Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold232
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: 2516017
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.33
Warning! 28201 characters in sequence are not A, C, G, or T
File 3 of 16
Found at i:324097 original size:1 final size:1
Alignment explanation
Indices: 324093--324152 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
324083 TCTTTTTTTT
* * * * * * *
324093 AAAAAAAAACAAAAAAACAAAAAAACAAAAAAAAACAAAAAGAAAAAAGAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
324153 GAATCTGCTT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:324108 original size:8 final size:8
Alignment explanation
Indices: 324095--324150 Score: 69
Period size: 8 Copynumber: 6.9 Consensus size: 8
324085 TTTTTTTTAA
324095 AAAAAAAC
1 AAAAAAAC
324103 AAAAAAAC
1 AAAAAAAC
324111 AAAAAAAC
1 AAAAAAAC
324119 AAAAAAA-
1 AAAAAAAC
*
324126 AACAAAAAG
1 AA-AAAAAC
*
324135 AAAAAAGAG
1 AAAAAA-AC
324144 AAAAAAA
1 AAAAAAA
324151 AAGAATCTGC
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.04
8 33 0.73
9 10 0.22
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:324122 original size:26 final size:25
Alignment explanation
Indices: 324093--324152 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
324083 TCTTTTTTTT
324093 AAAAAAAAACAAAAAAACAAAAAAAC
1 AAAAAAAAACAAAAAAA-AAAAAAAC
* * *
324119 AAAAAAAAACAAAAAGAAAAAAGAG
1 AAAAAAAAACAAAAAAAAAAAAAAC
324144 AAAAAAAAA
1 AAAAAAAAA
324153 GAATCTGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 15 0.48
26 16 0.52
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (25 bp):
AAAAAAAAACAAAAAAAAAAAAAAC
Found at i:325342 original size:61 final size:58
Alignment explanation
Indices: 325275--325412 Score: 154
Period size: 61 Copynumber: 2.3 Consensus size: 58
325265 TGGTGCCACC
* * *
325275 TTCAGTCCTCAAAGAGCAGGA-CATATTCTCCTTTT-AAAGCCTACACAAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCACGAGC-T-TTCT--TTTTCAAAGCCAACACAAGTTGATGGCAC-T
325336 TTCAGTCCTCAAAGAGCACGATGCTTTCTTTTTGCAAAGCCAACACAAGTTGATGGCACT
1 TTCAGTCCTCAAAGAGCACGA-GCTTTCTTTTT-CAAAGCCAACACAAGTTGATGGCACT
*
325396 TCCTAGTCCTCAAAGAG
1 TTC-AGTCCTCAAAGAG
325413 TAAGATGCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
59 4 0.06
60 3 0.04
61 59 0.87
62 1 0.01
63 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (58 bp):
TTCAGTCCTCAAAGAGCACGAGCTTTCTTTTTCAAAGCCAACACAAGTTGATGGCACT
Found at i:325566 original size:221 final size:220
Alignment explanation
Indices: 325304--325985 Score: 944
Period size: 221 Copynumber: 3.0 Consensus size: 220
325294 GACATATTCT
*
325304 CCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCACGATGCTTTCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCACGATGCTTTCTTTTT
*
325369 GCAAAGCCAACACAAGTTGATGGCACTTCCTAGTCCTCAAAGAGTAAGATGCTCTCTCCTTTTAC
66 GCAAAGCC-ACACAAGTTGATGGCACTTCCTAGTCCTCAAAGAGTAGGATGCTCTCTCCTTTTAC
325434 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTC
130 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGC-CTC
* *
325499 TCCTTTCA-CCCTTC-AAGTTGGTGGCA
194 TCCTTTAAGCCC-ACAAAGTTGGTGGCA
*
325525 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCACGATGCTTCCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCACGATGCTTTCTTTTT
325590 GCAAAGCCGACACAAGTTGATGGCACTTCCTAGTCCTCAAAGAGTAGGATGCTCTCTCCTTTTAC
66 GCAAAGCC-ACACAAGTTGATGGCACTTCCTAGTCCTCAAAGAGTAGGATGCTCTCTCCTTTTAC
*
325655 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCCT-T
130 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTCT
*
325719 --TTAAAGCCCACATAAGTTGGTGGCA
195 CCTTTAAGCCCACA-AAGTTGGTGGCA
** *
325744 CCTTCAGTCCTCAAAGAGCAGCTCACACAAAATGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAT
1 CCTT---T--T--AA-AGC--C-CACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCACGAT
* * * *
325809 GCTTTCTTTTTGCAAAGTCCACACAAATTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTC
55 GCTTTCTTTTTGCAAAG-CCACACAAGTTGATGGCACTTCCTAGTCCTCAAAGAGTAGGATGCTC
** * * * *
325874 TCTCCTTTCGCCTTTTTCTTTTAAAGCTCACATAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGC
119 TCTCCTTTTACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
325938 AGGACGCCTTCTCCTTTTAAAGCCCACATAAGTTGGTGGCA
184 AGGACGCC-TCTCC-TTT-AAGCCCACA-AAGTTGGTGGCA
*
325979 CTTTTTA
1 CCTTTTA
325986 GTCCTCAAAG
Statistics
Matches: 415, Mismatches: 25, Indels: 35
0.87 0.05 0.07
Matches are distributed among these distances:
217 4 0.01
218 3 0.01
219 17 0.04
220 2 0.00
221 186 0.45
222 1 0.00
224 1 0.00
226 2 0.00
227 3 0.01
228 1 0.00
229 22 0.05
230 142 0.34
231 3 0.01
232 1 0.00
234 2 0.00
235 25 0.06
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (220 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCACGATGCTTTCTTTTT
GCAAAGCCACACAAGTTGATGGCACTTCCTAGTCCTCAAAGAGTAGGATGCTCTCTCCTTTTACC
TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTCTC
CTTTAAGCCCACAAAGTTGGTGGCA
Found at i:325744 original size:55 final size:54
Alignment explanation
Indices: 325660--325763 Score: 190
Period size: 55 Copynumber: 1.9 Consensus size: 54
325650 TTTACCTTTT
325660 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAAGACG
*
325715 CCTTTTAAAGCCCACATAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCA
325764 GCTCACACAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 15 0.31
55 33 0.69
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (54 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAAGACG
Found at i:325862 original size:61 final size:59
Alignment explanation
Indices: 325767--326125 Score: 301
Period size: 61 Copynumber: 5.7 Consensus size: 59
325757 AAGAGCAGCT
** * * *
325767 CACACAAAATGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGTC
1 CACACAAGTTGGTGGCACTTCT-AGTCCTCAAAGAGCAGGACGCTTTCTTTTT-CAAAGCC
*
325828 CACACAAATTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCTTTTTCT
1 CACACAAGTTGGTGGCACTT-CTAGTCCTCAAAGAGCAGGACG-------CTTT---CTTTTTC-
*
325893 TTTAAAGCT
54 ---AAAGCC
* * *
325902 CACATAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCC
1 CACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACG-CTT-TCTTTTTCAAAGCC
* * *
325962 CACATAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCTTTCTTTTTCCAAAGCC
1 CACACAAGTTGGTGGCAC-TTCTAGTCCTCAAAGAGCAGGACGCTTTCTTTTT-CAAAGCC
* *
326023 CACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGGGCAGGACGCCTTT-TCTTTTCAAAGCC
1 CACACAAGTTGGTGGCA-CTTCTAGTCCTCAAAGAGCAGGACG-CTTTCT-TTTTCAAAGCC
* * *
326084 CACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCGGGAC
1 CACACAAGTTGGTGGCACTTCT-AGTCCTCAAAGAGCAGGAC
326126 ACACTTCCTT
Statistics
Matches: 249, Mismatches: 24, Indels: 50
0.77 0.07 0.15
Matches are distributed among these distances:
59 7 0.03
60 29 0.12
61 140 0.56
62 10 0.04
65 5 0.02
67 4 0.02
68 5 0.02
70 1 0.00
71 6 0.02
73 20 0.08
74 19 0.08
75 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (59 bp):
CACACAAGTTGGTGGCACTTCTAGTCCTCAAAGAGCAGGACGCTTTCTTTTTCAAAGCC
Found at i:326112 original size:122 final size:121
Alignment explanation
Indices: 325896--326120 Score: 344
Period size: 122 Copynumber: 1.9 Consensus size: 121
325886 TTTTTCTTTT
* *
325896 AAAGCTCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
* *
325961 CCACATAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCTTTCTTTTTCC
66 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTCC
* * * *
326017 AAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGGGCAGGACGCCTT-TTCTTTTCAAA
1 AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAA
*
326081 GCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGC
64 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGC
326121 GGGACACACT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
121 29 0.31
122 64 0.69
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTCC
Found at i:326229 original size:42 final size:42
Alignment explanation
Indices: 326141--326241 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
326131 TCCTTCCCTT
* *
326141 CTTTTCTCTTTTGTCCTCAAAGAGCAAGATGCACTTTATTTTC
1 CTTTT-TCTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCC
* * * *
326184 CTTTTTCTTTTATCCTCAGAGAGCAAGACGTA-TTTCGTTTCC
1 CTTTTTCTTTTGTCCTCAAAGAGCAAGACGCACTTT-ATTTCC
*
326226 CTTTTTCCTTTGTCCT
1 CTTTTTCTTTTGTCCT
326242 AAAAAAACGA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.06
42 41 0.84
43 5 0.10
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.47
Consensus pattern (42 bp):
CTTTTTCTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCC
Found at i:327023 original size:13 final size:13
Alignment explanation
Indices: 327005--327030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
326995 CATTATTCGA
327005 TGTATCGATACAT
1 TGTATCGATACAT
327018 TGTATCGATACAT
1 TGTATCGATACAT
327031 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:327471 original size:20 final size:20
Alignment explanation
Indices: 327446--327532 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
327436 TGTATGCATT
*
327446 GATACATTAAAAAATGTATC
1 GATACATTCAAAAATGTATC
*
327466 GATACATTCATAAATGTATC
1 GATACATTCAAAAATGTATC
* *
327486 -AGTACATTCATACATGTATC
1 GA-TACATTCAAAAATGTATC
* * * *
327506 GATATACTGAAAAATATATC
1 GATACATTCAAAAATGTATC
*
327526 AATACAT
1 GATACAT
327533 CTGGATAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 1 0.02
20 51 0.96
21 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (20 bp):
GATACATTCAAAAATGTATC
Found at i:328048 original size:13 final size:13
Alignment explanation
Indices: 328032--328057 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
328022 ATCTTTTATT
328032 TTTTATTTTTTTA
1 TTTTATTTTTTTA
328045 TTTTATTTTTTTA
1 TTTTATTTTTTTA
328058 ACCTCGTTGG
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:328627 original size:32 final size:30
Alignment explanation
Indices: 328591--328649 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 30
328581 GTTATCACAA
*
328591 ACTTGTGTAGACTTTAAAAAGGGTTGCCATTG
1 ACTTGTATAGACTTT-AAAAGGG-TGCCATTG
* *
328623 ACTTGTATGGGCTTTAAAAGGGTGCCA
1 ACTTGTATAGACTTTAAAAGGGTGCCA
328650 CTAACTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.21
31 7 0.29
32 12 0.50
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (30 bp):
ACTTGTATAGACTTTAAAAGGGTGCCATTG
Found at i:328835 original size:238 final size:236
Alignment explanation
Indices: 328408--328935 Score: 682
Period size: 238 Copynumber: 2.2 Consensus size: 236
328398 TAAGAATGGT
* * * * *
328408 TGCCACTAACTTGTGGGCTTTGAAAAGGTGCCATTGACTTGTTGGCTTTGAAAAGATACCACTTA
1 TGCCACTAACTTGTGGGCTTTG-GAAGGTGCCACTAACTTGTGGGCTTTGAAAAGATACCACTGA
* *
328473 CTTATGAGCTTTGAAAGGATTCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTATGGGC
65 CTTATGAGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTATGCGC
* * *
328538 TTTGAAAAAAAGATGCCACCAACTTGTGTGGGCTTTGAAGAGGGTTATCACAAACTTGTGTAGAC
130 TTTGAAAAAAAGATGCCACCAACTTGTGTGAGATTTGAAGAGGGTTACCACAAACTTGTGTAGAC
* * **
328603 TTTAAAAAGGGTTGCCATTGACTTGTATGGGCTTTAAAAGGG
195 TTTAAAAAGCGTTACCACCGACTTGTATGGGCTTTAAAAGGG
* * * * *
