAGTCGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAA-GAA
* *
326744 CAAG-GTGCCACGGAGTTGTGGGCTTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
*
326774 ---G-GTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAA-GAA
*
326804 CAAG-GTGCCACGGAGTTGTGGACTTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* * *
326834 ---G-GTGCCACGAAGTTGTGGGCTTTAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
326861 ---GAGTGCCACGGAGTTGTGGACTTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* *
326889 ---G-GTGCCACAGAGTTGTGGACTTTGAAAAGAG
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
* *
326920 AAAG-GTGCCAC-GATGTTGTGGGCTT-----TA
1 AAAGAGTGCCACGGA-GTTGTGGACTTAAAAGAA
326947 AAAGAGTGCCACGGAGTTGTGGACTT-----AA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
* *
326975 AAAG-GTGCCACAGAGTTATGGACTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
* * *
327009 AAAG-GTGCCACGCAGTTGTGGGCTT-----TA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
*
327036 AAAGAGTGCCACAGAGTTGTGGACTTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
327067 ---G-GTGCCACGGAGTTGTGGACTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
*
327098 AAAG-GTGCCACGAAGTTGTGGACTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAAGAA
*
327132 AAAG-GTGCCACGAAGTTGTGGACTT
1 AAAGAGTGCCACGGAGTTGTGGACTT
327157 TGGGAAGAGA
Statistics
Matches: 634, Mismatches: 74, Indels: 112
0.77 0.09 0.14
Matches are distributed among these distances:
27 111 0.18
28 75 0.12
29 34 0.05
30 63 0.10
31 26 0.04
32 47 0.07
33 99 0.16
34 172 0.27
35 7 0.01
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAGAA
Found at i:326533 original size:62 final size:62
Alignment explanation
Indices: 326459--326735 Score: 271
Period size: 62 Copynumber: 4.5 Consensus size: 62
326449 GCTTAAAGAG
* * * * *
326459 AAAAATAG-TGCCACGGAGTTGTGGACTTTAGGAAGAAATGCCACTGAGTCGTGGCCTTTGA
1 AAAAAAAGATGCCACTGAGTCGTGGACTTTAGGAAAAAATGCCACTGAGTCGTGGACTTTGA
* *
326520 AAAAAAAGATGCCACTAAGTCGTGGACTTT-GAAAAAAAATGCCACTGAGTCGTGGAC-TTG-
1 AAAAAAAGATGCCACTGAGTCGTGGACTTTAG-GAAAAAATGCCACTGAGTCGTGGACTTTGA
* * * *
326580 AAAAGAA-ATGCCACTGAGTTGTGGACTTTGAAGAAAAAGAGTGCCACGGAGTCGTGGACTTTG-
1 AAAAAAAGATGCCACTGAGTCGTGGACTTT-AGGAAAAA-A-TGCCACTGAGTCGTGGACTTTGA
** * * *
326643 -GGAAGAGATGCCACTGAGTCGTGGACTTTGGGAAAAGAGATGCCACTGAGTTGTGGACTTTGGA
1 AAAAAAAGATGCCACTGAGTCGTGGACTTTAGGAAAA-A-ATGCCACTGAGTCGTGGACTTT-GA
* * *
326707 AGAAAAGGATGCCACTAAGTCGTGGACTT
1 AAAAAAAGATGCCACTGAGTCGTGGACTT
326736 AAAAGGAACA
Statistics
Matches: 178, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
59 20 0.11
60 11 0.06
61 12 0.07
62 83 0.47
63 28 0.16
65 24 0.13
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (62 bp):
AAAAAAAGATGCCACTGAGTCGTGGACTTTAGGAAAAAATGCCACTGAGTCGTGGACTTTGA
Found at i:326541 original size:32 final size:31
Alignment explanation
Indices: 326458--326735 Score: 282
Period size: 30 Copynumber: 9.0 Consensus size: 31
326448 GGCTTAAAGA
* * *
326458 GAAAAATAG-TGCCACGGAGTTGTGGACTTT
1 GAAAAAAAGATGCCACTGAGTCGTGGACTTT
* * *
326488 -AGGAAGAA-ATGCCACTGAGTCGTGGCCTTT
1 GA-AAAAAAGATGCCACTGAGTCGTGGACTTT
*
326518 GAAAAAAAAGATGCCACTAAGTCGTGGACTTT
