Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 4 of 37
Found at i:446405 original size:33 final size:33
Alignment explanation
Indices: 446368--446434 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
446358 AGTAGCTTAA
*
446368 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATAGATACAAAAAAATATGTATCGATAC
* ***
446401 ATTGTATAGATACAACACTTTATGTATCGATAC
1 ATTGTATAGATACAAAAAAATATGTATCGATAC
446434 A
1 A
446435 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATAGATACAAAAAAATATGTATCGATAC
Found at i:447498 original size:91 final size:92
Alignment explanation
Indices: 447312--447687 Score: 471
Period size: 91 Copynumber: 4.1 Consensus size: 92
447302 AAAAGATGAC
* * * * * *
447312 AAAGGCGCCAATATG-TGGATTCGAGGCCAGCGATATGGGACTTAAAGATGGCAAAGGCGCCAAT
1 AAAGGTGCCAATATGCT-GATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
447376 ATGCTGATTCAAGGCCAGCGATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
*
447407 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
447471 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
447498 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
447557 TGATTCAATGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
447584 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
*
447649 ATATGCTGATTCAAGGCCAGCGATATTGGGCTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
447682 AGAAGG
1 A-AAGG
447688 GTTGCCACCG
Statistics
Matches: 250, Mismatches: 17, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
86 38 0.15
87 1 0.00
90 1 0.00
91 82 0.33
92 41 0.16
93 5 0.02
94 2 0.01
95 41 0.16
96 2 0.01
98 37 0.15
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:447677 original size:49 final size:49
Alignment explanation
Indices: 447254--447669 Score: 485
Period size: 43 Copynumber: 8.7 Consensus size: 49
447244 AGGAATGTTG
* *
447254 AAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
1 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-A
* * * * *
447304 AAGATGACAAAGGCGCCAATATG-TGGATTCGAGGCCAGCGATATGGGACTTA
1 AAGATG---AAGGTGCCAATATGCT-GATTCAAGGCCAGCTACATTGGACTTA
* * *
447356 AAGATGGCAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-
1 AAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
*
447407 ---A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
*
447451 AAGATG-AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-
1 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
*
447498 ---A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-
1 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
* *
447541 ---A--AAGGTGCCAATGTGCTGATTCAATGCCAGCTACATTGGACTTA
1 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
447585 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
1 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
447634 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
447670 GATATTGGGC
Statistics
Matches: 329, Mismatches: 18, Indels: 39
0.85 0.05 0.10
Matches are distributed among these distances:
43 119 0.36
44 1 0.00
47 2 0.01
48 40 0.12
49 77 0.23
50 6 0.02
52 47 0.14
53 37 0.11
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
AAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
Found at i:447721 original size:32 final size:32
Alignment explanation
Indices: 447675--447969 Score: 354
Period size: 32 Copynumber: 9.2 Consensus size: 32
447665 CCAGCGATAT
447675 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* *
447705 CGAGCTTTAGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
447737 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTG
* *
447769 TGTGCTTTAGAG-GGGATTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTG
* *
447801 TGGGCTTTAGA-AGGGATTACCACCAACTTGTG
1 TGGGCTTTAGAGAGGG-TTGCCACCGACTTGTG
* *
447833 TGGGCTTTAGAAGAAGGTTGCCACCGACTTATG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
*
447866 TGGGCTTT-GAAAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
* *
447898 TGGGCTTT-GAAAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
* *
447930 TGGGC-TTGGAAAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTG
447962 TGGGCTTT
1 TGGGCTTT
447970 TGAAAAGGAG
Statistics
Matches: 238, Mismatches: 17, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.01
31 13 0.05
32 192 0.81
33 27 0.11
34 3 0.01
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:447761 original size:64 final size:65
Alignment explanation
Indices: 447675--447969 Score: 406
Period size: 64 Copynumber: 4.6 Consensus size: 65
447665 CCAGCGATAT
* * *
447675 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTGCGAGCTTTAG-AGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCAACTTGTG
*
447737 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGTGCTTTAG-AG-GGGATTGCCACCAACTTGT
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGG-TTGCCACCAACTTGT
447800 G
65 G
* * * * *
447801 TGGGCTTT-AGAAGGGATTACCACCAACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTAT
1 TGGGCTTTGAGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCAACTTGT
447865 G
65 G
* *
447866 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTT-GAAAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCAACTTGTG
* *
447930 TGGGCTTGGAAAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT
447970 TGAAAAGGAG
Statistics
Matches: 209, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
62 5 0.02
63 12 0.06
64 138 0.66
65 46 0.22
66 8 0.04
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (65 bp):
TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAGGGTTGCCACCAACTTGTG
Found at i:447921 original size:129 final size:128
Alignment explanation
Indices: 447675--447977 Score: 434
Period size: 129 Copynumber: 2.4 Consensus size: 128
447665 CCAGCGATAT
* * * *
447675 TGGGC-TTAGAAGGGTTGCCACCGACTTGTGCGAGCTTTAG-AGAGGGTTGCCACCGACTTGTGT
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTATGT
* * * *
447738 GGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGTGCTTTAGAGGGGATTGCCACCAACTTGTG
66 GGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGATTGCCACCAACTTGTG
* *
447801 TGGGCTTTAGAAGGGATTACCACCAACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTATG
1 TGGGCTTTAGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTATG
447866 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGG-TTGCCACCAACTTGTG
65 TGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTT-AAAAGGGATTGCCACCAACTTGTG
* * *
447930 TGGGCTTGGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTTGAA-AAGG
1 TGGGCTT-TAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGG
447978 AGAAAGATGC
Statistics
Matches: 157, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
126 5 0.03
127 9 0.06
128 26 0.17
129 106 0.68
130 11 0.07
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (128 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTATGT
GGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGATTGCCACCAACTTGTG
Found at i:448017 original size:27 final size:27
Alignment explanation
Indices: 447985--448038 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
447975 AGGAGAAAGA
* *
447985 TGCCACGGAGTTGTAGACTTAAAAGGG
1 TGCCACAGAATTGTAGACTTAAAAGGG
*
448012 TGCCACAGAATTGTGGACTTAAAAGGG
1 TGCCACAGAATTGTAGACTTAAAAGGG
448039 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.22
Consensus pattern (27 bp):
TGCCACAGAATTGTAGACTTAAAAGGG
Found at i:448196 original size:135 final size:133
Alignment explanation
Indices: 448038--448507 Score: 582
Period size: 135 Copynumber: 3.5 Consensus size: 133
448028 ACTTAAAAGG
448038 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
* *
448103 GAACAAGGTGCCACGGGGTTGTGGACTTCAAAAGGGGAAAAAAGTGCCACGGAGTTATGGGCTTT
66 GAA-AAGGTGCCACGGAGTTGTGGACTT-AAAA-GGGAAAAAAGTGCCACGGAGTTGTGGGCTTT
448168 TAAAAA
128 TAAAAA
* * * *
448174 GAAAAAG-GTGCCATGGAGTTGTGGACTTTGAAAGGAACAAGGTGCCACGGGGTCGTGGACTTAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTG-AA--AAGAAGGTGCCACGGAGTCGTGGACTTAA
* * * *
448238 AAAGAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA--GAAAAAGGTGCCACGGAGTTGTGGGC-
63 AAGGAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAAGTGCCACGGAGTTGTGGGCT
448300 TTTAAAAA
126 TTTAAAAA
* * * *
448308 GAAAAA-AGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAATTGTGGACTTA
1 GAAAAAGA-GTGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACGGAGTCGTGGACTTA
* *
448372 AAA-G----GGTGCCACGGAATTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCT
62 AAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAA-AGTGCCACGGAGTTGTGGGCT
* **
448432 TTGAAAGG
126 TTTAAAAA
448440 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
448505 GAA
66 GAA
448508 TTCGTCCCCA
Statistics
Matches: 286, Mismatches: 31, Indels: 38
0.81 0.09 0.11
Matches are distributed among these distances:
128 4 0.01
129 27 0.09
130 24 0.08
131 18 0.06
132 40 0.14
133 1 0.00
134 17 0.06
135 89 0.31
136 9 0.03
137 19 0.07
138 38 0.13
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (133 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAG
GAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAAGTGCCACGGAGTTGTGGGCTTTTAA
AAA
Found at i:448232 original size:34 final size:34
Alignment explanation
Indices: 448005--448507 Score: 447
Period size: 34 Copynumber: 15.1 Consensus size: 34
447995 TTGTAGACTT
* * *
448005 AAAAGGGTGCCACAGAATTGTGGAC-TTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-GG
*
448039 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
*
448074 ---AAGGTGCCACGGAGTCGTGGAC-TTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * *
448104 AACAAGGTGCCACGGGGTTGTGGACTTCAAAAGGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAA--GG
* * * *
448140 AAAAAAGTGCCACGGAGTTATGGGCTTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTTAAAAGG
* *
448175 AAAAAGGTGCCATGGAGTTGTGGACTTTGAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* * * *
448209 AACAAGGTGCCACGGGGTCGTGGAC-TTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* *
448242 -AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
448275 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAAGGTGCCACGGAGTTGTGGACTTT-AAAAGG
* *
448310 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
* *
448344 AAAAAGGTGCCATGGAATTGTGGAC-TTAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
*
448376 -----GGTGCCACGGAATTGTGGAC-TTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAA-GG
* * *
448405 AAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAGGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
*
448441 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG
*
448476 ---AAGGTGCCACGGAGTCGTGGAC-TTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
448506 AA
1 AA
448508 TTCGTCCCCA
Statistics
Matches: 392, Mismatches: 49, Indels: 58
0.79 0.10 0.12
Matches are distributed among these distances:
27 25 0.06
29 9 0.02
30 6 0.02
31 34 0.09
32 27 0.07
33 35 0.09
34 99 0.25
35 84 0.21
36 60 0.15
37 13 0.03
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAGG
Found at i:448382 original size:27 final size:27
Alignment explanation
Indices: 448344--448404 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
448334 CTTTAAAAAG
* *
448344 AAAAAGGTGCCATGGAATTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
448371 AAAAGGGTGCCACGGAATTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTGGACTT
448398 AAAAGGG
1 AAAAGGG
448405 AAAAAGAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAATTGTGGACTT
Found at i:448393 original size:96 final size:100
Alignment explanation
Indices: 448005--448503 Score: 319
Period size: 101 Copynumber: 5.0 Consensus size: 100
447995 TTGTAGACTT
* * * * * *
448005 AAAAGGGTGCCACAGAATTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA-AGAAAAAGAGTGCCACGGAATTGTGGACTTT
* * *
448068 GAAAAGAAGGTGCCACGGAGTCGTGGACTT-AAAAGGA
65 GAAAAG--GGTGCCACGGAATTGTGGACTTAAAAAGAA
* * * * * * * * *
448105 ACAAG-GTGCCACGGGGTTGTGGAC-TTCAAAAGGGGAAAAA-AGTGCCACGGAGTTATGGGCTT
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA--AGAAAAAGAGTGCCACGGAATTGTGGAC-T
* * * ** *
448167 TTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTTGAAAGGA
63 TT-----GAAAAGGGTGCCACGGAATTGTGGACTTAAAAAGAA
* * * * * * * *
448210 ACAAG-GTGCCACGGGGTCGTGGAC-TT-AAAAAG-AAAAG-GTGCCACGGAGTGGTGGGCTTTG
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGAGTGCCACGGAATTGTGGACTTTG
* *
448270 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
66 AAAAG-----GGTGCCACGGAATTGTGGAC-TTAAAAAGAA
* *
448311 AAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAG-GTGCCATGGAATTGTGGAC-TT-
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGAGTGCCACGGAATTGTGGACTTTG
* *
448371 AAAAGGGTGCCACGGAATTGTGGACTTAAAAGGGA
66 AAAAGGGTGCCACGGAATTGTGGACTTAAAAAGAA
** * *
448406 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG
1 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGAGTGCCACGGAATTGTGGACTTTG
* *
448471 AAAAGAAGGTGCCACGGAGTCGTGGACTTAAAA
66 AAAAG--GGTGCCACGGAATTGTGGACTTAAAA
448504 GGAATTCGTC
Statistics
Matches: 335, Mismatches: 39, Indels: 48
0.79 0.09 0.11
Matches are distributed among these distances:
95 18 0.05
96 39 0.12
97 10 0.03
98 16 0.05
99 20 0.06
100 53 0.16
101 64 0.19
102 35 0.10
103 20 0.06
104 24 0.07
105 31 0.09
106 5 0.01
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (100 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGAGTGCCACGGAATTGTGGACTTTG
AAAAGGGTGCCACGGAATTGTGGACTTAAAAAGAA
Found at i:448465 original size:36 final size:36
Alignment explanation
Indices: 448371--448473 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 36
448361 TTGTGGACTT
* * * *
448371 AAAAGGGTGCCACGGAATTGTGGAC-TTAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAGGGA
*
448406 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAGGGA
448442 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA
448474 AGAAGGTGCC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 21 0.34
36 40 0.66
ACGTcount: A:0.34, C:0.12, G:0.35, T:0.19
Consensus pattern (36 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAGGGA
Found at i:448697 original size:42 final size:42
Alignment explanation
Indices: 448624--448704 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
448614 GGGTTAAAGC
* *
448624 CGATAGACAAACTAAAGGTCAGGAAATCTCTAGGGTCAAGGT
1 CGATAGACAAACTAAAGGTCAAGAAACCTCTAGGGTCAAGGT
* * * *
448666 CGATAGGCAAACTAAAGTTGAAGAAGCCTCTAGGGTCAA
1 CGATAGACAAACTAAAGGTCAAGAAACCTCTAGGGTCAA
448705 AGTCAACAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (42 bp):
CGATAGACAAACTAAAGGTCAAGAAACCTCTAGGGTCAAGGT
Found at i:448767 original size:41 final size:42
Alignment explanation
Indices: 448634--448809 Score: 142
Period size: 42 Copynumber: 4.2 Consensus size: 42
448624 CGATAGACAA
* * * * * * * *
448634 ACTAAAGGTCAGGAAATCTCTAGGGTCAAGGTCGATAGGCAA
1 ACTAAAGGTTAGGAAGTTTCTAGGGTCAAAGTCAACAAGCAG
* **
448676 ACTAAA-GTTGAAGAAGCCTCTAGGGTCAAAGTCAACAAGCAG
1 ACTAAAGGTT-AGGAAGTTTCTAGGGTCAAAGTCAACAAGCAG
*
448718 ACTAAAGGTTAGGAAGTCTTC-AGGGTCAAAGT-GACAAGCAG
1 ACTAAAGGTTAGGAAGT-TTCTAGGGTCAAAGTCAACAAGCAG
* * * * * * *
448759 GCTGAAGGTTAGGAAGTTTCTAAGGTCAAAGCCGACAGGTAG
1 ACTAAAGGTTAGGAAGTTTCTAGGGTCAAAGTCAACAAGCAG
448801 ACTAAAGGT
1 ACTAAAGGT
448810 CAAGAAGTCT
Statistics
Matches: 108, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
40 3 0.03
41 34 0.31
42 66 0.61
43 5 0.05
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.19
Consensus pattern (42 bp):
ACTAAAGGTTAGGAAGTTTCTAGGGTCAAAGTCAACAAGCAG
Found at i:448902 original size:84 final size:84
Alignment explanation
Indices: 448699--449461 Score: 463
Period size: 84 Copynumber: 9.1 Consensus size: 84
448689 AAGCCTCTAG
* * * * * * * * *
448699 GGTCAAAGTCAACAAGCAGACTAAAGGTTAGGAAGTCT-TCAGGGTCAAAG-TGACAAGCAGGCT
1 GGTCAAAGCCGACAAGCAGACTAAAGGTAAGAAAGTCTCT-AAGATCAAAGCTGATAGGCAGACT
* * * * * *
448762 GAAGGTTAGGAAGTTTCTAA
65 TAAGATGAGGTAGTCTCCAA
* * * ** * *
448782 GGTCAAAGCCGACAGGTAGACTAAAGGTCAAG-AAGTCTCCAAGATCAAAGCCAATAGACAAACT
1 GGTCAAAGCCGACAAGCAGACTAAAGGT-AAGAAAGTCTCTAAGATCAAAGCTGATAGGCAGACT
* * *
448846 TAAGACGAGGCAATCTCCAA
65 TAAGATGAGGTAGTCTCCAA
* * * * **
448866 GGTCAAAGCCAACAAGCAGACTAAAGAG-AAGAAAGTCTCTAGGGTCAAAACTGATAGATAGACT
1 GGTCAAAGCCGACAAGCAGACTAAAG-GTAAGAAAGTCTCTAAGATCAAAGCTGATAGGCAGACT
* * * ** *
448930 TGAGATGAGGCAATCTATAG
65 TAAGATGAGGTAGTCTCCAA
* * * * * * * * * *
448950 GGTTAAAGCCGATAGGCAGACTGAACGTAAGAAAATCT-TAAGGTTAAAG-TCGACAGGTAGACT
1 GGTCAAAGCCGACAAGCAGACTAAAGGTAAGAAAGTCTCTAAGATCAAAGCT-GATAGGCAGACT
449013 TAAGATGAGGTAGTCTCCAA
65 TAAGATGAGGTAGTCTCCAA
* *** * * * * * *
449033 GGTTAAATTTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAA-AGTCAAAGCTAACAGGCATACT
1 GGTCAAAGCCGACAAGCAGACTAAAGGTAAGAAAGTCTCTAAGA-TCAAAGCTGATAGGCAGACT
**
449097 TAAGATGAGGTAGTCTTTAA
65 TAAGATGAGGTAGTCTCCAA
* * * * * * *
449117 GGTCAAAGCTGA-TAG-ATGGACTGAAGATAAAAAAGTGTCTAAGATTAAAG-TCGATAGGCAGA
1 GGTCAAAGCCGACAAGCA--GACTAAAGGTAAGAAAGTCTCTAAGATCAAAGCT-GATAGGCAGA
* ** *
449179 CTTGAGATGAGACAGTCTCCAG
63 CTTAAGATGAGGTAGTCTCCAA
* * * * * * *
449201 GGTCAAAGCCAACAAGCAGACTGAAGAG-AAGAAAGTCTCCAA-AGTCAAAACTGACAGGTAAAC
1 GGTCAAAGCCGACAAGCAGACTAAAG-GTAAGAAAGTCTCTAAGA-TCAAAGCTGATAGGCAGAC
* *
449264 TTGAGATAAGGTAGTCTCCAA
64 TTAAGATGAGGTAGTCTCCAA
* * * * *
449285 GGTCAAAGCCAACAAGTAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGCTGATAGGCAGACTT
1 GGTCAAAGCCGACAAGCAGACTAAAGGTAAGAAAGTCTCTAAGATCAAAGCTGATAGGCAGACTT
* *
449350 AAGATGAGGTAGTCTCTAG
66 AAGATGAGGTAGTCTCCAA
* * * * * * * *