328645 TGCCACTAACTTATGGGGTTTGGAAGGAAGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTG
1 TGCCACTAACTTGTGGGCTTTGGAAGG-TGCCACTAACTTGTGGGCTTTGAAAA-GATACCACTG
* * * * * * * *
328710 ACTTGT-AGACTTTGGAAGGGTGCCATTGCCTTGTGGGCTTT-AAAAGGGTGCCACTGACTTCTG
64 ACTTATGAG-CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTAACTTATG
* * * *
328773 CGCTTTGAAAAAAGGATGCCACCAACTTGTGTGAGATTTGAAGAGGGTTGCCACAGACTTGTGTG
127 CGCTTTGAAAAAAAGATGCCACCAACTTGTGTGAGATTTGAAGAGGGTTACCACAAACTTGTGTA
* *
328838 GACTTTAGAAATCGTTACCACCGACTTGTATGGGCTTTAAAAGGG
192 GACTTTAAAAAGCGTTACCACCGACTTGTATGGGCTTTAAAAGGG
*
328883 TGCCACTAACTTGTGGGCTTTTGAAGGGTGCCACTAACTTGTGGGCTTTGAAA
1 TGCCACTAACTTGTGGGCTTTGGAA-GGTGCCACTAACTTGTGGGCTTTGAAA
328936 TAAAGATGCC
Statistics
Matches: 249, Mismatches: 37, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
236 4 0.02
237 48 0.19
238 195 0.78
239 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (236 bp):
TGCCACTAACTTGTGGGCTTTGGAAGGTGCCACTAACTTGTGGGCTTTGAAAAGATACCACTGAC
TTATGAGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTATGCGCT
TTGAAAAAAAGATGCCACCAACTTGTGTGAGATTTGAAGAGGGTTACCACAAACTTGTGTAGACT
TTAAAAAGCGTTACCACCGACTTGTATGGGCTTTAAAAGGG
Found at i:328902 original size:266 final size:264
Alignment explanation
Indices: 328409--328932 Score: 576
Period size: 266 Copynumber: 2.0 Consensus size: 264
328399 AAGAATGGTT
* * *
328409 GCCACTAACTTGTGGGCTTTGAAAAGGTGCCATTGACTTGTTGGCTTTGAAAAGATACCACTTAC
1 GCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTAGACTTTGAAAAGATACCACTTAC
* * * * * *
328474 TTATGAGCTTTGAAAGGATTCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTATGGGCT
66 TTATGAGCTTTAAAAGGATGCCACTGACTTCTGCGCTTTGAAAAGATGCCACCAACTTATGGGAT
* * * *
328539 TTGAAAAAAAGATGCCACCAACTTGTGTGGGCTTTGAAGAGGGTTATCACAAACTTGTGTAGACT
131 TTGAAAAAAAGATGCCACCAACTTGTGTGGACTTTGAAGAGCGTTACCACAAACTTGTATAGACT
* * *
328604 TTAAAAAGGGTTGCCATTGACTTGTATGGGCTTTAAAAGGGTGCCACTAACTTATGGGGTTTGGA
196 TTAAAAAGGGTTGCCACTAACTTG-ATGGGCTTTAAAAGGGTGCCACTAACTTATGGGCTTTGGA
328669 AGGAA
260 AGGAA
* * * *
328674 GCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTAGACTTTGGAAGGGTGCCA-TTG
1 GCCACTAACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTAGACTTTGAAAAGATACCACTT-
* * * * *
328738 CCTTGTGGGCTTTAAAAGGGTGCCACTGACTTCTGCGCTTTGAAAAAAGGATGCCACCAACTTGT
64 ACTTATGAGCTTTAAAAGGATGCCACTGACTTCTGCGCTTTG--AAAA-GATGCCACCAACTTAT
* ** * * **
328803 GTGAGATTTG-AAGAGGGTTGCCA-CAGACTTGTGTGGACTTTAGAA-ATCGTTACCACCGACTT
126 G-G-GATTTGAAAAAAAGATGCCACCA-ACTTGTGTGGACTTT-GAAGAGCGTTACCACAAACTT
* * ** *
328865 GTATGGGCTTT-AAAAGGG-TGCCACTAACTTG-TGGGCTTTTGAAGGGTGCCACTAACTTGTGG
187 GTATAGACTTTAAAAAGGGTTGCCACTAACTTGATGGGCTTTAAAAGGGTGCCACTAACTTATGG
328927 GCTTTG
252 GCTTTG
328933 AAATAAAGAT
Statistics
Matches: 213, Mismatches: 37, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
265 27 0.13
266 95 0.45
268 15 0.07
269 24 0.11
270 44 0.21
271 8 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (264 bp):
GCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTAGACTTTGAAAAGATACCACTTAC
TTATGAGCTTTAAAAGGATGCCACTGACTTCTGCGCTTTGAAAAGATGCCACCAACTTATGGGAT
TTGAAAAAAAGATGCCACCAACTTGTGTGGACTTTGAAGAGCGTTACCACAAACTTGTATAGACT
TTAAAAAGGGTTGCCACTAACTTGATGGGCTTTAAAAGGGTGCCACTAACTTATGGGCTTTGGAA
GGAA
Found at i:329012 original size:153 final size:153
Alignment explanation
Indices: 328690--329071 Score: 466
Period size: 153 Copynumber: 2.5 Consensus size: 153
328680 AACTTGTGGG
* * * * * **
328690 CTTT-GAAAAGGGTGCCACTGACTTGTA--GACTTTGGAAGGGTGCCATTGCCTTGTGGGCTTTA
1 CTTTAGAAAAGGTTGCCACCGACTTGTATGGGCTTTAGAAGGGTGCCACTAACTTGTGGGCTTTA
*
328752 AAAGGGTGCCACTGACTTCTGCGCTTTGAAAAAAGGATGCCACCAACTTGTGTGAGATTTGAAGA
66 AAAGGGTGCCACTAACTTCTGCGCTTTGAAAAAAGGATGCCACCAACTTGTGTGAGATTTGAAGA
* *
328817 GGGTTGCCACAGACTTGTGTGGA
131 GGGTTGCCACAGACTTGTATAGA
** * * *
328840 CTTTAGAAATCGTTACCACCGACTTGTATGGGCTTTAAAAGGGTGCCACTAACTTGTGGGCTTTT
1 CTTTAGAAAAGGTTGCCACCGACTTGTATGGGCTTTAGAAGGGTGCCACTAACTTGTGGGCTTTA
* * * * * *
328905 GAAGGGTGCCACTAACTTGTGGGCTTTGAAATAAA-GATGCCACCAGCTTGTGTGGGCTTTGAAG
66 AAAGGGTGCCACTAACTTCTGCGCTTTGAAA-AAAGGATGCCACCAACTTGTGTGAGATTTGAAG
* **
328969 GGGGTTGCCAGTGACTTGTATAGA
130 AGGGTTGCCACAGACTTGTATAGA
* * *
328993 TTTTAGAAAAGGTTGCCACCGACTTGTGTGGGCTTTGGAGGAGGGTGCCACTAACTTGTGGGCTT
1 CTTTAGAAAAGGTTGCCACCGACTTGTATGGGCTTT--AGAAGGGTGCCACTAACTTGTGGGCTT
329058 TAAAAGGGTGCCAC
64 TAAAAGGGTGCCAC
329072 AGAATTGTGG
Statistics
Matches: 193, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
150 4 0.02
151 18 0.09
153 131 0.68
154 3 0.02
155 37 0.19
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (153 bp):
CTTTAGAAAAGGTTGCCACCGACTTGTATGGGCTTTAGAAGGGTGCCACTAACTTGTGGGCTTTA
AAAGGGTGCCACTAACTTCTGCGCTTTGAAAAAAGGATGCCACCAACTTGTGTGAGATTTGAAGA
GGGTTGCCACAGACTTGTATAGA
Found at i:329071 original size:28 final size:29
Alignment explanation
Indices: 328408--329071 Score: 355
Period size: 28 Copynumber: 22.2 Consensus size: 29
328398 TAAGAATGGT
328408 TGCCACTAACTTGTGGGCTTTGAAAA-GG
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
* * * *
328436 TGCCATTGACTTGTTGGCTTTGAAAA-GA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
* * * * *
328464 TACCACTTACTTATGAGCTTTG-AAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
* * *
328492 TTCCACTGACTTGTGGGCTTTGAAAA-GA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
* * *
328520 TGCCACTAACTTATGGGCTTTGAAAAAAAGA
1 TGCCACTAACTTGTGGGCTTTG--AAAAGGG
* *
328551 TGCCACCAACTTGTGTGGGCTTTGAAGAGGG
1 TGCCACTAAC-T-TGTGGGCTTTGAAAAGGG
** * * *
328582 TTATCACAAACTTGTGTAGACTTTAAAAAGGG
1 -TGCCACTAACTTGTG--GGCTTTGAAAAGGG
* *
328614 TTGCCATTGACTTGTATGGGCTTT-AAAAGGG
1 -TGCCACTAACTTG--TGGGCTTTGAAAAGGG
* * * *
328645 TGCCACTAACTTATGGGGTTTG-GAAGGA
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
*
328673 AGCCACTAACTTGTGGGCTTTGAAAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
* * * *
328702 TGCCACTGACTTGTAGACTTTG-GAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
* **
328730 TGCCATTGCCTTGTGGGCTTT-AAAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
* * * *
328758 TGCCACTGACTTCTGCGCTTTGAAAAAAGGA
1 TGCCACTAACTTGTGGGCTTTG--AAAAGGG
* * *
328789 TGCCACCAACTTGTGTGAGATTTGAAGAGGG
1 TGCCACTAACTTGTG-G-GCTTTGAAAAGGG
** *
328820 TTGCCAC-AGACTTGTGTGGACTTTAGAAATCGT
1 -TGCCACTA-ACTTGTG-GG-CTTT-GAAAAGGG
* **
328853 TACCACCGACTTGTATGGGCTTT-AAAAGGG
1 TGCCACTAACTTG--TGGGCTTTGAAAAGGG
328883 TGCCACTAACTTGTGGGCTTTTG--AAGGG
1 TGCCACTAACTTGTGGGC-TTTGAAAAGGG
* *
328911 TGCCACTAACTTGTGGGCTTTGAAATAAAGA
1 TGCCACTAACTTGTGGGCTTTG-AA-AAGGG
* * **
328942 TGCCACCAGCTTGTGTGGGCTTTGAAGGGGG
1 TGCCACTAAC-T-TGTGGGCTTTGAAAAGGG
* * * ** *
328973 TTGCCAGTGACTTGTATAGATTTTAGAAAAGGT
1 -TGCCACTAACTTG--TGGGCTTT-GAAAAGGG
** **
329006 TGCCACCGACTTGTGTGGGCTTTGGAGGAGGG
1 TGCCACTAAC-T-TGTGGGCTTT-GAAAAGGG
329038 TGCCACTAACTTGTGGGCTTT-AAAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAAGGG
329066 TGCCAC
1 TGCCAC
329072 AGAATTGTGG
Statistics
Matches: 484, Mismatches: 111, Indels: 82
0.71 0.16 0.12
Matches are distributed among these distances:
27 7 0.01
28 194 0.40
29 28 0.06
30 44 0.09
31 62 0.13
32 105 0.22
33 38 0.08
34 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (29 bp):
TGCCACTAACTTGTGGGCTTTGAAAAGGG
Found at i:329095 original size:27 final size:27
Alignment explanation
Indices: 329048--329177 Score: 98
Period size: 27 Copynumber: 4.6 Consensus size: 27
329038 TGCCACTAAC
* *
329048 TTGTGGGCTTTAAAAGGGTGCCACAGAA
1 TTGTGGAC-TTAAAAAGGTGCCACAGAA
* ** *
329076 TTGTGGACTTAAAAAAGTGCCATGGAG
1 TTGTGGACTTAAAAAGGTGCCACAGAA
* *
329103 TTGTGGACTTAAAAAGGGGTGGTGCCACATAG
1 TTGTGGACTTAAAAA-----GGTGCCACAGAA
* * *
329135 TTGTGGGCTTAAAAGGGTGCCACGGAA
1 TTGTGGACTTAAAAAGGTGCCACAGAA
*
329162 TTGTGGACTTTAAAAG
1 TTGTGGACTTAAAAAG
329178 AAAAAAGTTG
Statistics
Matches: 79, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
27 51 0.65
28 7 0.09
32 21 0.27
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (27 bp):
TTGTGGACTTAAAAAGGTGCCACAGAA
Found at i:329146 original size:59 final size:59
Alignment explanation
Indices: 329064--329177 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
329054 GCTTTAAAAG
* *
329064 GGTGCCACAGAATTGTGGACTTAAAAAAGTGCCATGGAGTTGTGGACTTAAAAAGGGGT
1 GGTGCCACAGAATTGTGGACTTAAAAAAGTGCCACGGAATTGTGGACTTAAAAAGGGGT
* * * ** *
329123 GGTGCCACATAGTTGTGGGCTTAAAAGGGTGCCACGGAATTGTGGACTTTAAAAG
1 GGTGCCACAGAATTGTGGACTTAAAAAAGTGCCACGGAATTGTGGACTTAAAAAG
329178 AAAAAAGTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (59 bp):
GGTGCCACAGAATTGTGGACTTAAAAAAGTGCCACGGAATTGTGGACTTAAAAAGGGGT
Found at i:337595 original size:40 final size:40
Alignment explanation
Indices: 337513--337653 Score: 230
Period size: 40 Copynumber: 3.5 Consensus size: 40
337503 ATTAAATAGA
* * *
337513 ATGTATCGATATATTGAAAAAT-ATATCGATACGTTATAC
1 ATGTATCGATACATTGAAAAATAATATTGATACATTATAC
* *
337552 ATGTGTCGATACTTTGAAAAATAATATTGATACATTATAC
1 ATGTATCGATACATTGAAAAATAATATTGATACATTATAC
337592 ATGTATCGATACATTGAAAAATAATATTGATACATTATAC
1 ATGTATCGATACATTGAAAAATAATATTGATACATTATAC
337632 ATGTATCGATACATTGAAAAAT
1 ATGTATCGATACATTGAAAAAT
337654 GTATCAATAC
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 19 0.20
40 75 0.80
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (40 bp):
ATGTATCGATACATTGAAAAATAATATTGATACATTATAC
Found at i:339564 original size:3 final size:3
Alignment explanation
Indices: 339556--339589 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
339546 ATCTAAGTAA
339556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
339590 TAACAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:340267 original size:21 final size:20
Alignment explanation
Indices: 340242--340307 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
340232 TTTGATTATT
*
340242 AAAAATTGCATTTTTTCATCC
1 AAAAA-TGCATTATTTCATCC
*
340263 AAAAAATGCATTCTTTCATCC
1 -AAAAATGCATTATTTCATCC
* *
340284 AACTAATGCATCATTTCATCC
1 AA-AAATGCATTATTTCATCC
340305 AAA
1 AAA
340308 GATACTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 2 0.05
21 31 0.82
22 5 0.13
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (20 bp):
AAAAATGCATTATTTCATCC
Found at i:340826 original size:7 final size:7
Alignment explanation
Indices: 340814--340844 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
340804 AGTTTAAATT
340814 AAAAAAG
1 AAAAAAG
340821 AAAAAAG
1 AAAAAAG
340828 AAAAAAG
1 AAAAAAG
340835 AAAAAA-
1 AAAAAAG
340841 AAAA
1 AAAA
340845 CTATGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:341598 original size:9 final size:9
Alignment explanation
Indices: 341568--341592 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
341558 AACAGAATTT
341568 AATATTTAA
1 AATATTTAA
341577 AATATTTAA
1 AATATTTAA
341586 AATATTT
1 AATATTT
341593 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AATATTTAA
Found at i:342285 original size:110 final size:110
Alignment explanation
Indices: 342133--342399 Score: 273
Period size: 110 Copynumber: 2.4 Consensus size: 110
342123 ACGAATGTCT
* * ** * **
342133 TTTATATGAGAT-ATTTCATTTTTCGCATAAATCACGTGGTATTCGAGCAT-C-AAGGGATTG-T