1 G-AAAAAAAGATGCCACTGAGTCGTGGACTTT
326550 GAAAAAAA-ATGCCACTGAGTCGTGGAC-TT
1 GAAAAAAAGATGCCACTGAGTCGTGGACTTT
* *
326579 GAAAAGAA-ATGCCACTGAGTTGTGGACTTT
1 GAAAAAAAGATGCCACTGAGTCGTGGACTTT
*
326609 GAAGAAAAAGAGTGCCACGGAGTCGTGGACTTT
1 GAA-AAAAAGA-TGCCACTGAGTCGTGGACTTT
** *
326642 G-GGAAGAGATGCCACTGAGTCGTGGACTTT
1 GAAAAAAAGATGCCACTGAGTCGTGGACTTT
* * *
326672 GGGAAAAGAGATGCCACTGAGTTGTGGACTTT
1 -GAAAAAAAGATGCCACTGAGTCGTGGACTTT
* *
326704 GGAAGAAAAGGATGCCACTAAGTCGTGGACTT
1 -GAA-AAAAAGATGCCACTGAGTCGTGGACTT
326736 AAAAGGAACA
Statistics
Matches: 208, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
29 28 0.13
30 64 0.31
31 21 0.10
32 52 0.25
33 43 0.21
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (31 bp):
GAAAAAAAGATGCCACTGAGTCGTGGACTTT
Found at i:326740 original size:27 final size:27
Alignment explanation
Indices: 326709--327088 Score: 207
Period size: 27 Copynumber: 13.0 Consensus size: 27
326699 ACTTTGGAAG
* *
326709 AAAAGGATGCCACTAAGTCGTGGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
* *
326736 AAAAGGAACAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAGG----A--TGCCACGAAGTTGTGGACTT
*
326769 AAAAGGGTGCCAC-AGAGTTGTGGACTT
1 AAAAGGATGCCACGA-AGTTGTGGACTT
*
326796 AAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGG----A--TGCCACGAAGTTGTGGACTT
* *
326829 AAAAGGGTGCCACGAAGTTGTGGGCTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
* *
326856 TAAAGGAGTGCCACGGAGTTGTGGACTT
1 AAAAGGA-TGCCACGAAGTTGTGGACTT
*
326884 AAAAGGGTGCCAC-AGAGTTGTGGACTTT
1 AAAAGGATGCCACGA-AGTTGTGGAC-TT
* *
326912 GAAAAGAGAAAGGTGCCACGATGTTGTGGGCTTT
1 -AAAAG-G--A--TGCCACGAAGTTGTGGAC-TT
*
326946 AAAA-GAGTGCCACGGAGTTGTGGACTT
1 AAAAGGA-TGCCACGAAGTTGTGGACTT
*
326973 AAAAAGG-TGCCAC-AGAGTTATGGACTTT
1 -AAAAGGATGCCACGA-AGTTGTGGAC-TT
* * *
327001 GAAAAGAAAAAGGTGCCACGCAGTTGTGGGCTTT
1 -AAAAG-----GATGCCACGAAGTTGTGGAC-TT
327035 AAAA-GAGTGCCAC-AGAGTTGTGGACTT
1 AAAAGGA-TGCCACGA-AGTTGTGGACTT
* *
327062 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
327089 TGAAAAGAAA
Statistics
Matches: 278, Mismatches: 36, Indels: 78
0.71 0.09 0.20
Matches are distributed among these distances:
27 110 0.40
28 68 0.24
29 7 0.03
30 1 0.00
31 2 0.01
33 55 0.20
34 34 0.12
35 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
AAAAGGATGCCACGAAGTTGTGGACTT
Found at i:326954 original size:89 final size:89
Alignment explanation
Indices: 326829--327130 Score: 505
Period size: 89 Copynumber: 3.4 Consensus size: 89
326819 TTGTGGACTT
* *
326829 AAAAGGGTGCCACGAAGTTGTGGGCTTTAAAGGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
1 AAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
326894 CACAGAGTTGTGGACTTTGAAAAG
66 CACAGAGTTGTGGACTTTGAAAAG
* * *
326918 AGAAAGGTGCCACGATGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGGTGC
1 AAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
*
326983 CACAGAGTTATGGACTTTGAAAAG
66 CACAGAGTTGTGGACTTTGAAAAG
* *
327007 AAAAAGGTGCCACGCAGTTGTGGGCTTTAAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGGTGC
1 AAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
*
327072 CACGGAGTTGTGGACTTTGAAAAG
66 CACAGAGTTGTGGACTTTGAAAAG
*
327096 AAAAAGGTGCCACGAAGTTGTGGACTTTGAAAAGA