449369 GGTTAAAGCCGAC-TGACAGACTAAAGGTAAGAAAGTCTCTAGGGTTAAAGCCGACAGGTAGACT
1 GGTCAAAGCCGACAAG-CAGACTAAAGGTAAGAAAGTCTCTAAGATCAAAGCTGATAGGCAGACT
* * *
449433 TGAGATAAGGTAGTCTCCAG
65 TAAGATGAGGTAGTCTCCAA
449453 GGTCAAAGC
1 GGTCAAAGC
449462 AAATAGGCAG
Statistics
Matches: 527, Mismatches: 131, Indels: 43
0.75 0.19 0.06
Matches are distributed among these distances:
82 2 0.00
83 111 0.21
84 407 0.77
85 6 0.01
86 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.19
Consensus pattern (84 bp):
GGTCAAAGCCGACAAGCAGACTAAAGGTAAGAAAGTCTCTAAGATCAAAGCTGATAGGCAGACTT
AAGATGAGGTAGTCTCCAA
Found at i:448912 original size:42 final size:41
Alignment explanation
Indices: 448676--448914 Score: 130
Period size: 42 Copynumber: 5.7 Consensus size: 41
448666 CGATAGGCAA
* * * *
448676 ACTAAAGTTGAAGAAGCCTCTAGGGTCAAAGTCAACAAGCAG
1 ACTAAAGGT-AAGAAGTCTCTAAGGTCAAAGCCAACAAGCAG
* * **
448718 ACTAAAGGTTAGGAAGTCT-TCAGGGTCAAAG-TGACAAGCAG
1 ACTAAAGG-TAAGAAGTCTCT-AAGGTCAAAGCCAACAAGCAG
* * * * * * *
448759 GCTGAAGGTTAGGAAGTTTCTAAGGTCAAAGCCGACAGGTAG
1 ACTAAAGG-TAAGAAGTCTCTAAGGTCAAAGCCAACAAGCAG
* * * *
448801 ACTAAAGGTCAAGAAGTCTCCAAGATCAAAGCCAA-TAGACAA
1 ACTAAAGGT-AAGAAGTCTCTAAGGTCAAAGCCAACAAG-CAG
* * *
448843 ACTTAAGACG-AGGCAA-TCTCCAAGGTCAAAGCCAACAAGCAG
1 AC-TAA-AGGTAAG-AAGTCTCTAAGGTCAAAGCCAACAAGCAG
*
448885 ACTAAAGAG-AAGAAAGTCTCTAGGGTCAAA
1 ACTAAAG-GTAAG-AAGTCTCTAAGGTCAAA
448915 ACTGATAGAT
Statistics
Matches: 152, Mismatches: 33, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
40 1 0.01
41 44 0.29
42 97 0.64
43 8 0.05
44 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
ACTAAAGGTAAGAAGTCTCTAAGGTCAAAGCCAACAAGCAG
Found at i:449039 original size:42 final size:42
Alignment explanation
Indices: 448780--449480 Score: 305
Period size: 42 Copynumber: 16.7 Consensus size: 42
448770 GGAAGTTTCT
* * *
448780 AAGGTCAAAGCCGACAGGTAGACTAAAGGTCAAG-AAGTCTCC
1 AAGGTCAAAGCCGACAGGCAGACTTAAGAT-AAGAAAGTCTCC
* * * * * * * *
448822 AAGATCAAAGCCAATAGACAAACTTAAGACGAGGCAA-TCTCC
1 AAGGTCAAAGCCGACAGGCAGACTTAAGA-TAAGAAAGTCTCC
* * * * *
448864 AAGGTCAAAGCCAACAAGCAGACTAAAGAGAAGAAAGTCTCT
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * * * ** * * * **
448906 AGGGTCAAAACTGATAGATAGACTTGAGATGAGGCAA-TCTAT
1 AAGGTCAAAGCCGACAGGCAGACTTAAGAT-AAGAAAGTCTCC
* * * * * *
448948 AGGGTTAAAGCCGATAGGCAGACTGAACG-TAAGAAAATCT-T
1 AAGGTCAAAGCCGACAGGCAGACTTAA-GATAAGAAAGTCTCC
* * * * **
448989 AAGGTTAAAGTCGACAGGTAGACTTAAGATGAGGTAGTCTCC
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* *** * *
449031 AAGGTTAAATTTGACAGGCAGACTGAAGGTAAGAAAGTCTCC
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* ** * * ** **
449073 AAAGTCAAAGCTAACAGGCATACTTAAGATGAGGTAGTCTTT
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * *** * * * *
449115 AAGGTCAAAGCTGATAGATGGACTGAAGATAAAAAAGTGTCT
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * * * * * *
449157 AAGATTAAAGTCGATAGGCAGACTTGAGATGAGACAGTCTCC
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * * * *
449199 AGGGTCAAAGCCAACAAGCAGACTGAAGAGAAGAAAGTCTCC
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * * * * * **
449241 AAAGTCAAAACTGACAGGTAAACTTGAGATAAGGTAGTCTCC
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * * * * *
449283 AAGGTCAAAGCCAACAAGTAGACTGAAGGTAAGAAAGTCTCT
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * * * ** *
449325 AGGGTCAAAGCTGATAGGCAGACTTAAGATGAGGTAGTCTCT
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * * * * * *
449367 AGGGTTAAAGCCGACTGACAGACTAAAGGTAAGAAAGTCTCT
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* * * * **
449409 AGGGTTAAAGCCGACAGGTAGACTTGAGATAAGGTAGTCTCC
1 AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
* ** * *
449451 AGGGTCAAAGCAAATAGGCAGACTTGAGAT
1 AAGGTCAAAGCCGACAGGCAGACTTAAGAT
449481 GAGGCAGTCT
Statistics
Matches: 478, Mismatches: 173, Indels: 16
0.72 0.26 0.02
Matches are distributed among these distances:
40 1 0.00
41 39 0.08
42 431 0.90
43 7 0.01
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (42 bp):
AAGGTCAAAGCCGACAGGCAGACTTAAGATAAGAAAGTCTCC
Found at i:449419 original size:126 final size:126
Alignment explanation
Indices: 449289--449528 Score: 315
Period size: 126 Copynumber: 1.9 Consensus size: 126
449279 CTCCAAGGTC
* * **
449289 AAAGCCAACAAGTAGAC-TGAAGGTAAGAAAGTCTCTAGGGTCAAAGCTGATAGGCAGACTTAAG
1 AAAGCCAACAAGTAGACTTG-AGATAAGAAAGTCTCCAGGGTCAAAGCAAATAGGCAGACTTAAG
* * * *
449353 ATGAGGTAGTCTCTAGGGTTAAAGCCGACT-GACAGACT-AAAGGTAAGAAAGTCTCTAGGGTT
65 ATGAGGCAGTCT-TAGGGTCAAAGCC-AATAGACAGACTGAAAAGTAAGAAAGTCTCTAGGGTT
* * ** *
449415 AAAGCCGACAGGTAGACTTGAGATAAGGTAGTCTCCAGGGTCAAAGCAAATAGGCAGACTTGAGA
1 AAAGCCAACAAGTAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCAAATAGGCAGACTTAAGA
449480 TGAGGCAGTCTTAGGGTCAAAGCCAATAGACAGACTGAAAAGTAAGAAA
66 TGAGGCAGTCTTAGGGTCAAAGCCAATAGACAGACTGAAAAGTAAGAAA
449529 ATTCAAAAGG
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
124 2 0.02
125 20 0.20
126 74 0.76
127 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (126 bp):
AAAGCCAACAAGTAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCAAATAGGCAGACTTAAGA
TGAGGCAGTCTTAGGGTCAAAGCCAATAGACAGACTGAAAAGTAAGAAAGTCTCTAGGGTT
Found at i:449449 original size:168 final size:168
Alignment explanation
Indices: 448780--449461 Score: 595
Period size: 168 Copynumber: 4.1 Consensus size: 168
448770 GGAAGTTTCT
* * * * * * *
448780 AAGGTCAAAGCCGACAGGTAGACTAAAGGTCAAG-AAGTCTCCAAGATCAAAGCCAATAGACAAA
1 AAGGTCAAAGCCGACAAGTAGACTGAAGGT-AAGAAAGTCTCTAAGATCAAAGTCGATAGGCAGA
* * * **
448844 CTTAAGACGAGGCAATCTCCAAGGTCAAAGCCAACAAGCAGACTAAAGAGAAGAAAGTCTCTAGG
65 CTTAAGATGAGGCAGTCTCCAAGGTCAAAGCCAACAAGCAGACTAAAGAGAAGAAAGTCTCCAAA
* * * * * **
448909 GTCAAAACTGATAGATAGACTTGAGATGAGGCAATCTAT
130 GTCAAAACTGACAGGTAGACTTGAGATAAGGTAGTCTCC
* * * * * * * * * * *
448948 AGGGTTAAAGCCGATAGGCAGACTGAACGTAAGAAAATCT-TAAGGTTAAAGTCGACAGGTAGAC
1 AAGGTCAAAGCCGACAAGTAGACTGAAGGTAAGAAAGTCTCTAAGATCAAAGTCGATAGGCAGAC
* * **** * *
449012 TTAAGATGAGGTAGTCTCCAAGGTTAAATTTGACAGGCAGACTGAAG-GTAAGAAAGTCTCCAAA
66 TTAAGATGAGGCAGTCTCCAAGGTCAAAGCCAACAAGCAGACTAAAGAG-AAGAAAGTCTCCAAA
* * * * * * **
449076 GTCAAAGCTAACAGGCATACTTAAGATGAGGTAGTCTTT
130 GTCAAAACTGACAGGTAGACTTGAGATAAGGTAGTCTCC
* * * * * * *
449115 AAGGTCAAAGCTGA-TAGATGGACTGAAGATAAAAAAGTGTCTAAGATTAAAGTCGATAGGCAGA
1 AAGGTCAAAGCCGACAAG-TAGACTGAAGGTAAGAAAGTCTCTAAGATCAAAGTCGATAGGCAGA
* * * *
449179 CTTGAGATGAGACAGTCTCCAGGGTCAAAGCCAACAAGCAGACTGAAGAGAAGAAAGTCTCCAAA
65 CTTAAGATGAGGCAGTCTCCAAGGTCAAAGCCAACAAGCAGACTAAAGAGAAGAAAGTCTCCAAA
*
449244 GTCAAAACTGACAGGTAAACTTGAGATAAGGTAGTCTCC
130 GTCAAAACTGACAGGTAGACTTGAGATAAGGTAGTCTCC
* * *
449283 AAGGTCAAAGCCAACAAGTAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAG-CTGATAGGCAGA
1 AAGGTCAAAGCCGACAAGTAGACTGAAGGTAAGAAAGTCTCTAAGATCAAAGTC-GATAGGCAGA
* * * * * * *
449347 CTTAAGATGAGGTAGTCTCTAGGGTTAAAGCCGAC-TGACAGACTAAAG-GTAAGAAAGTCTCTA
65 CTTAAGATGAGGCAGTCTCCAAGGTCAAAGCCAACAAG-CAGACTAAAGAG-AAGAAAGTCTCCA
** * * *
449410 GGGTTAAAGCCGACAGGTAGACTTGAGATAAGGTAGTCTCC
128 AAGTCAAAACTGACAGGTAGACTTGAGATAAGGTAGTCTCC
*
449451 AGGGTCAAAGC
1 AAGGTCAAAGC
449462 AAATAGGCAG
Statistics
Matches: 407, Mismatches: 98, Indels: 18
0.78 0.19 0.03
Matches are distributed among these distances:
166 2 0.00
167 125 0.31
168 277 0.68
169 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (168 bp):
AAGGTCAAAGCCGACAAGTAGACTGAAGGTAAGAAAGTCTCTAAGATCAAAGTCGATAGGCAGAC
TTAAGATGAGGCAGTCTCCAAGGTCAAAGCCAACAAGCAGACTAAAGAGAAGAAAGTCTCCAAAG
TCAAAACTGACAGGTAGACTTGAGATAAGGTAGTCTCC
Found at i:449473 original size:84 final size:84
Alignment explanation
Indices: 448780--449474 Score: 511
Period size: 84 Copynumber: 8.3 Consensus size: 84
448770 GGAAGTTTCT
* * * * * ** * ** *
448780 AAGGTCAAAGCCGACAGGTAGACTAAAGGTCAAG-AAGTCTCCAAGATCAAAGCCAATAGACAAA
1 AAGGTCAAAGCCAACAGGCAGACTGAAGGT-AAGAAAGTCTCTAAGGTCAAAGCTGACAGGTAGA
* * * *
448844 CTTAAGACGAGGCAATCTCC
65 CTTGAGATGAGGTAGTCTCC
* * * * * *
448864 AAGGTCAAAGCCAACAAGCAGACTAAAGAG-AAGAAAGTCTCTAGGGTCAAAACTGATAGATAGA
1 AAGGTCAAAGCCAACAGGCAGACTGAAG-GTAAGAAAGTCTCTAAGGTCAAAGCTGACAGGTAGA
* * **
448928 CTTGAGATGAGGCAATCTAT
65 CTTGAGATGAGGTAGTCTCC
* * * * * * *
448948 AGGGTTAAAGCCGATAGGCAGACTGAACGTAAGAAAATCT-TAAGGTTAAAG-TCGACAGGTAGA
1 AAGGTCAAAGCCAACAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCT-GACAGGTAGA
*
449011 CTTAAGATGAGGTAGTCTCC
65 CTTGAGATGAGGTAGTCTCC
* **** * * * * *
449031 AAGGTTAAATTTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAAAGTCAAAGCTAACAGGCATAC
1 AAGGTCAAAGCCAACAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCTGACAGGTAGAC
* **
449096 TTAAGATGAGGTAGTCTTT
66 TTGAGATGAGGTAGTCTCC
** * *** * * * * * * *
449115 AAGGTCAAAGCTGATAGATGGACTGAAGATAAAAAAGTGTCTAAGATTAAAG-TCGATAGGCAGA
1 AAGGTCAAAGCCAACAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCT-GACAGGTAGA
**
449179 CTTGAGATGAGACAGTCTCC
65 CTTGAGATGAGGTAGTCTCC
* * * * * *
449199 AGGGTCAAAGCCAACAAGCAGACTGAAGAG-AAGAAAGTCTCCAAAGTCAAAACTGACAGGTAAA
1 AAGGTCAAAGCCAACAGGCAGACTGAAG-GTAAGAAAGTCTCTAAGGTCAAAGCTGACAGGTAGA
*
449263 CTTGAGATAAGGTAGTCTCC
65 CTTGAGATGAGGTAGTCTCC
* * * * *
449283 AAGGTCAAAGCCAACAAGTAGACTGAAGGTAAGAAAGTCTCTAGGGTCAAAGCTGATAGGCAGAC
1 AAGGTCAAAGCCAACAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCTGACAGGTAGAC
* *
449348 TTAAGATGAGGTAGTCTCT
66 TTGAGATGAGGTAGTCTCC
* * * * * * * * *
449367 AGGGTTAAAGCCGACTGACAGACTAAAGGTAAGAAAGTCTCTAGGGTTAAAGCCGACAGGTAGAC
1 AAGGTCAAAGCCAACAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCTGACAGGTAGAC
*
449432 TTGAGATAAGGTAGTCTCC
66 TTGAGATGAGGTAGTCTCC
* * *
449451 AGGGTCAAAGCAAATAGGCAGACT
1 AAGGTCAAAGCCAACAGGCAGACT
449475 TGAGATGAGG
Statistics
Matches: 476, Mismatches: 125, Indels: 20
0.77 0.20 0.03
Matches are distributed among these distances:
82 1 0.00
83 70 0.15
84 402 0.84
85 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.19
Consensus pattern (84 bp):
AAGGTCAAAGCCAACAGGCAGACTGAAGGTAAGAAAGTCTCTAAGGTCAAAGCTGACAGGTAGAC
TTGAGATGAGGTAGTCTCC
Found at i:449490 original size:42 final size:42
Alignment explanation
Indices: 449170--449515 Score: 214
Period size: 42 Copynumber: 8.3 Consensus size: 42
449160 ATTAAAGTCG
* *
449170 ATAGGCAGACTTGAGATGAGACAGTCTCCAGGGTCAAAGCCA
1 ATAGGCAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCCA
* * * ** * **
449212 ACAAGCAGAC-TGAAGAGAAGAAAGTCTCCAAAGTCAAAACTG
1 ATAGGCAGACTTG-AGATAAGAAAGTCTCCAGGGTCAAAGCCA
* * * ** *
449254 ACAGGTAAACTTGAGATAAGGTAGTCTCCAAGGTCAAAGCCA
1 ATAGGCAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCCA
* * * * * **
449296 ACAAGTAGAC-TGAAGGTAAGAAAGTCTCTAGGGTCAAAGCTG
1 ATAGGCAGACTTG-AGATAAGAAAGTCTCCAGGGTCAAAGCCA
* * ** * *
449338 ATAGGCAGACTTAAGATGAGGTAGTCTCTAGGGTTAAAGCCGA
1 ATAGGCAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCC-A
* * ** * * * *
449381 CT-GACAGACTAAAGGTAAGAAAGTCTCTAGGGTTAAAGCCG
1 ATAGGCAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCCA
* * ** *
449422 ACAGGTAGACTTGAGATAAGGTAGTCTCCAGGGTCAAAGCAA
1 ATAGGCAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCCA
* ** *
449464 ATAGGCAGACTTGAGATGAGGCAGTCT-TAGGGTCAAAGCCA
1 ATAGGCAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCCA
*
449505 ATAGACAGACT
1 ATAGGCAGACT
449516 GAAAAGTAAG
Statistics
Matches: 230, Mismatches: 68, Indels: 13
0.74 0.22 0.04
Matches are distributed among these distances:
41 26 0.11
42 200 0.87
43 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.18
Consensus pattern (42 bp):
ATAGGCAGACTTGAGATAAGAAAGTCTCCAGGGTCAAAGCCA
Found at i:452161 original size:79 final size:79
Alignment explanation
Indices: 451992--452148 Score: 217
Period size: 79 Copynumber: 2.0 Consensus size: 79
451982 AGTATCTCCG
* * * * **
451992 ATTATAAAAAATCGGTGTTCT-AGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAAG
1 ATTATAGAAAATTGGTGTTTTGA-AAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAG
452056 GTTGGAGCATCCCTA
65 GTTGGAGCATCCCTA
* *
452071 ATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTTAAAAATAACGAGG
1 ATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAGG
*
452136 TTGGAGTATCCCT
66 TTGGAGCATCCCT
452149 GATTGTGGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 67 0.99
80 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (79 bp):
ATTATAGAAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAGG
TTGGAGCATCCCTA
Found at i:452177 original size:79 final size:78
Alignment explanation
Indices: 452012--452177 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 78
452002 ATCGGTGTTC
* **
452012 TAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACAAGGTTGGAGCATCCCTAATTATA
1 TAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGCATCCCTAATTATA
****
452077 GAAAATTGGTGTT
66 GAAAATCAAAGTT
* * * * * *
452090 TTGAAAATAAAATCAGGGTTGGAGTATCCCCTTAAAAATAACGAGGTTGGAGTATCCCTGATTGT
1 TAG-AAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGCATCCCTAATTAT
*
452155 GGAAAATCAAAGCTT
65 AGAAAATCAAAG-TT
452170 TAGAAATA
1 TAGAAATA
452178 TCCCCACCAA
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
78 2 0.03
79 65 0.92
80 4 0.06
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (78 bp):
TAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGCATCCCTAATTATA
GAAAATCAAAGTT
Found at i:452443 original size:79 final size:78
Alignment explanation
Indices: 452348--452548 Score: 217
Period size: 79 Copynumber: 2.6 Consensus size: 78
452338 CCGAGATGAA
* * * * * *
452348 AAATCAATATTTTAGAAGTAAAGCTAGGGTTGAAGTATCCCCTAAAAAATAACAAGGCTGGAGTA
1 AAATCAAGA-TTTAGAAATAAAGCCAGGGTTGGAGTATCCCCGAAAAAATAACAAGGCTAGAGTA
452413 TCCTCA-ATTGTG-G
65 TCC-CAGATTGTGAG
* * * ** * *
452426 AAAATCGAAGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGCCAAAATAACAGGGTTAGAGT
1 -AAATC-AAGATTTAGAAATAAAGCCAGGGTTGGAGTATCCCCGAAAAAATAACAAGGCTAGAGT
452491 ATCCCAGATTGTGAG
64 ATCCCAGATTGTGAG
* *
452506 AAATCAATATTTAAAAATAAAGCCAGGGTTGGAGTATCCCCGA
1 AAATCAAGATTTAGAAATAAAGCCAGGGTTGGAGTATCCCCGA
452549 GATGAAAAAT
Statistics
Matches: 100, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
78 34 0.34
79 63 0.63
80 3 0.03
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (78 bp):
AAATCAAGATTTAGAAATAAAGCCAGGGTTGGAGTATCCCCGAAAAAATAACAAGGCTAGAGTAT
CCCAGATTGTGAG
Found at i:454870 original size:20 final size:20
Alignment explanation
Indices: 454845--454897 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
454835 AAAAATGTTT
* *
454845 GAATGTATCGATACATTGTA
1 GAATGTATCGATACAATGAA
454865 GAATGTATCGATACAATGAA
1 GAATGTATCGATACAATGAA
*
454885 CAATGTATCGATA
1 GAATGTATCGATA
454898 TAAATTGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
GAATGTATCGATACAATGAA
Found at i:455572 original size:41 final size:41
Alignment explanation
Indices: 455471--455925 Score: 146
Period size: 41 Copynumber: 10.6 Consensus size: 41
455461 GTCCCACTTT
* ** *
455471 TTGAGGACAAAGG-AAAAGAGAATGAAATGGTTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAAAATGAAATGCATCCTGCTCC
*
455511 TTGAGGACAAAGGAAGAAAGAAAATGAAA-GCATCCTGCTTC
1 TTGAGGACAAAGGAA-AAAGAAAATGAAATGCATCCTGCTCC
* * *
455552 TTGAGGACAAAGTGAAAAAG---A-G---TACGTCCTGCT-T
1 TTGAGGACAAAG-GAAAAAGAAAATGAAATGCATCCTGCTCC
* * *
455586 TTCAAGGACAAAGGAAAAAAAGGAAAATGAAATGCGTCCTGCTCT
1 TT-GAGGACAAAGG--AAAAA-GAAAATGAAATGCATCCTGCTCC
* * * *
455631 TTGAGGACAAA-AAAAAAGAAAAAT-AAAGTACGTCCTGCTCT
1 TTGAGGACAAAGGAAAAAG-AAAATGAAA-TGCATCCTGCTCC
* * * *
455672 TTGAGGACAAAAAGGAAAAGAAGGAAATTAAGTGCATCCTGCTCT
1 TTGAGGAC--AAAGG-AAA-AAGAAAATGAAATGCATCCTGCTCC
* * * ** *
455717 TTAAGGACAAAAGGGGAAAAGAAGGGAATGGAATGTGTCCTGCTCT
1 TTGAGGAC-AAA-GGAAAAAGAA---AATGAAATGCATCCTGCTCC
* * * *
455763 TTGAGGACAAGGGGGAAAAGGAAAAATAAGGGAAATGAAGTGCGTCTTGCTCT
1 TTGAGGACAA--AGGAAAAAG-AAAAT----GAAATGCA-T-C--C-TGCTCC
* * * **
455816 TTGAGGACAAAGGAAAAAGGAGAAT-AAA-ACATCTTGCTTT
1 TTGAGGACAAAGGAAAAA-GAAAATGAAATGCATCCTGCTCC
** *
455856 TTGAGGACAAAAGGGAAAAGAGAGAAATGAAATGTGTCCTGCTCT
1 TTGAGGAC-AAA-GGAAAA-AGA-AAATGAAATGCATCCTGCTCC
*
455901 TTGAGGGCAAAGGAGAAAAGGAAAA
1 TTGAGGACAAAGGA-AAAA-GAAAA
455926 AGTGTCTTGC
Statistics
Matches: 319, Mismatches: 47, Indels: 95
0.69 0.10 0.21
Matches are distributed among these distances:
34 3 0.01
35 17 0.05
36 5 0.02
37 2 0.01
38 1 0.00
40 31 0.10
41 59 0.18
42 23 0.07
43 19 0.06
44 39 0.12
45 47 0.15
46 36 0.11
47 2 0.01
48 5 0.02
49 1 0.00
50 1 0.00
51 10 0.03
52 2 0.01
53 16 0.05
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.19
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGAAAATGAAATGCATCCTGCTCC
Found at i:455714 original size:45 final size:45
Alignment explanation
Indices: 455595--455911 Score: 244
Period size: 45 Copynumber: 7.0 Consensus size: 45
455585 TTTCAAGGAC
* *
455595 AAAGGAAAAAAAGGAAAATGAAATGCGTCCTGCTCTTTGAGGACAA
1 AAAGGAAAAGAAGG-AAATGAAGTGCGTCCTGCTCTTTGAGGACAA
* *
455641 AAA--AAAAGAA--AAATAAAGTACGTCCTGCTCTTTGAGGACAA
1 AAAGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA
* * *
455682 AAAGGAAAAGAAGGAAATTAAGTGCATCCTGCTCTTTAAGGACAA
1 AAAGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA
* * *
455727 AAGGGGAAAAGAAGGGAATGGAA-TGTGTCCTGCTCTTTGAGGACAAGGGGGA
1 AA-AGGAAAAGAAGGAAAT-GAAGTGCGTCCTGCTCTTTGAGGAC-A-----A
* *
455779 AAAGGAAAAATAAGGGAAATGAAGTGCGTCTTGCTCTTTGAGGAC--
1 AAAGG-AAAAGAA-GGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA
** * * *
455824 AAAGG-AAA-AAGGAGAAT-AA-AACATCTTGCTTTTTGAGGACAA
1 AAAGGAAAAGAAGGA-AATGAAGTGCGTCCTGCTCTTTGAGGACAA
* * * *
455866 AAGGGAAAAG-AGAGAAATGAAATGTGTCCTGCTCTTTGAGGGCAA
1 AAAGGAAAAGAAG-GAAATGAAGTGCGTCCTGCTCTTTGAGGACAA
455911 A
1 A
455912 GGAGAAAAGG
Statistics
Matches: 217, Mismatches: 31, Indels: 47