1 TTTATATAAGATAATTT-ATTTTTCGCATAAATTATATAGTATTCGAGCATACTAAAAGATTGAT
* *
342194 CCACGAAATAAGTCATTATTTATAGTCAAAAAATAGTG-CCCAA-ACGCC
65 CC-CGAAATAAGTCATTA--TATAGTCAAAAAATAGCGTACCAACAC-CC
342242 TTTCATAT-AGAATAATTTATTTTTCGCATAAATTATATAGTATTC-AG-ATACTAAAAGATTGA
1 TTT-ATATAAG-ATAATTTATTTTTCGCATAAATTATATAGTATTCGAGCATACTAAAAGATTGA
* * *
342304 TCCCGAAATAAGTCATTATATAGTCATAAAATGGCGTACGAACACCC
64 TCCCGAAATAAGTCATTATATAGTCAAAAAATAGCGTACCAACACCC
* * *
342351 TTTTTATAAGATAATTCATTATTCGCATAAATTATATAGTATTCGAGCA
1 TTTATATAAGATAATTTATTTTTCGCATAAATTATATAGTATTCGAGCA
342400 CCTGAAATAG
Statistics
Matches: 133, Mismatches: 14, Indels: 21
0.79 0.08 0.12
Matches are distributed among these distances:
108 52 0.39
109 20 0.15
110 54 0.41
111 7 0.05
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (110 bp):
TTTATATAAGATAATTTATTTTTCGCATAAATTATATAGTATTCGAGCATACTAAAAGATTGATC
CCGAAATAAGTCATTATATAGTCAAAAAATAGCGTACCAACACCC
Found at i:342414 original size:95 final size:96
Alignment explanation
Indices: 342308--342490 Score: 242
Period size: 97 Copynumber: 1.9 Consensus size: 96
342298 GATTGATCCC
* * *
342308 GAAATAAGTCATTA-TATAGTCATAAAATGGCGTACGAACACCCTTTTTATAAGATAATTCATTA
1 GAAATAAGTCATTATTAGAGTCATAAAATGCCGTACGAACACCCTTTATATAAGATAATTCATTA
*
342372 TTCGCATAAATTATATAGTATTCGAGCACCT
66 TTCGCATAAATTACATAGTATTCGAGCACCT
* * * * * * *
342403 GAAATAGGTCATTATTTAGAGTTATAAAGTGCCGTACGAACGCTCTTTATATAGGATAATTTATT
1 GAAATAAGTCATTA-TTAGAGTCATAAAATGCCGTACGAACACCCTTTATATAAGATAATTCATT
*
342468 TTTCGCATAAATTACATAGTATT
65 ATTCGCATAAATTACATAGTATT
342491 TAGGTACCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 13 0.18
97 61 0.82
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (96 bp):
GAAATAAGTCATTATTAGAGTCATAAAATGCCGTACGAACACCCTTTATATAAGATAATTCATTA
TTCGCATAAATTACATAGTATTCGAGCACCT
Found at i:342610 original size:110 final size:110
Alignment explanation
Indices: 342404--342611 Score: 299
Period size: 110 Copynumber: 1.9 Consensus size: 110
342394 CGAGCACCTG
* * *
342404 AAATAGGTCATTATTTAGAGTTATAAAGTGCCGTACGAACGCTCTTTATATAGGATAATTTATTT
1 AAATAGGTCATTATTTAGAGTTATAAAGTGCCATACGAACGCTCTTTATATAGAATAATTGATTT
* * * *
342469 TTCGCATAAATTACATAGTATTTAGGTACCAAGGGATTGGTCCCA
66 TTCACATAAATTACATAGTACTCAGGCACCAAGGGATTGGTCCCA
* * * *
342514 AAATAGGTCATTGTTTAGAGTTATAAAGTGGCATACGAATGCTTTTTATATAGAATAATTGATTT
1 AAATAGGTCATTATTTAGAGTTATAAAGTGCCATACGAACGCTCTTTATATAGAATAATTGATTT
* *
342579 TTCACGTAAATTATATAGTACTCAGGCACCAAG
66 TTCACATAAATTACATAGTACTCAGGCACCAAG
342612 AGGTTGACTT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
110 85 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (110 bp):
AAATAGGTCATTATTTAGAGTTATAAAGTGCCATACGAACGCTCTTTATATAGAATAATTGATTT
TTCACATAAATTACATAGTACTCAGGCACCAAGGGATTGGTCCCA
Found at i:343731 original size:13 final size:13
Alignment explanation
Indices: 343713--343739 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
343703 TAGCCTTACA
343713 GGGATAGTCGGAC
1 GGGATAGTCGGAC
343726 GGGATAGTCGGAC
1 GGGATAGTCGGAC
343739 G
1 G
343740 AGCGATTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.48, T:0.15
Consensus pattern (13 bp):
GGGATAGTCGGAC
Found at i:344758 original size:729 final size:730
Alignment explanation
Indices: 343360--344819 Score: 2769
Period size: 729 Copynumber: 2.0 Consensus size: 730
343350 AGAATACCTT
*
343360 TTTAATATTATCATTTTAAAAAAATAAAATTCTTACGATATTCCAAATAATCGGCGTCGTAGGAA
1 TTTAATATTATCATTTAAAAAAAATAAAATTCTTACGATATTCCAAATAATCGGCGTCGTAGGAA
343425 AATTTTTACGAGATTGTATACAAATACCAAAGAATCAAAAATCACAAAAACCAAGACTAAGGATA
66 AATTTTTACGAGATTGTATACAAATACCAAAGAATCAAAAATCACAAAAACCAAGACTAAGGATA
*
343490 AAACATGGTTAGTAAGACGTCATGGGGTGCTAATCTTTCCCTATGCGTAATTGACTCCCGGACCT
131 AAACATGGTTAGTAAGACGTCATGGGGTGCTAATCTTTCCCTATGCGTAATTGACTCCCAGACCT
*
343555 AATTCTATTTTTCTCTAGTTTTGACACAGACTTTAAAATCAATCTTTTTAAAATAATTTAAAAAT
196 AATTCTATTTTTCTCTAGTTTTGACACAGACTTTAAAACCAATCTTTTTAAAATAATTTAAAAAT
343620 TTTAAAGGGATCGATTTTAATAGGTGTCCAACAGACCTAACTCAAAACGATCAATAGTAATTCTA
261 TTTAAAGGGATCGATTTTAATAGGTGTCCAACAGACCTAACTCAAAACGATCAATAGTAATTCTA
*
343685 TTTTTTTTTGTCTTGCAATAGCCTTACAGGGATAGTCGGACGGGATAGTCGGACGAGCGATTCAC
326 TTTTTTTTTGTCTTGCAATAGCCTTACAGGGATAGTCGGACGGGATAGTCAGACGAGCGATTCAC
343750 TCCAAGAACTCTACCTACTATAAAGTGACCATAAAAAACCTACTAAATTTAATGTACCAAGATTC
391 TCCAAGAACTCTACCTACTATAAAGTGACCATAAAAAACCTACTAAATTTAATGTACCAAGATTC
343815 ACATTTTGGCACGTTATGATAAATAATATATAAAACATTTTTTATACATTTGCAGTGTTATATTT
456 ACATTTTGGCACGTTATGATAAATAATATATAAAACATTTTTTATACATTTGCAGTGTTATATTT
343880 TCACAATCTTCCTCATTTATTTAGACTCATGTGCTATTGATAAAGTTCTTAAGGGGGTTTAGTTA
521 TCACAATCTTCCTCATTTATTTAGACTCATGTGCTATTGATAAAGTTCTTAAGGGGGTTTAGTTA
* *
343945 ATTAACACGTGTTCATTGAATTATTATAAACAAAGAGAAAAAGTATTATTACTCTCTAAATTTAA
586 ATTAACACGTATTCATTGAATTATTATAAACAAAGAGAAAAAGTATTATTACTCCCTAAATTTAA
344010 AAATAATTTTACTTATCTCTTAAAGTTTGAATAATACCCTCTTTCCCCTTAAGATTTAATACAAA
651 AAATAATTTTACTTATCTCTTAAAGTTTGAATAATACCCTCTTTCCCCTTAAGATTTAATACAAA
344075 ATACACTTAACCCTC
716 ATACACTTAACCCTC
344090 TTTAATATTATCATTTAAAAAAAATAAAATTCTTACGATATTCCAAATAATCGGCGTCGTAGGAA
1 TTTAATATTATCATTTAAAAAAAATAAAATTCTTACGATATTCCAAATAATCGGCGTCGTAGGAA
*
344155 AATTTTTACGAGATTGTGTACAAATACCAAAGAATCAAAAATCACAAAAACCAAGACTAAGGATA
66 AATTTTTACGAGATTGTATACAAATACCAAAGAATCAAAAATCACAAAAACCAAGACTAAGGATA
* **
344220 AAACATGGTTAGTAAGACGTCATGGGGTGCTAATTTTTCCCTATGCGTAATTGACTCCCAGATTT
131 AAACATGGTTAGTAAGACGTCATGGGGTGCTAATCTTTCCCTATGCGTAATTGACTCCCAGACCT
*
344285 AATTCTATTTTTCTCTAGTTTTGACACAGATTTTAAAACCAATCTTTTTAAAATAATTTAAAAAT
196 AATTCTATTTTTCTCTAGTTTTGACACAGACTTTAAAACCAATCTTTTTAAAATAATTTAAAAAT
* *
344350 TTTAAAGGGATCGATTTTAATAGGTGTCTAACATACCTAACTCAAAACGATCAATAGTAATTCTA
261 TTTAAAGGGATCGATTTTAATAGGTGTCCAACAGACCTAACTCAAAACGATCAATAGTAATTCTA
344415 -TTTTTTTTGTCTTGCAATAGCCTTACAGGGATAGTCGGACGGGATAGTCAGACGAGCGATTCAC
326 TTTTTTTTTGTCTTGCAATAGCCTTACAGGGATAGTCGGACGGGATAGTCAGACGAGCGATTCAC
* *
344479 TCCAAGAACTTTGCCTACTATAAAGTGACCATAAAAAACCTACTAAATTTAATGTACCAAGATTC
391 TCCAAGAACTCTACCTACTATAAAGTGACCATAAAAAACCTACTAAATTTAATGTACCAAGATTC
344544 ACATTTTGGCACGTTATGATAAATAATATATAAAACATTTTTTATACATTTGCAGTGTTATATTT
456 ACATTTTGGCACGTTATGATAAATAATATATAAAACATTTTTTATACATTTGCAGTGTTATATTT
344609 TCACAATCTTCCTCATTTATTTAGACTCATGTGCTATTGATAAAGTTCTTAAGGGGGTTTAGTTA
521 TCACAATCTTCCTCATTTATTTAGACTCATGTGCTATTGATAAAGTTCTTAAGGGGGTTTAGTTA
344674 ATTAACACGTATTCATTGAATTATTATAAACAAAGAGAAAAAGTATTATTACTCCCTAAATTTAA
586 ATTAACACGTATTCATTGAATTATTATAAACAAAGAGAAAAAGTATTATTACTCCCTAAATTTAA
*
344739 AAATAATTTTACTTATCTCTTAAAGTTTGGATAATACCCTCTTTCCCCTTAAGATTTAATACAAA
651 AAATAATTTTACTTATCTCTTAAAGTTTGAATAATACCCTCTTTCCCCTTAAGATTTAATACAAA
344804 ATACACTTAACCCTC
716 ATACACTTAACCCTC
344819 T
1 T
344820 AAAGTATTAT
Statistics
Matches: 714, Mismatches: 16, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
729 399 0.56
730 315 0.44
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (730 bp):
TTTAATATTATCATTTAAAAAAAATAAAATTCTTACGATATTCCAAATAATCGGCGTCGTAGGAA
AATTTTTACGAGATTGTATACAAATACCAAAGAATCAAAAATCACAAAAACCAAGACTAAGGATA
AAACATGGTTAGTAAGACGTCATGGGGTGCTAATCTTTCCCTATGCGTAATTGACTCCCAGACCT
AATTCTATTTTTCTCTAGTTTTGACACAGACTTTAAAACCAATCTTTTTAAAATAATTTAAAAAT
TTTAAAGGGATCGATTTTAATAGGTGTCCAACAGACCTAACTCAAAACGATCAATAGTAATTCTA
TTTTTTTTTGTCTTGCAATAGCCTTACAGGGATAGTCGGACGGGATAGTCAGACGAGCGATTCAC
TCCAAGAACTCTACCTACTATAAAGTGACCATAAAAAACCTACTAAATTTAATGTACCAAGATTC
ACATTTTGGCACGTTATGATAAATAATATATAAAACATTTTTTATACATTTGCAGTGTTATATTT
TCACAATCTTCCTCATTTATTTAGACTCATGTGCTATTGATAAAGTTCTTAAGGGGGTTTAGTTA
ATTAACACGTATTCATTGAATTATTATAAACAAAGAGAAAAAGTATTATTACTCCCTAAATTTAA
AAATAATTTTACTTATCTCTTAAAGTTTGAATAATACCCTCTTTCCCCTTAAGATTTAATACAAA
ATACACTTAACCCTC
Found at i:346778 original size:16 final size:15
Alignment explanation
Indices: 346757--346788 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
346747 CCACGCTAAG
346757 AGAAGAAGAAGCAAAA
1 AGAAGAAGAAG-AAAA
346773 AGAAGAAGAAGAAAA
1 AGAAGAAGAAGAAAA
346788 A
1 A
346789 CAATAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAAGAAAA
Found at i:351190 original size:19 final size:18
Alignment explanation
Indices: 351166--351226 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
351156 CGATACATTA
351166 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
351185 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
*
351198 TATCAATACAACACTTATG
1 TATCGATACAA-ACTTATG
351217 TATCGATACA
1 TATCGATACA
351227 GTTATACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
16 2 0.06
18 1 0.03
19 20 0.59
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:351207 original size:32 final size:32
Alignment explanation
Indices: 351156--351232 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 32
351146 AGCTTCGTAA
*
351156 CGATACATTATATCGATACAAAACTTATGTAT
1 CGATACATTATATCAATACAAAACTTATGTAT
* *
351188 CGATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTATATCAATACAAAACTTATGTAT
351220 CGATACAGTTATA
1 CGATACA-TTATA
351233 CATTGTATCG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 36 0.90
33 4 0.10
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (32 bp):
CGATACATTATATCAATACAAAACTTATGTAT
Found at i:354668 original size:27 final size:28
Alignment explanation
Indices: 354630--354692 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
354620 TTTATATATT
*
354630 TTTTAAAA-TTTTAATTATAAAATAAAA
1 TTTTAAAATTTTTAATAATAAAATAAAA
* * *
354657 TTTTAATATTTTTTAATAATAATATAAAT
1 TTTTAA-AATTTTTAATAATAAAATAAAA
354686 TTTTAAA
1 TTTTAAA
354693 TTAATTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 6 0.20
28 2 0.07
29 22 0.73
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTAAAATTTTTAATAATAAAATAAAA
Found at i:354697 original size:18 final size:19
Alignment explanation
Indices: 354666--354705 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
354656 ATTTTAATAT
354666 TTTTTAATAATAATATAAA
1 TTTTTAATAATAATATAAA
* *
354685 TTTTTAA-ATTAATTTAAA
1 TTTTTAATAATAATATAAA
354703 TTT
1 TTT
354706 AATTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTAATAATAATATAAA
Found at i:354700 original size:29 final size:29
Alignment explanation
Indices: 354639--354701 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
354629 TTTTTAAAAT
* *
354639 TTTAATTATAAAATAAAATTTTAATATTT
1 TTTAATAATAAAATAAAATTTTAATATTA
* *
354668 TTTAATAATAATATAAATTTTTAA-ATTAA
1 TTTAATAATAAAATAAAATTTTAATATT-A
354697 TTTAA
1 TTTAA
354702 ATTTAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTAATAATAAAATAAAATTTTAATATTA
Found at i:354702 original size:10 final size:11
Alignment explanation
Indices: 354687--354725 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
354677 AATATAAATT
354687 TTTAAA-TTAA
1 TTTAAATTTAA
354697 TTTAAATTTAA
1 TTTAAATTTAA
354708 -TTAAATTTAAA
1 TTTAAATTT-AA
354719 TTTAAAT
1 TTTAAAT
354726 AAAATAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 14 0.54
11 6 0.23
12 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:354706 original size:6 final size:6
Alignment explanation
Indices: 354687--354725 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
354677 AATATAAATT
