Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold57
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: 4071704
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82236 characters in sequence are not A, C, G, or T
File 1 of 27
Found at i:304 original size:29 final size:30
Alignment explanation
Indices: 236--313 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
226 TGCCAAATGC
*
236 TTTA-TTATAAAATAACAGTATTTTGATAA
1 TTTATTTATAAAATAACAGTATTTTAATAA
** * *
265 AATATTT-TAAAATAATATTA-TTTAATAA
1 TTTATTTATAAAATAACAGTATTTTAATAA
*
293 TTTATTTATAAATTAACAGTA
1 TTTATTTATAAAATAACAGTA
314 ATTTGATACG
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
28 12 0.32
29 23 0.62
30 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (30 bp):
TTTATTTATAAAATAACAGTATTTTAATAA
Found at i:1738 original size:16 final size:16
Alignment explanation
Indices: 1713--1743 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1703 TATAAATAAA
1713 AAATTAAATTAAATTC
1 AAATTAAATTAAATTC
*
1729 AAATTTAATTAAATT
1 AAATTAAATTAAATT
1744 TAATAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTAAATTAAATTC
Found at i:1742 original size:10 final size:10
Alignment explanation
Indices: 1714--1747 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1704 ATAAATAAAA
*
1714 AATTAAATTA
1 AATTAAATTT
1724 AATTCAAATTT
1 AATT-AAATTT
1735 AATTAAATTT
1 AATTAAATTT
1745 AAT
1 AAT
1748 AAAAATCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTAAATTT
Found at i:1753 original size:21 final size:21
Alignment explanation
Indices: 1714--1753 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1704 ATAAATAAAA
**
1714 AATTAAATTAAATTCAAATTT
1 AATTAAATTAAATAAAAATTT
*
1735 AATTAAATTTAATAAAAAT
1 AATTAAATTAAATAAAAAT
1754 CGAATAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTAAATTAAATAAAAATTT
Found at i:9345 original size:13 final size:13
Alignment explanation
Indices: 9327--9352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9317 AGAAAGATCT
9327 ATGTATCGATACA
1 ATGTATCGATACA
9340 ATGTATCGATACA
1 ATGTATCGATACA
9353 TTGAGTAATG
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:12550 original size:13 final size:13
Alignment explanation
Indices: 12532--12557 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12522 ATACAAAGAT
12532 CAATGTATCGATA
1 CAATGTATCGATA
12545 CAATGTATCGATA
1 CAATGTATCGATA
12558 TATTGAGTAA
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):
CAATGTATCGATA
Found at i:12556 original size:33 final size:33
Alignment explanation
Indices: 12514--12579 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
12504 AATTTCCCAG
12514 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
* **
12547 ATGTATCGATATATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
12580 TTTCCTTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:12635 original size:19 final size:18
Alignment explanation
Indices: 12611--12673 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
12601 AGCGATACAT
12611 TGTATCGATACAATACTTA
1 TGTATCGATACAA-ACTTA
12630 TGTATCGATAC--AC---
1 TGTATCGATACAAACTTA
12643 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
12662 TGTATCAATACA
1 TGTATCGATACA
12674 GTTACTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
16 4 0.11
19 22 0.59
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:12647 original size:32 final size:32
Alignment explanation
Indices: 12603--12673 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
12593 AGCTTCGTAG
* *
12603 CGATACATTGTATCGATACAATACTTATGTAT
1 CGATACACTGTATCGATACAACACTTATGTAT
12635 CGATACACTGTATCGATACAACACTTATGTAT
1 CGATACACTGTATCGATACAACACTTATGTAT
*
12667 CAATACA
1 CGATACA
12674 GTTACTGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (32 bp):
CGATACACTGTATCGATACAACACTTATGTAT
Found at i:14108 original size:91 final size:91
Alignment explanation
Indices: 13816--15000 Score: 1184
Period size: 91 Copynumber: 12.9 Consensus size: 91
13806 ATGAGAAGAA
* * * * *
13816 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAAATGATGAGGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTT--AAA-GA-CAAGGTGCCAATATGCT
* *
13881 GATTCAAGGCCAGCGATACTGGTCTTAAAGATGAAAG
61 GATTCAAGGCCAGCGATATTGGACTT-AA-A-G---G
* **
13918 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTG
*
13983 ATTCAAGGCCAGCGATATTGGACTTAAAGA
62 ATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
14013 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
14078 AAGGCCAGCTATATTGGACTTAAAGG
66 AAGGCCAGCGATATTGGACTTAAAGG
*
14104 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTG
* *
14169 ATTCAAGGCCAGCGATATTGGGCTTAAAGA
62 ATTCAAGGCCAGCGATATTGGACTTAAAGG
* * * *
14199 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGGTGCCAATATGCTGAATC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
14264 AAGGCCAGCGATATTGGACTTAAAGG
66 AAGGCCAGCGATATTGGACTTAAAGG
* * *
14290 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT-------A--TGCCAATGTGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
** * **
14346 AAGGCCAATGACATTGCTCTTAAAGATG
66 AAGGCCAGCGATATTGGACTTAAAG--G
* * * *
14374 ACAAATGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATGTG
1 -----T--GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATG
* *
14434 CTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGG
59 CTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGG
* * * *
14476 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAG---A--TGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
14536 AAGGCCAGC-ATATTGGACTTAAAGATGAAGG
66 AAGGCCAGCGATATTGGACTT----A--AAGG
* *
14567 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTG
* *
14632 ATTCAAGGCCAGCAATATTGGACTT----C
62 ATTCAAGGCCAGCGATATTGGACTTAAAGG
* *
14658 TGCCAATGTGCTGATTTAAGGTCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
14723 AAGGCCAGCGATATTGGGCTT----G
66 AAGGCCAGCGATATTGGACTTAAAGG
* * *
14745 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGTTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
14810 AAGGCCAACGATATTAGACTT----G
66 AAGGCCAGCGATATTGGACTTAAAGG
* *
14832 TGCCAATGTGATGATTCAAGGCCAGCGACATTAGTCTTAAAGAC-AGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
14896 AAGGCCAGCGATATTGGGCTT----G
66 AAGGCCAGCGATATTGGACTTAAAGG
* *
14918 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGTTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
14983 AAGGCCAGCGATATTGGA
66 AAGGCCAGCGATATTGGA
15001 ATTAGAAGAA
Statistics
Matches: 956, Mismatches: 81, Indels: 107
0.84 0.07 0.09
Matches are distributed among these distances:
82 35 0.04
84 2 0.00
86 79 0.08
87 195 0.20
88 4 0.00
89 4 0.00
90 2 0.00
91 266 0.28
92 10 0.01
93 6 0.01
94 15 0.02
95 208 0.22
96 1 0.00
97 2 0.00
98 2 0.00
99 1 0.00
100 30 0.03
101 58 0.06
102 32 0.03
104 4 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (91 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGG
Found at i:14197 original size:186 final size:181
Alignment explanation
Indices: 13815--15000 Score: 1216
Period size: 186 Copynumber: 6.5 Consensus size: 181
13805 GATGAGAAGA
* ** * * *
13815 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAAATGATGAGGGCGCCAATATGC
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTT--AAA-GA-CAAGGTGCCAATATGC
* *
13880 TGATTCAAGGCCAGCGATACTGGTCTTAAAGATGAAAGTGCCAATGTGCTGATTCAAGGCCAGCG
61 TGATTCAAGGCCAGCGATATTGGACTT-AA-A-G---GTGCCAATGTGCTGATTCAAGGCCAGCG
* ** *
13945 ACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
120 ACATTGGTCTT-AA-A-GAC--AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
14010 AG
180 AG
*
14012 ATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGGTGCCAATATGCTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATT
*
14077 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
66 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
*
14142 AAAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAG
131 -AA-A-GAC--AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG
* * *
14198 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGGTGCCAATATGCTGAAT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATT
* *
14263 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
* ** * **
14328 ------A--TGCCAATGTGCTGATTCAAGGCCAATGACATTGCTCTTAAAGATG
131 AAAGACAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA-A-G
* * *
14374 ACAAATGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATGTG
1 ----AT--GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATG
* * * *
14434 CTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTAATTCAAGGCC
60 CTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCC
* * *
14499 AGCGATATTGGGCTTAAAG--A--TGCCAATATGCTGATTCAAGGCCAGC-ATATTGGACTTAAA
116 AGCGACATTGGTCTTAAAGACAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
14559 GATG
180 -A-G
*
14563 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGACAAAGGCGCCAATAT
1 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-GAC-AAGGTGCCAATAT
* * * *
14628 GCTGATTCAAGGCCAGCAATATTGGACTT----CTGCCAATGTGCTGATTTAAGGTCAGCGACAT
59 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAT
14689 TGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G
124 TGGTCTTAAAGAC-AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG
* * * *
14745 -TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGTTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATT
* * * *
14809 CAAGGCCAACGATATTAGACTT----GTGCCAATGTGATGATTCAAGGCCAGCGACATTAGTCTT
66 CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
14870 AAAGACAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G
131 AAAGACAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG
* * *
14918 -TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGTTGCCAATATGCTGATT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATT
14982 CAAGGCCAGCGATATTGGA
66 CAAGGCCAGCGATATTGGA
15001 ATTAGAAGAA
Statistics
Matches: 876, Mismatches: 74, Indels: 102
0.83 0.07 0.10
Matches are distributed among these distances:
173 149 0.17
174 79 0.09
175 4 0.00
176 2 0.00
177 38 0.04
178 38 0.04
180 2 0.00
182 74 0.08
183 1 0.00
185 1 0.00
186 293 0.33
187 26 0.03
188 11 0.01
189 17 0.02
190 25 0.03
191 2 0.00
192 37 0.04
193 3 0.00
194 4 0.00
195 35 0.04
196 4 0.00
197 31 0.04
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (181 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
AAAGACAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG
Found at i:14344 original size:39 final size:41
Alignment explanation
Indices: 14246--15000 Score: 380
Period size: 39 Copynumber: 16.9 Consensus size: 41
14236 TAAAGACAAG
* *
14246 GTGCCAATATGCTGAATCAAGGCCAGCGATATTGGACTTAAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AA
*
14288 GGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT-A
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
** * **
14329 -TGCCAATGTGCTGATTCAAGGCCAATGACATTGCTCTTAAAGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT--A-A
*
14372 TGACAAATGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 -G-----T--GCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AA
* *
14422 GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAA
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----T----AA
* * *
14474 GGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAA
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT-AA
*
14517 GATGCCAATATGCTGATTCAAGGCCAGC-ATATTGGACTTAAAGATGAA
1 G-TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-AA
*
14565 GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGACAAA
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----------AA
* * *
14617 GGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT--
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * * *
14657 CTGCCAATGTGCTGATTTAAGGTCAGCGACATTGGTCTTAAAGACAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT------AA
* *
14704 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * *
14744 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT------AA
* * * *
14791 GGTGCCAATATGTTGATTCAAGGCCAACGATATTAGACTT--
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * *
14831 GTGCCAATGTGATGATTCAAGGCCAGCGACATTAGTCTTAAAGACA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT----A-A
* *
14877 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * *
14917 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTT------AA
*
14964 GTTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 G-TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGA
15001 ATTAGAAGAA
Statistics
Matches: 564, Mismatches: 73, Indels: 145
0.72 0.09 0.19
Matches are distributed among these distances:
39 168 0.30
41 1 0.00
42 9 0.02
43 99 0.18
44 1 0.00
45 1 0.00
46 1 0.00
47 35 0.06
48 127 0.23
49 10 0.02
50 3 0.01
51 3 0.01
52 106 0.19
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (41 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAA
Found at i:14391 original size:134 final size:130
Alignment explanation
Indices: 14151--14859 Score: 448
Period size: 134 Copynumber: 5.3 Consensus size: 130
14141 TAAAGATGAC
* *
14151 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGATGCCAATATGCTGATTC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT----ATGCCAATATGCTGATTC
* * * *
14216 AAGGCCAGCGATATTGGACTTAAAGACAAGGTGCCAATATGCTGAATCAAGGCCAGCGATATTGG
62 AAGGCCAACGACATTGCACTTAAAGACAAGGCGCCAATATGCTGAATCAAGGCCAGCGATATTGG
14281 ACTT
127 ACTT
*
14285 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATATGCTGATTCAAGG
* * * *
14350 CCAATGACATTGCTCTTAAAGATGACAAATGCGCCAATATGCTGATTCAAGGCCAGCGATATTGG
66 CCAACGACATTGCACTT-AA-A-GAC-AAGGCGCCAATATGCTGAATCAAGGCCAGCGATATTGG
14415 ACTT
127 ACTT
* *
14419 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-----A--TGCCAATA
* * * ** * *
14484 TGCTAATTCAAGGCCAGCGATATTGGGCTTAAAG---A--TGCCAATATGCTGATTCAAGGCCAG
53 TGCTGATTCAAGGCCAACGACATTGCACTTAAAGACAAGGCGCCAATATGCTGAATCAAGGCCAG
14544 C-ATATTGGACTT
118 CGATATTGGACTT
* * *
14556 AAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGACAAAGGCG
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTT-----------A--TG
* * * * * * * *
14621 CCAATATGCTGATTCAAGGCCAGCAATATTGGACTT-----C----TGCCAATGTGCTGATTTAA
47 CCAATATGCTGATTCAAGGCCAACGACATTGCACTTAAAGACAAGGCGCCAATATGCTGAATCAA
* * *
14677 GGTCAGCGACATTGGTCTT
112 GGCCAGCGATATTGGACTT
* * * *
14696 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGTTGATT
1 ----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATATGCTGATT
* ** * * * * * *
14761 CAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTA
61 CAAGGCCAACGACATTGCACTTAAAGACAAGGCGCCAATATGCTGAATCAAGGCCAGCGATATTG
14826 GACTT
126 GACTT
*
14831 ----GTGCCAATGTGATGATTCAAGGCCAGCGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
14860 CATTAGTCTT
Statistics
Matches: 482, Mismatches: 53, Indels: 88
0.77 0.09 0.14
Matches are distributed among these distances:
126 59 0.12
130 33 0.07
131 2 0.00
132 1 0.00
133 3 0.01
134 119 0.25
135 31 0.06
137 12 0.02
138 25 0.05
139 62 0.13
140 16 0.03
141 1 0.00
142 1 0.00
143 81 0.17
144 1 0.00
145 2 0.00
146 2 0.00
147 31 0.06
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (130 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATATGCTGATTCAAGG
CCAACGACATTGCACTTAAAGACAAGGCGCCAATATGCTGAATCAAGGCCAGCGATATTGGACTT
Found at i:14420 original size:52 final size:48
Alignment explanation
Indices: 14330--15009 Score: 411
Period size: 39 Copynumber: 14.9 Consensus size: 48
14320 TTGGGCTTAT
* ** * ** *
14330 GCCAATGTGCTGATTCAAGGCCAATGACATTGCTCTTAAAGATGACAAATGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AA-GG
*
14382 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--GT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
14425 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGG
* *
14476 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGAT-----
1 -GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
14520 GCCAATATGCTGATTCAAGGCCAGC-ATATTGGACTTAAAGATGAAGG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
14567 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGACAAAGG
1 -GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGG
* *
14619 CGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----CT-----
1 -GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * * *
14659 GCCAATGTGCTGATTTAAGGTCAGCGACATTGGTCTTAAAGA-CAAGG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
14706 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G-T-----
1 -GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * *
14746 GCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAAGG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
14793 TGCCAATATGTTGATTCAAGGCCAACGATATTAGACTT---G-T-----
1 -GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * * *
14833 GCCAATGTGATGATTCAAGGCCAGCGACATTAGTCTTAAAGA--CAGG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
14879 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G-T-----
1 -GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * * *
14919 GCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGTT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG-G
*
14967 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAATTAGAAGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
15010 AGACACCACC
Statistics
Matches: 500, Mismatches: 66, Indels: 127
0.72 0.10 0.18
Matches are distributed among these distances:
39 129 0.26
42 19 0.04
43 59 0.12
44 3 0.01
45 3 0.01
46 1 0.00
47 32 0.06
48 121 0.24
49 21 0.04
50 1 0.00
51 3 0.01
52 108 0.22
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (48 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:14462 original size:320 final size:317
Alignment explanation
Indices: 13870--14956 Score: 1413
Period size: 320 Copynumber: 3.4 Consensus size: 317
13860 TGATGAGGGC
* * * * *
13870 GCCAATATGCTGATTCAAGGCCAGCGATACTGGTCTTAAAGATGAAAGTGCCAATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGCCAATATGCTGATTC
*
13935 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAGCGATA
66 AAGGCCAGCGACATTGGACTTAAAG--G-----TG--CCAATATGCTGATTCAAGGCCAGCGATA
* *
14000 TTGGACTTAAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGGTGCC
122 TTGGACTT----ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCC
*
14065 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
183 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
14130 GACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
248 GACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
14195 AAGAT
313 AAGAT
*
14200 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-CAAGGTGCCAATATGCTGAATC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGCCAATATGCTGATTC
* * *
14264 AAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
** * * *
14329 TGCCAATGTGCTGATTCAAGGCCAATGACATTGCTCTTAAAGATGACAAATGCGCCAATATGCTG
131 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTG
14394 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
192 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
14459 CTTAAAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGAT
257 CTTAAAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGAT
* *
14520 GCCAATATGCTGATTCAAGGCCAGC-ATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGCCAATATGCTGATTC
* *
14584 AAGGCCAGCGACATTGGACTTAAAGACGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCAATA
66 AAGGCCAGCGACATTGGACTT---------AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
* * *
14649 TTGGACTTCTGCCAATGTGCTGATTTAAGGTCAGCGACATTGGTCTTAAAGACAAGGTGCCAATA
122 TTGGACTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATA
* *
14714 TGCTGATTCAAGGCCAGCGATATTGGGCTT----GTGCCAATGTGTTGATTCAAGGCCAGCGACA
187 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
* * * * *
14775 TTGGTCTT-AA-A-GA-AAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTAGACTT---G-
252 TTGGTCTTAAAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGA
14832 T
317 T
* * * * *
14833 GCCAATGTGATGATTCAAGGCCAGCGACATTAGTCTTAAAGA-C-AGGTGCCAATATGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGCCAATATGCTGATTC
* * * * * *
14896 AAGGCCAGCGATATTGGGCTT----GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
66 AAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
14957 AAGACAAGTT
Statistics
Matches: 685, Mismatches: 57, Indels: 61
0.85 0.07 0.08
Matches are distributed among these distances:
299 33 0.05
312 38 0.06
313 24 0.04
314 14 0.02
316 34 0.05
317 40 0.06
318 3 0.00
319 20 0.03
320 240 0.35
321 38 0.06
322 1 0.00
325 39 0.06
326 3 0.00
327 2 0.00
328 2 0.00
329 114 0.17
330 40 0.06
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (317 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATCAAGGTGCCAATATGCTGATTC
AAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
AAGATGACAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTAAAGAT
Found at i:14771 original size:87 final size:87
Alignment explanation
Indices: 14566--15000 Score: 674
Period size: 87 Copynumber: 5.0 Consensus size: 87
14556 AAAGATGAAG
* *
14566 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACGACAAAGGCGCCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCT
*
14631 GATTCAAGGCCAGCAATATTGGACTT
62 GATTCAAGGCCAGCGATATTGGACTT
* * *
14657 CTGCCAATGTGCTGATTTAAGGTCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
14722 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGACTT
* * *
14744 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGTTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
14809 CAAGGCCAACGATATTAGACTT
66 CAAGGCCAGCGATATTGGACTT
* *
14831 GTGCCAATGTGATGATTCAAGGCCAGCGACATTAGTCTTAAAGAC-AGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
14895 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGACTT
* *
14917 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGTTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
14982 CAAGGCCAGCGATATTGGA
66 CAAGGCCAGCGATATTGGA
15001 ATTAGAAGAA
Statistics
Matches: 315, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
86 79 0.25
87 195 0.62
88 3 0.01
89 1 0.00
90 2 0.01
91 35 0.11
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTT
Found at i:15054 original size:31 final size:32
Alignment explanation
Indices: 15015--15106 Score: 101
Period size: 31 Copynumber: 3.1 Consensus size: 32
15005 GAAGAAGACA
15015 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTG
15047 -CACCAACTTGTGT--GCTTTT-AAA-GGTTG
1 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTG
**
15074 CCACTGAC-T-TGTGGGCTTTTGAAATGGG-TG
1 CCACCAACTTGTGTGGGCTTTTGAAA-GGGTTG
15104 CCA
1 CCA
15107 TTGACTTGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
26 3 0.06
27 6 0.12
28 14 0.27
29 9 0.17
30 5 0.10
31 15 0.29
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (32 bp):
CCACCAACTTGTGTGGGCTTTTGAAAGGGTTG
Found at i:15083 original size:28 final size:30
Alignment explanation
Indices: 15026--15121 Score: 119
Period size: 28 Copynumber: 3.3 Consensus size: 30
15016 CACCAACTTG
**
15026 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGGTTGCCACTGACT
*
15055 TGTGTGCTTTT-AAA-GGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACTGACT
*
15083 TGTGGGCTTTTGAAATGGG-TGCCATTGACT
1 TGTGGGCTTTTGAAA-GGGTTGCCACTGACT
15113 TGTGGGCTT
1 TGTGGGCTT
15122 AAAAGGAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.09
28 19 0.33
29 13 0.22
30 19 0.33
31 2 0.03
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGGGTTGCCACTGACT
Found at i:15211 original size:34 final size:32
Alignment explanation
Indices: 15112--15442 Score: 322
Period size: 34 Copynumber: 10.2 Consensus size: 32
15102 TGCCATTGAC
* * *
15112 TTGTGGGCTTAAAAGGAGAAAGATGCCATGGAG
1 TTGTGGACTTAAAAGGA-AAAGGTGCCACGGAG
15145 TTGTGGACTTAAAAGGGAAAAGGTGCCACGGAG
1 TTGTGGACTTAAAA-GGAAAAGGTGCCACGGAG
15178 TTGTGGACTTAAAAGGAACAAGGATGCCACGGAG
1 TTGTGGACTTAAAAGGAA-AAGG-TGCCACGGAG
*
15212 TTGTGGACTTAAAA-G----GGTGCCACGAAG
1 TTGTGGACTTAAAAGGAAAAGGTGCCACGGAG
*
15239 TTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAG
1 TTGTGGACTTAAAAGG-AAAAG-GTGCCACGGAG
* * *
15273 TTGTGGGCTTTAAAAAGAAAAAGGTGCTACGGAG
1 TTGTGGAC-TT-AAAAGGAAAAGGTGCCACGGAG
*
15307 TTGTGGACTT--AA--AAAA-GTGCCACAGAG
1 TTGTGGACTTAAAAGGAAAAGGTGCCACGGAG
* * *
15334 TTGTGGGCTTTAAAAAGAAAAAGATGCCACGGAG