0.74 0.11 0.16
Matches are distributed among these distances:
40 17 0.08
41 36 0.17
42 9 0.04
43 18 0.08
44 10 0.05
45 51 0.24
46 35 0.16
47 3 0.01
51 2 0.01
52 12 0.06
53 24 0.11
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.20
Consensus pattern (45 bp):
AAAGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAA
Found at i:455898 original size:138 final size:143
Alignment explanation
Indices: 455651--455926 Score: 359
Period size: 138 Copynumber: 2.0 Consensus size: 143
455641 AAAAAAAGAA
**
455651 AAATAAAGTACGTCCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATTAAGTGCATCCTGCTC
1 AAATAAAGTACGTCCTGCTCTTTGAGGAC-AAAAGGAAAAGAAGGAAATTAAGAACATCCTGCTC
* * * *
455716 TTTAAGGACAAAAGGGGAAAAGAAGGGAATGGAATGTGTCCTGCTCTTTGAGGACAAGGGGGAAA
65 TTTAAGGACAAAAGGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAA
455781 AGGAAAAATAAGGG
130 AGGAAAAATAAGGG
* * * * *
455795 AAATGAAGTGCGTCTTGCTCTTTGAGGAC-AAAGG-AAA-AAGGAGAA-TAA-AACATCTTGCTT
1 AAATAAAGTACGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGA-AATTAAGAACATCCTGCTC
* *
455855 TTTGAGGACAAAA-GGGAAAAG-AGAGAAATGAAATGTGTCCTGCTCTTTGAGGGCAAAGGAGAA
65 TTTAAGGACAAAAGGGGAAAAGAAG-GAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAA
455918 AAGGAAAAA
129 AAGGAAAAA
455927 GTGTCTTGCT
Statistics
Matches: 117, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
137 2 0.02
138 51 0.44
139 20 0.17
140 8 0.07
141 5 0.04
142 5 0.04
144 26 0.22
ACGTcount: A:0.41, C:0.11, G:0.28, T:0.20
Consensus pattern (143 bp):
AAATAAAGTACGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATTAAGAACATCCTGCTCT
TTAAGGACAAAAGGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAA
GGAAAAATAAGGG
Found at i:455937 original size:38 final size:38
Alignment explanation
Indices: 455889--455981 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 38
455879 GAAATGAAAT
*
455889 GTGTCCTGCTCTTTGAGGGCAAAGGAGAAAAGGAAAAA
1 GTGTCTTGCTCTTTGAGGGCAAAGGAGAAAAGGAAAAA
** * *
455927 GTGTCTTGCTC-AAGAGGGCAAAGGAGGAAAGGAAAAG
1 GTGTCTTGCTCTTTGAGGGCAAAGGAGAAAAGGAAAAA
**
455964 GCATCTTGCTCTTTGAGG
1 GTGTCTTGCTCTTTGAGG
455982 ACTAAAAAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
37 31 0.69
38 14 0.31
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.20
Consensus pattern (38 bp):
GTGTCTTGCTCTTTGAGGGCAAAGGAGAAAAGGAAAAA
Found at i:456142 original size:62 final size:61
Alignment explanation
Indices: 455970--456425 Score: 477
Period size: 62 Copynumber: 7.4 Consensus size: 61
455960 AAAGGCATCT
* * * *
455970 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTCGAAAAG-AAAAGGTGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCCACTTGTGTGGGCTT-TAAAAGAAAAAGGTGTCC
* * ** *
456031 TGCTCTTTGAGGACTAAAAGGTGCCATCAACTCATGTGGGCTTTGAAAAGAAAAAGGTGTCA
1 TGCTCTTTGAGGACTAAAAGGTGCCACCCACTTGTGTGGGCTTT-AAAAGAAAAAGGTGTCC
* * * * * *
456093 TGTTCTTTGAGGACTAGAAAAGTGCCACCCACATGTATGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTA-AAAGGTGCCACCCACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCC
* * * * * *
456155 TGCTCTTTGAGGACTAAAGGGTACCA-CCAGCTTGTATGGGCTTTGAAAAAAAAAAGGTATCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCCA-CTTGTGTGGGCTTT-AAAAGAAAAAGGTGTCC
* * * * ** *
456217 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTTTGTGGGCTTCAAAAGGAAAAGGCATCT
1 TGCTCTTTGAGGACTA-AAAGGTGCCACCCACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCC
* *
456279 TGCTCTTTGAGGACTAAAGGGTGCCA-CCAGCTTGTGTGGGCTTTGAAAAGAAAAAGGTGCCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCCA-CTTGTGTGGGCTTT-AAAAGAAAAAGGTGTCC
* * ** *
456341 TGCTCTTTGAGGACTATCAAGGTGCCACCAACTTGTGTGGGCTTCGAAAGGAAAAGGTGTCC
1 TGCTCTTTGAGGACTA-AAAGGTGCCACCCACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCC
* *
456403 TACTCTTTGAGGACTAAAGGGTG
1 TGCTCTTTGAGGACTAAAAGGTG
456426 AAAGGAGAGA
Statistics
Matches: 330, Mismatches: 54, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
60 5 0.02
61 91 0.28
62 169 0.51
63 61 0.18
64 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCCACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCC
Found at i:456155 original size:124 final size:124
Alignment explanation
Indices: 455970--456425 Score: 628
Period size: 124 Copynumber: 3.7 Consensus size: 124
455960 AAAGGCATCT
* *
455970 TGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTCGAAAA-GAAAAGGTGTCCTG
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTC-AAAAGGAAAAGGCGTCCTG
* * * **
456033 CTCTTTGAGGACTAAAAGGTGCCATCAACTCATGTGGGCTTTGAAAAGAAAAAGGTGTCA
65 CTCTTTGAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCA
* * * * *
456093 TGTTCTTTGAGGACTAGAAAAGTGCCACCCACATGTATGGGCTTTAAAAGGAAAAGGCGTCCTGC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAAGGCGTCCTGC
* * * * *
456158 TCTTTGAGGACTAAAGGGTACCACCAGCTTGTATGGGCTTTGAAAAAAAAAAGGTATCT
66 TCTTTGAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCA
* * * *
456217 TGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTTTGTGGGCTTCAAAAGGAAAAGGCATCTTGC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAAGGCGTCCTGC
* *
456282 TCTTTGAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAGGTGCCC
66 TCTTTGAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCA
** * * * *
456341 TGCTCTTTGAGGACTATCAAGGTGCCACCAACTTGTGTGGGCTTCGAAAGGAAAAGGTGTCCTAC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAAGGCGTCCTGC
456406 TCTTTGAGGACTAAAGGGTG
66 TCTTTGAGGACTAAAGGGTG
456426 AAAGGAGAGA
Statistics
Matches: 291, Mismatches: 40, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
123 19 0.07
124 272 0.93
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (124 bp):
TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAAGGCGTCCTGC
TCTTTGAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCA
Found at i:456478 original size:100 final size:101
Alignment explanation
Indices: 456339--456533 Score: 286
Period size: 100 Copynumber: 1.9 Consensus size: 101
456329 AAAAAGGTGC
* * *
456339 CCTGCTCTTTGAGGACTATCAAGGTGCCACCAACTTGTGTGGGCTTCGAAAGGAAAAGGTGTCCT
1 CCTGCTCTTTGAGGACTAGCAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAAGGCGTCCT
*
456404 ACTCTTTGAGGACT-AAAGGGTGAAAGGAGAGAGCGT
66 ACTCTTTGAGGACTGAAA-AGTGAAAGGAGAGAGCGT
* * * *
456440 CCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 CCTGCTCTTTGAGGACTAGCAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAAGGCGTCCT
*
456504 ACTCTTTGAGGATTGAAAAGTGAAAGGAGA
66 ACTCTTTGAGGACTGAAAAGTGAAAGGAGA
456534 AAGTTTAGAT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 62 0.74
101 22 0.26
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (101 bp):
CCTGCTCTTTGAGGACTAGCAAGGTGCCACCAACTTGTGTGGGCTTCAAAAGGAAAAGGCGTCCT
ACTCTTTGAGGACTGAAAAGTGAAAGGAGAGAGCGT
Found at i:457508 original size:1 final size:1
Alignment explanation
Indices: 457502--457591 Score: 72
Period size: 1 Copynumber: 90.0 Consensus size: 1
457492 CTTTTCTCTC
* * * * * * * **
457502 TTTTTTTCTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTTTTATTTTTATGTTTTTTTTTTGC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* **
457567 TTTTTTGTTTTTTGGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
457592 AAAAAATGTG
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (1 bp):
T
Found at i:457513 original size:8 final size:8
Alignment explanation
Indices: 457488--457572 Score: 59
Period size: 8 Copynumber: 10.4 Consensus size: 8
457478 AAGCAGGCTC
457488 TTTTCTTT
1 TTTTCTTT
*
457496 TCTCTCTTT
1 T-TTTCTTT
457505 TTTTCTTTT
1 TTTTC-TTT
*
457514 TTTTGTTT
1 TTTTCTTT
*
457522 TTTTGTTT
1 TTTTCTTT
*
457530 TTTTGTTT
1 TTTTCTTT
457538 TTTT-TTT
1 TTTTCTTT
457545 TATTT-TTAT
1 T-TTTCTT-T
457554 GTTTT-TTT
1 -TTTTCTTT
*
457562 TTTGCTTT
1 TTTTCTTT
457570 TTT
1 TTT
457573 GTTTTTTGGT
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
7 7 0.10
8 39 0.58
9 20 0.30
10 1 0.01
ACGTcount: A:0.02, C:0.07, G:0.06, T:0.85
Consensus pattern (8 bp):
TTTTCTTT
Found at i:457525 original size:20 final size:19
Alignment explanation
Indices: 457502--457591 Score: 92
Period size: 19 Copynumber: 4.6 Consensus size: 19
457492 CTTTTCTCTC
* *
457502 TTTTTTTCTTTTTT-TTGT
1 TTTTTTTTTTTTTTGTTTT
*
457520 TTTTTTGTTTTTTTGTTTT
1 TTTTTTTTTTTTTTGTTTT
*
457539 TTTTTTTATTTTTATGTTTT
1 TTTTTTT-TTTTTTTGTTTT
**
457559 TTTTTTGCTTTTTTGTTTT
1 TTTTTTTTTTTTTTGTTTT
457578 TTGGTTTTTTTTTT
1 TT--TTTTTTTTTT
457592 AAAAAATGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
18 12 0.21
19 21 0.36
20 17 0.29
21 8 0.14
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (19 bp):
TTTTTTTTTTTTTTGTTTT
Found at i:464291 original size:337 final size:337
Alignment explanation
Indices: 463676--464342 Score: 1325
Period size: 337 Copynumber: 2.0 Consensus size: 337
463666 GAATGATGGG
463676 CATTGCTGCAAATCATGTGCCTGATTGCAGTAGCAACAGGATGATCCCATGACTTCTTCTTTCTG
1 CATTGCTGCAAATCATGTGCCTGATTGCAGTAGCAACAGGATGATCCCATGACTTCTTCTTTCTG
463741 GCTCACTAATCCTATTTTTACAAAAGCTTGCCATACTTTAGAAATTGGGGTCTTGACTTCTTTAA
66 GCTCACTAATCCTATTTTTACAAAAGCTTGCCATACTTTAGAAATTGGGGTCTTGACTTCTTTAA
463806 CGCTCCTCTTGACCCAGCAACTTTTCCCTTTCATTATGGCATTTATCATTGGTTCGGCATGATTG
131 CGCTCCTCTTGACCCAGCAACTTTTCCCTTTCATTATGGCATTTATCATTGGTTCGGCATGATTG
463871 GGGAGTGGATTGGCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGC
196 GGGAGTGGATTGGCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGC
*
463936 AAACCCTACACTTTTCTCCTAAACAATGTGCAATTCTCTATAGAATGGCCTTATGGCCCGGCATG
261 AAACCCTACACTTTTCTCCTAAACAATGTGCAATTCTCAATAGAATGGCCTTATGGCCCGGCATG
464001 ATATTTGCATGA
326 ATATTTGCATGA
464013 CATTGCTGCAAATCATGTGCCTGATTGCAGTAGCAACAGGATGATCCCATGACTTCTTCTTTCTG
1 CATTGCTGCAAATCATGTGCCTGATTGCAGTAGCAACAGGATGATCCCATGACTTCTTCTTTCTG
464078 GCTCACTAATCCTATTTTTACAAAAGCTTGCCATACTTTAGAAATTGGGGTCTTGACTTCTTTAA
66 GCTCACTAATCCTATTTTTACAAAAGCTTGCCATACTTTAGAAATTGGGGTCTTGACTTCTTTAA
464143 CGCTCCTCTTGACCCAGCAACTTTTCCCTTTCATTATGGCATTTATCATTGGTTCGGCATGATTG
131 CGCTCCTCTTGACCCAGCAACTTTTCCCTTTCATTATGGCATTTATCATTGGTTCGGCATGATTG
464208 GGGAGTGGATTGGCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGC
196 GGGAGTGGATTGGCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGC
464273 AAACCCTACACTTTTCTCCTAAACAATGTGCAATTCTCAATAGAATGGCCTTATGGCCCGGCATG
261 AAACCCTACACTTTTCTCCTAAACAATGTGCAATTCTCAATAGAATGGCCTTATGGCCCGGCATG
464338 ATATT
326 ATATT
464343 CGTAGTAAGC
Statistics
Matches: 329, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
337 329 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (337 bp):
CATTGCTGCAAATCATGTGCCTGATTGCAGTAGCAACAGGATGATCCCATGACTTCTTCTTTCTG
GCTCACTAATCCTATTTTTACAAAAGCTTGCCATACTTTAGAAATTGGGGTCTTGACTTCTTTAA
CGCTCCTCTTGACCCAGCAACTTTTCCCTTTCATTATGGCATTTATCATTGGTTCGGCATGATTG
GGGAGTGGATTGGCCCAACATTAGGCCCTGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGC
AAACCCTACACTTTTCTCCTAAACAATGTGCAATTCTCAATAGAATGGCCTTATGGCCCGGCATG
ATATTTGCATGA
Found at i:470455 original size:79 final size:79
Alignment explanation
Indices: 470324--470491 Score: 223
Period size: 79 Copynumber: 2.1 Consensus size: 79
470314 TGGCTGAAGT
*
470324 ATCCCCGATTATGGAAAATCAGTGTTCTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAA
1 ATCCCCGATTATAGAAAATCAGTGTTCTAGAAATAAAATCGGGGTTGGAGTATCCCCT-AGAAAA
*
470388 TAACAGGGTTGGAGC
65 TAACAGGGTTAGAGC
* * * * *
470403 ATCCCTGATTATAGAAAATCGGTGTT-TTGAAAATAAAATTGGGGTTGGAGTATCCCCTTGAAAA
1 ATCCCCGATTATAGAAAATCAGTGTTCTAG-AAATAAAATCGGGGTTGGAGTATCCCCTAGAAAA
* *
470467 TAACGGGGTTAGAGT
65 TAACAGGGTTAGAGC
470482 ATCCCCGATT
1 ATCCCCGATT
470492 GTGGAACATT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 3 0.04
79 74 0.96
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (79 bp):
ATCCCCGATTATAGAAAATCAGTGTTCTAGAAATAAAATCGGGGTTGGAGTATCCCCTAGAAAAT
AACAGGGTTAGAGC
Found at i:470516 original size:79 final size:78
Alignment explanation
Indices: 470324--470516 Score: 192
Period size: 79 Copynumber: 2.4 Consensus size: 78
470314 TGGCTGAAGT
* *
470324 ATCCCCGATTATGGAAAATC-AGTGTTCTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAA
1 ATCCCCGATTATAGAAAATCGA-AGTT-TAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAA
*
470388 TAACAGGGTTGGAGC
64 TAACAGGGTTAGAGC
* ** * * *
470403 ATCCCTGATTATAGAAAATCGGTGTTTTGAAAATAAAATTGGGGTTGGAGTATCCCCT-TGAAAA
1 ATCCCCGATTATAGAAAATCGAAGTTTAG-AAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAA
* *
470467 TAACGGGGTTAGAGT
64 TAACAGGGTTAGAGC
* * * *
470482 ATCCCCGATTGTGGAACATTGAAGCTTTAGAAATA
1 ATCCCCGATTATAGAAAATCGAAG-TTTAGAAATA
470517 TCCTCGCCAA
Statistics
Matches: 93, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
78 3 0.03
79 86 0.92
80 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (78 bp):
ATCCCCGATTATAGAAAATCGAAGTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATA
ACAGGGTTAGAGC
Found at i:470710 original size:50 final size:50
Alignment explanation
Indices: 470633--470728 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
470623 GTCCCCGATT
** * * *
470633 ATGAAAAATTGATGTTTTGGAAATAAAACAGGGGTCGGAGTATCCCCAAG
1 ATGAAAAATCAATATTTTAGAAATAAAACAGGGGTCGAAGTATCCCCAAG
* * *
470683 ATGAAAAATCAATATTTTAGAAGTAAAACCGGGGTTGAAGTATCCC
1 ATGAAAAATCAATATTTTAGAAATAAAACAGGGGTCGAAGTATCCC
470729 TTCCAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (50 bp):
ATGAAAAATCAATATTTTAGAAATAAAACAGGGGTCGAAGTATCCCCAAG
Found at i:470770 original size:79 final size:79
Alignment explanation
Indices: 470670--470888 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 79
470660 ACAGGGGTCG
* * * **
470670 GAGTATCCCCAA-GATGAAAAATCAATATTTTAGAAGTAAAACCGGGGTTGAAGTATCCCTTCCA
1 GAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTGAAGTATCCCCGCCA
*
470734 AAATAACAGGGTTA
66 AAATAACAGGGCTA
* * *
470748 GAGTATCCCCAATTATGGAAAATCAA-AGCTTTAGAAATAAGGCCGGGGTT-AGAGTATCCCCGC
1 GAGTATCCCCAATTATGAAAAATCAATA-TTTTAGAAATAAAGCCGGGGTTGA-AGTATCCCCGC
** *
470811 CAAAATAATGGGGCTG
64 CAAAATAACAGGGCTA
* * *
470827 GAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCG
1 GAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTGAAGTATCCCCG
470889 AGATGAAAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
78 14 0.12
79 103 0.87
80 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (79 bp):
GAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAGCCGGGGTTGAAGTATCCCCGCCA
AAATAACAGGGCTA
Found at i:470770 original size:129 final size:129
Alignment explanation
Indices: 470533--470770 Score: 286
Period size: 129 Copynumber: 1.8 Consensus size: 129
470523 CCAAAATAAT
* * ** *
470533 GGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGTCGAGGTTAGAATGTC
1 GGGGTCGGAGTATCCCCAA-TGTGAAAAATCAATATTTTAGAAATAAAACCGAGGTTAGAATATC
* * * *
470598 CCCTCAGAAATCACGGGATTGGAGTGTCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACA
65 CCCTCAGAAATAACGGGATTAGAGTATCCCCAATTATGAAAAATTGATGTTTTGGAAATAAAACA
* *
470663 GGGGTCGGAGTATCCCCAA-GATGAAAAATCAATATTTTAGAAGTAAAACCGGGGTT-GAAGTAT
1 GGGGTCGGAGTATCCCCAATG-TGAAAAATCAATATTTTAGAAATAAAACCGAGGTTAGAA-TAT
* *
470726 CCCTTCCA-AAATAACAGGG-TTAGAGTATCCCCAATTATGGAAAAT
64 CCCCT-CAGAAATAAC-GGGATTAGAGTATCCCCAATTATGAAAAAT
470771 CAAAGCTTTA
Statistics
Matches: 91, Mismatches: 13, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
128 4 0.04
129 64 0.70
130 23 0.25
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (129 bp):
GGGGTCGGAGTATCCCCAATGTGAAAAATCAATATTTTAGAAATAAAACCGAGGTTAGAATATCC
CCTCAGAAATAACGGGATTAGAGTATCCCCAATTATGAAAAATTGATGTTTTGGAAATAAAACA
Found at i:470883 original size:208 final size:208
Alignment explanation
Indices: 470523--470900 Score: 485
Period size: 208 Copynumber: 1.8 Consensus size: 208
470513 AATATCCTCG
** * * * *
470523 CCAAAATAATGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGTCGAGG
1 CCAAAATAACAGGGTTAGAGTATCCCCAATTATGAGAAATCAATACTTTAGAAATAAAGCCGAGG
* * * * * ** * *
470588 TTAGAATGTCCCCTCAGAAATCACGGGATTGGAGTGTCCCCGATTATGAAAAATTGATGTTTTGG
66 TTAGAATATCCCCCCAGAAATAACGGGACTGGAGTATCCCCGATTATGAAAAATCAATATTTTAG
470653 AAATAAAACAGGGGTCGGAGTATCCCCAAGATGAAAAATCAATATTTTAGAAGTAAAACCGGGGT
131 AAATAAAACAGGGGTCGGAGTATCCCCAAGATGAAAAATCAATATTTTAGAAGTAAAACCGGGGT
470718 TGAAGTATCCCTT
196 TGAAGTATCCCTT
* *
470731 CCAAAATAACAGGGTTAGAGTATCCCCAATTATG-GAAAATCAA-AGCTTTAGAAATAAGGCCGG
1 CCAAAATAACAGGGTTAGAGTATCCCCAATTATGAG-AAATCAATA-CTTTAGAAATAAAGCCGA
* * *
470794 GGTTAGAGTATCCCCGCCA-AAATAATGGGGCTGGAGTATCCCCGATTATGAAAAATCAATATTT
64 GGTTAGAATATCCCC-CCAGAAATAACGGGACTGGAGTATCCCCGATTATGAAAAATCAATATTT
* * *
470858 TAGAAATAAAGTC-GGGGTTGGAGTATCCCCGAGATGAAAAATC
128 TAGAAATAAA-ACAGGGGTCGGAGTATCCCCAAGATGAAAAATC
470901 TAAAAATTTA
Statistics
Matches: 143, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
207 2 0.01
208 138 0.97
209 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (208 bp):
CCAAAATAACAGGGTTAGAGTATCCCCAATTATGAGAAATCAATACTTTAGAAATAAAGCCGAGG
TTAGAATATCCCCCCAGAAATAACGGGACTGGAGTATCCCCGATTATGAAAAATCAATATTTTAG
AAATAAAACAGGGGTCGGAGTATCCCCAAGATGAAAAATCAATATTTTAGAAGTAAAACCGGGGT
TGAAGTATCCCTT
Found at i:473255 original size:13 final size:13
Alignment explanation
Indices: 473237--473264 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
473227 GTAAACCCAG
473237 AATGTATCGATAC
1 AATGTATCGATAC
473250 AATGTATCGATAC
1 AATGTATCGATAC
473263 AA
1 AA
473265 ATTGTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:473685 original size:5 final size:5
Alignment explanation
Indices: 473675--473745 Score: 51
Period size: 5 Copynumber: 14.8 Consensus size: 5
473665 TTATTCAATT
* * ** *
473675 TTTTC TTTTC TTTTC TTTTT TTCTTT TTTTC -TTTC TTTAA TTTT- ATTT-
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC
*
473723 TTTTC TTTTC TTCTC TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTT
473746 ATGCATAGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
4 14 0.26
5 35 0.65
6 5 0.09
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:473710 original size:30 final size:32
Alignment explanation
Indices: 473676--473747 Score: 94
Period size: 30 Copynumber: 2.3 Consensus size: 32
473666 TATTCAATTT
* *
473676 TTTCTTTTCTTTTCTTTTTTTCTTTT-TT-TC
1 TTTCTTTTATTTTATTTTTTTCTTTTCTTCTC
*
473706 TTTCTTTAATTTTATTTTTTTCTTTTCTTCTC
1 TTTCTTTTATTTTATTTTTTTCTTTTCTTCTC
*
473738 TTTTTTTTAT
1 TTTCTTTTAT
473748 GCATAGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 23 0.66
31 2 0.06
32 10 0.29
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (32 bp):
TTTCTTTTATTTTATTTTTTTCTTTTCTTCTC
Found at i:476813 original size:32 final size:32
Alignment explanation
Indices: 476771--476840 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
476761 TGTTGCGAAG
476771 CTGCTGGAGTGCTCAAAGGTTGGGAGCTGCTA
1 CTGCTGGAGTGCTCAAAGGTTGGGAGCTGCTA
* *
476803 CTGCTTGAGTGCTCAAAGGTTGGGAGCTGCTG
1 CTGCTGGAGTGCTCAAAGGTTGGGAGCTGCTA
476835 CTGCTG
1 CTGCTG
476841 TTGGTGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.16, C:0.20, G:0.37, T:0.27
Consensus pattern (32 bp):
CTGCTGGAGTGCTCAAAGGTTGGGAGCTGCTA
Found at i:477168 original size:46 final size:47
Alignment explanation
Indices: 477074--477190 Score: 173
Period size: 46 Copynumber: 2.5 Consensus size: 47
477064 TGCGAGCTGT
* * * *
477074 TTGCTGGAGTGGATACTGGAAGCTGGTTTTTTATCGTGGATTGGAGG
1 TTGCTGGAATGGATGCTGGAAGCTGGCTTTTGATCGTGGATTGGAGG
* *
477121 TTGCTAGAATGGATGCTAGAAGCT-GCTTTTGATCGTGGATTGGAGG
1 TTGCTGGAATGGATGCTGGAAGCTGGCTTTTGATCGTGGATTGGAGG
477167 TTGCTGGAATGGATGCTGGAAGCT
1 TTGCTGGAATGGATGCTGGAAGCT
477191 ATCCGTGGGC
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
46 42 0.68
47 20 0.32
ACGTcount: A:0.20, C:0.10, G:0.37, T:0.33
Consensus pattern (47 bp):
TTGCTGGAATGGATGCTGGAAGCTGGCTTTTGATCGTGGATTGGAGG
Found at i:477182 original size:137 final size:137
Alignment explanation
Indices: 476992--477278 Score: 369
Period size: 137 Copynumber: 2.1 Consensus size: 137
476982 CTTACTGGAG
* *
476992 TGGATGCTGGAAGCTGGTTTTTAATCGTGGATTAGAGGCTACTAGAATGGATGCTGGAAGCTATC
1 TGGATGCTAGAAGCTGGCTTTTAATCGTGGATTAGAGGCTACTAGAATGGATGCTGGAAGCTATC
* * ** * * * * * *
477057 TGTGGGTTGCGAGCTGTTTGCTGGAGTGGATACTGGAAGCTGGTTTTTTATCGTGGATTGGAGGT
66 CGTGGGCTGCGAGCTACTAGCTGGAGTGGATACTAGAAG-TGGCTTTTGATCGTGGATTAGAGGC
477122 TGCTAGAA
130 TGCTAGAA
* * * * *
477130 TGGATGCTAGAAGCT-GCTTTTGATCGTGGATTGGAGGTTGCTGGAATGGATGCTGGAAGCTATC
1 TGGATGCTAGAAGCTGGCTTTTAATCGTGGATTAGAGGCTACTAGAATGGATGCTGGAAGCTATC
* *
477194 CGTGGGCTGGGAGCTACTAGCTGGAGTGGATACTAGAAGTTGCTTTTGATCGTGGATTAGAGGCT
66 CGTGGGCTGCGAGCTACTAGCTGGAGTGGATACTAGAAGTGGCTTTTGATCGTGGATTAGAGGCT
*
477259 GCTGGAA
131 GCTAGAA
*
477266 TGGATGCTCGAAG
1 TGGATGCTAGAAG
477279 TTCTTTCTTA
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
136 39 0.30
137 75 0.59
138 14 0.11
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.31
Consensus pattern (137 bp):
TGGATGCTAGAAGCTGGCTTTTAATCGTGGATTAGAGGCTACTAGAATGGATGCTGGAAGCTATC
CGTGGGCTGCGAGCTACTAGCTGGAGTGGATACTAGAAGTGGCTTTTGATCGTGGATTAGAGGCT
GCTAGAA
Found at i:477270 original size:46 final size:46
Alignment explanation
Indices: 477101--477284 Score: 150
Period size: 46 Copynumber: 4.1 Consensus size: 46
477091 GGAAGCTGGT
* * * *
477101 TTTTTATCGTGGATTGGAGGTTGCTAGAATGGATGCTAGAAGCTGC
1 TTTTGATCGTGGATTGGAGGCTGCTGGAATGGATGCTAGAAGTTGC
* *
477147 TTTTGATCGTGGATTGGAGGTTGCTGGAATGGATGCTGGAA---GC
1 TTTTGATCGTGGATTGGAGGCTGCTGGAATGGATGCTAGAAGTTGC
* * * * *
477190 ---T-ATCCGTGGGCTGGGAGCTACTAGCTGGAGTGGATACTAGAAGTTGC
1 TTTTGAT-CGT-GGATTGGAG--GCT-GCTGGAATGGATGCTAGAAGTTGC
* *
477237 TTTTGATCGTGGATTAGAGGCTGCTGGAATGGATGCTCGAAGTT-C
1 TTTTGATCGTGGATTGGAGGCTGCTGGAATGGATGCTAGAAGTTGC
477282 TTT
1 TTT
477285 CTTACTGGAG
Statistics
Matches: 109, Mismatches: 17, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
39 2 0.02
40 4 0.04
41 7 0.06
43 3 0.03
44 16 0.15
45 4 0.04
46 57 0.52
47 4 0.04
49 6 0.06
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.33
Consensus pattern (46 bp):
TTTTGATCGTGGATTGGAGGCTGCTGGAATGGATGCTAGAAGTTGC
Found at i:477467 original size:35 final size:35
Alignment explanation
Indices: 477425--477527 Score: 134
Period size: 35 Copynumber: 2.9 Consensus size: 35
477415 CTGTCCTTGG
* *
477425 GCTGGAAGCTATCTTTTGATCGTGGATGGGAGGCT
1 GCTGGAAGCTATCATTTGATCATGGATGGGAGGCT
* * * *
477460 GCTGGAAGTTATCATTTGATCATGCACGGGAGCCT
1 GCTGGAAGCTATCATTTGATCATGGATGGGAGGCT
* *
477495 GCTGGAAGCTATCCTTTGATCATGGATCGGAGG
1 GCTGGAAGCTATCATTTGATCATGGATGGGAGG
477528 TTACTAGAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.29
Consensus pattern (35 bp):
GCTGGAAGCTATCATTTGATCATGGATGGGAGGCT
Found at i:478067 original size:31 final size:31
Alignment explanation
Indices: 478025--478147 Score: 219
Period size: 31 Copynumber: 4.0 Consensus size: 31
478015 TCCATTTGTT
478025 TGTGTCCCCCATGATTGCATGCTACATTGCA
1 TGTGTCCCCCATGATTGCATGCTACATTGCA
*
478056 TGTGTCTCCCATGATTGCATGCTACATTGCA
1 TGTGTCCCCCATGATTGCATGCTACATTGCA
478087 TGTGTCCCCCATGATTGCATGCTACATTGCA
1 TGTGTCCCCCATGATTGCATGCTACATTGCA
* *
478118 TGTGTCTCCCATGTTTGCATGCTACATTGC
1 TGTGTCCCCCATGATTGCATGCTACATTGC
478148 CTTGCATGCA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 88 1.00
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.35
Consensus pattern (31 bp):
TGTGTCCCCCATGATTGCATGCTACATTGCA
Found at i:479578 original size:11 final size:11
Alignment explanation
Indices: 479543--479579 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
479533 ACTAGCTTAG
479543 TTTTC-TCTAT
1 TTTTCTTCTAT
*
479553 TTTTTTTCTA-
1 TTTTCTTCTAT
479563 TTTTCTTCTAT
1 TTTTCTTCTAT
479574 TTTTCT
1 TTTTCT
479580 CTCCTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCTTCTAT
Found at i:480259 original size:21 final size:21
Alignment explanation
Indices: 480210--480251 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
480200 TCCATATTCG
*
480210 AAAATAAAAAATTTCACGAAA
1 AAAATGAAAAATTTCACGAAA
*
480231 AAAATGAAAAA-TTCATGAAA
1 AAAATGAAAAATTTCACGAAA
480251 A
1 A
480252 TGAATGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (21 bp):
AAAATGAAAAATTTCACGAAA
Found at i:480462 original size:153 final size:154
Alignment explanation
Indices: 480248--480552 Score: 472
Period size: 153 Copynumber: 2.0 Consensus size: 154
480238 AAAATTCATG
* *
480248 AAAATGAATGAATTTTTGAAAACAGATTTAATATGAATTAAATAATAATATTTTATTAATTTTAA
1 AAAATGAATGAATTTTTGAAAACAGATTTAATATGAATTAAATAATAATATTTAATGAATTTTAA
*
480313 AAATTAAAAACCAA-AAAAATCCCCCTAAAAAAATTTACGGAGT-ACAAAACTCCGTATTTTGGA
66 AAATTAAAAACCAAGAAAAATCCCCCT-AAAAAATTTACGGAGTGA-AAAACTCCGTATTTTGAA
****
480376 AATAGGGGAATTTCAAGGAAAAATGA
129 AATAAAAAAATTTCAAGGAAAAATGA
*
480402 AAAATGAATGAATTTTTGAAAAC-TATTTAATATGAATTAAATAATAATATTTAATGAATTTTAA
1 AAAATGAATGAATTTTTGAAAACAGATTTAATATGAATTAAATAATAATATTTAATGAATTTTAA
* * *
480466 AAATTGAAAACCAAGAAAAATCCCTCTAAAAAATTTACGGAGTGAAAAACTTCGTATTTTGAAAA
66 AAATTAAAAACCAAGAAAAATCCCCCTAAAAAATTTACGGAGTGAAAAACTCCGTATTTTGAAAA
480531 TAAAAAAATTTCAAGGAAAAAT
131 TAAAAAAATTTCAAGGAAAAAT
480553 TTTAAAAACT
Statistics
Matches: 138, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
153 103 0.75
154 35 0.25
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.30
Consensus pattern (154 bp):
AAAATGAATGAATTTTTGAAAACAGATTTAATATGAATTAAATAATAATATTTAATGAATTTTAA
AAATTAAAAACCAAGAAAAATCCCCCTAAAAAATTTACGGAGTGAAAAACTCCGTATTTTGAAAA
TAAAAAAATTTCAAGGAAAAATGA
Found at i:480795 original size:166 final size:166
Alignment explanation
Indices: 480402--480818 Score: 483
Period size: 165 Copynumber: 2.5 Consensus size: 166
480392 GGAAAAATGA
*
480402 AAAATGAATGAATTTTTGAAAACT-ATTTAATATGAATTAAATAATAATATTTAATGAATTTTAA
1 AAAATGAATGAATTTTT-AAAACTGATTTAATATGAAATAAATAATAATATTTAATGAATTTTAA
* * * *
480466 AAA-TTGAAAACCAAGAAAAATCCCTCTAAAAAATTTACGGAGTGAAAAACTTCGTATTTTGAAA
65 AAATTTGAAAACCAAGAAAAATCCCTCAAAAAAATTTACGGAGAGAAAAACCTAGTATTTTGAAA
480530 ATAAAAAAATTTCAAGGAAAAATTTTAAAAACTCATG
130 ATAAAAAAATTTCAAGGAAAAATTTTAAAAACTCATG
* * *
480567 AAAATGAAGGAGTTTTTAAAA-TGAATTTAATAT-AAAGTAAATAATAATATTTTATGAATTTTA
1 AAAATGAATGAATTTTTAAAACTG-ATTTAATATGAAA-TAAATAATAATATTTAATGAATTTTA
* * * * * * * *
480630 AAAATTTTATATCCATG-AAAATCCTTTCAAAAAAATTTATGGAGAAGAAAACCCTATTA-TTTG
64 AAAATTTGAAAACCAAGAAAAATCC-CTCAAAAAAATTTACGGAG-AGAAAAACCTAGTATTTTG
** * *
480693 AAAATAGGAGAATTTCAA-GAAACAA-TTTAAAAACTCTTG
127 AAAATAAAAAAATTTCAAGGAAA-AATTTTAAAAACTCATG
* * *
480732 AAAATGAATGAATTTTTAAAAACTGATTCAATATGAAATAAATAATAATATTTGATAAATTTTAA
1 AAAATGAATGAATTTTT-AAAACTGATTTAATATGAAATAAATAATAATATTTAATGAATTTTAA
* *
480797 AAATTAG-AAACTAAGAAAAATC
65 AAATTTGAAAACCAAGAAAAATC
480819 TCCCTGAAAA
Statistics
Matches: 210, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
163 1 0.00
164 6 0.03
165 96 0.46
166 93 0.44
167 14 0.07
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.33
Consensus pattern (166 bp):
AAAATGAATGAATTTTTAAAACTGATTTAATATGAAATAAATAATAATATTTAATGAATTTTAAA
AATTTGAAAACCAAGAAAAATCCCTCAAAAAAATTTACGGAGAGAAAAACCTAGTATTTTGAAAA
TAAAAAAATTTCAAGGAAAAATTTTAAAAACTCATG
Found at i:480861 original size:166 final size:163
Alignment explanation
Indices: 480402--480865 Score: 480
Period size: 166 Copynumber: 2.8 Consensus size: 163
480392 GGAAAAATGA
*
480402 AAAATGAATGAATTTTTGAAAACT-ATTTAATATGAATTAAATAATAATATTTAATGAATTTTAA
1 AAAATGAATGAATTTTT-AAAACTGATTTAATATGAAATAAATAATAATATTTAATGAATTTTAA
* *
480466 AAATTGAAAACCAAGAAAAATCCCTCTAAAAAATTTACGGAGT-GAAAAACT-TCGTATTTTGAA
65 AAATTG-AAACCAAGAAAAATCCC-CTAAAAAATTTACTGAGTAG-AAAACTCTAGTA-TTTGAA
480529 AATAAAAAAATTTCAAGGAAAAATTTTAAAAACTCATG
126 AATAAAAAAATTTCAAGGAAAAATTTTAAAAACTCATG
* * *
480567 AAAATGAAGGAGTTTTTAAAA-TGAATTTAATAT-AAAGTAAATAATAATATTTTATGAATTTTA
1 AAAATGAATGAATTTTTAAAACTG-ATTTAATATGAAA-TAAATAATAATATTTAATGAATTTTA
* * * * * * * *
480630 AAAATTTTATATCCATG-AAAATCCTTTCAAAAAAATTTA-TGGAGAAGAAAACCCTATTATTTG
64 AAAA-TTGA-AACCAAGAAAAATCC--CCTAAAAAATTTACT-GAGTAGAAAACTCTAGTATTTG
** * *
480693 AAAATAGGAGAATTTCAA-GAAACAA-TTTAAAAACTCTTG
124 AAAATAAAAAAATTTCAAGGAAA-AATTTTAAAAACTCATG
* * *
480732 AAAATGAATGAATTTTTAAAAACTGATTCAATATGAAATAAATAATAATATTTGATAAATTTTAA
1 AAAATGAATGAATTTTT-AAAACTGATTTAATATGAAATAAATAATAATATTTAATGAATTTTAA
* * *
480797 AAATTAGAAACTAAGAAAAATCTCCCTGAAAAATTTTACTGAGTAGTAAACTCT-GTAGTTTGAA
65 AAATT-GAAACCAAGAAAAATC-CCCT-AAAAAATTTACTGAGTAGAAAACTCTAGTA-TTTGAA
480861 AATAA
126 AATAA
480866 GAAGAATCTC
Statistics
Matches: 244, Mismatches: 35, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
163 1 0.00
164 6 0.02
165 102 0.42
166 124 0.51
167 11 0.05
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (163 bp):
AAAATGAATGAATTTTTAAAACTGATTTAATATGAAATAAATAATAATATTTAATGAATTTTAAA
AATTGAAACCAAGAAAAATCCCCTAAAAAATTTACTGAGTAGAAAACTCTAGTATTTGAAAATAA
AAAAATTTCAAGGAAAAATTTTAAAAACTCATG
Found at i:482057 original size:85 final size:85
Alignment explanation
Indices: 481900--482391 Score: 270
Period size: 85 Copynumber: 5.8 Consensus size: 85
481890 AGTTGATAGG
* *
481900 TAAGGGGTTTATCAGGGATTGAGTTAATAGGTAAAAAAAGGATGAAGGGTTGACCGATGACTAAG
1 TAAGGGGTTTATCAGGGACTGAGTTAATAGGTAAAAAAAGGATGAAGGGTTGACCGAAGACTAAG
481965 CCAATAGGTCACTGATTGAA
66 CCAATAGGTCACTGATTGAA
* * * * * *
481985 TAAGGGGTTTATTAGGGGCTGAGCTT-ATAGGTAAATAATGAGATGAA-GGTTGACCGAAGGCTG
1 TAAGGGGTTTATCAGGGACTGAG-TTAATAGGTAAAAAAAG-GATGAAGGGTTGACCGAAGACTA
** * * **
482048 AGCTGATAGGTCAC-CATAGGTG
64 AGCCAATAGGTCACTGAT-TGAA
* * ** * * * * * * *
482070 TAGGGGGTTTACCAGGGACTGAGCCAACAGGCAAACAAGGGATGAAGGGCTGA-CTAGAGGCTAA
1 TAAGGGGTTTATCAGGGACTGAGTTAATAGGTAAAAAAAGGATGAAGGGTTGACCGA-AGACTAA
** *
482134 GCCAATAGGTCA-TCGAAGGGA
65 GCCAATAGGTCACT-GATTGAA
* ** * * * *
482155 TAAAGGGTTTATC-GAGGACTGAGCCAATAGGTAAACAAATGATGAAGGGCTGACCGAGGACTAA
1 TAAGGGGTTTATCAG-GGACTGAGTTAATAGGTAAAAAAAGGATGAAGGGTTGACCGAAGACTAA
* * * ** *
482219 GCCGATTGGTCATTGAGGGGA
65 GCCAATAGGTCACTGATTGAA
** * * **
482240 TAAGGGGTTTATC-GAGGACTGAGTCGATAGGTAAACAATAA-GATGAAGGGCTAACCGGGGACT
1 TAAGGGGTTTATCAG-GGACTGAGTTAATAGGTAAA-AA-AAGGATGAAGGGTTGACCGAAGACT
* ** *
482303 AAGCCACTAGGTCA-TCGAGGGGA
63 AAGCCAATAGGTCACT-GATTGAA
* * ** * *
482326 TAAGGGGTTTA-CTGGGGACTAAACTAACAGGTAAACAATAA-GATGGA-GGTTGACCGAAGACT
1 TAAGGGGTTTATC-AGGGACTGAGTTAATAGGTAAA-AA-AAGGATGAAGGGTTGACCGAAGACT
482388 AAGC
63 AAGC
482392 TGACAGTTTA
Statistics
Matches: 325, Mismatches: 66, Indels: 32
0.77 0.16 0.08
Matches are distributed among these distances:
84 11 0.03
85 224 0.69
86 87 0.27
87 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (85 bp):
TAAGGGGTTTATCAGGGACTGAGTTAATAGGTAAAAAAAGGATGAAGGGTTGACCGAAGACTAAG
CCAATAGGTCACTGATTGAA
Found at i:482154 original size:43 final size:44
Alignment explanation
Indices: 482106--482331 Score: 137
Period size: 43 Copynumber: 5.3 Consensus size: 44
482096 ACAGGCAAAC
*
482106 AAGGGATGAAGGGCTGACTAGAGG-CTAAGCCAATAGGTCATCG
1 AAGGGATGAAGGGCTGACTCGAGGACTAAGCCAATAGGTCATCG
* * * * * *
482149 AAGGGATAAAGGGTTTA-TCGAGGACTGAGCCAATAGGTAAAC-
1 AAGGGATGAAGGGCTGACTCGAGGACTAAGCCAATAGGTCATCG
** * * *
482191 AAATGATGAAGGGCTGAC-CGAGGACTAAGCCGATTGGTCATTG
1 AAGGGATGAAGGGCTGACTCGAGGACTAAGCCAATAGGTCATCG
* * * * * * * *
482234 AGGGGAT-AAGGGGTTTA-TCGAGGACTGAGTCGATAGGTAAAC-
1 AAGGGATGAA-GGGCTGACTCGAGGACTAAGCCAATAGGTCATCG
** * * *
482276 AATAAGATGAAGGGCTAAC-CGGGGACTAAGCCACTAGGTCATCG
1 AA-GGGATGAAGGGCTGACTCGAGGACTAAGCCAATAGGTCATCG
*
482320 AGGGGAT-AAGGG
1 AAGGGATGAAGGG
482332 GTTTACTGGG
Statistics
Matches: 130, Mismatches: 44, Indels: 19
0.67 0.23 0.10
Matches are distributed among these distances:
42 43 0.33
43 84 0.65
44 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.35, T:0.18
Consensus pattern (44 bp):
AAGGGATGAAGGGCTGACTCGAGGACTAAGCCAATAGGTCATCG
Found at i:482214 original size:42 final size:42
Alignment explanation
Indices: 482085--482221 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 42
482075 GGTTTACCAG
* * * *
482085 GGACTGAGCCAACAGGCAAACAAGGGATGAAGGGCTGACTAGA
1 GGACTAAGCCAATAGGTAAACAAGGGATGAAGGGCTGAC-CGA
* * * * * *
482128 GG-CTAAGCCAATAGGTCATCGAAGGGATAAAGGGTTTATCGA
1 GGACTAAGCCAATAGGTAAAC-AAGGGATGAAGGGCTGACCGA
* **
482170 GGACTGAGCCAATAGGTAAACAAATGATGAAGGGCTGACCGA
1 GGACTAAGCCAATAGGTAAACAAGGGATGAAGGGCTGACCGA
482212 GGACTAAGCC
1 GGACTAAGCC
482222 GATTGGTCAT
Statistics
Matches: 72, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
42 41 0.57
43 31 0.43
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.15
Consensus pattern (42 bp):
GGACTAAGCCAATAGGTAAACAAGGGATGAAGGGCTGACCGA
Found at i:482345 original size:86 final size:84
Alignment explanation
Indices: 481900--482336 Score: 325
Period size: 85 Copynumber: 5.1 Consensus size: 84
481890 AGTTGATAGG
* ** * * *
481900 TAAGGGGTTTATC-AGGGATTGAGTTAATAGGTAAA-AAAAGGATGAAGGGTTGACCGATGACTA
1 TAAGGGGTTTATCGA-GGACTGAGCCAATAGGTAAACAAAA-GATGAAGGGCTAACCGAGGACTA
** *
481963 AGCCAATAGGTCA-CTGATTGAA
64 AGCC-ATAGGTCATC-GAGGGGA
* * ** * * * *
481985 TAAGGGGTTTAT-TAGGGGCTGAGCTTATAGGTAAATAATGAGATGAA-GGTTGACCGAAGG-CT
1 TAAGGGGTTTATCGA-GGACTGAGCCAATAGGTAAACAA-AAGATGAAGGGCTAACCG-AGGACT
* * * * *
482047 GAGCTGATAGGTCACCATAGGTG-
63 AAGC-CATAGGTCATC-GAGGGGA
* * * * ** * *
482070 TAGGGGGTTTA-CCAGGGACTGAGCCAACAGGCAAACAAGGGATGAAGGGCTGACTAGAGG-CTA
1 TAAGGGGTTTATCGA-GGACTGAGCCAATAGGTAAACAAAAGATGAAGGGCTAAC-CGAGGACTA
*
482133 AGCCAATAGGTCATCGAAGGGA
64 AGCC-ATAGGTCATCGAGGGGA
* * *
482155 TAAAGGGTTTATCGAGGACTGAGCCAATAGGTAAACAAATGATGAAGGGCTGACCGAGGACTAAG
1 TAAGGGGTTTATCGAGGACTGAGCCAATAGGTAAACAAAAGATGAAGGGCTAACCGAGGACTAAG
* *
482220 CCGATTGGTCATTGAGGGGA
66 CC-ATAGGTCATCGAGGGGA
* * *
482240 TAAGGGGTTTATCGAGGACTGAGTCGATAGGTAAACAATAAGATGAAGGGCTAACCGGGGACTAA
1 TAAGGGGTTTATCGAGGACTGAGCCAATAGGTAAACAA-AAGATGAAGGGCTAACCGAGGACTAA
482305 GCCACTAGGTCATCGAGGGGA
65 GCCA-TAGGTCATCGAGGGGA
482326 TAAGGGGTTTA
1 TAAGGGGTTTA
482337 CTGGGGACTA
Statistics
Matches: 286, Mismatches: 51, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
84 14 0.05
85 205 0.72
86 66 0.23
87 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (84 bp):
TAAGGGGTTTATCGAGGACTGAGCCAATAGGTAAACAAAAGATGAAGGGCTAACCGAGGACTAAG
CCATAGGTCATCGAGGGGA
Found at i:482358 original size:86 final size:84
Alignment explanation
Indices: 482110--482370 Score: 285
Period size: 86 Copynumber: 3.0 Consensus size: 84
482100 GCAAACAAGG
* * * *
482110 GATGAAGGGCTGACTAGAGG-CTAAGCCAATAGGTCATCGAAGGGATAAAGGGTTTATCGAGGAC
1 GATGAAGGGCTAAC-CGAGGACTAAGCC-ATAGGTCATCGAGGGGATAAGGGGTTTATCGAGGAC
* * *
482174 TGAGCCAATAGGTAAACAA-AT
64 T-AACTAATAGGTAAACAATAA
* * *
482195 GATGAAGGGCTGACCGAGGACTAAGCCGATTGGTCATTGAGGGGATAAGGGGTTTATCGAGGACT
1 GATGAAGGGCTAACCGAGGACTAAGCC-ATAGGTCATCGAGGGGATAAGGGGTTTATCGAGGACT
* * *
482260 GAGTCGATAGGTAAACAATAA
65 AACT-AATAGGTAAACAATAA
* *
482281 GATGAAGGGCTAACCGGGGACTAAGCCACTAGGTCATCGAGGGGATAAGGGGTTTA-CTGGGGAC
1 GATGAAGGGCTAACCGAGGACTAAGCCA-TAGGTCATCGAGGGGATAAGGGGTTTATC-GAGGAC
*
482345 TAAACTAACAGGTAAACAATAA
64 T-AACTAATAGGTAAACAATAA
482367 GATG
1 GATG
482371 GAGGTTGACC
Statistics
Matches: 149, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
84 4 0.03
85 68 0.46
86 75 0.50
87 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.19
Consensus pattern (84 bp):
GATGAAGGGCTAACCGAGGACTAAGCCATAGGTCATCGAGGGGATAAGGGGTTTATCGAGGACTA
ACTAATAGGTAAACAATAA
Found at i:482655 original size:42 final size:42
Alignment explanation
Indices: 482514--482667 Score: 170
Period size: 42 Copynumber: 3.6 Consensus size: 42
482504 CTCCCAAGTT
* *
482514 TGAGCCAAT-GGATAGACAAGGAATAAAGAAGTCTCCCGGGTC