354687 TTTAAA -TT-AA TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
354726 AAAATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
4 4 0.14
5 8 0.28
6 17 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:354714 original size:16 final size:16
Alignment explanation
Indices: 354691--354728 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
354681 TAAATTTTTA
354691 AATT-AATTTAAATTT
1 AATTAAATTTAAATTT
354706 AATTAAATTTAAATTT
1 AATTAAATTTAAATTT
*
354722 AAATAAA
1 AATTAAA
354729 ATAATTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAAATTTAAATTT
Found at i:357019 original size:25 final size:25
Alignment explanation
Indices: 356991--357040 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
356981 TGGCAGGAGA
356991 AAGTTTTTGAGATATTGATCTCTTT
1 AAGTTTTTGAGATATTGATCTCTTT
357016 AAGTTTTTGAGATATTGATCTCTTT
1 AAGTTTTTGAGATATTGATCTCTTT
357041 CTTTTTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (25 bp):
AAGTTTTTGAGATATTGATCTCTTT
Found at i:359794 original size:26 final size:25
Alignment explanation
Indices: 359742--359794 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
359732 TTTGAACTTC
* **
359742 AGCTCGCTTGACAATAATCGATTTA
1 AGCTCGCTTGACAATAATCCAACTA
*
359767 AGCTCGCCTTGACAATGATCCAACTA
1 AGCTCG-CTTGACAATAATCCAACTA
359793 AG
1 AG
359795 GATCTTGCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (25 bp):
AGCTCGCTTGACAATAATCCAACTA
Found at i:360384 original size:16 final size:16
Alignment explanation
Indices: 360365--360416 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
360355 ACAATATAAA
360365 TATATAATTTAAAATT
1 TATATAATTTAAAATT
* *
360381 TATATAATATAAATTAT
1 TATATAATTTAAAAT-T
360398 TA-AT-ATATTAAAATT
1 TATATAAT-TTAAAATT
360413 TATA
1 TATA
360417 AAAATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
15 5 0.17
16 21 0.72
17 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATATAATTTAAAATT
Found at i:360415 original size:18 final size:17
Alignment explanation
Indices: 360374--360428 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
360364 ATATATAATT
*
360374 TAAAATTTAT-ATAATA
1 TAAAATTTATAAAAATA
* *
360390 T-AAA-TTATTAATATA
1 TAAAATTTATAAAAATA
360405 TTAAAATTTATAAAAATA
1 -TAAAATTTATAAAAATA
360423 TAAAAT
1 TAAAAT
360429 ATTTTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 2 0.06
17 9 0.29
18 9 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAAATTTATAAAAATA
Found at i:360446 original size:62 final size:66
Alignment explanation
Indices: 360303--360446 Score: 146
Period size: 62 Copynumber: 2.2 Consensus size: 66
360293 AATCTAATAA
360303 ATTTAAATATAATTATATAAATATGATAATTATAAAATTATTAAAATACAACACAATATAAATAT
1 ATTTAAATAT-ATTATATAAATATGATAATTATAAAATTATTAAAATACAACACAATATAAATAT
360368 AT
65 AT
* *
360370 AATTTAAA-AT-TTATAT-AATAT-A-AATTAT-TAATATATTAAAATTTATAA-A-AATATAAA
1 -ATTTAAATATATTATATAAATATGATAATTATAAAAT-TATTAAAA--TACAACACAATATAAA
360427 -ATAT
62 TATAT
360431 -TTTAAATATGATTATA
1 ATTTAAATAT-ATTATA
360447 ACATGAAATT
Statistics
Matches: 68, Mismatches: 2, Indels: 18
0.77 0.02 0.20
Matches are distributed among these distances:
59 6 0.09
60 2 0.03
61 7 0.10
62 27 0.40
63 2 0.03
64 9 0.13
65 6 0.09
67 2 0.03
68 7 0.10
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (66 bp):
ATTTAAATATATTATATAAATATGATAATTATAAAATTATTAAAATACAACACAATATAAATATA
T
Found at i:360772 original size:13 final size:14
Alignment explanation
Indices: 360756--360788 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
360746 CATTTAACAT
360756 TTTTTATTA-ATAA
1 TTTTTATTATATAA
360769 TTTTTATTATATAA
1 TTTTTATTATATAA
*
360783 ATTTTA
1 TTTTTA
360789 ACATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTATTATATAA
Found at i:361398 original size:14 final size:13
Alignment explanation
Indices: 361378--361415 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
361368 TTAATTTTAA
361378 TTTTTTGTTTCTC
1 TTTTTTGTTTCTC
361391 TCTTTTTGTTT-TC
1 T-TTTTTGTTTCTC
361404 TTTTTT-TTTCTC
1 TTTTTTGTTTCTC
361416 ATGTTATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 3 0.13
12 7 0.30
13 4 0.17
14 9 0.39
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (13 bp):
TTTTTTGTTTCTC
Found at i:361817 original size:19 final size:19
Alignment explanation
Indices: 361782--361818 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
361772 AATTAAATTT
* *
361782 AAAAATAAATATTTTTAAA
1 AAAAATAAAAATATTTAAA
361801 AAAAATAAAAATATTTAA
1 AAAAATAAAAATATTTAA
361819 CATTCATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATAAAAATATTTAAA
Found at i:363073 original size:20 final size:21
Alignment explanation
Indices: 363028--363080 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
363018 CTGCCAGTTT
* *
363028 TATGTATCGATA-TAATTCAG
1 TATGTATCGATACTAAGTCAA
*
363048 TGTGTATCGATACTAAGT-AA
1 TATGTATCGATACTAAGTCAA
363068 TATGTATCGATAC
1 TATGTATCGATAC
363081 ATATGGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (21 bp):
TATGTATCGATACTAAGTCAA
Found at i:364235 original size:314 final size:316
Alignment explanation
Indices: 363311--364236 Score: 1603
Period size: 315 Copynumber: 2.9 Consensus size: 316
363301 TTATTACGAT
* * * * * *
363311 TTTTCAAAGTATTTTTC-AATTTATTCATACTTTGTTATAACAAAACCAAGATCCTAACAATAAG
1 TTTTCAAAGTATTTTTCGATTTTATTCATACTTTATTGTATCAAAACCAAGATCTTAACAATAAA
* *
363375 AAATTTTAAAATTGAGGACCTCATTGTTATTTTTAAAGTTTTTGAATCAATTTAAAATATGTATT
66 AAATTTTAAAATTGAGGACCTCATTGTTCTTTTTGAAGTTTTTGAATCAATTTAAAATATGTATT
* * *
363440 AAAATTTAAAAATAACGCAAATAATTAACCCTTTAAAGTTCAAAACATCCTTGTACTTACTAAAC
131 AAAATTTGAAAACAACGCAAATAATTAACCCTTTAAAGTTCAAAACATCCTTTTACTTACTAAAC
363505 TAAGCATCATTGGACAATTTTATTTGCATCTTATCATGTGTTATGTTATTTTTTAGGGAAAAAAA
196 TAAGCATCATTGGACAATTTTATTTGCATCTTATCATGTGTTATGTTATTTTTTAGGGAAAAAAA
*
363570 TCATTGGAAGTATTATTTTAAAATTTGGGATATTTTATCATTGTTATATCAAAGTA
261 TCATTGGAAGTATTATTTTAAAATTTGGGATATTTTATCATTGTTATATCAAAATA
*
363626 TTTTCAAAGTATTTTTCGATTTTATTCATACTTTATTGTATCAAAACCAAGAT-TCTAACAAT-C
1 TTTTCAAAGTATTTTTCGATTTTATTCATACTTTATTGTATCAAAACCAAGATCT-TAACAATAA
*
363689 AAAATTTTAAAATTGAGGACCTCATTATTCTTTTTGAAGTTTTTGAATCAATTTAAAATATGTAT
65 AAAATTTTAAAATTGAGGACCTCATTGTTCTTTTTGAAGTTTTTGAATCAATTTAAAATATGTAT
363754 TAAAATTTGAAAACAACGCAAATAATTAACCCTTTAAAGTTCAAAACAT-CTTTGTACTTACTAA
130 TAAAATTTGAAAACAACGCAAATAATTAACCCTTTAAAGTTCAAAACATCCTTT-TACTTACTAA
363818 ACTAAGCATCATTGGACAATTTTATTTGCATCTTATCATGTGTTATGTTATTTTTTAGGGAAAAA
194 ACTAAGCATCATTGGACAATTTTATTTGCATCTTATCATGTGTTATGTTATTTTTTAGGGAAAAA
363883 AATCATTGGAAGTATTATTTTAAAATTTGGGATATTTTATCATTGTTATAT-AAAATA
259 AATCATTGGAAGTATTATTTTAAAATTTGGGATATTTTATCATTGTTATATCAAAATA
* *
363940 TTTTCAAAATATTTTTCGGTTTTATTCATACTTTATTGTATCAAAACCAAGATCTTAACAATAAA
1 TTTTCAAAGTATTTTTCGATTTTATTCATACTTTATTGTATCAAAACCAAGATCTTAACAATAAA
*
364005 AAATTTTAAAATTGAAGACCTCATTGTTCTTTTTGAAGTTTTTGAATCAATTTAAAATATGTATT
66 AAATTTTAAAATTGAGGACCTCATTGTTCTTTTTGAAGTTTTTGAATCAATTTAAAATATGTATT
364070 AAAATTTGAAAACAACGCAAATAATTAACCCTTTAAAGTTCAAAACATCCTTTTACTTACTAAAC
131 AAAATTTGAAAACAACGCAAATAATTAACCCTTTAAAGTTCAAAACATCCTTTTACTTACTAAAC
* * *
364135 TAAGCATCATTGGAAAAATTTATTTACATCTTATCATGTGTTATGTTATTTTTTAGGG-AAAAAA
196 TAAGCATCATTGGACAATTTTATTTGCATCTTATCATGTGTTATGTTATTTTTTAGGGAAAAAAA
*
364199 TCATTGAAAGTATTATTTTAAAATTTGGGATATTTTAT
261 TCATTGGAAGTATTATTTTAAAATTTGGGATATTTTAT
364237 AATTAAAAAT
Statistics
Matches: 582, Mismatches: 23, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
314 109 0.19
315 431 0.74
316 42 0.07
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (316 bp):
TTTTCAAAGTATTTTTCGATTTTATTCATACTTTATTGTATCAAAACCAAGATCTTAACAATAAA
AAATTTTAAAATTGAGGACCTCATTGTTCTTTTTGAAGTTTTTGAATCAATTTAAAATATGTATT
AAAATTTGAAAACAACGCAAATAATTAACCCTTTAAAGTTCAAAACATCCTTTTACTTACTAAAC
TAAGCATCATTGGACAATTTTATTTGCATCTTATCATGTGTTATGTTATTTTTTAGGGAAAAAAA
TCATTGGAAGTATTATTTTAAAATTTGGGATATTTTATCATTGTTATATCAAAATA
Found at i:365445 original size:27 final size:27
Alignment explanation
Indices: 365402--365455 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
365392 TTAATGTGTG
365402 CTTATAGCACCCAATAAATAAACCCAA
1 CTTATAGCACCCAATAAATAAACCCAA
*
365429 CTTATAGCA-TCAGATAAATAAACCCAA
1 CTTATAGCACCCA-ATAAATAAACCCAA
365456 TTTAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.20
Consensus pattern (27 bp):
CTTATAGCACCCAATAAATAAACCCAA
Found at i:372003 original size:20 final size:21
Alignment explanation
Indices: 371958--372031 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
371948 CATATGGTCC
***
371958 TGTATCGATACATTACAGGCA
1 TGTATCGATACATTACACTTA
371979 TGTATCGATACATT-CACTTA
1 TGTATCGATACATTACACTTA
*
371999 TGTATTC-ATACATTGC-CTTA
1 TGTA-TCGATACATTACACTTA
372019 TTGTATCGATACA
1 -TGTATCGATACA
372032 AATTGTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
20 20 0.43
21 26 0.57
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTACACTTA
Found at i:377866 original size:13 final size:13
Alignment explanation
Indices: 377848--377872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
377838 TCGATATAGT
377848 TGCAATTGTATTG
1 TGCAATTGTATTG
377861 TGCAATTGTATT
1 TGCAATTGTATT
377873 AATACAACAA
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:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
TGCAATTGTATTG
Found at i:379852 original size:21 final size:21
Alignment explanation
Indices: 379808--379852 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
379798 GTTGTAGCCA
* * * *
379808 ATTGTATCAATACATGTTAGG
1 ATTGTACCAATACATATCAAG
379829 ATTGTACCAATACATATCAAG
1 ATTGTACCAATACATATCAAG
379850 ATT
1 ATT
379853 ATATTGATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (21 bp):
ATTGTACCAATACATATCAAG
Found at i:380449 original size:2 final size:2
Alignment explanation
Indices: 380442--380466 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
380432 ATACAAGAAT
380442 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
380467 TATTTTCAAT
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:383739 original size:25 final size:24
Alignment explanation
Indices: 383693--383742 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
383683 GAATATAATA
383693 TAAATATATCATATTAATTTTATT
1 TAAATATATCATATTAATTTTATT
*
383717 TAAATTATATCAT-TTTATATTTATT
1 TAAA-TATATCATATTAAT-TTTATT
383742 T
1 T
383743 TATTACCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TAAATATATCATATTAATTTTATT
Found at i:385426 original size:20 final size:18
Alignment explanation
Indices: 385366--385433 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 18
385356 TTTAAATGAG
*
385366 ATTTTAAATATAT-AATG
1 ATTTTAAATATATAAATA
385383 ATTTT-AATAT-TAAATA
1 ATTTTAAATATATAAATA
385399 ATTATTAAATATAATAAATA
1 ATT-TTAAATAT-ATAAATA
*
385419 AGTTTTAAAAATATA
1 A-TTTTAAATATATA
385434 TGTTTAATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
15 1 0.02
16 11 0.26
17 7 0.16
18 5 0.12
19 3 0.07
20 14 0.33
21 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTTTAAATATATAAATA
Found at i:385920 original size:41 final size:42
Alignment explanation
Indices: 385875--385959 Score: 163
Period size: 41 Copynumber: 2.0 Consensus size: 42
385865 GTCCGTAGGC
385875 ATTGATTAAGAGTTATTTAATTATTATTTTATA-ATTTTTTT