1 TTGTGGAC-TT-AAAAGGAAAAGGTGCCACGGAG
* * **
15368 TTGTGGACTTTAAAAAGAAAAATGTGCCACAAAG
1 TTGTGGAC-TT-AAAAGGAAAAGGTGCCACGGAG
15402 TTGTGGACTTAAAAGGAACAAGGATGCCACGGAG
1 TTGTGGACTTAAAAGGAA-AAGG-TGCCACGGAG
15436 TTGTGGA
1 TTGTGGA
15443 TTTTGGGACA
Statistics
Matches: 252, Mismatches: 25, Indels: 41
0.79 0.08 0.13
Matches are distributed among these distances:
27 39 0.15
28 9 0.04
30 2 0.01
31 2 0.01
32 11 0.04
33 57 0.23
34 120 0.48
35 7 0.03
36 5 0.02
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (32 bp):
TTGTGGACTTAAAAGGAAAAGGTGCCACGGAG
Found at i:15235 original size:27 final size:27
Alignment explanation
Indices: 15197--15255 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
15187 TAAAAGGAAC
*
15197 AAGGATGCCACGGAGTTGTGGACTTAA
1 AAGGATGCCACGAAGTTGTGGACTTAA
*
15224 AAGGGTGCCACGAAGTTGTGGACTTAA
1 AAGGATGCCACGAAGTTGTGGACTTAA
15251 AAGGA
1 AAGGA
15256 AAAAGAGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (27 bp):
AAGGATGCCACGAAGTTGTGGACTTAA
Found at i:15243 original size:61 final size:61
Alignment explanation
Indices: 15162--15287 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
15152 CTTAAAAGGG
* * *
15162 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAG-GATGCCACGGAGTTGTGGAC-TT
1 AAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAG-TGCCACAGAGTTGTGGACTTT
*
15222 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAA-GGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTT
15284 AAAA
1 AAAA
15288 AGAAAAAGGT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
60 4 0.07
61 48 0.81
62 7 0.12
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (61 bp):
AAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTTT
Found at i:15312 original size:95 final size:95
Alignment explanation
Indices: 15142--15417 Score: 380
Period size: 95 Copynumber: 2.9 Consensus size: 95
15132 AGATGCCATG
* * *
15142 GAGTTGTGGACTTAAAAGGGAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGATGC
1 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGG-TGC
15205 CACGGAGTTGTGGACTTAAAAGGGTGCCAC-
65 CACGGAGTTGTGGACTTAAAAGGGTGCCACA
* *
15235 GAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGGTGC
1 G-AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGC
* **
15300 TACGGAGTTGTGGACTTAAAAAAGTGCCACA
65 CACGGAGTTGTGGACTTAAAAGGGTGCCACA
* * *
15331 GAGTTGTGGGCTTTAAAAAGAAAAAGA-TGCCACGGAGTTGTGGACTTTAAAAAGAAAAATGTGC
1 GAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGC
**
15395 CACAAAGTTGTGGACTTAAAAGG
65 CACGGAGTTGTGGACTTAAAAGG
15418 AACAAGGATG
Statistics
Matches: 160, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
93 1 0.01
94 23 0.14
95 108 0.68
96 28 0.17
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (95 bp):
GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCC
ACGGAGTTGTGGACTTAAAAGGGTGCCACA
Found at i:15334 original size:27 final size:27
Alignment explanation
Indices: 15202--15350 Score: 84
Period size: 27 Copynumber: 5.0 Consensus size: 27
15192 GGAACAAGGA
* **
15202 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAAAG
15229 TGCCAC-GAAGTTGTGGACTTAAAAGGAAAAAGAG
1 TGCCACAG-AGTTGTGGACTT------AAAAA-AG
*
15263 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACAGAGTTGTGGAC-TT----A-AAAAA-G
* *
15297 TGCTACGGAGTTGTGGACTTAAAAAAG
1 TGCCACAGAGTTGTGGACTTAAAAAAG
* *
15324 TGCCACAGAGTTGTGGGCTTTAAAAAG
1 TGCCACAGAGTTGTGGACTTAAAAAAG
15351 AAAAAGATGC
Statistics
Matches: 98, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
26 1 0.01
27 42 0.43
28 5 0.05
29 1 0.01
33 10 0.10
34 36 0.37
35 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (27 bp):
TGCCACAGAGTTGTGGACTTAAAAAAG
Found at i:15536 original size:61 final size:61
Alignment explanation
Indices: 15419--15597 Score: 188
Period size: 61 Copynumber: 3.0 Consensus size: 61
15409 CTTAAAAGGA
* * * * * * *
15419 ACAAG-GATGCCACGGAGTTGTGGATTTTGGGACAAGATGCCATTGAATTGTAGACTT-GG
1 ACAAGAGATGCCACTGAGTCGTGGACTTTGGAAGAAGATGCCATTGAGTTGTGGACTTGGG
*
15478 ACAAGAGATGCCACTGAGTCGTGGACTTTCGGAAGAAGATGCCACTGAGTTGTGGACTTTGGG
1 ACAAGAGATGCCACTGAGTCGTGGACTTT-GGAAGAAGATGCCATTGAGTTGTGGAC-TTGGG
* **
15541 ACAA-A-ATGCCACTGAGTCGTGGGCTTTGAGAAG-AGATTGCCATTGAGTCATGGACTT
1 ACAAGAGATGCCACTGAGTCGTGGACTTTG-GAAGAAGA-TGCCATTGAGTTGTGGACTT
15598 TAAGAAGGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
59 5 0.05
60 26 0.25
61 62 0.61
62 3 0.03
63 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (61 bp):
ACAAGAGATGCCACTGAGTCGTGGACTTTGGAAGAAGATGCCATTGAGTTGTGGACTTGGG
Found at i:15550 original size:91 final size:92
Alignment explanation
Indices: 15424--15598 Score: 235
Period size: 91 Copynumber: 1.9 Consensus size: 92
15414 AAGGAACAAG
* * * *
15424 GATGCCACGGAGTTGTGGATTTTGGGACAAGATGCCATTGAATTGTAGACTTGGACAAGAGA-TG
1 GATGCCACGGAGTTGTGGACTTTGGGACAAAATGCCACTGAATCGTAGACTTGGACAAGAGATTG
*
15488 CCACTGAGTCGTGGACTTTCGGAAGAA
66 CCACTGAGTCATGGACTTTCGGAAGAA
* * * * * *
15515 GATGCCACTGAGTTGTGGACTTTGGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTG
1 GATGCCACGGAGTTGTGGACTTTGGGACAAAATGCCACTGAATCGTAGACTTGGACAAGAGATTG
*
15580 CCATTGAGTCATGGACTTT
66 CCACTGAGTCATGGACTTT
15599 AAGAAGGTAT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
91 52 0.73
92 19 0.27
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (92 bp):
GATGCCACGGAGTTGTGGACTTTGGGACAAAATGCCACTGAATCGTAGACTTGGACAAGAGATTG
CCACTGAGTCATGGACTTTCGGAAGAA
Found at i:15568 original size:30 final size:31
Alignment explanation
Indices: 15419--15598 Score: 156
Period size: 30 Copynumber: 5.9 Consensus size: 31
15409 CTTAAAAGGA
* * * *
15419 ACAAGGATGCCACGGAGTTGTGGATTTTGGG
1 ACAAAGATGCCACTGAGTCGTGGACTTTGGG
* * * *
15450 AC-AAGATGCCATTGAATTGTAGAC-TT-GG
1 ACAAAGATGCCACTGAGTCGTGGACTTTGGG
*
15478 ACAAGAGATGCCACTGAGTCGTGGACTTTCGG
1 ACAA-AGATGCCACTGAGTCGTGGACTTTGGG
*
15510 A-AGAAGATGCCACTGAGTTGTGGACTTTGGG
1 ACA-AAGATGCCACTGAGTCGTGGACTTTGGG
* *
15541 ACAAA-ATGCCACTGAGTCGTGGGCTTTGAG
1 ACAAAGATGCCACTGAGTCGTGGACTTTGGG
* * *
15571 A-AGAGATTGCCATTGAGTCATGGACTTT
1 ACAAAGA-TGCCACTGAGTCGTGGACTTT
15599 AAGAAGGTAT
Statistics
Matches: 122, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
28 4 0.03
29 5 0.04
30 57 0.47
31 51 0.42
32 5 0.04
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (31 bp):
ACAAAGATGCCACTGAGTCGTGGACTTTGGG
Found at i:16904 original size:15 final size:13
Alignment explanation
Indices: 16886--16924 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
16876 GCCTTTGCAC
*
16886 TTTTTTTGTGTGTT
1 TTTTTTTGTGT-TG
*
16900 TTTTTTTGTTTTG
1 TTTTTTTGTGTTG
16913 TTTTTTTGTGTT
1 TTTTTTTGTGTT
16925 TACTTTTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (13 bp):
TTTTTTTGTGTTG
Found at i:16925 original size:15 final size:15
Alignment explanation
Indices: 16896--16925 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16886 TTTTTTTGTG
*
16896 TGTTTTTTTTTGTTT
1 TGTTTTTTTGTGTTT
16911 TGTTTTTTTGTGTTT
1 TGTTTTTTTGTGTTT
16926 ACTTTTGACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (15 bp):
TGTTTTTTTGTGTTT
Found at i:16931 original size:14 final size:13
Alignment explanation
Indices: 16886--16925 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
16876 GCCTTTGCAC
16886 TTTTTTTGTGTGTT
1 TTTTTTTGTGT-TT
16900 TTTTTTTGT-TTT
1 TTTTTTTGTGTTT
16912 GTTTTTTTGTGTTT
1 -TTTTTTTGTGTTT
16926 ACTTTTGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 10 0.42
14 12 0.50
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (13 bp):
TTTTTTTGTGTTT
Found at i:16931 original size:15 final size:14
Alignment explanation
Indices: 16885--16931 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
16875 TGCCTTTGCA
16885 CTTTTTTTGTGTGTT
1 CTTTTTTTGTGT-TT
16900 -TTTTTTTGT-TTT
1 CTTTTTTTGTGTTT
*
16912 GTTTTTTTGTGTTT
1 CTTTTTTTGTGTTT
16926 ACTTTT
1 -CTTTT
16932 GACTTTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 2 0.07
13 10 0.36
14 12 0.43
15 4 0.14
ACGTcount: A:0.02, C:0.04, G:0.15, T:0.79
Consensus pattern (14 bp):
CTTTTTTTGTGTTT
Found at i:19673 original size:20 final size:20
Alignment explanation
Indices: 19644--19684 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
19634 AGATGACTAT
19644 AAGTGAAAGCTATGGATGAC
1 AAGTGAAAGCTATGGATGAC
*
19664 AAGTGCAAGCTATGGATGAC
1 AAGTGAAAGCTATGGATGAC
19684 A
1 A
19685 CAAGGGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.29, T:0.20
Consensus pattern (20 bp):
AAGTGAAAGCTATGGATGAC
Found at i:23971 original size:13 final size:13
Alignment explanation
Indices: 23953--23991 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
23943 ACAAAGATCC
23953 ATGTATCGATACA
1 ATGTATCGATACA
23966 ATGTATCGATACA
1 ATGTATCGATACA
23979 ATGTATCGATACA
1 ATGTATCGATACA
23992 TTGAGTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24053 original size:13 final size:13
Alignment explanation
Indices: 24035--24086 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
24025 AGCTTTCTAG
24035 CGATACATTGTAT
1 CGATACATTGTAT
24048 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
24067 CGATACATTGTAT
1 CGATACATTGTAT
24080 CGATACA
1 CGATACA
24087 ATACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 15 0.45
15 2 0.06
16 6 0.18
17 2 0.06
19 8 0.24
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:24076 original size:32 final size:32
Alignment explanation
Indices: 24035--24105 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
24025 AGCTTTCTAG
24035 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
24067 CGATACATTGTATCGATACAATACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
24099 CGATACA
1 CGATACA
24106 GTTACTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:24120 original size:21 final size:19
Alignment explanation
Indices: 24042--24127 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
24032 TAGCGATACA
*
24042 TTGTATCGATACAACACTT
1 TTGTATCGATACAATACTT
*
24061 ATGTATCGATAC---A---
1 TTGTATCGATACAATACTT
24074 TTGTATCGATACAATACTT
1 TTGTATCGATACAATACTT
* *
24093 ATGTATCGATACAGTTACTAT
1 TTGTATCGATACA-ATACT-T
24114 TTGTATCGATACAA
1 TTGTATCGATACAA
24128 ATTGTTGAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 11 0.21
16 2 0.04
19 23 0.43
20 4 0.08
21 13 0.25
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACAATACTT
Found at i:25292 original size:108 final size:109
Alignment explanation
Indices: 25155--25422 Score: 297
Period size: 108 Copynumber: 2.5 Consensus size: 109
25145 TGTAATTTAC
* * * * * *
25155 AAATGAATTATCTTATATAAAGGGTGTTCGTAAGCCACTTTATGGCTTTAGACAATGACCTATTT
1 AAATGAATTATCTTATATAAAAGGCGTTCGTATGCCACTTTACGACTCTAGACAATGACCTATTT
* * * * *
25220 CGAGGCCAATCTTTTGGTG-TCCGAAT-TTACGTAATTAATGCGA
66 CGAGGCCAATCTCTTGGTGAT-AGAATATTACATAAGTAATGCAA
* * * * **
25263 AAATGAATTATCCTATATAAAAAGCGTTCGTATGTCACTTTACGACTCTAGATAATGATTTATTT
1 AAATGAATTATCTTATATAAAAGGCGTTCGTATGCCACTTTACGACTCTAGACAATGACCTATTT
* *
25328 CGGGGTCAATCTCTTGGTGATAGAATATTACATAAGTAATGCAA
66 CGAGGCCAATCTCTTGGTGATAGAATATTACATAAGTAATGCAA
* * * * *
25372 AAATGAGTTGTCTTATGTAAATGGCGTTCGTATGCCACTTTACGATTCTAG
1 AAATGAATTATCTTATATAAAAGGCGTTCGTATGCCACTTTACGACTCTAG
25423 CTTTAGGATT
Statistics
Matches: 131, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
108 73 0.56
109 58 0.44
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAATGAATTATCTTATATAAAAGGCGTTCGTATGCCACTTTACGACTCTAGACAATGACCTATTT
CGAGGCCAATCTCTTGGTGATAGAATATTACATAAGTAATGCAA
Found at i:27141 original size:28 final size:28
Alignment explanation
Indices: 27110--27774 Score: 309
Period size: 28 Copynumber: 24.4 Consensus size: 28
27100 TGCCAGCTCG
** *
27110 TGTGGGCTTTGACTTAAATGCCAACTAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * *** *
27138 TGTGGGCTTTAACTTA-GCTGCTAGTTAG
1 TGTGGGCTTTGACTTACG-TGCCAACGAA
* * *
27166 TATGGGCTTTGACTCATGTGCCAAC-AA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * *
27193 GTGTGGGC-TT-ACTTATGTGCCAGCTAA
1 -TGTGGGCTTTGACTTACGTGCCAACGAA
* ** * *
27220 TGTGGGTTTTGACTTGTGTGCCAACTAG
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* ** * * *
27248 TGTGAGC-TT-ACTTTTGTGCCAGCTAG
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * ** *
27274 GGTGGGCTTTAACTTGTGTGCC-ACAAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * *
27301 TGTGGGCTTTGAATCATGTGCCAACGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* *