1 TGAGCCAATAGG-CAGACAAGGAATAAAGAAGTCTCCTGGGTC
* * *
482556 TGAGCCAAT-GAGCAGACAAGGAATAAAGAAGTCTCTTGCGTT
1 TGAGCCAATAG-GCAGACAAGGAATAAAGAAGTCTCCTGGGTC
* *
482598 TGAGCCAACTA-GCAGACAAGGAATAAAAAAGACTCCTGGGTC
1 TGAGCCAA-TAGGCAGACAAGGAATAAAGAAGTCTCCTGGGTC
*
482640 TGAGCCGATAGGCAGACAAAGGATATAA
1 TGAGCCAATAGGCAGAC-AAGGA-ATAA
482668 GGTGTTTAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.02
42 82 0.86
43 7 0.07
44 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (42 bp):
TGAGCCAATAGGCAGACAAGGAATAAAGAAGTCTCCTGGGTC
Found at i:484581 original size:95 final size:92
Alignment explanation
Indices: 484424--484617 Score: 248
Period size: 95 Copynumber: 2.1 Consensus size: 92
484414 TCTTTTTCCA
* *
484424 AAAGTCCACGACTCAGTGGCACCCTTCTCAAAGTCCAGACTTAGTGGCATCTCTTCTTAAAGTCC
1 AAAGTCCACGAATCAATGGCACCCTTCTCAAAGTCCAGACTTAGTGGCATCTCTTCTTAAAGTCC
*
484489 ACAACTCTATGGCACCCTTTTCCTTTTT
66 ACAACTCCATGGCACCCTTTTCC-TTTT
* * *
484517 AAAGTCCACGAATCAATGGCATCTCTTCTCAAATTCCACGATTTAGTGGCATC-CTTCTTCAAAG
1 AAAGTCCACGAATCAATGGCA-CCCTTCTCAAAGTCCA-GACTTAGTGGCATCTCTTCTT-AAAG
* * * *
484581 TCCACTACTCCGTGGCACTCTTTTTCTTTT
63 TCCACAACTCCATGGCACCCTTTTCCTTTT
484611 -AAGTCCA
1 AAAGTCCA
484618 TAACTTGATG
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
93 26 0.30
94 24 0.27
95 38 0.43
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (92 bp):
AAAGTCCACGAATCAATGGCACCCTTCTCAAAGTCCAGACTTAGTGGCATCTCTTCTTAAAGTCC
ACAACTCCATGGCACCCTTTTCCTTTT
Found at i:484596 original size:30 final size:30
Alignment explanation
Indices: 484424--484597 Score: 133
Period size: 30 Copynumber: 5.7 Consensus size: 30
484414 TCTTTTTCCA
*
484424 AAAGTCCACGACTCAGTGGCACCCTTC-TC
1 AAAGTCCACGACTCAGTGGCATCCTTCTTC
*
484453 AAAGTCCA-GACTTAGTGGCATCTCTTCTT-
1 AAAGTCCACGACTCAGTGGCATC-CTTCTTC
* * *
484482 AAAGTCCACAACTCTA-TGGCACCCTTTTCCTTTTT
1 AAAGTCCACGACTC-AGTGGCATCC--TT-C--TTC
* *
484517 AAAGTCCACGAATCAATGGCATCTCTTC-TC
1 AAAGTCCACGACTCAGTGGCATC-CTTCTTC
* * *
484547 AAATTCCACGATTTAGTGGCATCCTTCTTC
1 AAAGTCCACGACTCAGTGGCATCCTTCTTC
* *
484577 AAAGTCCACTACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
484598 CTCTTTTTCT
Statistics
Matches: 114, Mismatches: 18, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
28 12 0.11
29 25 0.22
30 48 0.42
31 3 0.03
32 1 0.01
33 1 0.01
34 5 0.04
35 18 0.16
36 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.30
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCCTTCTTC
Found at i:484773 original size:32 final size:32
Alignment explanation
Indices: 484652--484966 Score: 225
Period size: 32 Copynumber: 9.9 Consensus size: 32
484642 AAAGTCCATG
*
484652 AGTCAATGGCAACCCTTCTCTAAAGCCCACACA
1 AGTCGATGGCAACCCTT-TCTAAAGCCCACACA
* * * *
484685 AGTCGGTGGCAGCCTTTCTCTAAAGCCTACACA
1 AGTCGATGGCAACCCTT-TCTAAAGCCCACACA
* * *
484718 AGTCG-TTGC-ACCATTCTCTAAAGCCCACATA
1 AGTCGATGGCAACCCTT-TCTAAAGCCCACACA
* *
484749 AGTCGATGGAAACCCTTTCTAAAGCCCATACA
1 AGTCGATGGCAACCCTTTCTAAAGCCCACACA
*
484781 AGTC-AGTGGCAACCC-CTCTCAAAGCCCACACA
1 AGTCGA-TGGCAACCCTTTCT-AAAGCCCACACA
* * *
484813 AGTCGGTGGTAA-CCGTTCTAGAAGCCCACACA
1 AGTCGATGGCAACCCTTTCTA-AAGCCCACACA
* * *
484845 AGT-TAGTGGCAACCC-TTCTTAAAGCTCACATA
1 AGTCGA-TGGCAACCCTTTC-TAAAGCCCACACA
* * * *
484877 AGTTGGTGGCAACCC-TTCGAAAGCCCACATA
1 AGTCGATGGCAACCCTTTCTAAAGCCCACACA
* * * * *
484908 AGTAGGTGGCAACCCTCTCAAAAGCCCACAAA
1 AGTCGATGGCAACCCTTTCTAAAGCCCACACA
* * * *
484940 AGTTGGTGGCATCTCTTTCT-AAGCCCA
1 AGTCGATGGCAACCCTTTCTAAAGCCCA
484967 ATGTCGCTGG
Statistics
Matches: 231, Mismatches: 39, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
31 62 0.27
32 127 0.55
33 42 0.18
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (32 bp):
AGTCGATGGCAACCCTTTCTAAAGCCCACACA
Found at i:484838 original size:96 final size:97
Alignment explanation
Indices: 484652--484942 Score: 274
Period size: 96 Copynumber: 3.0 Consensus size: 97
484642 AAAGTCCATG
* ** * *
484652 AGTCAATGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAGCCTTTCTCTAAAGCCTACAC
1 AGTCAATGGCAACCCTT-TCTAAAGCCCACACAAGTCGGTGGCAACCCCTCTCGAAAGCCCACAC
* * * *
484717 AAGTC-GTTGCACCATTCTCTAAAGCCCACATA
65 AAGTCGGTGGAACCAGTCTCTAAAGCCCACACA
* * * *
484749 AGTCGATGGAAACCCTTTCTAAAGCCCATACAAGTCAGTGGCAACCCCTCTC-AAAGCCCACACA
1 AGTCAATGGCAACCCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCCTCTCGAAAGCCCACACA
484813 AGTCGGTGGTAACC-GT-TCTAGAAGCCCACACA
66 AGTCGGTGG-AACCAGTCTCTA-AAGCCCACACA
* * * * * *
484845 AGTTAGTGGCAACCC-TTCTTAAAGCTCACATAAGTTGGTGGCAA-CCCT-TCGAAAGCCCACAT
1 AGTCAATGGCAACCCTTTC-TAAAGCCCACACAAGTCGGTGGCAACCCCTCTCGAAAGCCCACAC
* * * *
484907 AAGTAGGTGGCAACC-CTCTCAAAAGCCCACAAA
65 AAGTCGGTGG-AACCAGTCTCTAAAGCCCACACA
484940 AGT
1 AGT
484943 TGGTGGCATC
Statistics
Matches: 161, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
94 2 0.01
95 63 0.39
96 78 0.48
97 18 0.11
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (97 bp):
AGTCAATGGCAACCCTTTCTAAAGCCCACACAAGTCGGTGGCAACCCCTCTCGAAAGCCCACACA
AGTCGGTGGAACCAGTCTCTAAAGCCCACACA
Found at i:484964 original size:63 final size:62
Alignment explanation
Indices: 484658--484966 Score: 293
Period size: 64 Copynumber: 4.9 Consensus size: 62
484648 CATGAGTCAA
* * *
484658 TGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAGCCTTTCTCTAAAGCCTACACAAGTCG
1 TGGCAACCC-TCTCTAAAGCCCACACAAGTCGGTGGCAACC-TT-TCTAAAGCCCACACAAGTAG
* * * * * *
484723 TTGC-ACCATTCTCTAAAGCCCACATAAGTCGATGGAAACCCTTTCTAAAGCCCATACAAGTCAG
1 TGGCAACC-CTCTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTTCTAAAGCCCACACAAGT-AG
* *
484787 TGGCAACCC-CTCTCAAAGCCCACACAAGTCGGTGGTAACCGTTCTAGAAGCCCACACAAGTTAG
1 TGGCAACCCTCTCT-AAAGCCCACACAAGTCGGTGGCAACCTTTCTA-AAGCCCACACAAG-TAG
* * * * * *
484851 TGGCAACCCT-TCTTAAAGCTCACATAAGTTGGTGGCAACCCTTCGAAAGCCCACATAAGTAGG
1 TGGCAACCCTCTC-TAAAGCCCACACAAGTCGGTGGCAACCTTTCTAAAGCCCACACAAGTA-G
* * * *
484914 TGGCAACCCTCTCAAAAGCCCACAAAAGTTGGTGGCATCTCTTTCT-AAGCCCA
1 TGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAAC-CTTTCTAAAGCCCA
484967 ATGTCGCTGG
Statistics
Matches: 203, Mismatches: 29, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
62 2 0.01
63 79 0.39
64 112 0.55
65 10 0.05
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.21
Consensus pattern (62 bp):
TGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTTCTAAAGCCCACACAAGTAG
Found at i:485032 original size:52 final size:53
Alignment explanation
Indices: 484959--485913 Score: 763
Period size: 52 Copynumber: 18.0 Consensus size: 53
484949 CATCTCTTTC
* * * *
484959 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTTTCTTTC-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * ** * ** *
485011 TAAGCCCAATATCACTAGCCTTGAATTTGCGTATTGG--TGTCTTTCTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTT-TCTT
* * *
485063 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * ** *
485115 TAAGTCTAATATCGATGGCCTTGAATCAGCATATTGGTGCCTTTTTC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * * *
485167 TAAGTCCAATGTCGTTGGCCTTGAATCAACACATTCGCACCTTTTTCTTTC-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * * *
485219 TATGTCCAATATCGCTGGCCTTGAATTAGCATATTGACACCTTTATC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* ** * * * *
485271 TAAGTCAAACGTCACTAGCCTTGAATCAGCATATTGGCACCTTTGTC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * * * * *
485323 TAAGCCCAATATCGTTGGCCTTGAATTAGCATAGTGGCACATTTCTC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * * *
485375 TAAGTCCAATGTCACTGGCCTTAAATCAACACATTGGCACCTTTTTCTTTC-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * ** * *
485427 TAAGTCCAATATCGATGGCTTTGAATCAGCATATTAGTGCCTTTGTC-GTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * * *
485479 TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTCGCACCTTTTCCTTTC-T
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * *** * *
485531 TAAGTCCAATATCGCTGGTCTTGAATTAGCATATTGATGCCTTTATC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * * * *
485583 TAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * * *
485635 TAAGCCCAATATCGTTGGCCTTGAATTAGCATATTGGTACCTTTCTCATTCTTCTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T--TTC-T-T--TCTT
* * * * *
485696 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACTTTTTTCTTT-AT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * *** * *
485748 TAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGATGCCTTTGTC-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
* * *
485800 TAAATCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCTCATCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T--TTCTT-TC-T-T
* * * *
485860 TCAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTT
1 T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
485914 CTCATCTTCA
Statistics
Matches: 702, Mismatches: 171, Indels: 58
0.75 0.18 0.06
Matches are distributed among these distances:
50 7 0.01
51 11 0.02
52 561 0.80
53 13 0.02
54 10 0.01
55 2 0.00
56 7 0.01
57 6 0.01
58 2 0.00
59 3 0.00
60 6 0.01
61 74 0.11
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (53 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCTTTCTT
Found at i:485150 original size:104 final size:104
Alignment explanation
Indices: 484959--485852 Score: 1029
Period size: 104 Copynumber: 8.5 Consensus size: 104
484949 CATCTCTTTC
* * *
484959 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTTTTCTTTCTTAAGCCCAATATC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* * * * *
485024 -ACTAGCCTTGAATTTGCGTATTGGTGTCTTTCTTATCTT
66 GA-TGGCCTTGAATTAGCATATTGGTGCCTTTCTCATCTT
* *
485063 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCTAATATC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* *
485128 GATGGCCTTGAATCAGCATATTGGTGCCTTTTTCATCTT
66 GATGGCCTTGAATTAGCATATTGGTGCCTTTCTCATCTT
* * * *
485167 TAAGTCCAATGTCGTTGGCCTTGAATCAACACATTCGCACCTTTTTCTTTCTTATGTCCAATATC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* *** *
485232 GCTGGCCTTGAATTAGCATATTGACACCTTTATCATCTT
66 GATGGCCTTGAATTAGCATATTGGTGCCTTTCTCATCTT
* * * * * * * *
485271 TAAGTCAAACGTCACTAGCCTTGAATCAGCATATTGGCACCTTTGTC-ATCTTTAAGCCCAATAT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC-TTAAGTCCAATAT
* * ** *
485335 CGTTGGCCTTGAATTAGCATAGTGGCACATTTCTCATCTT
65 CGATGGCCTTGAATTAGCATATTGGTGCCTTTCTCATCTT
* * *
485375 TAAGTCCAATGTCACTGGCCTTAAATCAACACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* * * * *
485440 GATGGCTTTGAATCAGCATATTAGTGCCTTTGTCGTCTT
66 GATGGCCTTGAATTAGCATATTGGTGCCTTTCTCATCTT
* * *
485479 TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTCGCACCTTTTCCTTTCTTAAGTCCAATATC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* * * *
485544 GCTGGTCTTGAATTAGCATATTGATGCCTTTATCATCTT
66 GATGGCCTTGAATTAGCATATTGGTGCCTTTCTCATCTT
* * * * *
485583 TAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTC-ATCTTTAAGCCCAATAT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTC-TTAAGTCCAATAT
* *
485647 CGTTGGCCTTGAATTAGCATATTGGTACCTTTCTCATTCTTCTCATCTT
65 CGATGGCCTTGAATTAGCATATTGG-----TGC-C--T-TTCTCATCTT
* * * *
485696 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACTTTTTTCTTTATTAAGTCCAATATT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
* * * * *
485761 GCTAGCCTTGAATCAGCATATTGATGCCTTTGTCATCTT
66 GATGGCCTTGAATTAGCATATTGGTGCCTTTCTCATCTT
* * * * *
485800 TAAATCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTT
485853 CTCATCTTCA
Statistics
Matches: 668, Mismatches: 108, Indels: 28
0.83 0.13 0.03
Matches are distributed among these distances:
103 4 0.01
104 569 0.85
105 4 0.01
107 1 0.00
108 2 0.00
109 2 0.00
110 1 0.00
112 1 0.00
113 83 0.12
114 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (104 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTTCTTTCTTAAGTCCAATATC
GATGGCCTTGAATTAGCATATTGGTGCCTTTCTCATCTT
Found at i:485723 original size:61 final size:61
Alignment explanation
Indices: 485628--486048 Score: 344
Period size: 61 Copynumber: 7.2 Consensus size: 61
485618 GGCACCTTTG
* * * * *
485628 TCATCTTTAAGCCCAATATCGTTGGCCTTGAATTAGCATATTGGTACCTTTCTCATTCTTC
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * *
485689 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCA-CTTT-T--TTCTT-
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * * * *
485745 T-A---TTAAGTCCAATATTGCTAGCCTTGAATCAGCATATT-G-A----T-GC-CT-TTG
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * *
485793 TCATCTTTAAATCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * *
485854 TCATCTTCAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * * * * * * * * *
485915 TCATCTTCAAGCCCGATATCACTGGTCATAAATCA-CATATTGGTACTTTTAGCATTCTT-
1 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
* * * * * * * *
485974 TGCATCTTTAAGTCCAATGTCGTTGACCTTGAATTAGCACATTGGCA-CTCTTCTCATCCTTA
1 T-CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-TTATCATTCTTC
486036 TCATCTTTAAGTC
1 TCATCTTTAAGTC
486049 TAGTGTTGCA
Statistics
Matches: 293, Mismatches: 48, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
47 3 0.01
48 2 0.01
49 1 0.00
50 1 0.00
51 1 0.00
52 64 0.22
53 1 0.00
54 1 0.00
55 1 0.00
56 1 0.00
57 5 0.02
58 1 0.00
59 3 0.01
60 50 0.17
61 157 0.54
62 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (61 bp):
TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
Found at i:485779 original size:113 final size:112
Alignment explanation
Indices: 485576--485921 Score: 368
Period size: 113 Copynumber: 3.1 Consensus size: 112
485566 GATGCCTTTA
* * * *
485576 TCATCTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTGTCATCT-TTAAGC
1 TCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTTTTTTC-TTTATTAAGC
* *
485640 CCAATATCGTTGGCCTTGAATTAGCATATTGGTACCTTTCTCATTCTTC
65 CCAATATCGCTGGCCTTGAATCAGCATATTGG-ACCTTTCTCATTCTTC
* * *
485689 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCACTTTTTTCTTTATTAAGTC
1 TCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTTTTTTCTTTATTAAGCC
* * * *
485754 CAATATTGCTAGCCTTGAATCAGCATATT-GA---TGC-C--T-TTG
66 CAATATCGCTGGCCTTGAATCAGCATATTGGACCTTTCTCATTCTTC
* *
485793 TCATCTTTAAATCCAATGTCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCTCAT
1 TCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-CTTT-T--TTCTT-T-A-
* *
485858 CTTCAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
59 -TT-AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG-ACCTTTCTCATTCTTC
485915 TCATCTT
1 TCATCTT
485922 CAAGCCCGAT
Statistics
Matches: 190, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
104 44 0.23
105 5 0.03
106 1 0.01
107 1 0.01
108 7 0.04
109 1 0.01
110 1 0.01
111 1 0.01
112 5 0.03
113 110 0.58
114 1 0.01
115 1 0.01
118 1 0.01
119 1 0.01
121 1 0.01
122 9 0.05
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (112 bp):
TCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACTTTTTTCTTTATTAAGCC
CAATATCGCTGGCCTTGAATCAGCATATTGGACCTTTCTCATTCTTC
Found at i:487684 original size:50 final size:51
Alignment explanation
Indices: 487587--487701 Score: 196
Period size: 50 Copynumber: 2.3 Consensus size: 51
487577 TGAATAGTAC
487587 ATGTATCGATACATTCTTTTTTTTTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTTTTTTTTACCCAGATGTATCGATACATTTTTCA
* * *
487638 ATGTATCGATACATTC-TTTTTTTTACCTAGATTTATCGATATATTTTTCA
1 ATGTATCGATACATTCTTTTTTTTTACCCAGATGTATCGATACATTTTTCA
487688 ATGTATCGATACAT
1 ATGTATCGATACAT
487702 CTAGTTAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
50 45 0.74
51 16 0.26
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.48
Consensus pattern (51 bp):
ATGTATCGATACATTCTTTTTTTTTACCCAGATGTATCGATACATTTTTCA
Found at i:493647 original size:79 final size:78
Alignment explanation
Indices: 493178--493654 Score: 564
Period size: 79 Copynumber: 6.1 Consensus size: 78
493168 GATAAAAAAG
* * * * * *
493178 GGGTTAGAGTGTCCCTTCAAAAATAACGAGGTTGGGGTATCCCCGATAGTGAAAAATCAATATTT
1 GGGTTGGAGTATCCCTTCAAAAATAACG-GGTTAGAGTATCCCCGATGGTGAAAAATCGATATTT
493243 TGGAAATAAAATT-
65 TGGAAATAAAATTA
* * * *
493256 GAGGTTGGAGTATCCTTTCAAAAATAATGGGGTTAGAGTATCCCCAATGGTGAGAAATCGATATT
1 G-GGTTGGAGTATCCCTTCAAAAATAA-CGGGTTAGAGTATCCCCGATGGTGAAAAATCGATATT
*
493321 TTGGAAATAAAATCA
64 TTGGAAATAAAATTA
* * *
493336 GGGTTGGAGTATCCCTTCAAAAATAATGAGGTTGGAGTATCCCCGATAGTGAAAAATCGATATTT
1 GGGTTGGAGTATCCCTTCAAAAATAACG-GGTTAGAGTATCCCCGATGGTGAAAAATCGATATTT
** *
493401 TTAAAATAAAATTG
65 TGGAAATAAAATTA
* * *
493415 GGGTTGGAGTAT-CCTTCAAAAATAACAAGGTTAGAGTATCCTCGATGGT-AAAAATTGATATTT
1 GGGTTGGAGTATCCCTTCAAAAATAAC-GGGTTAGAGTATCCCCGATGGTGAAAAATCGATATTT
493478 TGGAAATAAAATTA
65 TGGAAATAAAATTA
* * * *
493492 AGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCTCGATGGTGAAAAATCAATATTT
1 GGGTTGGAGTATCCCTTCAAAAATAAC-GGGTTAGAGTATCCCCGATGGTGAAAAATCGATATTT
* *
493557 TGGAAATAAAACTG
65 TGGAAATAAAATTA
* * * * * * *
493571 GGGTTGGAGTATCCCCTCATAAATAACGGGTTTGTAATATCCCTGATGGTGAAAAATTGATGTTT
1 GGGTTGGAGTATCCCTTCAAAAATAACGGGTTAG-AGTATCCCCGATGGTGAAAAATCGATATTT
*
493636 TGGAAATAAAACTA
65 TGGAAATAAAATTA
493650 GGGTT
1 GGGTT
493655 AGATATCTCC
Statistics
Matches: 343, Mismatches: 48, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
77 35 0.10
78 73 0.21
79 233 0.68
80 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTTCAAAAATAACGGGTTAGAGTATCCCCGATGGTGAAAAATCGATATTTT
GGAAATAAAATTA
Found at i:493709 original size:129 final size:130
Alignment explanation
Indices: 493520--493792 Score: 333
Period size: 129 Copynumber: 2.1 Consensus size: 130
493510 AAAAATAACG
* * * *
493520 GGGTTAGAGTATCCTCGATGGTGAAAAATCAATATTTTGGAAATAAAACTGGGGTTGGAGTATCC
1 GGGTTAGAGTATCCTCAATGGAGAAAAATCAATATTTTGAAAATAAAACTGAGGTTGGAGTATCC