1 ATTGATTAAGAGTTATTTAATTATTATTTTATATATTTTTTT
385916 ATTGATTAAGAGTTATTTAATTATTATTTTATATATTTTTTT
1 ATTGATTAAGAGTTATTTAATTATTATTTTATATATTTTTTT
385958 AT
1 AT
385960 AATATCAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 33 0.77
42 10 0.23
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (42 bp):
ATTGATTAAGAGTTATTTAATTATTATTTTATATATTTTTTT
Found at i:386630 original size:4 final size:4
Alignment explanation
Indices: 386621--386645 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
386611 ATCAACAAGA
386621 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
386646 GGCCTACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:387202 original size:6 final size:6
Alignment explanation
Indices: 387193--387222 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
387183 TCAAATTTTT
*
387193 TTTTTA TTTTAA TTTTAA TTTTAA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
387223 ATGAAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:388821 original size:20 final size:20
Alignment explanation
Indices: 388779--388845 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
388769 TAGACGATAT
* * *
388779 AAATATAATATAAAAAATTA
1 AAATATAATATAATATATAA
*
388799 AAATATAATATGATATATAA
1 AAATATAATATAATATATAA
*
388819 AAATATTATA-AATATAATAA
1 AAATATAATATAATAT-ATAA
388839 AAATATA
1 AAATATA
388846 TAAATATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 4 0.10
20 35 0.90
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (20 bp):
AAATATAATATAATATATAA
Found at i:388850 original size:28 final size:28
Alignment explanation
Indices: 388775--388858 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
388765 ATATTAGACG
* *
388775 ATATAA-ATATAATATAAAAAATTA-AA
1 ATATAATATAAAATATAAAATATTATAA
*
388801 ATATAATATGATATATA-AAAATATTATAA
1 ATATAATAT-A-AAATATAAAATATTATAA
*
388830 ATATAATA-AAAATATATAAATATTTTAA
1 ATATAATATAAAATATA-AAATATTATAA
388858 A
1 A
388859 ATTTATGTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 10 0.21
27 4 0.09
28 20 0.43
29 13 0.28
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
ATATAATATAAAATATAAAATATTATAA
Found at i:388859 original size:19 final size:20
Alignment explanation
Indices: 388811--388852 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
388801 ATATAATATG
388811 ATAT-ATAAAAATATTATAA
1 ATATAATAAAAATATTATAA
388830 ATATAATAAAAATA-TATAA
1 ATATAATAAAAATATTATAA
388849 ATAT
1 ATAT
388853 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAATAAAAATATTATAA
Found at i:392542 original size:50 final size:50
Alignment explanation
Indices: 392488--392585 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
392478 CAAGGTATAC
* *
392488 TTCTTTTGATTTTACTCTTAATTTTCTTTCATATTT-TCATATCATTCTAT
1 TTCTTTTGATTTTACTCGTAATTTCCTTTCAT-TTTCTCATATCATTCTAT
*
392538 TTCTTTTGTTTTTACTCGTAATTTCCTTTCATTTTCTCATATCATTCT
1 TTCTTTTGATTTTACTCGTAATTTCCTTTCATTTTCTCATATCATTCT
392586 TCATTCATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 3 0.07
50 41 0.93
ACGTcount: A:0.17, C:0.18, G:0.03, T:0.61
Consensus pattern (50 bp):
TTCTTTTGATTTTACTCGTAATTTCCTTTCATTTTCTCATATCATTCTAT
Found at i:396207 original size:34 final size:33
Alignment explanation
Indices: 396135--396213 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 33
396125 GACACGATTC
* * * *
396135 TGTATTTAAATCATATTCATGTTATTTTTATGT
1 TGTATTTAAATTATATTCATGTTATATTCATCT
* *
396168 CGTATTTAAATTATTTTCTATGTTATATTCATCT
1 TGTATTTAAATTATATTC-ATGTTATATTCATCT
*
396202 TGTATTTCAATT
1 TGTATTTAAATT
396214 CATCCTTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
33 15 0.41
34 22 0.59
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.57
Consensus pattern (33 bp):
TGTATTTAAATTATATTCATGTTATATTCATCT
Found at i:396929 original size:21 final size:23
Alignment explanation
Indices: 396885--396930 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 23
396875 TGCTTATATA
396885 TTTATATCATGTTCATAATATTT
1 TTTATATCATGTTCATAATATTT
396908 TTTATAT-ATG-TCAT-AT-TTT
1 TTTATATCATGTTCATAATATTT
396927 TTTA
1 TTTA
396931 ATATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.30
20 2 0.09
21 4 0.17
22 3 0.13
23 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATATCATGTTCATAATATTT
Found at i:397462 original size:23 final size:24
Alignment explanation
Indices: 397436--397490 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
397426 AAAAATAATA
397436 TTTAATAAAT-TTAAAATCTAAAT
1 TTTAATAAATCTTAAAATCTAAAT
* *
397459 TTTAAT--ATCTTAAACTCTATAT
1 TTTAATAAATCTTAAAATCTAAAT
397481 TTTACATAAA
1 TTTA-ATAAA
397491 AATTAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 8 0.31
25 1 0.04
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAATAAATCTTAAAATCTAAAT
Found at i:409538 original size:15 final size:15
Alignment explanation
Indices: 409514--409544 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
409504 GCAATTGATA
*
409514 AGCGGCAGCAGCAGC
1 AGCGGAAGCAGCAGC
409529 AGCGGAAGCAGCAGC
1 AGCGGAAGCAGCAGC
409544 A
1 A
409545 AGAAATCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.29, G:0.39, T:0.00
Consensus pattern (15 bp):
AGCGGAAGCAGCAGC
Found at i:412674 original size:3 final size:3
Alignment explanation
Indices: 412668--412702 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
412658 AAGTAAAATA
412668 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
412703 GAGCAGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:419851 original size:65 final size:64
Alignment explanation
Indices: 419743--419869 Score: 168
Period size: 65 Copynumber: 2.0 Consensus size: 64
419733 GTTAGAAGCA
* * **
419743 ATGGATAAAGAGTTTTTCATCTTTCTTGTATCCAGTTATCTTTCTCAAATACAT-TCATATATGG
1 ATGGATAAAGAGCTTTTCATCTTTCTCGTATCCAGCCATCTTTCTCAAATACATAT-ATATATGG
*
419807 ATGGAATAAAGAGCTTTTCATCTTTCTCGTAT-CTGACCATCTTTCTCAAATACATATATATAT
1 ATGG-ATAAAGAGCTTTTCATCTTTCTCGTATCCAG-CCATCTTTCTCAAATACATATATATAT
419870 ATGGAAGGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
64 6 0.11
65 48 0.87
66 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (64 bp):
ATGGATAAAGAGCTTTTCATCTTTCTCGTATCCAGCCATCTTTCTCAAATACATATATATATGG
Found at i:422031 original size:51 final size:52
Alignment explanation
Indices: 421967--422105 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 52
421957 TTTGGAATGA
* * *
421967 AAATATATCGATACATT-TCTCATTGTATCGATACATTTTAGG-TTTTGACCC
1 AAATGTATCGATACATTCT-TCATTGTATCGATACATTGTAGGTTTTTGACAC
* *
422018 AAATGTATCGATACATTCTTCATTGTATCAATACATTGTAGGTTTTTGACAT
1 AAATGTATCGATACATTCTTCATTGTATCGATACATTGTAGGTTTTTGACAC
* * * *
422070 AAATGTATCCATACGTTCTTCAATGTATTGATACAT
1 AAATGTATCGATACATTCTTCATTGTATCGATACAT
422106 GCAGGTAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
51 37 0.49
52 39 0.51
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATTGTATCGATACATTGTAGGTTTTTGACAC
Found at i:422089 original size:52 final size:51
Alignment explanation
Indices: 421967--422097 Score: 156
Period size: 51 Copynumber: 2.5 Consensus size: 51
421957 TTTGGAATGA
* * * * *
421967 AAATATATCGATACATT-TCTCATTGTATCGATACATTTTAGGTTTTGACCC
1 AAATGTATCCATACATTCT-TCATTGTATCAATACATTGTAGGTTTTGACAC
* *
422018 AAATGTATCGATACATTCTTCATTGTATCAATACATTGTAGGTTTTTGACAT
1 AAATGTATCCATACATTCTTCATTGTATCAATACATTGTAGG-TTTTGACAC
* *
422070 AAATGTATCCATACGTTCTTCAATGTAT
1 AAATGTATCCATACATTCTTCATTGTAT
422098 TGATACATGC
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 37 0.53
52 33 0.47
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (51 bp):
AAATGTATCCATACATTCTTCATTGTATCAATACATTGTAGGTTTTGACAC
Found at i:424674 original size:19 final size:20
Alignment explanation
Indices: 424632--424683 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
424622 TACCAGTTTT
*
424632 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATTGAGC
424652 ATGTATCGATACAA-TGAGC
1 ATGTATCGATACAATTGAGC
424671 ATGTATCGATACA
1 ATGTATCGATACA
424684 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATTGAGC
Found at i:424690 original size:13 final size:12
Alignment explanation
Indices: 424670--424727 Score: 52
Period size: 13 Copynumber: 5.0 Consensus size: 12
424660 ATACAATGAG
424670 CATGTATCGATA
1 CATGTATCGATA
424682 CATTGTATCGATA
1 CA-TGTATCGATA
* *
424695 CA--AAGC-ATA
1 CATGTATCGATA
424704 -ATGTATCGATA
1 CATGTATCGATA
424715 CATTGTATCGATA
1 CA-TGTATCGATA
424728 TAAAGCATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
8 1 0.03
9 3 0.08
10 4 0.11
11 3 0.08
12 3 0.08
13 22 0.61
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:424710 original size:20 final size:20
Alignment explanation
Indices: 424685--424749 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
424675 ATCGATACAT
424685 TGTATCGATACAAAGCATAA
1 TGTATCGATACAAAGCATAA
424705 TGTATCGAT----A-CAT--
1 TGTATCGATACAAAGCATAA
*
424718 TGTATCGATATAAAGCATAA
1 TGTATCGATACAAAGCATAA
424738 TGTATCGATACA
1 TGTATCGATACA
424750 TCTGGGTGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
16 1 0.03
17 1 0.03
18 3 0.08
20 20 0.54
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAAGCATAA
Found at i:424713 original size:33 final size:33
Alignment explanation
Indices: 424653--424750 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
424643 CAATTGAGTA
* **
424653 TGTATCGATACAATG-AGCATGTATCGATACAT
1 TGTATCGATACAAAGCATAATGTATCGATACAT
424685 TGTATCGATACAAAGCATAATGTATCGATACAT
1 TGTATCGATACAAAGCATAATGTATCGATACAT
*
424718 TGTATCGATATAAAGCATAATGTATCGATACAT
1 TGTATCGATACAAAGCATAATGTATCGATACAT
424751 CTGGGTGTGT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 14 0.23
33 47 0.77
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAGCATAATGTATCGATACAT
Found at i:428401 original size:13 final size:13
Alignment explanation
Indices: 428383--428410 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
428373 ATACAAAGAT
428383 CAATGTATCGATA
1 CAATGTATCGATA
428396 CAATGTATCGATA
1 CAATGTATCGATA
428409 CA
1 CA
428411 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:428407 original size:33 final size:33
Alignment explanation
Indices: 428365--428430 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
428355 AAATTCCCAG
428365 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
428398 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
428431 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:429409 original size:101 final size:101
Alignment explanation
Indices: 429207--430099 Score: 894
Period size: 101 Copynumber: 9.4 Consensus size: 101
429197 CGAAGAAAGA
* * ** * * * **
429207 CAATATGCTGATTCATGGCCAACGGCATTAGACTTGAAGA-AGA-ATGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
** * ** * **
429270 GGCCAATGACATTGGGCTTAGGAAT-ATTAAAGATGC
66 GGCCAGCGACATTGGTCTTAAAAATGA-CAAAGGCGC
* * * * * *
429306 CAATACGCTGATTCAAGGCCAACGATATGGGACTTAAGGATAAAGGTGGCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
* *
429371 GGCCAGCGACATTAGTTTTAAAAATGACAAAGGCGC
66 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
429407 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
429472 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
66 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