27329 TGTGGGCTTTGACTT--GT--CAATGAT
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * ***
27353 TATGGG-TTTAGA-TTCATGTGCCATTTAA
1 TGTGGGCTTT-GACTT-ACGTGCCAACGAA
*
27381 TGTGGGCTTTGACTTACGTGCCAGCGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* *
27409 AGTGGGCTTTGACTTACGTGCCAGCGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* *
27437 AGTGGGCTTTGACTTACGTACCAACGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* *
27465 TATGGGCTTTGACTTACGTGCCAGCGAGA
1 TGTGGGCTTTGACTTACGTGCCAACGA-A
* * *
27494 -GTGAGCTTAGACTTACATGCCAACGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
** *
27521 TGTGGGCTTAAACTTACGTACCAACGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * *
27549 TGTGGGCTTAGACTTACATGCCAGCGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * * *
27577 TATGGGCTTAGA-TGAACGTGCCAGCGAA
1 TGTGGGCTTTGACT-TACGTGCCAACGAA
* * * ** *
27605 TATAGGCTTAGA-TTGTGTGCCAACGCA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * * *
27632 TGTAGGCTTTGACTCATGTGCTAACGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* *
27660 --TGGGCTTAGAC-T---TGCCAA-TAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* * * * *
27681 TTGTCGGCTTAGA-TTCATGTGCCATCTAA
1 -TGTGGGCTTTGACTT-ACGTGCCAACGAA
* ** **
27710 TGTGGGCTTAGA-TTGTGTGCCAACCTA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
* *
27737 TGTGGGCTTTGACTCATGTGCCAACGAA
1 TGTGGGCTTTGACTTACGTGCCAACGAA
*
27765 TATGGGCTTT
1 TGTGGGCTTT
27775 CTTTTGATAA
Statistics
Matches: 504, Mismatches: 102, Indels: 62
0.75 0.15 0.09
Matches are distributed among these distances:
21 2 0.00
22 5 0.01
23 5 0.01
24 22 0.04
26 51 0.10
27 71 0.14
28 338 0.67
29 10 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGACTTACGTGCCAACGAA
Found at i:27240 original size:54 final size:54
Alignment explanation
Indices: 27099--27345 Score: 212
Period size: 54 Copynumber: 4.5 Consensus size: 54
27089 CCTCTACAAG
** ***
27099 GTGCCAGCTCGTGTGGGCTTTGACTTAAATGCCAACTAA-TGTGGGCTTTAACTTA-
1 GTGCCAGCTAATGTGGGCTTTGACTTGTGTGCCAAC-AAGTGTGGGC-TT-ACTTAT
* * * * **
27154 GCTGCTAGTTAGTATGGGCTTTGACTCATGTGCCAACAAGTGTGGGCTTACTTAT
1 G-TGCCAGCTAATGTGGGCTTTGACTTGTGTGCCAACAAGTGTGGGCTTACTTAT
* * * *
27209 GTGCCAGCTAATGTGGGTTTTGACTTGTGTGCCAACTAGTGTGAGCTTACTTTT
1 GTGCCAGCTAATGTGGGCTTTGACTTGTGTGCCAACAAGTGTGGGCTTACTTAT
** * * * *
27263 GTGCCAGCTAGGGTGGGCTTTAACTTGTGTGCC-ACAAATGTGGGCTTTGAATCAT
1 GTGCCAGCTAATGTGGGCTTTGACTTGTGTGCCAACAAGTGTGGGC-TT-ACTTAT
* *
27318 GTGCCAACGAATGTGGGCTTTGACTTGT
1 GTGCCAGCTAATGTGGGCTTTGACTTGT
27346 CAATGATTAT
Statistics
Matches: 155, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
53 9 0.06
54 79 0.51
55 32 0.21
56 35 0.23
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.34
Consensus pattern (54 bp):
GTGCCAGCTAATGTGGGCTTTGACTTGTGTGCCAACAAGTGTGGGCTTACTTAT
Found at i:27660 original size:55 final size:54
Alignment explanation
Indices: 27594--27773 Score: 181
Period size: 55 Copynumber: 3.4 Consensus size: 54
27584 TTAGATGAAC
* *
27594 GTGCCAGCGAATATAGGCTTAGATTGTGTGCCAACGCATGTAGGCTTTGACTCAT
1 GTGCCAACGAATATGGGCTTAGATTGTGTGCCAAC-CATGTAGGCTTTGACTCAT
* * ** * * *
27649 GTGCTAACG-A-ATGGGCTTAGA--CT-TGCCAATAATTGTCGGCTTAGATTCAT
1 GTGCCAACGAATATGGGCTTAGATTGTGTGCCAACCA-TGTAGGCTTTGACTCAT
* * * *
27699 GTGCCATCTAATGTGGGCTTAGATTGTGTGCCAACCTATGTGGGCTTTGACTCAT
1 GTGCCAACGAATATGGGCTTAGATTGTGTGCCAACC-ATGTAGGCTTTGACTCAT
27754 GTGCCAACGAATATGGGCTT
1 GTGCCAACGAATATGGGCTT
27774 TCTTTTGATA
Statistics
Matches: 96, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
49 1 0.01
50 26 0.27
51 2 0.02
52 10 0.10
53 10 0.10
54 2 0.02
55 44 0.46
56 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (54 bp):
GTGCCAACGAATATGGGCTTAGATTGTGTGCCAACCATGTAGGCTTTGACTCAT
Found at i:37317 original size:16 final size:16
Alignment explanation
Indices: 37296--37327 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37286 TAAAAAAATA
*
37296 TTTTATTTTTTTTTAT
1 TTTTATTATTTTTTAT
37312 TTTTATTATTTTTTAT
1 TTTTATTATTTTTTAT
37328 AAGGGTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTATTTTTTAT
Found at i:40179 original size:20 final size:20
Alignment explanation
Indices: 40156--40230 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
40146 AAGTACTCAG
40156 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
40176 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
40196 ACGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
40216 ATGTATCGATACATT
1 ATGTATCGATACATT
40231 CTGTCCTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:46608 original size:928 final size:928
Alignment explanation
Indices: 44813--47601 Score: 5524
Period size: 928 Copynumber: 3.0 Consensus size: 928
44803 TAATGCAAGC
44813 TCAAATAACAAAGGTTATGGAAATCATAATGACATCCCTAAAAGAAAAGGGGCAAACTAGTAATG
1 TCAAATAACAAAGGTTATGGAAATCATAATGACATCCCTAAAAGAAAAGGGGCAAACTAGTAATG
44878 CTGAAATGGGAAATGAGCTAGCTAATGTTGAAAGCGATCCCACCGAAAATACAGAAGCTACGGAA
66 CTGAAATGGGAAATGAGCTAGCTAATGTTGAAAGCGATCCCACCGAAAATACAGAAGCTACGGAA
44943 GATGATGCTCGTCAGGAGCAACGTCCTACCTCCACACTGGCTCCTCCAATCCTCCCGGTGATCTA
131 GATGATGCTCGTCAGGAGCAACGTCCTACCTCCACACTGGCTCCTCCAATCCTCCCGGTGATCTA
45008 TTTGAATTCAATGGCGGTAATCAATCTATTCCTGGCTCTCAAGGGGTAGGTGTAGGAGCCTCACC
196 TTTGAATTCAATGGCGGTAATCAATCTATTCCTGGCTCTCAAGGGGTAGGTGTAGGAGCCTCACC
45073 AACTGACCCCATAACTGTCGACCATCAGAATCAGGAAAAAGTAGAGAGTCAAAAGACCACATCAG
261 AACTGACCCCATAACTGTCGACCATCAGAATCAGGAAAAAGTAGAGAGTCAAAAGACCACATCAG
45138 CGACTGAGGAAATAAGCAAATACCAGCTATTAGAGAAGCGCCTTCGAGCTATCGAAGGGAATGAC
326 CGACTGAGGAAATAAGCAAATACCAGCTATTAGAGAAGCGCCTTCGAGCTATCGAAGGGAATGAC
*
45203 AAGTTCAGAGCTATTGACGCAGAATCGCTATCTTTGGTGTCCAACCTTATTATCCCCTCGAAGTT
391 AAGTTCAGAGCTATTGACGCAGAATCGCTATCTTTGGTGTCCAACCTTGTTATCCCCTCGAAGTT
45268 CAAGGTCCCAGAGTTTGAAAAATTCAATGGAACCACCGACCCTTCCATCCACATCCGAATGTACC
456 CAAGGTCCCAGAGTTTGAAAAATTCAATGGAACCACCGACCCTTCCATCCACATCCGAATGTACC
*
45333 TACGCAAGATGGCCGGGTACAAGAAGGATGAGAAACTCCTCATCCATTGCTTTCAGCATAGTTTG
521 TACGCAAGATGGCCGGGTACGAGAAGGATGAGAAACTCCTCATCCATTGCTTTCAGCATAGTTTG
*
45398 ACCGGTGCAGCTGCTCGTTGGTACAAAGAGTTGGACAACTTTAAGATCCAATCGTGGGCTGACTT
586 ACCGGTGCAGCTGCTCGTTGGTACATAGAGTTGGACAACTTTAAGATCCAATCGTGGGCTGACTT
45463 AGCTAAAGTCTTCCTCAATCAATATCAGCGCGTCTTGGATTGGACTTCCGATCGACTTTCTCTCA
651 AGCTAAAGTCTTCCTCAATCAATATCAGCGCGTCTTGGATTGGACTTCCGATCGACTTTCTCTCA
*
45528 TGAATTTGGAGAAAAAGTCCAACGAGAGTTTTAGACAGTACGCCCAAAGATGGTGAGAGGAAGCG
716 TGAATTTGGAGAAAAAGTCCAACGAGAGTTTTAGACAGTACGCCCAAAGATGGCGAGAGGAAGCG
45593 GCTCTAGTTTAGCCACCTCTCACAGAGAAGGAGATGACTGTCACGTTCATCAAGACACTACGAGC
781 GCTCTAGTTTAGCCACCTCTCACAGAGAAGGAGATGACTGTCACGTTCATCAAGACACTACGAGC
45658 TCTTTATTATGAGAAGCTTTTAGGGAATGCCACAAAGAAGTTTACTTACTTGGTCCTATCCGATG
846 TCTTTATTATGAGAAGCTTTTAGGGAATGCCACAAAGAAGTTTACTTACTTGGTCCTATCCGATG
45723 AAATGATTGATGCGAAAA
911 AAATGATTGATGCGAAAA
45741 TCAAATAACAAAGGTTATGGAAATCATAATGACATCCCTAAAAGAAAAGGGGCAAACTAGTAATG
1 TCAAATAACAAAGGTTATGGAAATCATAATGACATCCCTAAAAGAAAAGGGGCAAACTAGTAATG
45806 CTGAAATGGGAAATGAGCTAGCTAATGTTGAAAGCGATCCCACCGAAAATACAGAAGCTACGGAA
66 CTGAAATGGGAAATGAGCTAGCTAATGTTGAAAGCGATCCCACCGAAAATACAGAAGCTACGGAA
45871 GATGATGCTCGTCAGGAGCAACGTCCTACCTCCACACTGGCTCCTCCAATCCTCCCGGTGATCTA
131 GATGATGCTCGTCAGGAGCAACGTCCTACCTCCACACTGGCTCCTCCAATCCTCCCGGTGATCTA
45936 TTTGAATTCAATGGCGGTAATCAATCTATTCCTGGCTCTCAAGGGGTAGGTGTAGGAGCCTCACC
196 TTTGAATTCAATGGCGGTAATCAATCTATTCCTGGCTCTCAAGGGGTAGGTGTAGGAGCCTCACC
46001 AACTGACCCCATAACTGTCGACCATCAGAATCAGGAAAAAGTAGAGAGTCAAAAGACCACATCAG
261 AACTGACCCCATAACTGTCGACCATCAGAATCAGGAAAAAGTAGAGAGTCAAAAGACCACATCAG
*
46066 CGACTGAGGAAATAAGCAAATACCAGCTATTAGAGAAACGCCTTCGAGCTATCGAAGGGAATGAC
326 CGACTGAGGAAATAAGCAAATACCAGCTATTAGAGAAGCGCCTTCGAGCTATCGAAGGGAATGAC
46131 AAGTTCAGAGCTATTGACGCAGAATCGCTATCTTTGGTGTCCAACCTTGTTATCCCCTCGAAGTT
391 AAGTTCAGAGCTATTGACGCAGAATCGCTATCTTTGGTGTCCAACCTTGTTATCCCCTCGAAGTT
46196 CAAGGTCCCAGAGTTTGAAAAATTCAATGGAACCACCGACCCTTCCATCCACATCCGAATGTACC
456 CAAGGTCCCAGAGTTTGAAAAATTCAATGGAACCACCGACCCTTCCATCCACATCCGAATGTACC
46261 TACGCAAGATGGCCGGGTACGAGAAGGATGAGAAACTCCTCATCCATTGCTTTCAGCATAGTTTG
521 TACGCAAGATGGCCGGGTACGAGAAGGATGAGAAACTCCTCATCCATTGCTTTCAGCATAGTTTG
46326 ACCGGTGCAGCTGCTCGTTGGTACATAGAGTTGGACAACTTTAAGATCCAATCGTGGGCTGACTT
586 ACCGGTGCAGCTGCTCGTTGGTACATAGAGTTGGACAACTTTAAGATCCAATCGTGGGCTGACTT
46391 AGCTAAAGTCTTCCTCAATCAATATCAGCGCGTCTTGGATTGGACTTCCGATCGACTTTCTCTCA
651 AGCTAAAGTCTTCCTCAATCAATATCAGCGCGTCTTGGATTGGACTTCCGATCGACTTTCTCTCA
46456 TGAATTTGGAGAAAAAGTCCAACGAGAGTTTTAGACAGTACGCCCAAAGATGGCGAGAGGAAGCG
716 TGAATTTGGAGAAAAAGTCCAACGAGAGTTTTAGACAGTACGCCCAAAGATGGCGAGAGGAAGCG
46521 GCTCTAGTTTAGCCACCTCTCACAGAGAAGGAGATGACTGTCACGTTCATCAAGACACTACGAGC
781 GCTCTAGTTTAGCCACCTCTCACAGAGAAGGAGATGACTGTCACGTTCATCAAGACACTACGAGC
46586 TCTTTATTATGAGAAGCTTTTAGGGAATGCCACAAAGAAGTTTACTTACTTGGTCCTATCCGATG
846 TCTTTATTATGAGAAGCTTTTAGGGAATGCCACAAAGAAGTTTACTTACTTGGTCCTATCCGATG
46651 AAATGATTGATGCGAAAA
911 AAATGATTGATGCGAAAA
46669 TCAAATAACAAAGGTTATGGAAATCATAATGACATCCCTAAAAGAAAAGGGGCAAACTAGTAATG
1 TCAAATAACAAAGGTTATGGAAATCATAATGACATCCCTAAAAGAAAAGGGGCAAACTAGTAATG
46734 CTGAAATGGGAAATGAGCTAGCTAATGTTGAAAGCGATCCCACCGAAAATACAGAAGCTACGGAA
66 CTGAAATGGGAAATGAGCTAGCTAATGTTGAAAGCGATCCCACCGAAAATACAGAAGCTACGGAA
46799 GATGATGCTCGTCAGGAGCAACGTCCTACCTCCACACTGGCTCCTCCAATCCTCCCGGTGATCTA
131 GATGATGCTCGTCAGGAGCAACGTCCTACCTCCACACTGGCTCCTCCAATCCTCCCGGTGATCTA
*
46864 TTTGAATTCAATGGCGGTAATCAATCTATTCTTGGCTCTCAAGGGGTAGGTGTAGGAGCCTCACC
196 TTTGAATTCAATGGCGGTAATCAATCTATTCCTGGCTCTCAAGGGGTAGGTGTAGGAGCCTCACC
46929 AACTGACCCCATAACTGTCGACCATCAGAATCAGGAAAAAGTAGAGAGTCAAAAGACCACATCAG
261 AACTGACCCCATAACTGTCGACCATCAGAATCAGGAAAAAGTAGAGAGTCAAAAGACCACATCAG
46994 CGACTGAGGAAATAAGCAAATACCAGCTATTAGAGAAGCGCCTTCGAGCTATCGAAGGGAATGAC
326 CGACTGAGGAAATAAGCAAATACCAGCTATTAGAGAAGCGCCTTCGAGCTATCGAAGGGAATGAC
47059 AAGTTCAGAGCTATTGACGCAGAATCGCTATCTTTGGTGTCCAACCTTGTTATCCCCTCGAAGTT
391 AAGTTCAGAGCTATTGACGCAGAATCGCTATCTTTGGTGTCCAACCTTGTTATCCCCTCGAAGTT
47124 CAAGGTCCCAGAGTTTGAAAAATTCAATGGAACCACCGACCCTTCCATCCACATCCGAATGTACC
456 CAAGGTCCCAGAGTTTGAAAAATTCAATGGAACCACCGACCCTTCCATCCACATCCGAATGTACC
47189 TACGCAAGATGGCCGGGTACGAGAAGGATGAGAAACTCCTCATCCATTGCTTTCAGCATAGTTTG
521 TACGCAAGATGGCCGGGTACGAGAAGGATGAGAAACTCCTCATCCATTGCTTTCAGCATAGTTTG
47254 ACCGGTGCAGCTGCTCGTTGGTACATAGAGTTGGACAACTTTAAGATCCAATCGTGGGCTGACTT
586 ACCGGTGCAGCTGCTCGTTGGTACATAGAGTTGGACAACTTTAAGATCCAATCGTGGGCTGACTT
47319 AGCTAAAGTCTTCCTCAATCAATATCAGCGCGTCTTGGATTGGACTTCCGATCGACTTTCTCTCA
651 AGCTAAAGTCTTCCTCAATCAATATCAGCGCGTCTTGGATTGGACTTCCGATCGACTTTCTCTCA
47384 TGAATTTGGAGAAAAAGTCCAACGAGAGTTTTAGACAGTACGCCCAAAGATGGCGAGAGGAAGCG
716 TGAATTTGGAGAAAAAGTCCAACGAGAGTTTTAGACAGTACGCCCAAAGATGGCGAGAGGAAGCG
47449 GCTCTAGTTTAGCCACCTCTCACAGAGAAGGAGATGACTGTCACGTTCATCAAGACACTACGAGC
781 GCTCTAGTTTAGCCACCTCTCACAGAGAAGGAGATGACTGTCACGTTCATCAAGACACTACGAGC
47514 TCTTTATTATGAGAAGCTTTTAGGGAATGCCACAAAGAAGTTTACTTACTTGGTCCTATCCGATG
846 TCTTTATTATGAGAAGCTTTTAGGGAATGCCACAAAGAAGTTTACTTACTTGGTCCTATCCGATG
47579 AAATGATTGATGCGAAAA
911 AAATGATTGATGCGAAAA
47597 TCAAA
1 TCAAA
47602 AGTGGTAGAA
Statistics
Matches: 1854, Mismatches: 7, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
928 1854 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (928 bp):
TCAAATAACAAAGGTTATGGAAATCATAATGACATCCCTAAAAGAAAAGGGGCAAACTAGTAATG
CTGAAATGGGAAATGAGCTAGCTAATGTTGAAAGCGATCCCACCGAAAATACAGAAGCTACGGAA
GATGATGCTCGTCAGGAGCAACGTCCTACCTCCACACTGGCTCCTCCAATCCTCCCGGTGATCTA
TTTGAATTCAATGGCGGTAATCAATCTATTCCTGGCTCTCAAGGGGTAGGTGTAGGAGCCTCACC
AACTGACCCCATAACTGTCGACCATCAGAATCAGGAAAAAGTAGAGAGTCAAAAGACCACATCAG
CGACTGAGGAAATAAGCAAATACCAGCTATTAGAGAAGCGCCTTCGAGCTATCGAAGGGAATGAC
AAGTTCAGAGCTATTGACGCAGAATCGCTATCTTTGGTGTCCAACCTTGTTATCCCCTCGAAGTT
CAAGGTCCCAGAGTTTGAAAAATTCAATGGAACCACCGACCCTTCCATCCACATCCGAATGTACC
TACGCAAGATGGCCGGGTACGAGAAGGATGAGAAACTCCTCATCCATTGCTTTCAGCATAGTTTG
ACCGGTGCAGCTGCTCGTTGGTACATAGAGTTGGACAACTTTAAGATCCAATCGTGGGCTGACTT
AGCTAAAGTCTTCCTCAATCAATATCAGCGCGTCTTGGATTGGACTTCCGATCGACTTTCTCTCA
TGAATTTGGAGAAAAAGTCCAACGAGAGTTTTAGACAGTACGCCCAAAGATGGCGAGAGGAAGCG
GCTCTAGTTTAGCCACCTCTCACAGAGAAGGAGATGACTGTCACGTTCATCAAGACACTACGAGC
TCTTTATTATGAGAAGCTTTTAGGGAATGCCACAAAGAAGTTTACTTACTTGGTCCTATCCGATG