* * *
493585 CCTCATAAATAAC-GGGTTTGTAATATCC-CTGATGGTGAAAAATTGATGTTTTGGAAATAAAAC
66 CCTCAAAAATAACGGGGTTCG-AATATCCTC-GATGGTGAAAAATTGATATTTTGGAAATAAAAC
493648 TA
129 TA
* *
493650 GGGTTAGA-TAT-CTCCAATGGAGAAAAATCGATATTTTGAAAATAAAA-TCGAGTTTGGAGTAT
1 GGGTTAGAGTATCCT-CAATGGAGAAAAATCAATATTTTGAAAATAAAACT-GAGGTTGGAGTAT
* * **
493712 CTCCTCAAAAATAACGGGGTTCGAGTATTGTCGATGGTGAAAAATTGATATTTTGGAAATAAAA-
64 CCCCTCAAAAATAACGGGGTTCGAATATCCTCGATGGTGAAAAATTGATATTTTGGAAATAAAAC
493776 TCA
129 T-A
*
493779 AGGTTAGAGTATCC
1 GGGTTAGAGTATCC
493793 CTATGAAAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
128 4 0.03
129 99 0.81
130 18 0.15
131 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (130 bp):
GGGTTAGAGTATCCTCAATGGAGAAAAATCAATATTTTGAAAATAAAACTGAGGTTGGAGTATCC
CCTCAAAAATAACGGGGTTCGAATATCCTCGATGGTGAAAAATTGATATTTTGGAAATAAAACTA
Found at i:493810 original size:79 final size:79
Alignment explanation
Indices: 493666--493855 Score: 224
Period size: 79 Copynumber: 2.4 Consensus size: 79
493656 GATATCTCCA
* * * *
493666 ATGGAGAAAAATCGATATTTTGAAAATAAAATCGAGTTTGGAGTATCTCCTCAAAAATAACGGGG
1 ATGGTGAAAAATCGATATTTTGAAAATAAAATCAAGGTTAGAGTATCTCCTCAAAAATAACGGGG
***
493731 TTCGAGTATTGTCG
66 TTCGAGTATCCCCG
* * *
493745 ATGGTGAAAAATTGATATTTTGGAAATAAAATCAAGGTTAGAGTATC-CCT-ATGAAAA-AAGTG
1 ATGGTGAAAAATCGATATTTTGAAAATAAAATCAAGGTTAGAGTATCTCCTCA--AAAATAA-CG
*
493807 GGGTTGGAGTATCCCCG
63 GGGTTCGAGTATCCCCG
493824 ATGGTGAAAAATCGATATTTTGAAAATGAAAA
1 ATGGTGAAAAATCGATATTTTGAAAAT-AAAA
493856 AAATCAATGA
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
77 1 0.01
78 5 0.05
79 84 0.89
80 4 0.04
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (79 bp):
ATGGTGAAAAATCGATATTTTGAAAATAAAATCAAGGTTAGAGTATCTCCTCAAAAATAACGGGG
TTCGAGTATCCCCG
Found at i:493829 original size:208 final size:209
Alignment explanation
Indices: 493464--493855 Score: 522
Period size: 208 Copynumber: 1.9 Consensus size: 209
493454 CCTCGATGGT
* * *
493464 AAAAATTGATATTTTGGAAATAAAATTAAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAG
1 AAAAATCGATATTTTGAAAATAAAATCAAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAG
** *
493529 TATCCTCGATGGTGAAAAATCAATATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCATAAA
66 TATCCTCGATGGTGAAAAATCAATATTTTGGAAATAAAACTAAGGTTAGAGTATCCCCTCATAAA
* * * * * * *
493594 TAACGGGTTTGTAATATCCCTGATGGTGAAAAATTGATGTTTTGGAAAT-AAAACTAGGGTTAGA
131 AAACGGGGTTGGAATATCCCCGATGGTGAAAAATCGATATTTTGAAAATGAAAACTAGGGTTAGA
493658 TATCTCCAATGGAG
196 TATCTCCAATGGAG
* * * *
493672 AAAAATCGATATTTTGAAAATAAAATCGAGTTTGGAGTATCTCCTCAAAAATAACGGGGTTCGAG
1 AAAAATCGATATTTTGAAAATAAAATCAAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAG
** **
493737 TATTGTCGATGGTGAAAAATTGATATTTTGGAAATAAAA-TCAAGGTTAGAGTAT-CCCT-ATGA
66 TATCCTCGATGGTGAAAAATCAATATTTTGGAAATAAAACT-AAGGTTAGAGTATCCCCTCAT-A
* *
493799 AAAAAGTGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATGAAAA
129 AAAAA-CGGGGTTGGAATATCCCCGATGGTGAAAAATCGATATTTTGAAAATGAAAA
493856 AAATCAATGA
Statistics
Matches: 157, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
206 2 0.01
207 10 0.06
208 141 0.90
209 4 0.03
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (209 bp):
AAAAATCGATATTTTGAAAATAAAATCAAGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAG
TATCCTCGATGGTGAAAAATCAATATTTTGGAAATAAAACTAAGGTTAGAGTATCCCCTCATAAA
AAACGGGGTTGGAATATCCCCGATGGTGAAAAATCGATATTTTGAAAATGAAAACTAGGGTTAGA
TATCTCCAATGGAG
Found at i:495282 original size:517 final size:519
Alignment explanation
Indices: 494450--495481 Score: 1606
Period size: 517 Copynumber: 2.0 Consensus size: 519
494440 CCTAGGTTTG
494450 AAAATCGTAACTCTCCCATCCGAGGCAAATAAGACACCATTGGAAAGATATTTTGACGTATTTTT
1 AAAATCGTAACTCTCCCATCCGAGGCAAATAAGACACCATTGGAAAGATATTTTGACGTATTTTT
**
494515 AGGGAAAAATATTATAAAATTCGAAAAAAATCATTGAATATTTTAAAATAATTTTTAAGCTCATG
66 AGGGAAAAATATTATAAAATTCGAAAAAAATCATTGAATATTTTAAAATAATTTCCAAGCTCATG
*
494580 CTTTAACCCTGCCAAAATAAAGCATGGAAGTATTTGGTATTTCCAGTTTTTCCATTAGGTTAAAT
131 CTTCAACCCTGCCAAAATAAAGCATGGAAGTATTTGGTATTTCCAGTTTTTCCATTAGGTTAAAT
* **
494645 TCATGCCACGGACGTTCGAACATCCATGATTGAGATGAGGAAGTGATGTGGGCATCACAAGTTCA
196 TCATGCCACGAACGTTCGAACATCCATGATTGAGATGAGGAAGTGACATGGGCATCACAAGTTCA
* * * *
494710 TTCCACAATGCCGAAGTAGTTTAGGAAAATGAAACAACCCATTAACCATGTCACCAATAATGACT
261 TTCCACAATCCCAAAGTAGTTTAGGAAAATGAAACAAACCATTAACCACGTCACCAATAATGACT
*
494775 TTGGACTCTAGACCAAGGGTAAC-A-A-ATTGAGCAAAAAAAAAAAAATTAGTTAAAGAACAACA
326 TTGGACTCTAGACCAAGGCTAACAACATATTGAGC-AAAAAAAAAAAATTAGTTAAAGAACAACA
* * *
494837 TTCCATAAATTATTTCACCATG-ATCTAGATCTAAAATTTTTCTTTTTCCCTAAAGGTTGGAAAG
390 TTCCAAAAATTATTTCACCATGAATCTAGATCTAAAATTTTTCTTTTTCCCCAAAGGTTGGAAAA
* *
494901 CCAACTCATGGAAACCTCAAGTCCATGTTAATCTCATGCTTGGGAGGTAAGATGAGTTTCTCCTA
455 CCAACTCATGGAAACCTCAAGTCCATGTTAATCTCATGCATGGGAGGTAACATGAGTTTCTCCTA
* * * * * *
494966 AAAATTGTAACTCTCTCATCCGGGGGCAAATAAGACATCGTTGGAAAGATATTTTGACTTATTTT
1 AAAATCGTAACTCTCCCATCC-GAGGCAAATAAGACACCATTGGAAAGATATTTTGACGTATTTT
* * * *
495031 TAGGG-AAAATATTATAAAATTTGACAAAAATCATTTAATATTTTAAAATAATTTCCAAGCTCGT
65 TAGGGAAAAATATTATAAAATTCGAAAAAAATCATTGAATATTTTAAAATAATTTCCAAGCTCAT
* * ** * * *
495095 GCTTCAACCCTGCTAGAATATGGCATAGGAAGTATTTTGTATTTTCAGTTTTTCCATTAGGTTGA
130 GCTTCAACCCTGCCAAAATAAAGCAT-GGAAGTATTTGGTATTTCCAGTTTTTCCATTAGGTTAA
* *
495160 ATTCATGCCACGAACGTTCGAACGTCCATGATTGAGATGAGGAAGTGACATGGGCATCACGAGTT
194 ATTCATGCCACGAACGTTCGAACATCCATGATTGAGATGAGGAAGTGACATGGGCATCACAAGTT
* * *
495225 CATTCCACAATCCCAAAGTAGTTTAGGACAATGCAACAAACCATTGACCACGTCACCAATAATGA
259 CATTCCACAATCCCAAAGTAGTTTAGGAAAATGAAACAAACCATTAACCACGTCACCAATAATGA
* *
495290 CTTTGGACTCTAGACCAAGGCTAACAACATCTATTGAGCAAAGAAAAAAAATTGGTTAAAGAACA
324 CTTTGGACTCTAGACCAAGGCTAACAACA--TATTGAGCAAAAAAAAAAAATTAGTTAAAGAACA
* *
495355 ACATTCCAAAAATTATTTGACCATGAATCTAGATCTGAAATTTTTCTTTTTCCCCAAAGGTTGGA
387 ACATTCCAAAAATTATTTCACCATGAATCTAGATCTAAAATTTTTCTTTTTCCCCAAAGGTTGGA
495420 AAACCAACTCATGGAAACCTCAAGTCCATGTTAATCTCATGCATGGGAGGTAACATGAGTTT
452 AAACCAACTCATGGAAACCTCAAGTCCATGTTAATCTCATGCATGGGAGGTAACATGAGTTT
495482 GACTTGGGGG
Statistics
Matches: 466, Mismatches: 42, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
516 93 0.20
517 221 0.47
518 1 0.00
519 1 0.00
521 47 0.10
522 103 0.22
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (519 bp):
AAAATCGTAACTCTCCCATCCGAGGCAAATAAGACACCATTGGAAAGATATTTTGACGTATTTTT
AGGGAAAAATATTATAAAATTCGAAAAAAATCATTGAATATTTTAAAATAATTTCCAAGCTCATG
CTTCAACCCTGCCAAAATAAAGCATGGAAGTATTTGGTATTTCCAGTTTTTCCATTAGGTTAAAT
TCATGCCACGAACGTTCGAACATCCATGATTGAGATGAGGAAGTGACATGGGCATCACAAGTTCA
TTCCACAATCCCAAAGTAGTTTAGGAAAATGAAACAAACCATTAACCACGTCACCAATAATGACT
TTGGACTCTAGACCAAGGCTAACAACATATTGAGCAAAAAAAAAAAATTAGTTAAAGAACAACAT
TCCAAAAATTATTTCACCATGAATCTAGATCTAAAATTTTTCTTTTTCCCCAAAGGTTGGAAAAC
CAACTCATGGAAACCTCAAGTCCATGTTAATCTCATGCATGGGAGGTAACATGAGTTTCTCCTA
Found at i:496716 original size:21 final size:20
Alignment explanation
Indices: 496686--496725 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
496676 CACATTTTTG
496686 TTTAAATGTATCGATACATT
1 TTTAAATGTATCGATACATT
496706 TTTAGAATGTATCGATACAT
1 TTTA-AATGTATCGATACAT
496726 GGTCCCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
TTTAAATGTATCGATACATT
Found at i:504017 original size:13 final size:13
Alignment explanation
Indices: 503999--504024 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
503989 AAATTCCTAG
503999 ATGTATCGATACA
1 ATGTATCGATACA
504012 ATGTATCGATACA
1 ATGTATCGATACA
504025 TTTCCTTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:504079 original size:19 final size:20
Alignment explanation
Indices: 504055--504108 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
504045 TAGCGATACA
504055 TTGTATCGATACAACACT-T
1 TTGTATCGATACAACACTGT
**
504074 TTGTATCGATACAGTTACTGT
1 TTGTATCGATACA-ACACTGT
504095 TTGTATCGATACAA
1 TTGTATCGATACAA
504109 ATTGTTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACAACACTGT
Found at i:504983 original size:49 final size:49
Alignment explanation
Indices: 504799--506047 Score: 1047
Period size: 49 Copynumber: 25.8 Consensus size: 49
504789 AAAAGGATGT
* * * * * * *
504799 CAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAAG-GTGC
* * ** * ** *
504851 CAATGTGCTGATTCAAGGCTAATGACATTGGGTTTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATG---AAGGTGC
* *
504904 CAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * **
504953 TAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAGACAAAGGCAC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGC
*
505005 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
505054 CAATGTGCTGATTCAAGGCCAACGACATTGGTCATAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * *
505103 CAATGTGCTAATTCAAGGCCAGCAACATTAGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGC
505155 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
505204 TAATATGCTGATTCAAGGCCAACGACT-TTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGATG---AAGGTGC
* *
505256 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAATGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
505305 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GATGAAGGTGC
*
505357 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGAGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
505406 CAATGTGCTGAGTCAAGGCCAGCAACATTGGACTTAAAGATG-ACGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
505454 CAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAAAGTTGGTTAAGGTCC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
* * * ** * *
505506 CGATGTGCTGACTCAAGGCCAATGATATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
505555 CAATATGCTGATTCAAGGCCAGCGATACTAG-CTT---G-T----GT--
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * *
505593 CAATGTGCTGATTCAAGGCCAGCGACATAGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
505641 CAATATGTTGATTCAAGGCCAGCGATATTGGGCTT----AT----GT--
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
505680 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
*
505728 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * *
505767 CAATGTGCTGATTCAAGGCCCA-CAACATTGGTCTTAAAGA-CAATGTGC
1 CAATATGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
505815 CAATATGCTGATTCAAGACCAACGATATTGGAC-TCAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
*
505866 CAATATGATGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * * * *
505909 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAATGATAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* ** * *
505958 CAATATGCCGATTCAAGGCCAGCGATATTGGTTTTAATGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* **
506007 CAATATGATGATTCAAAACCAGCGATATTGGACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
506048 AGACACCACC
Statistics
Matches: 980, Mismatches: 148, Indels: 140
0.77 0.12 0.11
Matches are distributed among these distances:
38 26 0.03
39 62 0.06
40 6 0.01
41 3 0.00
42 1 0.00
43 39 0.04
44 2 0.00
45 1 0.00
46 5 0.01
47 10 0.01
48 129 0.13
49 368 0.38
50 7 0.01
51 40 0.04
52 244 0.25
53 34 0.03
54 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
Found at i:505013 original size:101 final size:98
Alignment explanation
Indices: 504799--506047 Score: 1022
Period size: 101 Copynumber: 12.9 Consensus size: 98
504789 AAAAGGATGT
* * * * * * *
504799 CAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGCCAATGTGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAAG-GTGCCAATATGCTGATT
* ** * **
504864 CAAGGCTAATGACATTGGGTTTTAAAGATGACAAAGGCGC
63 CAAGGCCAGCGATATT-GGACTTAAAGATG---AAGGCGC
* * * * *
504904 CAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAGAGATGAAGGTGCTAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * *
504969 GGCCAACGACATTGGACTTAAAGAAGACAAAGGCAC
66 GGCCAGCGATATTGGACTTAAAGATG---AAGGCGC
* * *
505005 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * * *
505070 GGCCAACGACATTGGTCATAAAGATGAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGATGAAGGCGC
* * * * *
505103 CAATGTGCTAATTCAAGGCCAGCAACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATT
*
505168 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
63 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGCGC
* * * *
505204 TAATATGCTGATTCAAGGCCAACGACT-TTGGACTTAAAGATGACAAAGGCGCCAATATGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGATG---AAGGTGCCAATATGCTGAT
* * *
505268 TCAAGGCTAGCGATATTGGACTTAATGATGAAGGTGC
62 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGCGC
* *
505305 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATGAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GATGAAGGTGCCAATATGCTGATT
*
505370 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGAGC
63 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGCGC
* * * *
505406 CAATGTGCTGAGTCAAGGCCAGCAACATTGGACTTAAAGATG-ACGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * *
505470 GGCTAGCGATATTGGGCTTAAAGTTGGTTAAGGTC-C
66 GGCCAGCGATATTGGACTTAAAGAT-G--AAGG-CGC
* * ** * *
505506 CGATGTGCTGACTCAAGGCCAATGATATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * *
505571 GGCCAGCGATACTAG-CTT---G-T------GT
66 GGCCAGCGATATTGGACTTAAAGATGAAGGCGC
* * * * *
505593 CAATGTGCTGATTCAAGGCCAGCGACATAGGTCTTAAAGA-CAAGGTGCCAATATGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
505657 GGCCAGCGATATTGGGCTT----AT------GT
66 GGCCAGCGATATTGGACTTAAAGATGAAGGCGC
* * *
505680 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
505744 GGCCAGCGATATTGGGCTT----AT------GC
66 GGCCAGCGATATTGGACTTAAAGATGAAGGCGC
* * * * *
505767 CAATGTGCTGATTCAAGGCCCA-CAACATTGGTCTTAAAGA-CAATGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCA
* * * *
505830 AGACCAACGATATTGGAC-TCAAGATGGAAAAGGTGC
65 AGGCCAGCGATATTGGACTTAAAGAT-G--AAGGCGC
* * *
505866 CAATATGATGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * * * *
505925 GGCCAGCGACATTGGTCTTAATGATAAAAGTGC
66 GGCCAGCGATATTGGACTTAAAGATGAAGGCGC
* * ** * * *
505958 CAATATGCCGATTCAAGGCCAGCGATATTGGTTTTAATGATAAAGGTGCCAATATGATGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
**
506023 AACCAGCGATATTGGACTTAGAAGA
66 GGCCAGCGATATTGGACTTA-AAGA
506048 AGACACCACC
Statistics
Matches: 987, Mismatches: 118, Indels: 84
0.83 0.10 0.07
Matches are distributed among these distances:
86 36 0.04
87 196 0.20
88 3 0.00
90 2 0.00
92 37 0.04
94 34 0.03
95 6 0.01
96 2 0.00
97 43 0.04
98 86 0.09
99 32 0.03
100 44 0.04
101 393 0.40
102 31 0.03
103 5 0.01
104 4 0.00
105 33 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (98 bp):
CAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGATGAAGGCGC
Found at i:505117 original size:150 final size:149
Alignment explanation
Indices: 504799--506047 Score: 1045
Period size: 150 Copynumber: 8.6 Consensus size: 149
504789 AAAAGGATGT
* * * * * * * * *
504799 CAATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGCCAATGTGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGACAAG-GTGCCAATATGCTGATT
* ** * ** * *
504864 CAAGGCTAATGACATTGGGTTTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGA
65 CAAGGCCAGCGATATT-GGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAACGA
* *
504929 TATTGGTCTTAGAGATGAAGGTGC
126 CATTGGTCTTAAAGATGAAGGTGC
* * * **
504953 TAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAGACAAAGGCACCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAC-AAGGTGCCAATATGCTGATT
* *
505018 CAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATT
65 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT
*
505083 GGTCATAAAGATGAAGGTGC
130 GGTCTTAAAGATGAAGGTGC
* * * * * *
505103 CAATGTGCTAATTCAAGGCCAGCAACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAC-AAGGTGCCAATATGCTGATT
* *
505168 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCTAATATGCTGATTCAAGGCCAACGACTTT
65 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT
* *
505233 GGACTTAAAGATGACAAAGGCGC
130 GGTCTTAAAGATG---AAGGTGC
* * * * *
505256 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAATGATG--AAGGTGCCAATGTGCTGATTC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGACAAGGTGCCAATATGCTGATTC
* * * *
505319 AAGGCCAGCGACATTGGACTTAAAGATGATGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATA
66 AAGGCCAGCGATATTGGACTT-AA-A-GATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACA
* *
505384 TTGGACTTAAAGATGAAGGAGC
128 TTGGTCTTAAAGATGAAGGTGC
* * * *
505406 CAATGTGCTGAGTCAAGGCCAGCAACATTGGACTTAAAGATGAC---GTGCCAATATGCTGATTC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGACAAGGTGCCAATATGCTGATTC
* * * * * * * * *
505468 AAGGCTAGCGATATTGGGCTTAAAGTTGGTTAAGGTCCCGATGTGCTGACTCAAGGCCAATGATA
66 AAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAACGACA
*
505533 TTGGTCTTAAAGATAAAGGTGC
128 TTGGTCTTAAAGATGAAGGTGC
** * *
505555 CAATATGCTGATTCAAGGCCAGCG--A-T--AC-T-----AG-C-TTGTGTCAATGTGCTGATTC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGACAAGGTGCCAATATGCTGATTC
* * * * * * *
505607 AAGGCCAGCGACATAGGTCTTAAAGA-CAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTG
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTG
*
505671 GGCTT----AT----GT--
131 GTCTTAAAGATGAAGGTGC
* *
505680 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--A-AAGACAAGGTGCCAATATGCTGATTC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGACAAGGTGCCAATATGCTGATTC
* * * *
505742 AAGGCCAGCGATATTGGGC-T-----T--A--TGCCAATGTGCTGATTCAAGGCCCACAACATTG
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTG
* *
505797 GTCTTAAAGA-CAATGTGC
131 GTCTTAAAGATGAAGGTGC
* * * * * * *
505815 CAATATGCTGATTCAAGACCAACGATATTGGAC-TCAAGATGGAAAAGGTGCCAATATGATGATT