* * *
429508 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCTAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
*
429573 GGCCAGCGACATTGGTCTTAAAAATGATAAAGGCGC
66 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
* * *
429609 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGTCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
* *
429674 GGCCAGCGATATTGGTTTTAAAAATGACAAAGGCGC
66 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
429710 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---G-TGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
*
429765 GGCCAGCGACATTGGTCTT--AAA-GACAAAGGTGC
66 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
* * *
429798 CAATATGCTGATTCAAGGCCAGCAATATTGGGC-T-----T----ATGCCAATGTGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
* * * *
429853 GGCCAGCGACATTGGGC-T-CAAA-GATAAAGGTGC
66 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
* *
429886 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----ATGCCAATG-CCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
* *
429940 GGCCAGCGACATTGGGCTT--AAA-GAC-AAGGTGC
66 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
* * * *
429972 CAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T---G-TGCCAATATGCGGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
*
430027 GGCCAGCGACATTGGTCTT--AAA-GAC-AAGGTGC
66 GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
*
430059 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
430100 AGACGCCACC
Statistics
Matches: 715, Mismatches: 64, Indels: 35
0.88 0.08 0.04
Matches are distributed among these distances:
86 48 0.07
87 100 0.14
88 135 0.19
89 3 0.00
91 35 0.05
92 1 0.00
95 1 0.00
99 32 0.04
100 3 0.00
101 356 0.50
102 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (101 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGATGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGTCTTAAAAATGACAAAGGCGC
Found at i:429421 original size:52 final size:52
Alignment explanation
Indices: 429304--429740 Score: 475
Period size: 52 Copynumber: 8.6 Consensus size: 52
429294 TATTAAAGAT
* * * * * * *
429304 GCCAATACGCTGATTCAAGGCCAACGATATGGGACTT---AAGGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
* * * * *
429353 GGCAATGTGCTGATTCAAGGCCAGCGACATTAGTTTTAAAAATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
* * **
429405 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AAA-GATAAAGAT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
* *
429454 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
* * * **
429506 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG---AAGAT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
* * * *
429555 GCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAATGATAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
* * * **
429607 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATG---AAGAT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
* * *
429656 GTCAATGTGCTGATTCAAGGCCAGCGATATTGGTTTTAAAAATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
429708 GCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGG
429741 ACTTGTGCCA
Statistics
Matches: 316, Mismatches: 60, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
49 150 0.47
50 3 0.01
51 3 0.01
52 160 0.51
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (52 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAAATGACAAAGGC
Found at i:429762 original size:39 final size:39
Alignment explanation
Indices: 429708--430041 Score: 258
Period size: 39 Copynumber: 7.8 Consensus size: 39
429698 TGACAAAGGC
* *
429708 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGT
* *
429747 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT----------GT
* * *
429796 GCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGT
* *
429835 GCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTCAAAGATAAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGCT------T----GT
* *
429884 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGT
429923 GCC-A-ATGCCTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAGGT
1 GCCAATATG-CTGATTCAAGGCCAGCGACATTGGGCTT---------GT
* *
429970 GCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGT
*
430009 GCCAATATGCGGATTCAAGGCCAGCGACATTGG
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGG
430042 TCTTAAAGAC
Statistics
Matches: 239, Mismatches: 24, Indels: 64
0.73 0.07 0.20
Matches are distributed among these distances:
37 3 0.01
38 28 0.12
39 103 0.43
43 1 0.00
45 1 0.00
47 4 0.02
48 27 0.11
49 72 0.30
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTGT
Found at i:429826 original size:88 final size:88
Alignment explanation
Indices: 429658--430094 Score: 664
Period size: 88 Copynumber: 5.0 Consensus size: 88
429648 ATGAAGATGT
* * *
429658 CAATGTGCTGATTCAAGGCCAGCGATATTGGTTTTAAAAATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AAA-GACAAAGGTGCCAATATGCTGATT
* *
429723 CAAGGCCAGCGATATTGGACTTGTGC
63 CAAGGCCAGCGATATTGGGCTTATGC
429749 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
*
429814 GGCCAGCAATATTGGGCTTATGC
66 GGCCAGCGATATTGGGCTTATGC
* * * *
429837 CAATGTGTTGATTCAAGGCCAGCGACATTGGGCTCAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
429902 GGCCAGCGATATTGGGCTTATGC
66 GGCCAGCGATATTGGGCTTATGC
* *
429925 CAATG-CCTGATTCAAGGCCAGCGACATTGGGCTTAAAGAC-AAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* *
429988 GGCCAACGATATTGGGCTTGTGC
66 GGCCAGCGATATTGGGCTTATGC
* *
430011 CAATATGCGGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
* *
430075 GGCTAGCGATATTGGACTTA
66 GGCCAGCGATATTGGGCTTA
430095 GAAGAAGACG
Statistics
Matches: 320, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
86 48 0.15
87 102 0.32
88 134 0.42
89 3 0.01
91 33 0.10
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (88 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGGCTTATGC
Found at i:429992 original size:48 final size:48
Alignment explanation
Indices: 429931--430099 Score: 203
Period size: 48 Copynumber: 3.7 Consensus size: 48
429921 ATGCCAATGC
429931 CTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAGGTGCCAATATG
* *
429979 CTGATTCAAGGCCAACGATATTGGGCTT---------GTGCCAATATG
1 CTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAGGTGCCAATATG
* *
430018 CGGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAGGTGCCAATATG
* * *
430066 CTGATTCAAGGCTAGCGATATTGGACTTAGAAGA
1 CTGATTCAAGGCCAGCGACATTGGGCTTA-AAGA
430100 AGACGCCACC
Statistics
Matches: 101, Mismatches: 10, Indels: 19
0.78 0.08 0.15
Matches are distributed among these distances:
39 35 0.35
48 62 0.61
49 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
CTGATTCAAGGCCAGCGACATTGGGCTTAAAGACAAGGTGCCAATATG
Found at i:430181 original size:28 final size:29
Alignment explanation
Indices: 430105--430181 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
430095 GAAGAAGACG
430105 CCACCAACTTGTATGGGCTTTTGAAAGGGTT
1 CCACCAAC-T-TATGGGCTTTTGAAAGGGTT
** * * *
430136 GTACCAACTTGTGTGCTTTTG-AAGGTTT
1 CCACCAACTTATGGGCTTTTGAAAGGGTT
*
430164 CCACTAACTTATGGGCTT
1 CCACCAACTTATGGGCTT
430182 AAAAGGAGAA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
28 19 0.53
29 10 0.28
30 1 0.03
31 6 0.17
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (29 bp):
CCACCAACTTATGGGCTTTTGAAAGGGTT
Found at i:430221 original size:33 final size:33
Alignment explanation
Indices: 430179--431832 Score: 1033
Period size: 33 Copynumber: 54.1 Consensus size: 33
430169 AACTTATGGG
*
430179 CTTAAAAGGAGAAAGATGCCACGAAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
430212 CTTAAAAGGA-ACAAGGTGCCACGGAGTTGTGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
* * * *
430245 CTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGG
1 C-TTAAAAGGAGAAAGA-TGCCACGGAGTTGTGGA
* * **
430280 CTT--AA--A-AATG-TGCCACAGAGTCATGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
430307 CTTAAAAAGA-AAAGGTGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
430339 CTTAAAAGGA-ACAAGGTGCCACGGAGTTGTGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
* * *
430372 CTTAAAAGAAAAAAGATACCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
430405 CTTAAAAGGAAAAAGATGCCACGAAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
430438 CTTAAAAGGAAAAAGATGCCACGGAGGTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
430471 CTTAAAA-G-G---G-TGCCACGTAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
430498 CTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAG-ATGCCACGGAGTTGTGGA
* * *
430532 CTTAAAAGG-GACAGGGTGCCACGGAGTTATGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
* * *
430565 CTTAAAAGGA-ACAAGGTACTACGGAGTTGTGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
* * * *
430598 CTTTAAAAAGAAAAAGATGCCATGGAGGTGTGGA
1 C-TTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
430632 CTTAAAA-G-G---G-TGCCACAGAGTTATGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
430659 CTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAG-ATGCCACGGAGTTGTGGA
* *
430693 CTTGAAA-G-G---G-TGCCATGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
430720 CTTAAAAGGA-AAATGAATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAA-G-ATGCCACGGAGTTGTGGA
*
430754 CTTAAAAGG-GACAAGGTGCCACGGAGTTGTGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
* *
430787 CTT--AA--AG---GATGCCATGGAGTTGTGGG
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
430813 CTTTAAAA--AG---G-TGCCACAGAGTTGTGGG
1 C-TTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
430841 CTTTAAA--AG--AG-TGCCACAGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
430869 CTTAAAAGGAAAAAGATTGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGA-TGCCACGGAGTTGTGGA
* *
430903 CTTAAAAGAAAAAAGAATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAG-ATGCCACGGAGTTGTGGA
*
430937 CTTAAAAGG-GACAAGGTGCCACGGAGTTGTGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
*
430970 CTT-AAA--AG---GATGCCACGGAGTTGTGGG
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
430997 CTTTAAAA--AG---G-TGCCACCGAGTTGTGGG
1 C-TTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431025 CTTTAAA--AG--AG-TGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431053 CTTAAAAGGAAAAAGATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
431086 CTTAAAAGGA-ACAAGGTGCCATGGAGTTGTGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
* *
431119 CTT-AAA--AG---GATGCCACAGAGTTGTGGG
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
431146 CTTTAAAA-G-G---G-TGCCACGGAGTTGTTGG-
1 C-TTAAAAGGAGAAAGATGCCACGGAGTTG-TGGA
* *
431174 CTTTAAA--AG--AG-TGCCACGGAGTTATGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
431202 CTTCAAAGGAAAAAGATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431235 CTT-AAA--AG---GATGCCACGGAGTTGTGGG
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
431262 CTTTAAAA-G-G---G-TGCCACGGAGTTGTTGG-
1 C-TTAAAAGGAGAAAGATGCCACGGAGTTG-TGGA
* *
431290 CTTTAAA--AG--AG-TGCCACGGAGTTATGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
431318 CTTCAAAGGAAAAAGATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431351 CTT-AAA--AG---GATGCCACGGAGTTGTGGG
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
431378 CTTTAAAA-G-G---G-TGCCACGGAGTTGTTGG-
1 C-TTAAAAGGAGAAAGATGCCACGGAGTTG-TGGA
* *
431406 CTTTAAA--AG--AG-TGCCACGGAGTTATGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
431434 CTTCAAAGGAAAAAGATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
431467 CTTAAAAGGA-ACAAGGTGCCACGGAATTGTGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
*
431500 CTT-AAA--AG---GATGCCACGGAGTTGTGGG
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431527 CTTTAAAA-G-G---G-TGCCACGGAGTTGTGGG
1 C-TTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431555 CTTTAAA--AG--AG-TGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431583 CTTAAAAGGAAAAAGATGCCACGGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431616 CTTAAAAGGA-ACAAGGTGCCACGGAGTTGTGGA
1 CTTAAAAGGAGA-AAGATGCCACGGAGTTGTGGA
*
431649 CTT-AAA--AG---GATGCCATGGAGTTGTGG-
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
*
431675 CTTTAAAA-G-G---G-TGCCACGGAGTTGTGGG
1 C-TTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* *
431703 CTTTAAA--AG--AG-TGCCACAGAGTTGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
* * * * *
431731 CTTTGAAAA-GAAAAAGGTGCCACAGAGTGGTGGG
1 C-TT-AAAAGGAGAAAGATGCCACGGAGTTGTGGA
* * *
431765 CTTTGAAAAGAAAAAAG-TGCCACGGAGTTGTGGG
1 C-TT-AAAAGGAGAAAGATGCCACGGAGTTGTGGA
** * *
431799 CTTTGAA-GA-AAAGATGCCACTGAGTCGTGGA
1 CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
431830 CTT
1 CTT
431833 TGAAAAGAGA
Statistics
Matches: 1360, Mismatches: 134, Indels: 256
0.78 0.08 0.15
Matches are distributed among these distances:
26 18 0.01
27 258 0.19
28 255 0.19
29 48 0.04
30 20 0.01
31 26 0.02
32 67 0.05
33 429 0.32
34 212 0.16
35 27 0.02
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (33 bp):
CTTAAAAGGAGAAAGATGCCACGGAGTTGTGGA
Found at i:430638 original size:26 final size:26
Alignment explanation
Indices: 430609--430666 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
430599 TTTAAAAAGA
** *
430609 AAAAGATGCCATGGAGGTGTGGACTT
1 AAAAGATGCCACAGAGGTATGGACTT
* *
430635 AAAAGGGTGCCACAGAGTTATGGACTT
1 AAAA-GATGCCACAGAGGTATGGACTT
430662 AAAAG
1 AAAAG
430667 GAAAAAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (26 bp):
AAAAGATGCCACAGAGGTATGGACTT
Found at i:430890 original size:149 final size:148
Alignment explanation
Indices: 430227--431832 Score: 1365
Period size: 149 Copynumber: 10.6 Consensus size: 148
430217 AAGGAACAAG
* * *
430227 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTT---A--AAA
1 GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAA-AGTGCCACGGAGTTGTGGACTTAAAAGGAAA
* * ** *
430287 ATG-TGCCACAGAGTCATGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
63 AAGATGCCACGGAGTTGTGGACTT-AAAAG----GGTGCCACGGAGTTGTGGGCTTTAAAA-G--
430350 CAAGGTGCCACGGAGTTGTGGAC-TTAAAAGAAAAAA
120 --A-GTGCCACGGAGTTGTGGACTTTAAAAG-----A
* *
430386 GATACCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGAAAA
1 G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-TGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
430451 AGATGCCACGGAGGTGTGGACTTAAAAGGGTGCCACGTAGTTGTGGAC-TTAAAAGGAAAAAGAA
64 AGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAA-G----AG--
430515 TGCCACGGAGTTGTGGAC-TTAAAAGGGACA
122 TGCCACGGAGTTGTGGACTTTAAAA--G--A
* * * * *
430545 GGGTGCCACGGAGTTATGGACTTAAAAGGAACAAGGTACTACGGAGTTGTGGACTTTAAAAAGAA
1 --GTGCCACGGAGTTGTGGACTTAAAAGGAA-AAAGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* * * * *
430610 AAAGATGCCATGGAGGTGTGGACTTAAAAGGGTGCCACAGAGTTATGGAC-TTAAAAGGAAAAAG
62 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAA-G----AG
* *
430674 AATGCCACGGAGTTGTGGAC-TTGAAAGG
122 --TGCCACGGAGTTGTGGACTTTAAAAGA
* * * *
430702 GTGCCATGGAGTTGTGGACTTAAAAGGAAAATGAATGCCACGGAGTTGTGGACTTAAAAGGGACA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA--AGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
430767 AGGTGCCACGGAGTTGTGGACTT-AAAGGATGCCATGGAGTTGTGGGCTTTAAAA-AGGTGCCAC
64 AGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGA-GTGCCAC
* *
430830 AGAGTTGTGGGCTTTAAAAGA
128 GGAGTTGTGGACTTTAAAAGA
* *
430851 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATTGCCACGGAGTTGTGGACTTAAAAGAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG--TGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
430916 AGAATGCCACGGAGTTGTGGACTTAAAAGGGACAAGGTGCCACGGAGTTGTGGAC-TTAAAAG-G
64 AG-ATGCCACGGAGTTGTGGACTTAAAA--G----GGTGCCACGGAGTTGTGGGCTTTAAAAGAG
*
430979 ATGCCACGGAGTTGTGGGCTTTAAAA-A
122 -TGCCACGGAGTTGTGGACTTTAAAAGA
* *
431006 GGTGCCACCGAGTTGTGGGCTTTAAAA-G----AGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1 -GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* *
431066 AGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGAC-TTAAAAG-GA
64 AGATGCCACGGAGTTGTGGACTTAAAA-G-----GGTGCCACGGAGTTGTGGGCTTTAAAAGAG-
* * *
431129 TGCCACAGAGTTGTGGGCTTTAAAAGG
122 TGCCACGGAGTTGTGGACTTTAAAAGA
* *
431156 GTGCCACGGAGTTGTTGG-CTTTAAAA-G----AGTGCCACGGAGTTATGGACTTCAAAGGAAAA
1 GTGCCACGGAGTTG-TGGAC-TTAAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* *
431215 AGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACG
64 AGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCACG
431280 GAGTTGTTGG-CTTTAAAAGA
129 GAGTTG-TGGACTTTAAAAGA
* *
431300 GTGCCACGGAGTTATGGACTTCAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA-G-----
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
431359 GATGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTTGGCTTTAAAAGAGTGCCACG
65 GATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCACG
* * *
431424 GAGTTATGGACTTCAAAGGAAAAA
129 GAGTTGTGGACTT--TA--AAAGA
* *
431448 GATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAATTGTGGACTTAAAA-G----
1 G-TGCCACGGAGTTGTGGACTTAAAAGGAA-AAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
431508 -GATGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCAC
64 AGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCAC
431572 GGAGTTGTGGAC-TTAAAAGGAAAAA
128 GGAGTTGTGGACTTTAAAA-G----A
*
431597 GATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA-G----
1 G-TGCCACGGAGTTGTGGACTTAAAAGGAA-AAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
431657 -GATGCCATGGAGTTGTGG-CTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCAC
64 AGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCAC
*
431720 AGAGTTGTGGACTTTGAAAAGAAAAA
128 GGAGTTGTGGACTTT-AAAAG----A
* * * * * **
431746 GGTGCCACAGAGTGGTGGGCTTTGAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAA-G-AA
1 -GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAA
* *
431809 AAGATGCCACTGAGTCGTGGACTT
63 AAGATGCCACGGAGTTGTGGACTT
431833 TGAAAAGAGA
Statistics
Matches: 1271, Mismatches: 105, Indels: 147
0.83 0.07 0.10
Matches are distributed among these distances:
143 47 0.04
144 95 0.07
145 4 0.00
146 2 0.00
147 1 0.00
148 84 0.07
149 471 0.37
150 90 0.07
151 10 0.01
152 2 0.00
153 1 0.00
154 38 0.03
155 65 0.05
156 64 0.05
157 25 0.02
158 27 0.02
159 37 0.03
160 82 0.06
161 99 0.08
162 1 0.00
163 10 0.01
164 16 0.01
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.22
Consensus pattern (148 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
ATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCACGGA
GTTGTGGACTTTAAAAGA
Found at i:431050 original size:116 final size:109
Alignment explanation
Indices: 430669--431741 Score: 742
Period size: 116 Copynumber: 9.1 Consensus size: 109
430659 CTTAAAAGGA
* * * *
430669 AAAAGAATGCCACGGAGTTGTGGAC-TTGAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAAAA
1 AAAAGAGTGCCACGGAGTTGTGG-CTTTAAAAGAGTGCCACGGAGTTGTGGACTT---A--AAAA
* *
430733 TGAATGCCACGGAGTTGTGGACTTAAAAGGGACAAGGTGCCACGGAGTTGTGGAC-TT
60 -G-ATGCCACGGAGTTGTGGACTT--TA---A-AAGGTGCCACGGAGTTGTGGGCTTT
* * * * *
430790 AAAGGA-TGCCATGGAGTTGTGGGCTTTAAAA-AGGTGCCACAGAGTTGTGGGCTTTAAAAGAGT
1 AAAAGAGTGCCACGGAGTTGT-GGCTTTAAAAGA-GTGCCACGGAGTTGTGGACTTAAAAAGA-T
* *
430853 GCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGATTGCCACGGAGTTGTGGAC-TT
63 GCCACGGAGTTGTGGACTTTAAAA-G-----G--TGCCACGGAGTTGTGGGCTTT
430906 AAAAGAAAAAAGAATGCCACGGAGTTGTGGAC-TTAAAAGGGACAAGGTGCCACGGAGTTGTGGA
1 AAAAG-----AG--TGCCACGGAGTTGTGG-CTTTAAAA--G---A-GTGCCACGGAGTTGTGGA
* * *
430970 CTTAAAAGGATGCCACGGAGTTGTGGGCTTTAAAAAGGTGCCACCGAGTTGTGGGCTTT
52 CTTAAAAAGATGCCACGGAGTTGTGGACTTT-AAAAGGTGCCACGGAGTTGTGGGCTTT
431029 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGG-CTTTAAAA-G----AG-TGCCACGGAGTTGTGGACTT---A
* * *
431093 GGAACAAGGTGCCATGGAGTTGTGGAC-TTAAAAGGATGCCACAGAGTTGTGGGCTTT
56 --AA-AAGATGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACGGAGTTGTGGGCTTT
* *
431150 AAAAGGGTGCCACGGAGTTGTTGGCTTTAAAAGAGTGCCACGGAGTTATGGACTTCAAAGGAAAA
1 AAAAGAGTGCCACGGAGTTG-TGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTT------AAAA
431215 AGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGGCTTT
59 AGATGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACGGAGTTGTGGGCTTT
* *
431266 AAAAGGGTGCCACGGAGTTGTTGGCTTTAAAAGAGTGCCACGGAGTTATGGACTTCAAAGGAAAA
1 AAAAGAGTGCCACGGAGTTG-TGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTT------AAAA
431331 AGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGGCTTT
59 AGATGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACGGAGTTGTGGGCTTT
* *
431382 AAAAGGGTGCCACGGAGTTGTTGGCTTTAAAAGAGTGCCACGGAGTTATGGACTTCAAAGGAAAA
1 AAAAGAGTGCCACGGAGTTG-TGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTT------AAAA
* * *
431447 AGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAATTGTGGAC-TT
59 AGATGCCACGGAGTTGTGGACTT-----TAA-AAGGTGCCACGGAGTTGTGGGCTTT
* * *
431503 AAAAG-GATGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGT
1 AAAAGAG-TGCCACGGAGTTGT-GGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGA-T
*
431567 GCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
63 GCCACGGAGTTGTGGACTTTAAAA-G-----G-TGCCACGGAGTTGTGGGCTTT
*
431619 AAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TTAAAAG-GATGCCATGGAGTTGTGG-CTTTAA
1 AAAA-G----A-GTGCCACGGAGTTGTGG-CTTTAAAAGAG-TGCCACGGAGTTGTGGAC-TTAA
* * * * *
431681 AAGGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCACAGAGTTGTGGACTTT
57 AAAGATGCCACGGAGTTGTGGACTTTAAAAG-GTGCCACGGAGTTGTGGGCTTT
431735 GAAAAGA
1 -AAAAGA
431742 AAAAGGTGCC
Statistics
Matches: 830, Mismatches: 48, Indels: 157
0.80 0.05 0.15
Matches are distributed among these distances:
108 2 0.00
109 4 0.00
110 3 0.00
112 2 0.00
114 3 0.00
115 46 0.06
116 391 0.47
117 10 0.01
118 2 0.00
119 3 0.00
120 42 0.05
121 162 0.20
122 76 0.09
123 20 0.02
124 15 0.02
128 16 0.02
129 29 0.03
130 4 0.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (109 bp):
AAAAGAGTGCCACGGAGTTGTGGCTTTAAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGATGCC
ACGGAGTTGTGGACTTTAAAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:431802 original size:34 final size:34
Alignment explanation
Indices: 431707--431840 Score: 166