AAATGATTGATGCGAAAA
Found at i:49007 original size:15 final size:16
Alignment explanation
Indices: 48971--49013 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
48961 AAACTCGAAA
*
48971 GCAAAAGCACAAAAATT
1 GCAAAAGCA-AAAAAGT
48988 G-AAAAG-AAAAAAGT
1 GCAAAAGCAAAAAAGT
49002 GCAAAAGCAAAA
1 GCAAAAGCAAAA
49014 TAAAAAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 7 0.30
15 6 0.26
16 9 0.39
17 1 0.04
ACGTcount: A:0.65, C:0.12, G:0.16, T:0.07
Consensus pattern (16 bp):
GCAAAAGCAAAAAAGT
Found at i:50424 original size:27 final size:27
Alignment explanation
Indices: 50355--50538 Score: 215
Period size: 27 Copynumber: 6.7 Consensus size: 27
50345 TTTCTTTTCA
*
50355 AAGTCCATAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
50382 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
** * *
50410 AAGTCCACATTTCCGTAGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
50437 AAAGTCCACCACTCCGTGGCACCTTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* * * *
50465 AATTCCATAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * * *
50492 AAGTCCATAACTACGCGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
50519 AAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
50539 GCACCCTTTT
Statistics
Matches: 131, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
27 84 0.64
28 47 0.36
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:50436 original size:55 final size:55
Alignment explanation
Indices: 50355--50569 Score: 225
Period size: 55 Copynumber: 3.9 Consensus size: 55
50345 TTTCTTTTCA
* *
50355 AAGTCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
** * * *
50410 AAGTCCACATTTCCGTAGCACTCTTTTAAAGTCCACCACTCCGTGGCACCTTTTT
1 AAGTCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* * * * * * * * *
50465 AATTCCATAACTCTGTGGCATCCTTTT-AAGTCCATAACTACGCGGCATCCTTTT
1 AAGTCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* * *
50519 AAGTCCACAACTCCGTGGCAGCACCCTTTTAAAGCCCACAAGTCGGTGGCA
1 AAGTCCACAACTCCGT---AGCACCCTTTTAAAGTCCACAACTCCGTGGCA
50570 ACTCATTTCA
Statistics
Matches: 124, Mismatches: 32, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
54 34 0.27
55 67 0.54
57 9 0.07
58 14 0.11
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.28
Consensus pattern (55 bp):
AAGTCCACAACTCCGTAGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:50452 original size:28 final size:28
Alignment explanation
Indices: 50348--51043 Score: 227
Period size: 28 Copynumber: 24.1 Consensus size: 28
50338 AGTGGCATTT
*
50348 CTTTTCAAAGTCCATAACTCCGTGGCACC
1 CTTTT-AAAGTCCACAACTCCGTGGCACC
50377 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
** * *
50405 CTTTT-AAGTCCACATTTCCGTAGCACT
1 CTTTTAAAGTCCACAACTCCGTGGCACC
*
50432 CTTTTAAAGTCCACCACTCCGTGGCA-C
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * * *
50459 CTTTTTAATTCCATAACTCTGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * *
50487 CTTTT-AAGTCCATAACTACGCGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
50514 CTTTT-AAGTCCACAACTCCGTGGCAGCACC
1 CTTTTAAAGTCCACAACTCCGT-G--GCACC
* * *
50544 CTTTTAAAGCCCACAAGTCGGTGGCAACTC
1 CTTTTAAAGTCCACAACTCCGTGGC-AC-C
* * * * *
50574 ATTTCAAAGCCTACACAAGTCAGTGGCAACTC
1 CTTTTAAAG--TCCACAACTCCGTGGC-AC-C
* * * * *
50606 ATTTGAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTAAAG-TC-CACAACTCCGTGGC-ACC
* * *
50637 CATTTCAAAGTCCACATAAGTCGGTGGCAATCC
1 C-TTTTAAAGTCCAC--AACTCCGTGGC-A-CC
* * * * *
50670 ATTTCAAAG-CCACAAGTCAGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * *
50697 CTTTTAAAGCCCACAAGTCAGTGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * * * *
50725 ATTTCAAAGCCCACAAATCGGTGGTAACTC
1 CTTTTAAAGTCCACAACTCCGTGG-CAC-C
* * * * * *
50755 ATTTCAAAGCCCAGACAAGTCGGTGGCATC
1 CTTTTAAAGTCC--ACAACTCCGTGGCACC
* * * *
50785 CTTTCAAAGCCCACGAA-TCGGTGGCAACT
1 CTTTTAAAGTCCAC-AACTCCGTGGC-ACC
* * * * ** *
50814 CTTTCAAAGCCCATAAGTCAATGGCATC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * * *
50842 CTTTCAAAGCCCACGAGTCAGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * * *
50870 CTTTCAAAGCCCACCAGTCAGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * ** *
50898 CTTTCAAAGCCCACAAGTCAATGGCACT
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* ** *
50926 CTTTTCAAAG-CCTACAAGTTAGTGGCACT
1 CTTTT-AAAGTCC-ACAACTCCGTGGCACC
* * ** *
50955 CTTTTCAAAGCCCACAAGTTAGTGGCATC
1 CTTTT-AAAGTCCACAACTCCGTGGCACC
* * * *
50984 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
* * * * *
51012 CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTTAAAGTCCACAACTCCGTGGCACC
51040 CTTT
1 CTTT
51044 CCAAAGCCCA
Statistics
Matches: 564, Mismatches: 77, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
27 88 0.16
28 238 0.42
29 86 0.15
30 48 0.09
31 21 0.04
32 81 0.14
33 2 0.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCCGTGGCACC
Found at i:50761 original size:85 final size:85
Alignment explanation
Indices: 50508--51137 Score: 504
Period size: 85 Copynumber: 7.1 Consensus size: 85
50498 ATAACTACGC
* * * * *
50508 GGCATCCTTTT-AAGTCCACAACTCCGTGGCAGCACCCTTTTAAAGCCCACAAGTCGGTGGCAAC
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCA---TTTCAAAGCCCACAAGTCGGTGG-AAC
50572 TCATTTCAAAGCCTACACAAGTCAGT
62 TCATTTCAAAGCC--CACAAGTCAGT
* * * * *
50598 GGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGTCCACATAAGTCGGTG
1 GGC-A-TCCTTTTAAAG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAG-CC-CACAAGTCGGTG
50663 GCAA-TCCATTTCAAAG-CCACAAGTCAGT
58 G-AACT-CATTTCAAAGCCCACAAGTCAGT
*
50691 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAATCGGTGGTAACTCA
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCGGTGG-AACTCA
*
50756 TTTCAAAGCCCAGACAAGTCGGT
65 TTTCAAAGCCC--ACAAGTCAGT
* * * ** *
50779 GGCATCCTTTCAAAGCCCACGAA-TCGGTGGCAACTC-TTTCAAAGCCCATAAGTCAATGGCA-T
1 GGCATCCTTTTAAAGCCCAC-AAGTCAGTGGC-A-TCATTTCAAAGCCCACAAGTCGGTGGAACT
* *
50841 CCTTTCAAAGCCCACGAGTCAGT
63 CATTTCAAAGCCCACAAGTCAGT
* * * * * ** * *
50864 GGCACCCTTTCAAAGCCCACCAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACTCTT
1 GGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCGGTGGAACTCAT
* *
50929 TTCAAAGCCTACAAGTTAGT
66 TTCAAAGCCCACAAGTCAGT
* * * *
50949 GGCA-CTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAC-C
1 GGCATC-CTTTT-AAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCGGTGGAACTC
*
51012 CTTTCAAAGCCCACAAGTCAGT
64 ATTTCAAAGCCCACAAGTCAGT
* * * * *
51034 GGCA-CTCTTTCCAAAGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCCACACGAGTCGGGGGC
1 GGCATC-CTTT-TAAAGCCCACAAGTCAGTGG-CA-TCATTTCAAAGCCCACA--AGTCGGTGG-
* *
51098 AACTCTTTTCAAAGCCCACATAAGTTAGT
59 AACTCATTTCAAAGCCCAC--AAGTCAGT
*
51127 GGCACCCTTTT
1 GGCATCCTTTT
51138 TAAAAAAAAC
Statistics
Matches: 454, Mismatches: 54, Indels: 62
0.80 0.09 0.11
Matches are distributed among these distances:
83 1 0.00
84 27 0.06
85 132 0.29
86 52 0.11
87 39 0.09
88 37 0.08
89 42 0.09
90 9 0.02
91 24 0.05
92 6 0.01
93 32 0.07
94 9 0.02
95 16 0.04
96 26 0.06
97 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (85 bp):
GGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCGGTGGAACTCAT
TTCAAAGCCCACAAGTCAGT
Found at i:50856 original size:57 final size:58
Alignment explanation
Indices: 50543--51136 Score: 573
Period size: 57 Copynumber: 10.1 Consensus size: 58
50533 GTGGCAGCAC
* *
50543 CCTTTTAAAGCCCACAAGTCGGTGGCAACTCATTTCAAAGCCTACACAAGTCAGTGGCAACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCC--CACAAGTCAGTGGC-A-T
* * * * * *
50605 CATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGTCCACATAAGTCGGTGGCAAT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCAACTCATTTCAAAG-CC-CACAAGTCAGTGGC-AT
* *
50668 CCATTTCAAAG-CCACAAGTCAGTGGC-A-TCCTTTTAAAGCCCACAAGTCAGTGGCAT
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAT
* * * * *
50724 CATTTCAAAGCCCACAAATCGGTGGTAACTCATTTCAAAGCCCAGACAAGTCGGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCC--ACAAGTCAGTGGCAT
* * *
50784 CCTTTCAAAGCCCACGAA-TCGGTGGCAACTC-TTTCAAAGCCCATAAGTCAATGGCAT
1 CCTTTCAAAGCCCAC-AAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
50841 CCTTTCAAAGCCCACGAGTCAGTGGC-AC-CCTTTCAAAGCCCACCAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
50897 CCTTTCAAAGCCCACAAGTCAATGGC-ACTCTTTTCAAAGCCTACAAGTTAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCA-T
* * * *
50955 CTTTTCAAAGCCCACAAGTTAGTGGC-A-TCCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAT
* *
51011 CCTTTCAAAGCCCACAAGTCAGTGGC-ACTC-TTTCCAAAGCCCACAAGCCAGTGGTAACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAACTCATTT-CAAAGCCCACAAGTCAGTGG-CA-T
* * * * * *
51070 CTTTTCAAAGCCCACACGAGTCGGGGGCAACTCTTTTCAAAGCCCACATAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACA--AGTCAGTGGCAACTCATTTCAAAGCCCAC--AAGTCAGTGGCAT
51132 CCTTT
1 CCTTT
51137 TTAAAAAAAA
Statistics
Matches: 450, Mismatches: 58, Indels: 48
0.81 0.10 0.09
Matches are distributed among these distances:
55 9 0.02
56 94 0.21
57 116 0.26
58 39 0.09
59 34 0.08
60 41 0.09
61 23 0.05
62 27 0.06
63 8 0.02
64 57 0.13
65 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (58 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:51044 original size:28 final size:28
Alignment explanation
Indices: 50539--51136 Score: 535
Period size: 28 Copynumber: 20.3 Consensus size: 28
50529 CTCCGTGGCA
* * *
50539 GCACCCTTTTAAAGCCCACAAGTCGGTG
1 GCACTCTTTCAAAGCCCACAAGTCAGTG
50567 GCAACTCATTTCAAAGCCTACACAAGTCAGTG
1 GC-ACTC-TTTCAAAGCC--CACAAGTCAGTG
* *
50599 GCAACTCATTTGAAAGCCCACACAAGTCGGTG
1 GC-ACTC-TTTCAAAG-CC-CACAAGTCAGTG
* * *
50631 GCAACCCATTTCAAAGTCCACATAAGTCGGTG
1 GC-ACTC-TTTCAAAG-CC-CACAAGTCAGTG
*
50663 GCAATCCATTTCAAAG-CCACAAGTCAGTG
1 GCACT-C-TTTCAAAGCCCACAAGTCAGTG
*
50692 GCA-TCCTTTTAAAGCCCACAAGTCAGTG
1 GCACT-CTTTCAAAGCCCACAAGTCAGTG
* *
50720 GCA-TCATTTCAAAGCCCACAAATCGGTG
1 GCACTC-TTTCAAAGCCCACAAGTCAGTG
* *
50748 GTAACTCATTTCAAAGCCCAGACAAGTCGGTG
1 G-CACTC-TTTCAAAGCCC--ACAAGTCAGTG
*
50780 GCA-TCCTTTCAAAGCCCACGAA-TCGGTG
1 GCACT-CTTTCAAAGCCCAC-AAGTCAGTG
* *
50808 GCAACTCTTTCAAAGCCCATAAGTCAATG
1 GC-ACTCTTTCAAAGCCCACAAGTCAGTG
*
50837 GCA-TCCTTTCAAAGCCCACGAGTCAGTG
1 GCACT-CTTTCAAAGCCCACAAGTCAGTG
* *
50865 GCACCCTTTCAAAGCCCACCAGTCAGTG
1 GCACTCTTTCAAAGCCCACAAGTCAGTG
* *
50893 GCACCCTTTCAAAGCCCACAAGTCAATG
1 GCACTCTTTCAAAGCCCACAAGTCAGTG
* *
50921 GCACTCTTTTCAAAGCCTACAAGTTAGTG
1 GCACTC-TTTCAAAGCCCACAAGTCAGTG
*
50950 GCACTCTTTTCAAAGCCCACAAGTTAGTG
1 GCACTC-TTTCAAAGCCCACAAGTCAGTG
50979 GCA-TCCTTTCAAAGCCCACAAGTCAGTG
1 GCACT-CTTTCAAAGCCCACAAGTCAGTG
*
51007 GCACCCTTTCAAAGCCCACAAGTCAGTG
1 GCACTCTTTCAAAGCCCACAAGTCAGTG
*
51035 GCACTCTTTCCAAAGCCCACAAGCCAGTG
1 GCACTCTTT-CAAAGCCCACAAGTCAGTG
* * *
51064 GTAACTCTTTTCAAAGCCCACACGAGTCGGGG
1 G-CACTC-TTTCAAAGCCCACA--AGTCAGTG
*
51096 GCAACTCTTTTCAAAGCCCACATAAGTTAGTG
1 GC-ACTC-TTTCAAAGCCCAC--AAGTCAGTG
*
51128 GCACCCTTT
1 GCACTCTTT
51137 TTAAAAAAAA
Statistics
Matches: 492, Mismatches: 48, Indels: 58
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.02
28 187 0.38
29 109 0.22
30 55 0.11
31 9 0.02
32 120 0.24
33 2 0.00
34 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
GCACTCTTTCAAAGCCCACAAGTCAGTG
Found at i:51643 original size:18 final size:18
Alignment explanation
Indices: 51620--51656 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
51610 TCTATTTTCC
51620 ATCACCTTTCATGGAGGT
1 ATCACCTTTCATGGAGGT
51638 ATCACCTTTCATGGAGGT
1 ATCACCTTTCATGGAGGT
51656 A
1 A
51657 AGGTGTTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (18 bp):
ATCACCTTTCATGGAGGT
Found at i:51718 original size:20 final size:20
Alignment explanation
Indices: 51695--51751 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
51685 AAGTACCCAG
*
51695 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
*
51715 ATGTATCGATTCATTCTTCA
1 ATGTATCGATACATTCTTCA
51735 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
51752 GTCTTTTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:55064 original size:16 final size:16
Alignment explanation
Indices: 55043--55076 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
55033 AATTACCTAA
*
55043 TATTTATTAGTATAAT
1 TATTTATTAATATAAT
55059 TATTTATTAATATAAT
1 TATTTATTAATATAAT
55075 TA
1 TA