1 AAAAAGGTGCCACGAAGTTGTGGGCTTT-AAAAGA
327131 AAAAGGTGCC
Statistics
Matches: 197, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
89 191 0.97
90 6 0.03
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (89 bp):
AAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGC
CACAGAGTTGTGGACTTTGAAAAG
Found at i:327045 original size:178 final size:173
Alignment explanation
Indices: 326709--327130 Score: 534
Period size: 178 Copynumber: 2.4 Consensus size: 173
326699 ACTTTGGAAG
* * *
326709 AAAAGGATGCCACTA-AGTCGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGGC-TTA
1 AAAAGGGTGCCAC-AGAGTTGTGGACTTTGAAAA-GAAAAAGGTGCCAC-GAGTTGTGGGCTTTA
* * *
326770 AAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGG
63 AAAGAGTGCCACAGAGTTGTGGACTT--AA-GAACAAGGTGCCACAGAGTTATGGACTTAAAAGG
* *
326835 GTGCCACGAAGTTGTGGGCTTTAAAGGAGTGCCACGGAGTTGTGGACTT
125 GTGCCACGAAGTTGTGGGCTTTAAAAGAGTGCCACAGAGTTGTGGACTT
*
326884 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAGAAAGGTGCCACGATGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGA-GTTGTGGGCTTTAAA
*
326949 AGAGTGCCACGGAGTTGTGGACTT-A-AA-AAGGTGCCACAGAGTTATGGACTTTGAAAAGAAAA
65 AGAGTGCCACAGAGTTGTGGACTTAAGAACAAGGTGCCACAGAGTTATGGAC-TT-AAAAG----
*
327011 AGGTGCCACGCAGTTGTGGGCTTTAAAAGAGTGCCACAGAGTTGTGGACTT
124 -GGTGCCACGAAGTTGTGGGCTTTAAAAGAGTGCCACAGAGTTGTGGACTT
* *
327062 AAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTTGAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACG-AGTTGTGGGCTTT-AA
327127 AAGA
64 AAGA
327131 AAAAGGTGCC
Statistics
Matches: 219, Mismatches: 14, Indels: 24
0.85 0.05 0.09
Matches are distributed among these distances:
171 20 0.09
172 4 0.02
173 5 0.02
174 2 0.01
175 23 0.11
176 23 0.11
177 31 0.14
178 104 0.47
179 7 0.03
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (173 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGAGTTGTGGGCTTTAAAA
GAGTGCCACAGAGTTGTGGACTTAAGAACAAGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCA
CGAAGTTGTGGGCTTTAAAAGAGTGCCACAGAGTTGTGGACTT
Found at i:328156 original size:15 final size:15
Alignment explanation
Indices: 328136--328165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
328126 TGGGTTTTTC
328136 CTCTTCTTCTTCTTT
1 CTCTTCTTCTTCTTT
*
328151 CTCTTCTTTTTCTTT
1 CTCTTCTTCTTCTTT
328166 TTTTTTTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
CTCTTCTTCTTCTTT
Found at i:335272 original size:20 final size:20
Alignment explanation
Indices: 335219--335273 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
335209 AAATTCCCAG
**
335219 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
335239 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
335259 ATGTATCGATACATT
1 ATGTATCGATACATT
335274 TCCTTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:335338 original size:32 final size:32
Alignment explanation
Indices: 335297--335359 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
335287 CTTTGAAGCG
*
335297 ATACATTGTATCGATACAATACTTATGTATCA
1 ATACATTGTATCGATACAACACTTATGTATCA
*
335329 ATACATTGTATCGATATAACACTTATGTATC
1 ATACATTGTATCGATACAACACTTATGTATC
335360 GATAAAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCA
Done.