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-AGACAAGGTGCCAATATGCTGATT
* *
505879 CAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT
65 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATT
* * *
505938 GGTCTTAATGATAAAAGTGC
130 GGTCTTAAAGATGAAGGTGC
* * ** * * *
505958 CAATATGCCGATTCAAGGCCAGCGATATTGGTTTTAATG-ATA-AAGGTGCCAATATGATGATTC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGACAAGGTGCCAATATGCTGATTC
**
506021 AAAACCAGCGATATTGGACTTAGAAGA
66 AAGGCCAGCGATATTGGACTTA-AAGA
506048 AGACACCACC
Statistics
Matches: 908, Mismatches: 136, Indels: 110
0.79 0.12 0.10
Matches are distributed among these distances:
125 23 0.03
126 31 0.03
127 3 0.00
128 2 0.00
130 2 0.00
131 3 0.00
133 4 0.00
134 3 0.00
135 94 0.10
136 1 0.00
137 2 0.00
138 41 0.05
139 38 0.04
140 1 0.00
141 40 0.04
142 40 0.04
143 35 0.04
144 5 0.01
146 4 0.00
147 3 0.00
148 2 0.00
149 102 0.11
150 261 0.29
151 2 0.00
152 1 0.00
153 100 0.11
154 62 0.07
155 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (149 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTG
GTCTTAAAGATGAAGGTGC
Found at i:505681 original size:87 final size:87
Alignment explanation
Indices: 505508--505845 Score: 509
Period size: 87 Copynumber: 3.9 Consensus size: 87
505498 TAAGGTCCCG
* ** * *
505508 ATGTGCTGACTCAAGGCCAATGATATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGG
1 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGG
* * *
505573 CCAGCGATACT-AGCTTGTGTCA
65 CCAGCGATATTGGGCTTATGTCA
* *
505595 ATGTGCTGATTCAAGGCCAGCGACATAGGTCTTAAAGACAAGGTGCCAATATGTTGATTCAAGGC
1 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGC
505660 CAGCGATATTGGGCTTATGTCA
66 CAGCGATATTGGGCTTATGTCA
505682 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGC
1 ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGC
*
505747 CAGCGATATTGGGCTTATGCCA
66 CAGCGATATTGGGCTTATGTCA
* * *
505769 ATGTGCTGATTCAAGGCCCA-CAACATTGGTCTTAAAGACAATGTGCCAATATGCTGATTCAAGA
1 ATGTGCTGATTCAAGG-CCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGG
*
505833 CCAACGATATTGG
65 CCAGCGATATTGG
505846 ACTCAAGATG
Statistics
Matches: 232, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
86 34 0.15
87 195 0.84
88 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (87 bp):
ATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGC
CAGCGATATTGGGCTTATGTCA
Found at i:505703 original size:39 final size:39
Alignment explanation
Indices: 505638--505786 Score: 163
Period size: 39 Copynumber: 3.6 Consensus size: 39
505628 AAAGACAAGG
* *
505638 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * *
505677 TGTCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT-------A
*
505723 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 --TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
505764 TGCCAATGTGCTGATTCAAGGCC
1 TGCCAATGTGCTGATTCAAGGCC
505787 CACAACATTG
Statistics
Matches: 91, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
39 55 0.60
41 1 0.01
46 1 0.01
48 34 0.37
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (39 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
Found at i:505797 original size:39 final size:39
Alignment explanation
Indices: 505725--505802 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
505715 AAAGACAAGG
* *
505725 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTTA
* *
505764 TGCCAATGTGCTGATTCAAGGCCCA-CAACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGG-CCAGCAACATTGGGCTTA
505803 AAGACAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 31 0.91
40 3 0.09
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTTA
Found at i:506151 original size:30 final size:29
Alignment explanation
Indices: 506064--506159 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 29
506054 CACCAGCTTG
506064 TGTGGGCTTTTGAAAGGGTTG-CACCA-ACT
1 TGTGGGCTTTTGAAAGGG-TGCCA-CAGACT
* * *
506093 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTGCCACAGACT
506121 TGTGGGCTTTTGAAAAGGGTGCCACAGACT
1 TGTGGGCTTTTG-AAAGGGTGCCACAGACT
506151 TGTGGGCTT
1 TGTGGGCTT
506160 AAAAAGAACA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 3 0.05
28 20 0.35
29 11 0.19
30 23 0.40
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTGCCACAGACT
Found at i:506187 original size:33 final size:32
Alignment explanation
Indices: 506132--506417 Score: 219
Period size: 34 Copynumber: 8.8 Consensus size: 32
506122 GTGGGCTTTT
* * *
506132 GAAAAGGGTGCCACAGACTTGTGGGCTTAAAAA
1 GAAAA-GGTGCCACAGAGTTGTGGACTTAAAAG
*
506165 GAACAAGGTGCCACAAAGTTGTGG-CTTTAAAAGGG
1 GAA-AAGGTGCCACAGAGTTGTGGAC-TTAAAA--G
* *
506200 GAAAGGGTGCCACAGAGTCGTGGACTTAAAAG
1 GAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
* *
506232 GAAAAAGATGCCACGGAGTTGTGGACTTAAAA-
1 G-AAAAGGTGCCACAGAGTTGTGGACTTAAAAG
*
506264 G----GGTGCCACAAAGTTGTGGACTTAAAAGG
1 GAAAAGGTGCCACAGAGTTGTGGACTTAAAA-G
* *
506293 GAAAAAGATGCCAC-GAAGTTATGGACTTAAAAG
1 G-AAAAGGTGCCACAG-AGTTGTGGACTTAAAAG
* * *
506326 GAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 GAAAAGGTGCCACAGAGTTGTGGAC-TT-AAAAG
* * * **
506360 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAA-
1 GAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
* * *
506391 GAAAAGATGCCACTGAGTCGTGGACTT
1 GAAAAGGTGCCACAGAGTTGTGGACTT
506418 TGCAAAGAGA
Statistics
Matches: 207, Mismatches: 29, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
27 23 0.11
29 1 0.00
31 22 0.11
32 24 0.12
33 58 0.28
34 75 0.36
35 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (32 bp):
GAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
Found at i:506212 original size:67 final size:67
Alignment explanation
Indices: 506134--506382 Score: 194
Period size: 67 Copynumber: 3.8 Consensus size: 67
506124 GGGCTTTTGA
* * * *
506134 AAAGGGTGCCACAGACTTGTGGGCTTAAAAAGAACAAGGTGCCACAAAGTTGTGG-CTTTAAAAG
1 AAAGGGTGCCACAGACTCGTGGACTTAAAAAGAAAAAGATGCCACAAAGTTGTGGAC-TTAAAAG
506198 GGG
65 GGG
* * **
506201 AAAGGGTGCCACAGAGTCGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT---A--
1 AAAGGGTGCCACAGACTCGTGGACTTAAAAAGAAAAAGATGCCACAAAGTTGTGGACTTAAAAGG
506261 --
66 GG
* * * * * *
506261 AAAGGGTGCCACAAAGTTGTGGACTTAAAAGGGAAAAAGATGCCACGAAGTTATGGACTTAAAA-
1 AAAGGGTGCCACAGACTCGTGGACTTAAAA-AGAAAAAGATGCCACAAAGTTGTGGACTTAAAAG
506325 -GG
65 GGG
* * * * * * * **
506327 AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGG
1 AAAGGGTGCCACAGACTCGTGGAC-TTAAAAAGAAAAAGATGCCACAAAGTTGTGG
506383 GCTTTGAAGA
Statistics
Matches: 152, Mismatches: 22, Indels: 17
0.80 0.12 0.09
Matches are distributed among these distances:
60 28 0.18
61 27 0.18
64 2 0.01
66 40 0.26
67 54 0.36
68 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.33, T:0.18
Consensus pattern (67 bp):
AAAGGGTGCCACAGACTCGTGGACTTAAAAAGAAAAAGATGCCACAAAGTTGTGGACTTAAAAGG
GG
Found at i:506305 original size:94 final size:93
Alignment explanation
Indices: 506171--506348 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 93
506161 AAAAGAACAA
* * * *
506171 GGTGCCACAAAGTTGTGGCTTTAAAAGGGGAAAGGGTGCCAC-AGAGTCGTGGACTTAAAAGGAA
1 GGTGCCACAAAGTTGTGGCTTTAAAAGGGAAAAAGATGCCACGA-AGTCATGGACTTAAAAGG-A
*
506235 AAAGATGCCACGGAGTTGTGGACTTAAAAG
64 AAAGATGCCACGGAGTGGTGGACTTAAAAG
*
506265 GGTGCCACAAAGTTGTGGAC-TTAAAAGGGAAAAAGATGCCACGAAGTTATGGACTTAAAAGGAA
1 GGTGCCACAAAGTTGTGG-CTTTAAAAGGGAAAAAGATGCCACGAAGTCATGGACTTAAAAGGAA
*
506329 AAGGTGCCACGGAGTGGTGG
65 AAGATGCCACGGAGTGGTGG
506349 GCTTTGAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 20 0.27
94 53 0.71
95 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (93 bp):
GGTGCCACAAAGTTGTGGCTTTAAAAGGGAAAAAGATGCCACGAAGTCATGGACTTAAAAGGAAA
AGATGCCACGGAGTGGTGGACTTAAAAG
Found at i:506324 original size:61 final size:60
Alignment explanation
Indices: 506201--506326 Score: 207
Period size: 61 Copynumber: 2.1 Consensus size: 60
506191 TTAAAAGGGG
* * *
506201 AAAGGGTGCCACAGAGTCGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACAAAGTCGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTATGGACTTA
*
506261 AAAGGGTGCCACAAAGTTGTGGACTTAAAAGGGAAAAAGATGCCACGAAGTTATGGACTTA
1 AAAGGGTGCCACAAAGTCGTGGACTTAAAA-GGAAAAAGATGCCACGAAGTTATGGACTTA
506322 AAAGG
1 AAAGG
506327 AAAAGGTGCC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
60 28 0.46
61 33 0.54
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.18
Consensus pattern (60 bp):
AAAGGGTGCCACAAAGTCGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTATGGACTTA
Found at i:506431 original size:30 final size:30
Alignment explanation
Indices: 506367--506515 Score: 149
Period size: 30 Copynumber: 4.9 Consensus size: 30
506357 AAGAAAAAGG
* * * *
506367 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
506398 TGCCACTGAGTCGTGGACTTTGCA-AAGAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * *
506428 TGCCACTAAGTCGTGGACTTTGGGACA-AAA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGA
* *
506458 TGCCACTAAGTCGTGGGCTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
506488 TTGCCACTGAGTCATGGACTTTAAGAAG
1 -TGCCACTGAGTCGTGGACTTTGAGAAG
506516 GTATTTGAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.01
30 54 0.55
31 44 0.44
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:513530 original size:15 final size:15
Alignment explanation
Indices: 513510--513544 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
513500 TCGCCGGGCA
*
513510 AAAATTGGCTCGAAC
1 AAAATTGGCCCGAAC
*
513525 AAAATTGTCCCGAAC
1 AAAATTGGCCCGAAC
513540 AAAAT
1 AAAAT
513545 GAATTCGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (15 bp):
AAAATTGGCCCGAAC
Found at i:513880 original size:20 final size:22
Alignment explanation
Indices: 513855--513899 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
513845 AAGTCGAATT
*
513855 TTTTTAAATTT-TAAAGTTA-G
1 TTTTTAAATTTCAAAAGTTATG
513875 TTTTTAAATTTCAAAAGTTATG
1 TTTTTAAATTTCAAAAGTTATG
513897 TTT
1 TTT
513900 CATACCTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 7 0.32
22 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (22 bp):
TTTTTAAATTTCAAAAGTTATG
Found at i:517307 original size:84 final size:84
Alignment explanation
Indices: 516528--517914 Score: 679
Period size: 84 Copynumber: 16.5 Consensus size: 84
516518 GAAAAGTTTG
* ** * * * * * * * *
516528 CAAGGTCAAAGTCGATAGGCAAACTAAAGGGTAAGGAAGTTTCCAAGATCAAAGCCGATAGGCAC
1 CAAGGTCAAAGTCGATAGGCAGACTTGA-GATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAG
* * *
516593 ATTAAAGGTAAAAAATTCTC
65 ACTAAAGGTAAGAAAGTCTC
* * ** * * * *
516613 CAAGGTCAAAGCCAATACACAGACTTAAGGGTAAGG-ATGTCTCCAAGGTCAAAGCCGACAGGCA
1 CAAGGTCAAAGTCGATAGGCAGACTTGA-GATGAGGTA-GTCTCCAAGGTCAAAGCCGACAAGCA
* *
516677 GACCAAAGGTGAA-AAAGTCCC
64 GACTAAAGGT-AAGAAAGTCTC
* * * * * * ** * *
516698 CAGGGTTAAAGCTGGCAT--GTAGACTTGAGGGTAAGAAAGTCTCCAAGGTTAAAGCTGACAAGC
1 CAAGGTCAAAG-TCG-ATAGGCAGACTTGA-GATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGC
* * * *
516761 AAACTTGACGGTAAGGAAGTCTC
63 AGAC-TAAAGGTAAGAAAGTCTC
* * ** * * * * ** * * *
516784 GAAGGTCAAAG-CTAATAGATAGAC-TGAAAGTAAGGAAGTTTTTAGGGTCAAAGTCAACAAGCA
1 CAAGGTCAAAGTC-GATAGGCAGACTTGAGA-TGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCA
*
516847 GACTTAAAGGTAAAAAAGTCTC
64 GAC-TAAAGGTAAGAAAGTCTC
* * * ** * * *
516869 CAAGGTCAAAGTCGATTA-GCAGACTAAGAAGGTAAGAAAGTC-CCTAGGGTTAAAGCCGACAGG
1 CAAGGTCAAAGTCGA-TAGGCAGACT-TG-AGATGAGGTAGTCTCC-AAGGTCAAAGCCGACAAG
* * * *
516932 CAAACTAAAGGTCAGGAAGTCTT
62 CAGACTAAAGGTAAGAAAGTCTC
* * ** * * * * * * * * *
516955 TAGGGTCATGGTTGATAAGCAGAC-TAAAAGTGAAGAAGCCTCCAGGGTCAAAGCCGACAGGCAG
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGA-TGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAG
*
517019 ACTAAAGGTGAAG-AAGCCTC
65 ACTAAAGGT-AAGAAAGTCTC
* ** * * * **
517039 CAAGGTCAAAG-CTGACAGGCAGACTAAAGGTCAGG-ATGTCTCTAAGGTCAAAGCTAAC-AGAC
1 CAAGGTCAAAGTC-GATAGGCAGACTTGAGATGAGGTA-GTCTCCAAGGTCAAAGCCGACAAG-C
*
517101 AAACTAAAGGTTAAG-AAGTCTC
63 AGACTAAAGG-TAAGAAAGTCTC
* * * * * * * ** * * * * *
517123 TAGGGTCAAAGCCGACAAGTAAACTAAAGGTTAGGAAGTCTCTAAGGTCAAAGCCGACAGGCAGA
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGA
*
517188 CTGAAGGTCAAG-AAGTCTC
66 CTAAAGGT-AAGAAAGTCTC
* * * * *
517207 CAAGGTCAAAGCCAATAGGTAGACTTAAGATGAGGTAATCTCCAAGGTCAAAGCCGACAAGCAGA
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGA
517272 CTAAAAGG-AAGAAAGTCTC
66 CT-AAAGGTAAGAAAGTCTC
* * * * * * * ** *
517291 CAAGGTCAAAATCAATAGACAGACTTGAGATAAAGCATTCTGTAAGGTCAAAG-CGAC-AGTTAG
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAG-CAG
* ** * *
517354 ACTGAACATAAAAAAATCT-
65 ACTAAAGGTAAGAAAGTCTC
* * * * * * *** * *
517373 TAAGGTCAAAGCCGACA-GAAGACTTAAGATGAAGTAGTCTCCAAGGTCAAATTTGATAGGCAGA
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGA
*
517437 CTGAAGGTAAGAAAGTCTC
66 CTAAAGGTAAGAAAGTCTC
* * * * * * *
517456 CAAGGTCGAAG-CTAACAAGCAGACTTGAGATGAGGTAGTCTCTAGGGTCAAAGCCGA-TAG-AT
1 CAAGGTCAAAGTC-GATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCA-
*
517518 GGACTGAAGGTAAGAAAGTCTC
64 -GACTAAAGGTAAGAAAGTCTC
* * * * * * *
517540 TAAGGTCAAAGTCGATAGGCAAACTTAAGATGAGGCAGTCTCCATGGTCAAAGCCAACAGGCAGA
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGA
* *
517605 TTGAAGAG-AAGAAAGTCTC
66 CTAAAG-GTAAGAAAGTCTC
* * * * ** *
517624 CAAGGTCAAAGTCGATAGACAAACTTGAGATAAGGTAGTCTCCAAGGTTAAAGCTTACAAGTAGA
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGA
* *
517689 CTAAAGGTAAAAAAGT-TT
66 CTAAAGGTAAGAAAGTCTC
* * *
517707 CTAGGCTCAAAGTCGATAGGCAAACTTGAGATGAGGTAGTCTCC-AGGTTAAAGCCGA-AAGACA
1 CAAGG-TCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAG-CA
* * *
517770 GACTTAAGGTAAGAAAATCTT
64 GACTAAAGGTAAGAAAGTCTC
* * * * * * * * * * *
517791 TAGGGTCAAAGTAGACAGGTAGACTTAAGATAAGGCAGTCTCCAAGGTCAAAGCCGATAGGTAGA
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGA
*
517856 CCAAAGGTAAGAAAGTCTC
66 CTAAAGGTAAGAAAGTCTC
* * *
517875 TAGGGTCAAAGTCGATA-GCAGACTTGAGATGAGGCAGTCT
1 CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCT
517915 TAGGGTCAAA
Statistics
Matches: 1002, Mismatches: 249, Indels: 104
0.74 0.18 0.08
Matches are distributed among these distances:
81 26 0.03
82 40 0.04
83 122 0.12
84 528 0.53
85 196 0.20
86 60 0.06
87 29 0.03
88 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.19
Consensus pattern (84 bp):
CAAGGTCAAAGTCGATAGGCAGACTTGAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAAGCAGA
CTAAAGGTAAGAAAGTCTC
Found at i:517454 original size:42 final size:42
Alignment explanation
Indices: 516528--517898 Score: 536
Period size: 42 Copynumber: 32.6 Consensus size: 42
516518 GAAAAGTTTG
* * * * *
516528 CAAGGTCAAAGTCGATAGGCAAACTAAAGGGTAAGGAAGTTTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAA-GGTAAGAAAGTCTC
* * * * * *
516571 CAAGATCAAAGCCGATAGGCACATTAAAGGTAAAAAATTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* ** * * *
516613 CAAGGTCAAAGCCAATACACAGACTTAAGGGTAAGGATGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAA-GGTAAGAAAGTCTC
* ** *
516656 CAAGGTCAAAGCCGACAGGCAGACCAAAGGTGAA-AAAGTCCC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGT-AAGAAAGTCTC
* * * ** * * *
516698 CAGGGTTAAAGCTGGCATGTAGACTTGAGGGTAAGAAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGAC-TGAAGGTAAGAAAGTCTC
* * * * * * *
516741 CAAGGTTAAAGCTGACAAGCAAACTTGACGGTAAGGAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGAC-TGAAGGTAAGAAAGTCTC
* ** ** * * * *
516784 GAAGGTCAAAGCTAATAGATAGACTGAAAGTAAGGAAGTTTT
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* * * * * * * *
516826 TAGGGTCAAAGTCAACAAGCAGACTTAAAGGTAAAAAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGAC-TGAAGGTAAGAAAGTCTC
*
516869 CAAGGTCAAAGTCGATTA-GCAGACTAAGAAGGTAAGAAAGTC-C
1 CAAGGTCAAAGCCGA-TAGGCAGACT--GAAGGTAAGAAAGTCTC
* * * * * * * *
516912 CTAGGGTTAAAGCCGACAGGCAAACTAAAGGTCAGGAAGTCTT
1 C-AAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* * ** ** * * * *
516955 TAGGGTCATGGTTGATAAGCAGACTAAAAGTGAAG-AAGCCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGT-AAGAAAGTCTC
* * * *
516997 CAGGGTCAAAGCCGACAGGCAGACTAAAGGTGAAG-AAGCCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGT-AAGAAAGTCTC
* * * * * *
517039 CAAGGTCAAAGCTGACAGGCAGACTAAAGGTCAGGATGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* ** * * * *
517081 TAAGGTCAAAGCTAACAGACAAACTAAAGGTTAAG-AAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGG-TAAGAAAGTCTC
* * * * * * * * *
517123 TAGGGTCAAAGCCGACAAGTAAACTAAAGGTTAGGAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* *
517165 TAAGGTCAAAGCCGACAGGCAGACTGAAGGTCAAG-AAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGT-AAGAAAGTCTC
* * * * * *
517207 CAAGGTCAAAGCCAATAGGTAGACTTAAGATGAGGTAA-TCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGT-AAGAAAGTCTC
* * *
517249 CAAGGTCAAAGCCGACAAGCAGACTAAAAGG-AAGAAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACT-GAAGGTAAGAAAGTCTC
** * * * * * *
517291 CAAGGTCAAAATCAATAGACAGACTTG-AGATAA-AGCATTCTG
1 CAAGGTCAAAGCCGATAGGCAGAC-TGAAGGTAAGA-AAGTCTC
* * ** ** * *
517333 TAAGGTCAAAG-CGACAGTTAGACTGAACATAAAAAAATCT-
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* * * * * *
517373 TAAGGTCAAAGCCGACA-GAAGACTTAAGATGAAG-TAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGT-AAGAAAGTCTC
***
517414 CAAGGTCAAATTTGATAGGCAGACTGAAGGTAAGAAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* ** * * * * **
517456 CAAGGTCGAAGCTAACAAGCAGACTTG-AGATGAGGTAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGAC-TGAAGGTAAGAAAGTCTC
* * ***
517498 TAGGGTCAAAGCCGATAGATGGACTGAAGGTAAGAAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* * * * * * **