55077 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TATTTATTAATATAAT
Found at i:59607 original size:15 final size:15
Alignment explanation
Indices: 59587--59615 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59577 GATTTTATCT
59587 ATCCACCACATGTTC
1 ATCCACCACATGTTC
59602 ATCCACCACATGTT
1 ATCCACCACATGTT
59616 TCTTAGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.38, G:0.07, T:0.28
Consensus pattern (15 bp):
ATCCACCACATGTTC
Found at i:60198 original size:14 final size:15
Alignment explanation
Indices: 60172--60200 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60162 ATTAATTTTT
60172 TTAAAAATATAATAA
1 TTAAAAATATAATAA
60187 TTAAAAAT-TAATAA
1 TTAAAAATATAATAA
60201 GAATAATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAATAA
Found at i:60242 original size:25 final size:24
Alignment explanation
Indices: 60185--60243 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
60175 AAAATATAAT
60185 AATTAA-AAATTAATAAGAATAATA
1 AATTAATAAATTAATAAGAAT-ATA
*
60209 GCATT-ATAAATTAATAAGAATATA
1 -AATTAATAAATTAATAAGAATATA
60233 AATTTAATAAA
1 AA-TTAATAAA
60244 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 6 0.21
25 22 0.76
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (24 bp):
AATTAATAAATTAATAAGAATATA
Found at i:60346 original size:25 final size:24
Alignment explanation
Indices: 60282--60347 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
60272 TAGAAAATAT
*
60282 ATTAATAAAAAATTAATAAATAAAA
1 ATTAATAAAATA-TAATAAATAAAA
* * *
60307 AATAATAACATTATAATAATTAAAA
1 ATTAATAA-AATATAATAAATAAAA
60332 ATTAATAAGAATATAA
1 ATTAATAA-AATATAA
60348 CTTTAACATT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
25 31 0.94
26 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
ATTAATAAAATATAATAAATAAAA
Found at i:60355 original size:39 final size:38
Alignment explanation
Indices: 60211--60359 Score: 110
Period size: 39 Copynumber: 3.9 Consensus size: 38
60201 GAATAATAGC
* *
60211 ATTATAAATTAATAAGAATATAAATTT-A-A-TA-AAAA
1 ATTAAAAATTAATAA-AATATAAATTTAACATTATAATA
** * * *
60246 ATTAAAAATTAATAAACATATATTTTTAGAAAATATATTA
1 ATTAAAAATTAATAAA-ATATAAATTTA-ACATTATAATA
* * *
60286 ATAAAAAATTAAT-AAATAAAAAATAATAACATTATAATA
1 ATTAAAAATTAATAAAAT-ATAAAT-TTAACATTATAATA
*
60325 ATTAAAAATTAATAAGAATATAACTTTAACATTAT
1 ATTAAAAATTAATAA-AATATAAATTTAACATTAT
60360 CATATAAATT
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
34 1 0.01
35 22 0.25
37 1 0.01
38 3 0.03
39 36 0.41
40 21 0.24
41 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (38 bp):
ATTAAAAATTAATAAAATATAAATTTAACATTATAATA
Found at i:60401 original size:26 final size:25
Alignment explanation
Indices: 60372--60443 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
60362 TATAAATTAC
60372 AATTAATTAATATTTAATTAATATAA
1 AATTAATTAATATTTAATTAATAT-A
* * *
60398 AATTAA-TAAGAATTTGATTAGTATA
1 AATTAATTAA-TATTTAATTAATATA
* * *
60423 ATTTTATTAATATATAATTAA
1 AATTAATTAATATTTAATTAA
60444 AAAATTCATA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
AATTAATTAATATTTAATTAATATA
Found at i:60467 original size:55 final size:55
Alignment explanation
Indices: 60404--60511 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
60394 ATAAAATTAA
* * *
60404 TAAGAATTTGATTAGTATAATTTTATTAATATATAATT-AAAAAATTCATATTTAC
1 TAAGAATTTGATTAATATAA-TTAATTAATATATAATTAAAAAAACTCATATTTAC
*
60459 TAAGAATTTGATTAATATAATTAATTAATATATGATTAAAAAAACTCATATTT
1 TAAGAATTTGATTAATATAATTAATTAATATATAATTAAAAAAACTCATATTT
60512 GATAATAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 15 0.31
55 33 0.69
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (55 bp):
TAAGAATTTGATTAATATAATTAATTAATATATAATTAAAAAAACTCATATTTAC
Found at i:60695 original size:16 final size:15
Alignment explanation
Indices: 60670--60735 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 15
60660 TATCATGTGG
60670 TAAAATAATAGTATTT
1 TAAAATAATA-TATTT
60686 TAAAA-AA-ATATTT
1 TAAAATAATATATTT
60699 TAAAATAATATTATTT
1 TAAAATAATA-TATTT
*
60715 T--AATAATTTATTT
1 TAAAATAATATATTT
*
60728 AAAAATAA
1 TAAAATAA
60736 AGGATAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
13 15 0.35
14 9 0.21
15 8 0.19
16 11 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TAAAATAATATATTT
Found at i:60704 original size:29 final size:29
Alignment explanation
Indices: 60670--60735 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
60660 TATCATGTGG
60670 TAAAATAATAGTATTTTAAAAAAATATTT
1 TAAAATAATAGTATTTTAAAAAAATATTT
* * **
60699 TAAAATAATATTATTTTAATAATTTATTT
1 TAAAATAATAGTATTTTAAAAAAATATTT
*
60728 AAAAATAA
1 TAAAATAA
60736 AGGATAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
TAAAATAATAGTATTTTAAAAAAATATTT
Found at i:60978 original size:11 final size:11
Alignment explanation
Indices: 60964--60994 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
60954 TTTATTTTTT
60964 ATTTAAAATTA
1 ATTTAAAATTA
60975 ATTT-AAATTA
1 ATTTAAAATTA
60985 ATTTAAAATT
1 ATTTAAAATT
60995 TATTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTAAAATTA
Found at i:61012 original size:20 final size:20
Alignment explanation
Indices: 60962--61011 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
60952 ATTTTATTTT
60962 TTATTTAAAATTAATTTAAA
1 TTATTTAAAATTAATTTAAA
* *
60982 TTAATTTAAAATTTA-TTATA
1 TT-ATTTAAAATTAATTTAAA
61002 TTATTTAAAA
1 TTATTTAAAA
61012 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 8 0.30
21 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATTTAAAATTAATTTAAA
Found at i:61038 original size:22 final size:22
Alignment explanation
Indices: 61003--61057 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
60993 TTTATTATAT
*
61003 TATTTAAAAAATTTTAAAAATTA
1 TATTT-AAATATTTTAAAAATTA
* * *
61026 TATTTAAATATTTTTATATTTA
1 TATTTAAATATTTTAAAAATTA
*
61048 AATTTAAATA
1 TATTTAAATA
61058 AAAATATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTAAATATTTTAAAAATTA
Found at i:61629 original size:14 final size:14
Alignment explanation
Indices: 61607--61638 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
61597 ATATATTATT
*
61607 TTATTTTTAATAAA
1 TTATCTTTAATAAA
61621 TTATCTTTAATAAA
1 TTATCTTTAATAAA
61635 TTAT
1 TTAT
61639 TAATAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATCTTTAATAAA
Found at i:64119 original size:243 final size:243
Alignment explanation
Indices: 63691--64154 Score: 928
Period size: 243 Copynumber: 1.9 Consensus size: 243
63681 GGGATTTACT
63691 CTCTCCTGGTAGACCTCTTGTCCTGAGAGAAGATAAGCAGGTTCTTGCTATCTACAGCCTTGAAA
1 CTCTCCTGGTAGACCTCTTGTCCTGAGAGAAGATAAGCAGGTTCTTGCTATCTACAGCCTTGAAA
63756 ATTCTTGTTTTTACTGTATATTTGGAATTTTTATGTTACTCGGATCCTTTGTTTTCTTTAAAGTA
66 ATTCTTGTTTTTACTGTATATTTGGAATTTTTATGTTACTCGGATCCTTTGTTTTCTTTAAAGTA
63821 TTCGTGCTTGACTTATATTCGGATATGAGTATAAGATATGATCTTTTAAATATATATAAAAACTT
131 TTCGTGCTTGACTTATATTCGGATATGAGTATAAGATATGATCTTTTAAATATATATAAAAACTT
63886 AGAAAAACTTAAACATACTCATTCTATCCGAATATGATTTTTATGTTA
196 AGAAAAACTTAAACATACTCATTCTATCCGAATATGATTTTTATGTTA
63934 CTCTCCTGGTAGACCTCTTGTCCTGAGAGAAGATAAGCAGGTTCTTGCTATCTACAGCCTTGAAA
1 CTCTCCTGGTAGACCTCTTGTCCTGAGAGAAGATAAGCAGGTTCTTGCTATCTACAGCCTTGAAA
63999 ATTCTTGTTTTTACTGTATATTTGGAATTTTTATGTTACTCGGATCCTTTGTTTTCTTTAAAGTA
66 ATTCTTGTTTTTACTGTATATTTGGAATTTTTATGTTACTCGGATCCTTTGTTTTCTTTAAAGTA
64064 TTCGTGCTTGACTTATATTCGGATATGAGTATAAGATATGATCTTTTAAATATATATAAAAACTT
131 TTCGTGCTTGACTTATATTCGGATATGAGTATAAGATATGATCTTTTAAATATATATAAAAACTT
64129 AGAAAAACTTAAACATACTCATTCTA
196 AGAAAAACTTAAACATACTCATTCTA
64155 GTCATATATT
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
243 221 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (243 bp):
CTCTCCTGGTAGACCTCTTGTCCTGAGAGAAGATAAGCAGGTTCTTGCTATCTACAGCCTTGAAA
ATTCTTGTTTTTACTGTATATTTGGAATTTTTATGTTACTCGGATCCTTTGTTTTCTTTAAAGTA
TTCGTGCTTGACTTATATTCGGATATGAGTATAAGATATGATCTTTTAAATATATATAAAAACTT
AGAAAAACTTAAACATACTCATTCTATCCGAATATGATTTTTATGTTA
Found at i:66826 original size:2 final size:2
Alignment explanation
Indices: 66819--66844 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66809 TTAAGTGCAA
66819 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
66845 GCTAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68201 original size:11 final size:10
Alignment explanation
Indices: 68177--68224 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
68167 TTATTTAATT
*
68177 TTAAATAAAT
1 TTAAATAAAA
68187 TTAAATATAAA
1 TTAAATA-AAA
68198 TTAAATAAATA
1 TTAAATAAA-A
*
68209 TTAAATATAA
1 TTAAATAAAA
68219 -TAAATA
1 TTAAATA
68225 TTTAATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 6 0.18
10 10 0.29
11 18 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAATAAAA
Found at i:68203 original size:21 final size:22
Alignment explanation
Indices: 68177--68218 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
68167 TTATTTAATT
68177 TTAAATAAAT-TTAAATATAAA
1 TTAAATAAATATTAAATATAAA
68198 TTAAATAAATATTAAATATAA
1 TTAAATAAATATTAAATATAA
68219 TAAATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATAAATATTAAATATAAA
Found at i:68220 original size:16 final size:17
Alignment explanation
Indices: 68188--68252 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 17
68178 TAAATAAATT
68188 TAAATA-TAAAT-TAAA
1 TAAATATTAAATATAAA
68203 TAAATATTAAATAT-AA
1 TAAATATTAAATATAAA
* *
68219 TAAATATTTAATAAAAA
1 TAAATATTAAATATAAA
* *
68236 TATATATTTAAT-TAAA
1 TAAATATTAAATATAAA
68252 T
1 T
68253 TATACTATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
15 6 0.14
16 23 0.53
17 14 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATATTAAATATAAA
Found at i:69098 original size:17 final size:17
Alignment explanation
Indices: 69058--69113 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
69048 CAAAAATGTA
69058 ATAAATATAATATAAATT
1 ATAAATATAATA-AAATT
* *
69076 ATTAAATTTATTAAAATT
1 A-TAAATATAATAAAATT
*
69094 ATAAATATAATAAAAAT
1 ATAAATATAATAAAATT
69111 ATA
1 ATA
69114 TATTAAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 16 0.50
18 7 0.22
19 9 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAATATAATAAAATT
Found at i:70833 original size:21 final size:21
Alignment explanation
Indices: 70795--70834 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
70785 ATATTATATA
* **
70795 TATATATATATTTTTATGAAT
1 TATATAAATATTAATATGAAT
70816 TATATAAATATTAATATGA
1 TATATAAATATTAATATGA
70835 CACAAATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TATATAAATATTAATATGAAT
Found at i:75446 original size:59 final size:59
Alignment explanation
Indices: 75354--75472 Score: 202
Period size: 59 Copynumber: 2.0 Consensus size: 59
75344 GTAATGTCAT
*
75354 AAGCTGTCAGTGCAAATGAATACTGCGTAAGTGATCACTAATACAAAAGTCAAAAACTC
1 AAGCTGTCAGTGCAAATGAATACTGCGTAAGTGATCACCAATACAAAAGTCAAAAACTC
* * *
75413 AAGCTGTCAGTGCAAATGAATAGTGGGTAAGTGATCACCAATACAGAAGTCAAAAACTC
1 AAGCTGTCAGTGCAAATGAATACTGCGTAAGTGATCACCAATACAAAAGTCAAAAACTC
75472 A
1 A
75473 GAAATTTGGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (59 bp):
AAGCTGTCAGTGCAAATGAATACTGCGTAAGTGATCACCAATACAAAAGTCAAAAACTC
Found at i:76210 original size:2 final size:2
Alignment explanation
Indices: 76203--76250 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
76193 GAAAACAGGA
76203 AT AT AT AT AT 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 AT AT AT AT AT
76245 AT AT AT
1 AT AT AT
76251 GAACCAACAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:77573 original size:17 final size:17
Alignment explanation
Indices: 77532--77573 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
77522 ATACAAAATA
* *
77532 AATTAATAAATTGATTT
1 AATTAATTAATTGATAT
*
77549 AATTAATTAATTTATAT
1 AATTAATTAATTGATAT
77566 AATTAATT
1 AATTAATT
77574 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
AATTAATTAATTGATAT
Found at i:78120 original size:19 final size:19
Alignment explanation
Indices: 78096--78205 Score: 66
Period size: 19 Copynumber: 5.8 Consensus size: 19
78086 TCTGCTTGAA
78096 AATTATCATTTTTATTATT
1 AATTATCATTTTTATTATT
* * *
78115 AATTATCACTTTTACTATG
1 AATTATCATTTTTATTATT
* * *
78134 AATCATTACTTTTATGTATT
1 AATTATCATTTTTAT-TATT
78154 -ATT-TC-TTTTTATTATGT
1 AATTATCATTTTTATTAT-T
* * * *
78171 -CTTATAATTTTTTATGATG
1 AATTATCA-TTTTTATTATT
78190 AATTATCTATTTTTAT
1 AATTATC-ATTTTTAT
78206 CTGTTACAAT
Statistics
Matches: 68, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
16 3 0.04
17 9 0.13
18 2 0.03
19 30 0.44
20 23 0.34
21 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (19 bp):
AATTATCATTTTTATTATT
Found at i:78374 original size:20 final size:19
Alignment explanation
Indices: 78351--78397 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
78341 TCTGTTTCTA
*
78351 TTATAAA-TTATCAAATTTT
1 TTATAAATTTAAC-AATTTT
*
78370 GTTATGAATTTAACAATTTT
1 -TTATAAATTTAACAATTTT
78390 TTATAAAT
1 TTATAAAT
78398 ATATTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
TTATAAATTTAACAATTTT
Found at i:78681 original size:28 final size:28
Alignment explanation
Indices: 78643--78696 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
78633 TTCTTCTTTA
78643 TTAGTTCATCCTTCTACATTGCTTGTAT
1 TTAGTTCATCCTTCTACATTGCTTGTAT
* *
78671 TTAGTTTATCCTTCTACATTGTTTGT
1 TTAGTTCATCCTTCTACATTGCTTGT
78697 GTAAAATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.11, T:0.54
Consensus pattern (28 bp):
TTAGTTCATCCTTCTACATTGCTTGTAT
Found at i:79041 original size:17 final size:16
Alignment explanation
Indices: 79021--79128 Score: 51
Period size: 16 Copynumber: 7.3 Consensus size: 16
79011 ATTTTTATAT
79021 ATTATAATCATATTTAA
1 ATTATAAT-ATATTTAA
*
79038 ATTATTATATATTT--
1 ATTATAATATATTTAA
*
79052 A-TA-AA-AAATTTAA
1 ATTATAATATATTTAA
*
79065 TATGT-TAAT-TATTTAT
1 -AT-TATAATATATTTAA
* *
79081 ATTAT-ATAAATTTTA
1 ATTATAATATATTTAA
79096 A-TATAAT-TATTT--
1 ATTATAATATATTTAA
*
79108 ATTATATTATATTTAA
1 ATTATAATATATTTAA
79124 ATTAT
1 ATTAT
79129 TTTTATATTA
Statistics
Matches: 67, Mismatches: 10, Indels: 29
0.63 0.09 0.27
Matches are distributed among these distances:
11 5 0.07
12 2 0.03
13 7 0.10
14 17 0.25
15 10 0.15
16 19 0.28
17 7 0.10
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (16 bp):
ATTATAATATATTTAA
Found at i:79045 original size:27 final size:26
Alignment explanation
Indices: 79015--79157 Score: 106
Period size: 27 Copynumber: 5.1 Consensus size: 26
79005 TTATATATTT
* *
79015 TTATATATTATAATCATATTTAAATTA
1 TTATATATTAT-ATAAAATTTAAATTA
*
79042 TTATATATTTATAAAAAATTTAATATGTTAA
1 TTATATA-TTATATAAAATTTAA-A--TT-A
* *
79073 TTATTTATATTATATAAATTTTAATATAA
1 TTA--TATATTATATAAAATTTAA-ATTA
* * *
79102 TTATTTATTATATTATATTTAAATTA
1 TTATATATTATATAAAATTTAAATTA
*
79128 TTTTTATATTATTATAAAATTTAAATTA
1 -TTATATATTA-TATAAAATTTAAATTA
79156 TT
1 TT
79158 TTTTTATAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
26 3 0.03
27 40 0.43
28 19 0.21
29 4 0.04
30 3 0.03
31 4 0.04
32 15 0.16
33 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (26 bp):
TTATATATTATATAAAATTTAAATTA
Found at i:79096 original size:32 final size:33
Alignment explanation
Indices: 79037--79119 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 33
79027 ATCATATTTA
* *
79037 AATTATTATATATTTATAAAAAATTTAATAT-GTT
1 AATTATT-TATA-TTATATAAAATTTAATATAATT
*
79071 AATTATTTATATTATATAAATTTTAATATAATT
1 AATTATTTATATTATATAAAATTTAATATAATT
*
79104 ATTTA-TTATATTATAT
1 AATTATTTATATTATAT
79120 TTAAATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 27 0.61
33 10 0.23
34 7 0.16
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (33 bp):
AATTATTTATATTATATAAAATTTAATATAATT
Found at i:79127 original size:52 final size:51
Alignment explanation
Indices: 79071--79171 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 51
79061 TTAATATGTT
* *
79071 AATTA-TTTATATTA-TATAAATTTTAATATAATTATTTATTATATTATATTTA
1 AATTATTTTATATTATTATAAAATTTAA-ATAATT-TTT-TTATAATATATTTA
*
79123 AATTATTTTTATATTATTATAAAATTTAAATTATTTTTTTATAATATAT
1 AATTA-TTTTATATTATTATAAAATTTAAATAATTTTTTTATAATATAT
79172 AATTATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
52 15 0.35
53 3 0.07
54 14 0.33
55 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (51 bp):
AATTATTTTATATTATTATAAAATTTAAATAATTTTTTTATAATATATTTA
Found at i:79147 original size:22 final size:23
Alignment explanation
Indices: 79100--79148 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
79090 ATTTTAATAT
*
79100 AATTATTTATTATATTATATTTA
1 AATTATTTATTATATTATATTAA
79123 AATTATTT-TTATATTAT-TATAA
1 AATTATTTATTATATTATAT-TAA
79145 AATT
1 AATT
79149 TAAATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
AATTATTTATTATATTATATTAA
Found at i:79156 original size:22 final size:21
Alignment explanation
Indices: 79131--79192 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
79121 TAAATTATTT
79131 TTATATTATTATAAAATTTAAA
1 TTATATTATTATAAAATTT-AA
* * * *
79153 TTATTTTTTTATAATATATAA
1 TTATATTATTATAAAATTTAA
*
79174 TTATATTATATTTAAAATT
1 TTATATTAT-TATAAAATT
79193 ATTAGATTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 9 0.30
22 21 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATTATTATAAAATTTAA
Found at i:79164 original size:55 final size:55
Alignment explanation
Indices: 79076--79196 Score: 131
Period size: 55 Copynumber: 2.2 Consensus size: 55
79066 ATGTTAATTA
* * *
79076 TTTATATTA-TATAAATTTTAATATAATTATTTATTATATTATATTTAAATTAT-T
1 TTTATATTATTATAAATTTAAATATAATTATTTATAATA-TATAATTAAATTATAT
* * *
79130 TTTATATTATTATAAAATTTAAAT-TATTTTTTTATAATATATAATTATATTATAT
1 TTTATATTATTAT-AAATTTAAATATAATTATTTATAATATATAATTAAATTATAT
* *
79185 TTAAAATTATTA
1 TTTATATTATTA
79197 GATTTTACTG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
54 21 0.38
55 26 0.46
56 9 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (55 bp):
TTTATATTATTATAAATTTAAATATAATTATTTATAATATATAATTAAATTATAT
Found at i:79170 original size:27 final size:27
Alignment explanation
Indices: 79076--79175 Score: 83
Period size: 28 Copynumber: 3.6 Consensus size: 27
79066 ATGTTAATTA
* * * *
79076 TTTATATTATATAAATTTTAATATAATTA
1 TTTATAATATA-AAATTTAAAT-TATTTT
* * *
79105 TTTATTATATTATATTTAAATTATTTT
1 TTTATAATATAAAATTTAAATTATTTT
* *
79132 TATATTATTATAAAATTTAAATTATTTT
1 TTTA-TAATATAAAATTTAAATTATTTT
*
79160 TTTATAATATATAATT
1 TTTATAATATAAAATT
79176 ATATTATATT
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
27 17 0.31
28 30 0.55
29 8 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTATAATATAAAATTTAAATTATTTT
Found at i:83500 original size:2 final size:2
Alignment explanation
Indices: 83495--83519 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
83485 TAAAAAAATG
83495 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
83520 GCTAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87240 original size:29 final size:29
Alignment explanation
Indices: 87208--87300 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
87198 TGTGCGTAAA
*
87208 GTCATTTTCTATGATTTGGAAATTATTAT
1 GTCATTTTCTATGATTTAGAAATTATTAT
* * *
87237 GTCA-ATTC-ATGCATTTAGAGA-TATTTAA
1 GTCATTTTCTATG-ATTTAGAAATTA-TTAT
* * * *
87265 GTCATTTTCTATGCTTTAGAATTTTTTTT
1 GTCATTTTCTATGATTTAGAAATTATTAT
87294 GTCATTT
1 GTCATTT
87301 CATGCATTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
27 5 0.10
28 17 0.35
29 22 0.46
30 4 0.08
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (29 bp):
GTCATTTTCTATGATTTAGAAATTATTAT
Found at i:87297 original size:57 final size:58
Alignment explanation
Indices: 87206--87314 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
87196 TTTGTGCGTA
*
87206 AAGTCATTTTCTATGATTTGGAAATTATTATGTCAATTCATGCA-TTTAGAGATATTT
1 AAGTCATTTTCTATGATTTAGAAATTATTATGTCAATTCATGCATTTTAGAGATATTT
* * * * *
87263 AAGTCATTTTCTATGCTTTAGAATTTTTTTTGTCATTTCATGCATTTTAGAG
1 AAGTCATTTTCTATGATTTAGAAATTATTATGTCAATTCATGCATTTTAGAG
87315 TCATTTTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 38 0.84
58 7 0.16
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.49
Consensus pattern (58 bp):
AAGTCATTTTCTATGATTTAGAAATTATTATGTCAATTCATGCATTTTAGAGATATTT
Found at i:87329 original size:29 final size:27
Alignment explanation
Indices: 87297--87387 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 27
87287 TTTTTTTGTC
87297 ATTTCATGCATTTTAGAGTCATTTTAGTA
1 ATTTCATGCATTTTA-A-TCATTTTAGTA
*
87326 ATTTGTCATG--TTTTAATACCA-TTTATTTA
1 A-TT-TCATGCATTTTAAT--CATTTTA-GTA
87355 ATTTCATGCATTTTAAAATCATTTTAGTA
1 ATTTCATGCATTTT--AATCATTTTAGTA
87384 ATTT
1 ATTT
87388 AACATGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
27 6 0.12
28 7 0.14
29 23 0.46
30 6 0.12
31 8 0.16
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.52
Consensus pattern (27 bp):
ATTTCATGCATTTTAATCATTTTAGTA
Found at i:87532 original size:29 final size:29
Alignment explanation
Indices: 87500--87599 Score: 82
Period size: 29 Copynumber: 3.4 Consensus size: 29
87490 TTTCCCATGA
*
87500 TTTAGGATTATTTATGTAATTTCATGCAT
1 TTTAAGATTATTTATGTAATTTCATGCAT
* *
87529 TTTAAGCTGATTT-TAGTAATTTACTAT--AT
1 TTTAAGATTATTTAT-GTAATTT-C-ATGCAT
* *
87558 TTTAGAGACT-TTTATGTAATTTTATGCAT
1 TTTA-AGATTATTTATGTAATTTCATGCAT
*
87587 TTTAAGATCATTT
1 TTTAAGATTATTT
87600 TACTCATTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
27 2 0.04
28 4 0.07
29 42 0.78
30 4 0.07
31 2 0.04
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (29 bp):
TTTAAGATTATTTATGTAATTTCATGCAT
Found at i:87542 original size:106 final size:106
Alignment explanation
Indices: 87348--87543 Score: 252
Period size: 106 Copynumber: 1.8 Consensus size: 106
87338 TTAATACCAT
* * * * *
87348 TTATTTAATTTCATGCATTTTAAAATCATTTTAGTAATTTAACATGTTTTAGGGTTATTATGTGA
1 TTATGTAATTGCATGCATTTTAAAATCATTTTAGTAATTTAACATGATTTAGGATTATTATGTAA
* *
87413 TTTCATGCATTTCAGCATTATTTTACATTGTGTAGGGGTTA
66 TTTCATGCATTTAAGCATGATTTTACATTGTGTAGGGGTTA
** * **
87454 TTATGTAATTGCATGCATTTT-TCATCATTTTAGTCATTTCCCATGATTTAGGATTATTTATGTA
1 TTATGTAATTGCATGCATTTTAAAATCATTTTAGTAATTTAACATGATTTAGGATTA-TTATGTA
87518 ATTTCATGCATTTTAAGC-TGATTTTA
65 ATTTCATGCA-TTTAAGCATGATTTTA
87544 GTAATTTACT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
105 28 0.37
106 42 0.55
107 6 0.08
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (106 bp):
TTATGTAATTGCATGCATTTTAAAATCATTTTAGTAATTTAACATGATTTAGGATTATTATGTAA
TTTCATGCATTTAAGCATGATTTTACATTGTGTAGGGGTTA
Found at i:87572 original size:58 final size:58
Alignment explanation
Indices: 87454--87659 Score: 163
Period size: 58 Copynumber: 3.6 Consensus size: 58
87444 GTAGGGGTTA
* ** * * * * *
87454 TTATGTAATTGCATGCATTTT-TCATCATTTTAGTCATTTCCCATGA-TTTAG-GATTAT
1 TTATGTAATTTCATGCATTTTAAGATCATTTTACTAATTTACTAT-ATTTTAGAGACT-T
* * *
87511 TTATGTAATTTCATGCATTTTAAGCTGATTTTAGTAATTTACTATATTTTAGAGACTT
1 TTATGTAATTTCATGCATTTTAAGATCATTTTACTAATTTACTATATTTTAGAGACTT
* * * * *
87569 TTATGTAATTTTATGCATTTTAAGATCATTTTACTCATTTTCTATGTTTTAG-GAACTA
1 TTATGTAATTTCATGCATTTTAAGATCATTTTACTAATTTACTATATTTTAGAG-ACTT
* *
87627 TTATACT-ATTCCATGCATTTT-AGTATCATTTTA
1 TTAT-GTAATTTCATGCATTTTAAG-ATCATTTTA
87660 ACATGTCCAT
Statistics
Matches: 123, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
57 24 0.20
58 95 0.77
59 4 0.03
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (58 bp):
TTATGTAATTTCATGCATTTTAAGATCATTTTACTAATTTACTATATTTTAGAGACTT
Found at i:93017 original size:33 final size:33
Alignment explanation
Indices: 92975--93037 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
92965 TTCCCAGATG
92975 TATCGATACAAAGA-TCAATGTATCGATACAATA
1 TATCGATACAAAGAGT-AATGTATCGATACAATA
**
93008 TATCGATACATTGAGTAATGTATCGATACA
1 TATCGATACAAAGAGTAATGTATCGATACA
93038 TTTCCTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TATCGATACAAAGAGTAATGTATCGATACAATA
Found at i:95269 original size:18 final size:17
Alignment explanation
Indices: 95248--95290 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
95238 AATTTATACT
95248 TAAAATAATTTTTTAATA
1 TAAAATAATTTTTT-ATA
* *
95266 TAAATTAATTTTTTATT
1 TAAAATAATTTTTTATA
95283 TAAAATAA
1 TAAAATAA
95291 AATTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAAATAATTTTTTATA
Found at i:95286 original size:17 final size:17
Alignment explanation
Indices: 95247--95307 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
95237 TAATTTATAC
95247 TTAAAATAATTTTTTAAT
1 TTAAAATAATTTTTT-AT
* *
95265 ATAAATTAATTTTTTAT
1 TTAAAATAATTTTTTAT
**
95282 TTAAAATAAAATTTTAT
1 TTAAAATAATTTTTTAT
*
95299 TTTAAATAA
1 TTAAAATAA
95308 AAATTAAAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 23 0.64
18 13 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAAATAATTTTTTAT
Found at i:95365 original size:22 final size:22
Alignment explanation