517540 TAAGGTCAAAGTCGATAGGCAAACTTAAGATGAGGCAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* * * *
517582 CATGGTCAAAGCCAACAGGCAGATTGAAGAG-AAGAAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAG-GTAAGAAAGTCTC
* * * * **
517624 CAAGGTCAAAGTCGATAGACAAACTTG-AGATAAGGTAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGAC-TGAAGGTAAGAAAGTCTC
* ** * * * * * *
517666 CAAGGTTAAAGCTTACAAGTAGACTAAAGGTAAAAAAGT-TT
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* * * * * **
517707 CTAGGCTCAAAGTCGATAGGCAAACTTG-AGATGAGGTAGTCTC
1 CAAGG-TCAAAGCCGATAGGCAGAC-TGAAGGTAAGAAAGTCTC
* * * * * *
517750 C-AGGTTAAAGCCGAAAGACAGACTTAAGGTAAGAAAATCTT
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* * ** * * * * **
517791 TAGGGTCAAAGTAGACAGGTAGACTTAAGATAAGGCAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* **
517833 CAAGGTCAAAGCCGATAGGTAGACCAAAGGTAAGAAAGTCTC
1 CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
* * *
517875 TAGGGTCAAAGTCGATA-GCAGACT
1 CAAGGTCAAAGCCGATAGGCAGACT
517899 TGAGATGAGG
Statistics
Matches: 977, Mismatches: 311, Indels: 82
0.71 0.23 0.06
Matches are distributed among these distances:
40 27 0.03
41 87 0.09
42 658 0.67
43 174 0.18
44 31 0.03
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (42 bp):
CAAGGTCAAAGCCGATAGGCAGACTGAAGGTAAGAAAGTCTC
Found at i:530418 original size:20 final size:20
Alignment explanation
Indices: 530393--530447 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
530383 TTTTGCTTAG
* *
530393 ATGTATCGGTACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
530413 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTATCA
530433 ATGTATCGATACATT
1 ATGTATCGATACATT
530448 GAAAAAATGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:532825 original size:98 final size:98
Alignment explanation
Indices: 532656--532895 Score: 453
Period size: 98 Copynumber: 2.4 Consensus size: 98
532646 CATCGAAGAT
*
532656 ACTCCAACCCCATTCCTCCGATGGGATACTCCAACCCCGTTTTTAAAACTTATCAAGATTTGAAA
1 ACTCCAACCCCATTCCTCTGATGGGATACTCCAACCCCGTTTTTAAAACTTATCAAGATTTGAAA
532721 CTTATTCTTGCCTAAATTGTCATCATTGGGGAC
66 CTTATTCTTGCCTAAATTGTCATCATTGGGGAC
532754 ACTCCAACCCCATTCCTCTGATGGGATACTCCAACCCCGTTTTTAAAACTTATCAAGATTTGAAA
1 ACTCCAACCCCATTCCTCTGATGGGATACTCCAACCCCGTTTTTAAAACTTATCAAGATTTGAAA
532819 CTTATTCTTGCCTAAATTGTCATCATTGGGGAC
66 CTTATTCTTGCCTAAATTGTCATCATTGGGGAC
* *
532852 ACTCCAACCCCATTCCTCTGAAGGGATACTCCAACCCTGTTTTT
1 ACTCCAACCCCATTCCTCTGATGGGATACTCCAACCCCGTTTTT
532896 TAATCAAAAA
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 139 1.00
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.32
Consensus pattern (98 bp):
ACTCCAACCCCATTCCTCTGATGGGATACTCCAACCCCGTTTTTAAAACTTATCAAGATTTGAAA
CTTATTCTTGCCTAAATTGTCATCATTGGGGAC
Found at i:541785 original size:23 final size:25
Alignment explanation
Indices: 541753--541802 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
541743 TTTAACAATA
**
541753 AATTATATTTATTTTTTATA-TTTT
1 AATTATATTTACGTTTTATACTTTT
541777 AATTA-ATTTACGTTTTATACTTTT
1 AATTATATTTACGTTTTATACTTTT
541801 AA
1 AA
541803 AATTACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTATATTTACGTTTTATACTTTT
Found at i:541946 original size:14 final size:15
Alignment explanation
Indices: 541906--541946 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
541896 TTTCATTGAG
541906 ATATATATATATATCT
1 ATATAT-TATATATCT
*
541922 -TATATCATATAT-T
1 ATATATTATATATCT
541935 ATATATTATATA
1 ATATATTATATA
541947 CATATTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.05
14 16 0.73
15 5 0.23
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATATTATATATCT
Found at i:543670 original size:2 final size:2
Alignment explanation
Indices: 543663--543694 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
543653 TTTGATTAAA
543663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
543695 CATACATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:545086 original size:262 final size:266
Alignment explanation
Indices: 544468--545141 Score: 718
Period size: 262 Copynumber: 2.6 Consensus size: 266
544458 ATGGACATTT
* * *
544468 TAAAAAGTCATCAAGTGTCACACATTTAATTGTTTTAACTTAATTTAA--TATTAA-AAATA--T
1 TAAAAAGTCATCAAGTGTCATACATTTAATTATTTTAACTTAATTTAATTTAATAATAAATATTT
* *
544528 CATATAATTAATTATGTTTATTTTCTTTTATACATTTAAATTGACTTACTTTTCAAATATATGTA
66 CATATAATTAATTATATTTA-TTT-TTTTATACA-TTGAATTGACTTACTTTTCAAATATATGTA
* * * * *
544593 AACATATAAAATTTTACTTATCTTTTCATATCGTGCAGAAAATATTAAATCTTAAATAAATATAT
128 AACAAATAAAATTTTAATTATCCTTACATATCGTGCACAAAATATTAAATCTTAAATAAATATAT
* * ** * *
544658 AAAAGCTAAAACTTTTTACTAATAAAGATAATTATTCGCTATGATATCCTATATTATAGACATGT
193 AAAAGCTAAAACGTTTTACTAATAAAGATAATTATCCAATATGACAACCTATATTATAGACATGT
* *
544723 AGATAGTCG
258 AGATAATCA
* * ** * *
544732 TAAAACGTCACCTTGTGTCATACATTTAATTATTTTGACTTAATTTAATTTAATATTAAAATATT
1 TAAAAAGTCATCAAGTGTCATACATTTAATTATTTTAACTTAATTTAATTTAATAAT-AAATATT
** * * *
544797 TTGTATAATTAATTATATTTA-TTTTTTATACATTGAATTGACTTACTTTTTATATATATATAAA
65 TCATATAATTAATTATATTTATTTTTTTATACATTGAATTGACTTACTTTTCAAATATATGTAAA
* * *
544861 TAGATAAAATTTTAATT-TCCCTTACATATC-TCGCACAAAATATTAAATCTTTTATATAAATAT
130 CAAATAAAATTTTAATTAT-CCTTACATATCGT-GCACAAAATATTAAATC--TTAAATAAATAT
* * * * * *
544924 A-GAAATC-AAAACGTTTTGC-AA-AATAG-TAATTGTCCAATATGAGCAACCTGTA-T-TA-AT
191 ATAAAAGCTAAAACGTTTTACTAATAA-AGATAATTATCCAATATGA-CAACCTATATTATAGAC
544981 ATGT-GTATAATCA
254 ATGTAG-ATAATCA
* *
544994 TAAAAAGTCATCAAGTGTCATAAATTTAATTATTTTAACTTGATTTAATTTAATAATAAATATTT
1 TAAAAAGTCATCAAGTGTCATACATTTAATTATTTTAACTTAATTTAATTTAATAATAAATATTT
* * * *
545059 CATACAATTAATTATATTTATTTTTTTATAC-TTGTAATTTACTGACCTTTCAAATATATGTAAA
66 CATATAATTAATTATATTTATTTTTTTATACATTG-AATTGACTTACTTTTCAAATATATGTAAA
545123 CAAATAAAATTTTAATTAT
130 CAAATAAAATTTTAATTAT
545142 ATCTCGCAAA
Statistics
Matches: 338, Mismatches: 56, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
261 29 0.09
262 107 0.32
263 3 0.01
264 56 0.17
265 12 0.04
266 81 0.24
267 13 0.04
268 19 0.06
270 18 0.05
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (266 bp):
TAAAAAGTCATCAAGTGTCATACATTTAATTATTTTAACTTAATTTAATTTAATAATAAATATTT
CATATAATTAATTATATTTATTTTTTTATACATTGAATTGACTTACTTTTCAAATATATGTAAAC
AAATAAAATTTTAATTATCCTTACATATCGTGCACAAAATATTAAATCTTAAATAAATATATAAA
AGCTAAAACGTTTTACTAATAAAGATAATTATCCAATATGACAACCTATATTATAGACATGTAGA
TAATCA
Found at i:549377 original size:20 final size:21
Alignment explanation
Indices: 549352--549401 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
549342 TTTAGGCATA
549352 TATCGATACATTCACT-TATG
1 TATCGATACATTCACTATATG
* * *
549372 TATCGATAAATTTACTATTTG
1 TATCGATACATTCACTATATG
549393 TATCGATAC
1 TATCGATAC
549402 GAATTGTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (21 bp):
TATCGATACATTCACTATATG
Found at i:553571 original size:105 final size:104
Alignment explanation
Indices: 553394--553601 Score: 319
Period size: 105 Copynumber: 2.0 Consensus size: 104
553384 AAGGAATTAT
553394 ATTTAAATAATGATAAAAATGGAACTGAAAAAATCAAGATATAAGTGAGACATAGTTAGAAGGTA
1 ATTTAAATAATGATAAAAATGGAACTGAAAAAATCAAGATATAAGTGAGACATAGTTAGAAGGTA
* * *
553459 CTAATTTC-GAGCGTCATAGGGTGCTAATCTTTCTCCATG
66 CCAATTTCAG-GCATCATAGGGTGCTAATCCTTCTCCATG
* *
553498 ATTTAAATAATGATAAAAATGGAACTGAAAAAAATCGAGATATAAGTGAGATATAGTTAGAAGGT
1 ATTTAAATAATGATAAAAATGGAACTG-AAAAAATCAAGATATAAGTGAGACATAGTTAGAAGGT
* * *
553563 ACCGATTTCAGGCATCATGGGGTGGTAATCCTTCTCCAT
65 ACCAATTTCAGGCATCATAGGGTGCTAATCCTTCTCCAT
553602 ACATAACAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
104 27 0.29
105 66 0.70
106 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (104 bp):
ATTTAAATAATGATAAAAATGGAACTGAAAAAATCAAGATATAAGTGAGACATAGTTAGAAGGTA
CCAATTTCAGGCATCATAGGGTGCTAATCCTTCTCCATG
Found at i:554832 original size:14 final size:15
Alignment explanation
Indices: 554813--554846 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
554803 TGGGATTTTC
*
554813 TTATTTA-TTTATTT
1 TTATTTATTTTATCT
554827 TTATTTATTTTATCT
1 TTATTTATTTTATCT
554842 TTATT
1 TTATT
554847 CTTATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTATTTTATCT
Found at i:556206 original size:4 final size:4
Alignment explanation
Indices: 556197--556227 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
556187 CAAACAAGTA
556197 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
556228 AATCATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:562918 original size:32 final size:32
Alignment explanation
Indices: 562851--562927 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
562841 CCAGCTTATG
** * *
562851 TGGGCTTATGAAGAGGTCGCCACCAACCTGTA
1 TGGGCTTAAAAAGAGGTCACCACCAACCTGCA
*
562883 TGGGCTTAAAAAGAGGTTACCACCAA-CTCGCA
1 TGGGCTTAAAAAGAGGTCACCACCAACCT-GCA
562915 TGGGCTTTAAAAA
1 TGGGC-TTAAAAA
562928 AAGTTGCTCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 2 0.05
32 29 0.76
33 7 0.18
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (32 bp):
TGGGCTTAAAAAGAGGTCACCACCAACCTGCA
Found at i:564581 original size:24 final size:23
Alignment explanation
Indices: 564554--564598 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
564544 CTAGGTTGCT
564554 TAGACACC-CTTTTCGGTTTTCATC
1 TAGAC-CCTCTTTTC-GTTTTCATC
564578 TAGACCCTCTTTTCGTTTTCA
1 TAGACCCTCTTTTCGTTTTCA
564599 ATTCATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.16, C:0.29, G:0.11, T:0.44
Consensus pattern (23 bp):
TAGACCCTCTTTTCGTTTTCATC
Found at i:572592 original size:20 final size:20
Alignment explanation
Indices: 572503--572599 Score: 70
Period size: 20 Copynumber: 4.7 Consensus size: 20
572493 ACTGCAGTTT
** *
572503 TATGTATCGATACAATTCAC
1 TATGTATCGATACAAAGCAA
*
572523 TATGTATCGATACCAAG-AA
1 TATGTATCGATACAAAGCAA
* * * *
572542 CATGTATCGATATAATGTATGGA
1 TATGTATCGATACAAAGCA---A
572565 TAATGTATCGATACAAAGCAA
1 T-ATGTATCGATACAAAGCAA
*
572586 TATGTATTGATACA
1 TATGTATCGATACA
572600 TCTGGGTATG
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
19 14 0.24
20 27 0.46
21 2 0.03
23 1 0.02
24 15 0.25
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (20 bp):
TATGTATCGATACAAAGCAA
Found at i:577287 original size:17 final size:17
Alignment explanation
Indices: 577265--577299 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
577255 ACATGGCCTA
577265 AAGGAGGTCTAAAAAGG
1 AAGGAGGTCTAAAAAGG
577282 AAGGAGGTCTAAAAAGG
1 AAGGAGGTCTAAAAAGG
577299 A
1 A
577300 TTTCGAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.34, T:0.11
Consensus pattern (17 bp):
AAGGAGGTCTAAAAAGG
Found at i:581014 original size:280 final size:280
Alignment explanation
Indices: 580513--581035 Score: 1046
Period size: 280 Copynumber: 1.9 Consensus size: 280
580503 AAGATTCAAA
580513 ACTGATTGCTTATTTCAGTGAAAAGCTTAATGGGGCAGCATTAAACTATCTTACTTATGATAATG
1 ACTGATTGCTTATTTCAGTGAAAAGCTTAATGGGGCAGCATTAAACTATCTTACTTATGATAATG
580578 AGATGTATGCTAGTGAGAACTCTACAAACATGGCAACACTATTTATGGCCAGAGGAATTCATAAT
66 AGATGTATGCTAGTGAGAACTCTACAAACATGGCAACACTATTTATGGCCAGAGGAATTCATAAT
580643 CCATTCTAATCATGAGAGACTAAAGTATTTGAAATCCCAAGGTAAGCTTAATTAAAGGCATGTCA
131 CCATTCTAATCATGAGAGACTAAAGTATTTGAAATCCCAAGGTAAGCTTAATTAAAGGCATGTCA
580708 AACGGCTAGAGTTTATTAAGACATTTCCTTATATGATTAAGTACAATAATCCTAAGACTATTGTA
196 AACGGCTAGAGTTTATTAAGACATTTCCTTATATGATTAAGTACAATAATCCTAAGACTATTGTA
580773 AGACTGTATTAAACTATCTT
261 AGACTGTATTAAACTATCTT
580793 ACTGATTGCTTATTTCAGTGAAAAGCTTAATGGGGCAGCATTAAACTATCTTACTTATGATAATG
1 ACTGATTGCTTATTTCAGTGAAAAGCTTAATGGGGCAGCATTAAACTATCTTACTTATGATAATG
580858 AGATGTATGCTAGTGAGAACTCTACAAACATGGCAACACTATTTATGGCCAGAGGAATTCATAAT
66 AGATGTATGCTAGTGAGAACTCTACAAACATGGCAACACTATTTATGGCCAGAGGAATTCATAAT
580923 CCATTCTAATCATGAGAGACTAAAGTATTTGAAATCCCAAGGTAAGCTTAATTAAAGGCATGTCA
131 CCATTCTAATCATGAGAGACTAAAGTATTTGAAATCCCAAGGTAAGCTTAATTAAAGGCATGTCA
580988 AACGGCTAGAGTTTATTAAGACATTTCCTTATATGATTAAGTACAATA
196 AACGGCTAGAGTTTATTAAGACATTTCCTTATATGATTAAGTACAATA
581036 GTGGAAAATA
Statistics
Matches: 243, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
280 243 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (280 bp):
ACTGATTGCTTATTTCAGTGAAAAGCTTAATGGGGCAGCATTAAACTATCTTACTTATGATAATG
AGATGTATGCTAGTGAGAACTCTACAAACATGGCAACACTATTTATGGCCAGAGGAATTCATAAT
CCATTCTAATCATGAGAGACTAAAGTATTTGAAATCCCAAGGTAAGCTTAATTAAAGGCATGTCA
AACGGCTAGAGTTTATTAAGACATTTCCTTATATGATTAAGTACAATAATCCTAAGACTATTGTA
AGACTGTATTAAACTATCTT
Found at i:582813 original size:70 final size:71
Alignment explanation
Indices: 582688--582844 Score: 208
Period size: 70 Copynumber: 2.2 Consensus size: 71
582678 CAGAGGAATG
* * ** *
582688 GGGTTGGAGTGTCTCCGATGATGATAATTTAAACAACAATAAGATTTAAACTTTGATGAGTTTAA
1 GGGTTGGAGTATCCCCGACAATGATAATTTAAACAACAATAAGATTTAAACTTTGATGAGATTAA
582753 AAAATA
66 AAAATA
* * *
582759 GGGTTGGAGTATCCCCGACAATTATAATTTAGACAA-AATAAGATTTAAATTTTGATGAGATTAA
1 GGGTTGGAGTATCCCCGACAATGATAATTTAAACAACAATAAGATTTAAACTTTGATGAGATTAA
* *
582823 AAAGTG
66 AAAATA
*
582829 GGGTTAGAGTATCCCC
1 GGGTTGGAGTATCCCC
582845 TCCGAGGAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
70 45 0.60
71 30 0.40
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (71 bp):
GGGTTGGAGTATCCCCGACAATGATAATTTAAACAACAATAAGATTTAAACTTTGATGAGATTAA
AAAATA
Found at i:582936 original size:97 final size:97
Alignment explanation
Indices: 582754--582969 Score: 267
Period size: 97 Copynumber: 2.2 Consensus size: 97
582744 TGAGTTTAAA
* * * *
582754 AAATAGGGTTGGAGTATCCCCGACAATTATAATTTAGACAAAATAAGATTTAAATTTTGATGAGA
1 AAATGGGGTTGGAGTATCCCCGACAATGAAAATTTAGACAAAATAAGATTTAAATTTTGATAAGA
* * *
582819 TTAAAAAGTGGGGTTAGAGTATCCCCTCCGAG
66 TTAAAAAGCGGGATTAGAGTATCCCCTCAGAG
* **
582851 GAATGGGGTTGGAGTATCCCCGATGATGAAAATTTA-ACCAAAAATAAGATTTAAATTTTGATAA
1 AAATGGGGTTGGAGTATCCCCGACAATGAAAATTTAGA-C-AAAATAAGATTTAAATTTTGATAA
* *
582915 G--TATAAAAGCGGGATTGGAGTATCCCCTCAGTG
64 GATTA-AAAAGCGGGATTAGAGTATCCCCTCAGAG
*
582948 AAATGGGGTTGGTGTATCCCCG
1 AAATGGGGTTGGAGTATCCCCG
582970 GTAAACAAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
96 3 0.03
97 75 0.74
98 24 0.24
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (97 bp):
AAATGGGGTTGGAGTATCCCCGACAATGAAAATTTAGACAAAATAAGATTTAAATTTTGATAAGA
TTAAAAAGCGGGATTAGAGTATCCCCTCAGAG
Found at i:584605 original size:35 final size:35
Alignment explanation
Indices: 584554--584641 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
584544 TCTCTTACTA
* *
584554 CTCGTATATGCATTTTTTT-CTGTTATCCCTTGCTG
1 CTCGTATATG-TTTTTTTTGTTGTTATCCCTTGCTG
* *
584589 CTTGTATATGTTTTTTTTGTTGTTATCCCTTGTTG
1 CTCGTATATGTTTTTTTTGTTGTTATCCCTTGCTG
*
584624 CTCGTATATGTTTCTTTT
1 CTCGTATATGTTTTTTTT
584642 ACTTGCTTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 7 0.15
35 39 0.85
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.58
Consensus pattern (35 bp):
CTCGTATATGTTTTTTTTGTTGTTATCCCTTGCTG
Found at i:585426 original size:20 final size:20
Alignment explanation
Indices: 585386--585448 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
585376 TTTTTTTGGA
*
585386 TATTTGATTTTTTTATTTTT
1 TATTTGATTTTTTTATATTT
585406 TATTTGATTTTTTT-TCATTT
1 TATTTGATTTTTTTAT-ATTT
* * *
585426 TTTTTCATTTTATTATTATTT
1 TATTTGATTTTTTTA-TATTT
585447 TA
1 TA
585449 ATTTTATATC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.80
21 5 0.14
22 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (20 bp):
TATTTGATTTTTTTATATTT
Found at i:585428 original size:9 final size:10
Alignment explanation
Indices: 585393--585436 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
585383 GGATATTTGA
585393 TTTTTTT-ATT
1 TTTTTTTCA-T
*
585403 TTTTATTTGAT
1 TTTT-TTTCAT
585414 TTTTTTTCAT
1 TTTTTTTCAT
585424 TTTTTTTCAT
1 TTTTTTTCAT
585434 TTT
1 TTT
585437 ATTATTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 22 0.71
11 8 0.26
12 1 0.03
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:585429 original size:25 final size:27
Alignment explanation
Indices: 585401--585453 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
585391 GATTTTTTTA
*
585401 TTTTTT-ATTTGATT-TT-TTTTCATT
1 TTTTTTCATTTGATTATTATTTTAATT
*
585425 TTTTTTCATTTTATTATTATTTTAATT
1 TTTTTTCATTTGATTATTATTTTAATT
585452 TT
1 TT
585454 ATATCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 7 0.29
26 2 0.08
27 9 0.38
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTTTTCATTTGATTATTATTTTAATT
Found at i:586340 original size:19 final size:18
Alignment explanation
Indices: 586315--586381 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 18
586305 AATTCAACAA
586315 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
586333 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
586349 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
586365 TATTGTATTGATACATA
1 T-TTGTATCGATACATA
586382 GTTAGCTACT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
18 1 0.02
19 25 0.61
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:586354 original size:13 final size:13
Alignment explanation
Indices: 586336--586360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
586326 ACATAAGTGT
586336 TGTATCGATACAA
1 TGTATCGATACAA
586349 TGTATCGATACA
1 TGTATCGATACA
586361 TAAGTATTGT
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:586354 original size:32 final size:32
Alignment explanation
Indices: 586317--586379 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
586307 TTCAACAATT
*
586317 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
586349 TGTATCGATACATAAGTATTGTATTGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
586380 TAGTTAGCTA
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:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Done.