Indices: 95340--95381 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
95330 TTTAATACAA
95340 TAAAAAATATAAAA-AATTTATT
1 TAAAAAAT-TAAAATAATTTATT
*
95362 TAAAATATTAAAATAATTTA
1 TAAAAAATTAAAATAATTTA
95382 AAATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAAAAATTAAAATAATTTATT
Found at i:96503 original size:22 final size:23
Alignment explanation
Indices: 96469--96512 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
96459 GAAAAAATAT
* * *
96469 AAAAATTTATATTTGTGTTATAA
1 AAAAAATTATATTCGGGTTATAA
96492 AAAAAATT-TATTCGGGTTATA
1 AAAAAATTATATTCGGGTTATA
96513 TTCCAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (23 bp):
AAAAAATTATATTCGGGTTATAA
Found at i:98314 original size:9 final size:9
Alignment explanation
Indices: 98300--98334 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
98290 CATTTTTTGT
98300 TATTATATA
1 TATTATATA
98309 TATTATATA
1 TATTATATA
98318 TATTATTATA
1 TATTA-TATA
98328 TATTATA
1 TATTATA
98335 AAAAATGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATTATATA
Found at i:98643 original size:110 final size:108
Alignment explanation
Indices: 98387--98663 Score: 276
Period size: 110 Copynumber: 2.5 Consensus size: 108
98377 ATTCTGAAGC
* * * *
98387 CAATTTTTTTGTGCCCGAATCTACGTAATTAATGCAAAAAA--AATTGTCCTATATTAAGTGCGT
1 CAATTTTTTGGTG-CCAAATCTACGTAATTAATGCAAAAAATGAAATGTCCTATATAAAGTGCGT
* * * *
98450 TTGTATGCCACTTTATGACTCTGTATGATGACCTATTTCGAGGT
65 TCGTACGCCACTTTATGACTCTGTACGATGACCTATTTCGAGAT
* * * * *
98494 CAATCTTTTGGTACCTAAACCTA-ATAATTAATGCAAAAAAAATGAAATGTCCTTTATAAAAG-G
1 CAATTTTTTGGTGCC-AAATCTACGTAATTAATGC--AAAAAATGAAATGTCCTATAT-AAAGTG
* *
98557 CGTTCGTACGCCATTTTATGACTCTAG-ACGATGACTTATTTCGAGAT
62 CGTTCGTACGCCACTTTATGACTCT-GTACGATGACCTATTTCGAGAT
* * * * *
98604 CAATTTTTTGGTGCTCAAATTTACGTAACTAATGCAAAAAATGAATTATCTTATATAAAG
1 CAATTTTTTGGTGC-CAAATCTACGTAATTAATGCAAAAAATGAAATGTCCTATATAAAG
98664 CTATATTTTA
Statistics
Matches: 136, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
106 12 0.09
107 15 0.11
108 10 0.07
109 17 0.12
110 68 0.50
111 14 0.10
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (108 bp):
CAATTTTTTGGTGCCAAATCTACGTAATTAATGCAAAAAATGAAATGTCCTATATAAAGTGCGTT
CGTACGCCACTTTATGACTCTGTACGATGACCTATTTCGAGAT
Found at i:99234 original size:22 final size:21
Alignment explanation
Indices: 99201--99256 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
99191 ACCCCATTTA
99201 CTTTTTTT-TTTCTTTCTTCTT
1 CTTTTTTTCTTTCTTTCTT-TT
99222 CTTTTTTTCTTTCTTTCTTTT
1 CTTTTTTTCTTTCTTTCTTTT
*
99243 -TCTTTTTCTTTCTT
1 CTTTTTTTCTTTCTT
99257 GATCTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 13 0.39
21 10 0.30
22 10 0.30
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
CTTTTTTTCTTTCTTTCTTTT
Found at i:99254 original size:4 final size:4
Alignment explanation
Indices: 99209--99270 Score: 58
Period size: 4 Copynumber: 15.5 Consensus size: 4
99199 TACTTTTTTT
* *
99209 TTTC TTTC -TTC -TTC TTTT TTTC TTTC TTTC TTT- TTCTT TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC TTTC TTTC
99255 TTGATC TTTC TTTC TT
1 TT--TC TTTC TTTC TT
99271 CATTCTTCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
3 8 0.16
4 36 0.72
5 2 0.04
6 4 0.08
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:99255 original size:38 final size:37
Alignment explanation
Indices: 99201--99287 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 37
99191 ACCCCATTTA
* * *
99201 CTTTTT-TTTTTCTTTCTTCTTCTTTTTTTCTTTCTTT
1 CTTTTTCTTTTTCTTTCTTCATCTTTCTTTC-TTCATT
*
99238 CTTTTTCTTTTTCTTTCTTGATCTTTCTTTCTTCATT
1 CTTTTTCTTTTTCTTTCTTCATCTTTCTTTCTTCATT
*
99275 CTTCTCTCTTTTT
1 CTT-TTTCTTTTT
99288 TTTTTCCTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 14 0.33
38 29 0.67
ACGTcount: A:0.02, C:0.22, G:0.01, T:0.75
Consensus pattern (37 bp):
CTTTTTCTTTTTCTTTCTTCATCTTTCTTTCTTCATT
Found at i:99262 original size:22 final size:19
Alignment explanation
Indices: 99201--99291 Score: 94
Period size: 21 Copynumber: 4.6 Consensus size: 19
99191 ACCCCATTTA
99201 CTTTTTTTTTTCTTTC-TT
1 CTTTTTTTTTTCTTTCTTT
*
99219 CTTCTTTTTTTCTTTCTTT
1 CTTTTTTTTTTCTTTCTTT
99238 CTTTTTCTTTTTCTTTCTTGAT
1 CTTTTT-TTTTTCTTTCTT--T
* * *
99260 CTTTCTTTCTTCATTCTTCT
1 CTTTTTTTTTTCTTTCTT-T
99280 CTCTTTTTTTTT
1 CT-TTTTTTTTT
99292 TCCTAGTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
18 15 0.25
19 7 0.12
20 15 0.25
21 17 0.28
22 6 0.10
ACGTcount: A:0.02, C:0.21, G:0.01, T:0.76
Consensus pattern (19 bp):
CTTTTTTTTTTCTTTCTTT
Found at i:99279 original size:14 final size:13
Alignment explanation
Indices: 99210--99284 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 13
99200 ACTTTTTTTT
99210 TTCTTTCTTCTTC
1 TTCTTTCTTCTTC
99223 TT-TTT-TTCTTTC
1 TTCTTTCTTC-TTC
*
99235 TTTCTTT-TTCTTT
1 -TTCTTTCTTCTTC
**
99248 TTCTTTCTTGATC
1 TTCTTTCTTCTTC
99261 TTTCTTTCTTCATTC
1 -TTCTTTCTTC-TTC
*
99276 TTCTCTCTT
1 TTCTTTCTT
99285 TTTTTTTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
11 3 0.06
12 12 0.24
13 9 0.18
14 23 0.47
15 2 0.04
ACGTcount: A:0.03, C:0.24, G:0.01, T:0.72
Consensus pattern (13 bp):
TTCTTTCTTCTTC
Found at i:99759 original size:13 final size:13
Alignment explanation
Indices: 99741--99778 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
99731 ACTGTTCATT
99741 TATATATTATATA
1 TATATATTATATA
99754 TATATATTATATA
1 TATATATTATATA
99767 TAT-TATTA-ATA
1 TATATATTATATA
99778 T
1 T
99779 TTTTGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
13 16 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATATATTATATA
Found at i:105987 original size:2 final size:2
Alignment explanation
Indices: 105980--106013 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
105970 AGCTTTTGTT
*
105980 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106014 AATGAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:107711 original size:16 final size:15
Alignment explanation
Indices: 107686--107728 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
107676 TTGTACGTTT
107686 AATTATTTAAAAAAC
1 AATTATTTAAAAAAC
107701 AATTAATTTAAAAAA-
1 AATT-ATTTAAAAAAC
*
107716 TATT-TTTAAAAAA
1 AATTATTTAAAAAA
107729 TTATATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 9 0.35
15 7 0.27
16 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTATTTAAAAAAC
Found at i:109703 original size:13 final size:13
Alignment explanation
Indices: 109685--109709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109675 CGAATTAATT
109685 TTTTATTTTTTTG
1 TTTTATTTTTTTG
109698 TTTTATTTTTTT
1 TTTTATTTTTTT
109710 ACTCAACCAT
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:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:111488 original size:16 final size:16
Alignment explanation
Indices: 111467--111523 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
111457 TCCAAAATCG
111467 AAAATGACTCAAACCC
1 AAAATGACTCAAACCC
* * *
111483 AAAATGACACGAATCC
1 AAAATGACTCAAACCC
* *
111499 AAGATGACTCAAACTC
1 AAAATGACTCAAACCC
111515 AAAATGACT
1 AAAATGACT
111524 AAAGCTCGAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.49, C:0.25, G:0.11, T:0.16
Consensus pattern (16 bp):
AAAATGACTCAAACCC
Found at i:111535 original size:16 final size:16
Alignment explanation
Indices: 111467--111543 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
111457 TCCAAAATCG
*
111467 AAAATGACTCAAACCC
1 AAAATGACTCAAACTC
* *
111483 AAAATGACACGAA-TCC
1 AAAATGACTCAAACT-C
*
111499 AAGATGACTCAAACTC
1 AAAATGACTCAAACTC
111515 AAAATGACT-AAAGCTC
1 AAAATGACTCAAA-CTC
*
111531 GAAATGACATCAA
1 AAAATGAC-TCAA
111544 CTTAAATTGG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
15 3 0.06
16 41 0.85
17 2 0.04
18 2 0.04
ACGTcount: A:0.49, C:0.23, G:0.12, T:0.16
Consensus pattern (16 bp):
AAAATGACTCAAACTC
Found at i:115257 original size:25 final size:25
Alignment explanation
Indices: 115229--115276 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
115219 GAAGAATCTA
*
115229 ATGTTTATTTTACTAAATATTTTGG
1 ATGTTCATTTTACTAAATATTTTGG
* *
115254 ATGTTCATTTTGCTAATTATTTT
1 ATGTTCATTTTACTAAATATTTT
115277 TGAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.06, G:0.10, T:0.58
Consensus pattern (25 bp):
ATGTTCATTTTACTAAATATTTTGG
Found at i:115306 original size:23 final size:22
Alignment explanation
Indices: 115260--115323 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 22
115250 TTGGATGTTC
* * *
115260 ATTTTGCTAATTATTTTTGAAT
1 ATTTTACTAACTATTTTTCAAT
*
115282 ATTTTATTAACTATTTTTCATAT
1 ATTTTACTAACTATTTTTCA-AT
*
115305 ATTTTACTAATTATTTTTC
1 ATTTTACTAACTATTTTTC
115324 GGATGTTCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (22 bp):
ATTTTACTAACTATTTTTCAAT
Found at i:116926 original size:16 final size:18
Alignment explanation
Indices: 116907--116943 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
116897 TAACATTTTA
116907 AAATTT-TAAAAAA-ATT
1 AAATTTATAAAAAATATT
116923 AAATTTACTAAAAAATATT
1 AAATTTA-TAAAAAATATT
116942 AA
1 AA
116944 CACAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
18 7 0.39
19 5 0.28
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTTATAAAAAATATT
Found at i:117517 original size:15 final size:15
Alignment explanation
Indices: 117483--117534 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
117473 TATTTACTTA
* *
117483 TTTTAAGATAATATTT
1 TTTTAAAAT-ATATAT
117499 TTTTAAAATATAATAT
1 TTTTAAAATAT-ATAT
117515 TTTTAAAATATATAT
1 TTTTAAAATATATAT
117530 TTTTA
1 TTTTA
117535 TTTATTTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 11 0.33
16 22 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTTAAAATATATAT
Found at i:117795 original size:29 final size:26
Alignment explanation
Indices: 117756--117825 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
117746 AAAATATATG
*
117756 TAAA-TAT-AATATTTATTTTAATTTA
1 TAAATTATAAATATTTATTTTAA-TAA
117781 TAAATTTATTAAATATTTA-TTTAATAA
1 TAAA-TTA-TAAATATTTATTTTAATAA
*
117808 TATATTATAAATATTTAT
1 TAAATTATAAATATTTAT
117826 AAATAATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 14 0.37
26 3 0.08
27 7 0.18
28 6 0.16
29 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAATTATAAATATTTATTTTAATAA
Found at i:117824 original size:21 final size:20
Alignment explanation
Indices: 117776--117837 Score: 56
Period size: 25 Copynumber: 2.9 Consensus size: 20
117766 ATTTATTTTA
117776 ATTTATAAAT--TTATTAAAT
1 ATTTATAAATAATTA-TAAAT
117795 ATTTATTTAATAATATATTATAAAT
1 ATTTA--T-A-AATA-ATTATAAAT
117820 ATTTATAAATAATTATAA
1 ATTTATAAATAATTATAA
117838 TTTTATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
19 5 0.14
20 7 0.19
21 5 0.14
22 2 0.06
23 4 0.11
25 10 0.28
26 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTATAAATAATTATAAAT
Found at i:117856 original size:14 final size:15
Alignment explanation
Indices: 117832--117865 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
117822 TTATAAATAA
117832 TTATAATTTTATATT
1 TTATAATTTTATATT
*
117847 TTATATTTTATATATT
1 TTATAATTT-TATATT
117863 TTA
1 TTA
117866 AATAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATAATTTTATATT
Found at i:118233 original size:20 final size:20
Alignment explanation
Indices: 118164--118261 Score: 69
Period size: 20 Copynumber: 5.0 Consensus size: 20
118154 AATGTTAAAA
* * *
118164 AAATAATTAATTTATAATAA
1 AAATTATTAATATATAATAT
* *
118184 AAATTA-TAATACATCAT-T
1 AAATTATTAATATATAATAT
* **
118202 AAATAAAAAATATATAATAT
1 AAATTATTAATATATAATAT
118222 AAATTATTAATATAT--TAT
1 AAATTATTAATATATAATAT
*
118240 AATTTATATAAATATATAATAT
1 AAATTAT-T-AATATATAATAT
118262 TTTAAATATA
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
18 14 0.24
19 17 0.29
20 25 0.42
22 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTATTAATATATAATAT
Found at i:118240 original size:18 final size:18
Alignment explanation
Indices: 118213--118278 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
118203 AATAAAAAAT
*
118213 ATATAATATAAATTATTA
1 ATATATTATAAATTATTA
*
118231 ATATATTATAATTTATATA
1 ATATATTATAAATTAT-TA
118250 A-ATA-TATAATATT-TTAA
1 ATATATTATAA-ATTATT-A
118267 ATATAATTATAA
1 ATAT-ATTATAA
118279 TATAAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.03
17 8 0.21
18 21 0.54
19 4 0.10
20 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATATTATAAATTATTA
Done.