Period size: 34 Copynumber: 4.0 Consensus size: 34
431697 TGTGGGCTTT
*
431707 AAAAGAGTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAAAAGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
431741 AAAAAGGTGCCACAGAGTGGTGGGCTTTGAAAAG
1 AAAAAAGTGCCACAGAGTTGTGGACTTTGAAAAG
* *
431775 AAAAAAGTGCCACGGAGTTGTGGGCTTTG--AAG
1 AAAAAAGTGCCACAGAGTTGTGGACTTTGAAAAG
* * *
431807 AAAAGA-TGCCACTGAGTCGTGGACTTTGAAAAG
1 AAAAAAGTGCCACAGAGTTGTGGACTTTGAAAAG
431840 A
1 A
431841 GATTGCCACT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
31 19 0.22
32 8 0.09
33 4 0.05
34 56 0.64
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (34 bp):
AAAAAAGTGCCACAGAGTTGTGGACTTTGAAAAG
Found at i:431834 original size:31 final size:32
Alignment explanation
Indices: 431707--431961 Score: 195
Period size: 31 Copynumber: 8.1 Consensus size: 32
431697 TGTGGGCTTT
* *
431707 AAAAGAGTGCCACAGAGTTGTGGACTTTGAAAAG
1 AAAAGAGTGCCACTGAGTCGTGGACTTTG--AAG
* * *
431741 AAAA-AGGTGCCACAGAGTGGTGGGCTTTGAAAAG
1 AAAAGA-GTGCCACTGAGTCGTGGACTTTG--AAG
* * * *
431775 AAAAAAGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGAGTGCCACTGAGTCGTGGACTTTGAAG
431807 AAAAGA-TGCCACTGAGTCGTGGACTTTGAA-
1 AAAAGAGTGCCACTGAGTCGTGGACTTTGAAG
* * * * *
431837 AAGAGATTGCCACTAAGTTGTGGACTTTGGAG
1 AAAAGAGTGCCACTGAGTCGTGGACTTTGAAG
* * * *
431869 AAAA-AATGCCACTAAGTCATGGACTTTG-GG
1 AAAAGAGTGCCACTGAGTCGTGGACTTTGAAG
* *
431899 ACAAA-A-TACCACTGAGTCGTGGGCTTTG-AG
1 A-AAAGAGTGCCACTGAGTCGTGGACTTTGAAG
* *
431929 AAGAGATTGCCACTGAGTCGTGGACTTT-AAG
1 AAAAGAGTGCCACTGAGTCGTGGACTTTGAAG
431960 AA
1 AA
431962 GGTATTTGAA
Statistics
Matches: 188, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.01
30 28 0.15
31 90 0.48
32 11 0.06
33 1 0.01
34 55 0.29
35 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (32 bp):
AAAAGAGTGCCACTGAGTCGTGGACTTTGAAG
Found at i:431871 original size:62 final size:61
Alignment explanation
Indices: 431061--431956 Score: 237
Period size: 60 Copynumber: 15.0 Consensus size: 61
431051 GACTTAAAAG
** ** * *
431061 GAAAA-AGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCA-TGGAGTTGTGGAC-TT
1 GAAAAGAGATGCCACTAAGTTGTGGACTTTGAA-GAA-AAGATGCCACT-GAGTCGTGGACTTT
* * * * *
431122 -AAAAG-GATGCCAC-AGAGTTGTGGGCTTT--A-AAAGGGTGCCACGGAGTTGTTGG-CTTT
1 GAAAAGAGATGCCACTA-AGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCG-TGGACTTT
** * ** * *
431178 -AAAAGAG-TGCCACGGAGTTATGGACTTCAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
1 GAAAAGAGATGCCACTAAGTTGTGGACTTTGAA-G-AAAAGATGCCACTGAGTCGTGGACTTT
** * * * * *
431238 -AAAAG-GATGCCACGGAGTTGTGGGCTTT--A-AAAGGGTGCCACGGAGTTGTTGG-CTTT
1 GAAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCG-TGGACTTT
** * ** * *
431294 -AAAAGAG-TGCCACGGAGTTATGGACTTCAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
1 GAAAAGAGATGCCACTAAGTTGTGGACTTTGAA-G-AAAAGATGCCACTGAGTCGTGGACTTT
** * * * * *
431354 -AAAAG-GATGCCACGGAGTTGTGGGCTTT--A-AAAGGGTGCCACGGAGTTGTTGG-CTTT
1 GAAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCG-TGGACTTT
** * ** * * *
431410 -AAAAGAG-TGCCACGGAGTTATGGACTTCAAAGGAAAAAGATGCCACGGAGTTGTGGACTTA
1 GAAAAGAGATGCCACTAAGTTGTGGACTTTGAA-G-AAAAGATGCCACTGAGTCGTGGACTTT
* * * * * * * *
431471 AAAGGAACAAGGTGCCACGGAA-TTGTGGAC-TT--A-AAAGGATGCCACGGAGTTGTGGGCTTT
1 GAA--AA-GAGATGCCAC-TAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT
* ** * * * * *
431531 -AAAAG-GGTGCCACGGAGTTGTGGGCTTT-AA-AAGAG-TGCCACGGAGTTGTGGACTTAAAAG
1 GAAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTT----T
** ** * * *
431591 GAAAA-AGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TT
1 GAAAAGAGATGCCACTAAGTTGTGGACTTTGAA-GAA-AAGATGCCACTGAGTCGTGGACTTT
* * * * * *
431652 -AAAAG-GATGCCA-TGGAGTTGTGG-CTTT--A-AAAGGGTGCCACGGAGTTGTGGGCTTT
1 GAAAAGAGATGCCACT-AAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * * *
431707 -AAAAGAG-TGCCAC-AGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTGGTGGGCTTT
1 GAAAAGAGATGCCACTA-AGTTGTGGACTTTG--AAG-AAAAGATGCCACTGAGTCGTGGACTTT
* ** *
431769 GAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT
1 GAAAAG---AGA-TGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * * *
431834 GAAAAGAGATTGCCACTAAGTTGTGGACTTTGGAGAAAAAATGCCACTAAGTCATGGACTTT
1 GAAAAGAGA-TGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT
* * * * * *
431896 GGGACAA-A-ATACCACTGAGTCGTGGGCTTTG-AGAAGAGATTGCCACTGAGTCGTGGACTTT
1 --GAAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
431957 AAGAAGGTAT
Statistics
Matches: 675, Mismatches: 84, Indels: 152
0.74 0.09 0.17
Matches are distributed among these distances:
54 22 0.03
55 88 0.13
56 110 0.16
57 10 0.01
58 6 0.01
59 7 0.01
60 133 0.20
61 117 0.17
62 76 0.11
63 7 0.01
64 8 0.01
65 35 0.05
66 35 0.05
67 2 0.00
68 19 0.03
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (61 bp):
GAAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT
Found at i:433263 original size:9 final size:9
Alignment explanation
Indices: 433234--433276 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
433224 CTTTATACTT
433234 TTTTTGTGTG
1 TTTTTGT-TG
*
433244 TGTTTTTTTG
1 T-TTTTGTTG
433254 TTTTTGTTG
1 TTTTTGTTG
*
433263 TTTTTTTTG
1 TTTTTGTTG
433272 TTTTT
1 TTTTT
433277 TTTTTTGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 20 0.69
10 4 0.14
11 5 0.17
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (9 bp):
TTTTTGTTG
Found at i:433267 original size:31 final size:31
Alignment explanation
Indices: 433232--433300 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
433222 GCCTTTATAC
433232 TTTTTTTGTGTGTGTTTTTTT-GTTTTTGTTG
1 TTTTTTT-TGTGTGTTTTTTTGGTTTTTGTTG
* *
433263 TTTTTTTTGTTTTTTTTTTTGGTTTTTGTT-
1 TTTTTTTTGTGTGTTTTTTTGGTTTTTGTTG
433293 TTTTTTTT
1 TTTTTTTT
433301 ACTTTTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 19 0.54
31 16 0.46
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (31 bp):
TTTTTTTTGTGTGTTTTTTTGGTTTTTGTTG
Found at i:433268 original size:19 final size:19
Alignment explanation
Indices: 433234--433295 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
433224 CTTTATACTT
*
433234 TTTTTGTGTGTGTTTTTTTG
1 TTTTTGT-TGTTTTTTTTTG
433254 TTTTTGTTG-TTTTTTTTG
1 TTTTTGTTGTTTTTTTTTG
433272 TTTTT-TT-TTTTGGTTTTTG
1 TTTTTGTTGTTTT--TTTTTG
433291 TTTTT
1 TTTTT
433296 TTTTTACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 5 0.13
18 13 0.34
19 13 0.34
20 7 0.18
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (19 bp):
TTTTTGTTGTTTTTTTTTG
Found at i:433277 original size:9 final size:9
Alignment explanation
Indices: 433246--433298 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
433236 TTTGTGTGTG
433246 TTTTTTTGT
1 TTTTTTTGT
*
433255 TTTTGTTGT
1 TTTTTTTGT
433264 TTTTTTTGT
1 TTTTTTTGT
433273 TTTTTTT-T
1 TTTTTTTGT
433281 TTGGTTTTTGT
1 TT--TTTTTGT
433292 TTTTTTT
1 TTTTTTT
433299 TTACTTTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 3 0.08
9 28 0.72
10 5 0.13
11 3 0.08
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:433288 original size:12 final size:12
Alignment explanation
Indices: 433247--433295 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
433237 TTGTGTGTGT
*
433247 TTTTTTGTTTTTG
1 TTTTTT-TTTTGG
*
433260 TTGTTTTTTTTGT
1 TT-TTTTTTTTGG
433273 TTTTTTTTTTGG
1 TTTTTTTTTTGG
433285 TTTTTGTTTTT
1 TTTTT-TTTTT
433296 TTTTTACTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 14 0.45
13 13 0.42
14 4 0.13
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTGG
Found at i:433307 original size:31 final size:30
Alignment explanation
Indices: 433246--433307 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
433236 TTTGTGTGTG
*
433246 TTTTTTTGTTTTTGTTGTTTTTTTTGTTTT
1 TTTTTTTGTTTTTGTTGTTTTTTTTCTTTT
433276 TTTTTTTGGTTTTTGTT-TTTTTTTTACTTTT
1 TTTTTTT-GTTTTTGTTGTTTTTTTT-CTTTT
433307 T
1 T
433308 CATCATTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (30 bp):
TTTTTTTGTTTTTGTTGTTTTTTTTCTTTT
Found at i:440255 original size:13 final size:13
Alignment explanation
Indices: 440237--440330 Score: 86
Period size: 13 Copynumber: 8.2 Consensus size: 13
440227 ATACAAAGAT
440237 CAATGTATCGATA
1 CAATGTATCGATA
440250 CAATGTATCGATA
1 CAATGTATCGATA
440263 C-A--T-T-GA-A
1 CAATGTATCGATA
*
440270 TAATGTATCGATA
1 CAATGTATCGATA
440283 CAATGTATCGATA
1 CAATGTATCGATA
440296 C-A--T-T-GA-A
1 CAATGTATCGATA
*
440303 TAATGTATCGATA
1 CAATGTATCGATA
440316 CAATGTATCGATA
1 CAATGTATCGATA
440329 CA
1 CA
440331 TTAATAATGT
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
7 2 0.03
8 6 0.09
9 2 0.03
10 4 0.06
11 2 0.03
12 6 0.09
13 43 0.66
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:440261 original size:33 final size:33
Alignment explanation
Indices: 440219--440349 Score: 203
Period size: 33 Copynumber: 4.0 Consensus size: 33
440209 AAATTCCCAG
*
440219 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACATAGAAT-AATGTATCGATACA
*
440252 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACATAGAATAATGTATCGATACA
*
440285 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACATAGAATAATGTATCGATACA
*
440318 ATGTATCGATACAT-TAATAATGTATCGATACA
1 ATGTATCGATACATAGAATAATGTATCGATACA
440350 TTTCCTTGGC
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.18
33 75 0.80
34 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACATAGAATAATGTATCGATACA
Found at i:440276 original size:20 final size:19
Alignment explanation
Indices: 440251--440351 Score: 100
Period size: 13 Copynumber: 5.8 Consensus size: 19
440241 GTATCGATAC
440251 AATGTATCGATACATTGAAT
1 AATGTATCGATACATT-AAT
440271 AATGTATCGATAC------
1 AATGTATCGATACATTAAT
440284 AATGTATCGATACATTGAAT
1 AATGTATCGATACATT-AAT
440304 AATGTATCGATAC------
1 AATGTATCGATACATTAAT
440317 AATGTATCGATACATTAAT
1 AATGTATCGATACATTAAT
440336 AATGTATCGATACATT
1 AATGTATCGATACATT
440352 TCCTTGGCAG
Statistics
Matches: 68, Mismatches: 0, Indels: 27
0.72 0.00 0.28
Matches are distributed among these distances:
13 26 0.38
19 16 0.24
20 26 0.38
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATTAAT
Found at i:449292 original size:13 final size:13
Alignment explanation
Indices: 449274--449303 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
449264 ACAATTCATT
449274 ATGTATCGATACA
1 ATGTATCGATACA
449287 ATGTATCGATACA
1 ATGTATCGATACA
449300 ATGT
1 ATGT
449304 GCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:449311 original size:33 final size:32
Alignment explanation
Indices: 449252--449320 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
449242 GCGTTTGAAG
*
449252 CAATGTATCGATACAATTCATTATGTATCGATA
1 CAATGTATCGATACAATTCA-CATGTATCGATA
449285 CAATGTATCGATACAATGTGC-CATGTATCGATA
1 CAATGTATCGATACAAT-T-CACATGTATCGATA
449318 CAA
1 CAA
449321 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (32 bp):
CAATGTATCGATACAATTCACATGTATCGATA
Found at i:449394 original size:19 final size:19
Alignment explanation
Indices: 449349--449401 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
449339 CTGCTAGTTT
* *
449349 CATGTATCGATACAATTAT
1 CATGTATCGATACAATGAA
449368 CTATGTATCGATACAATGAA
1 C-ATGTATCGATACAATGAA
*
449388 CATGTATCAATACA
1 CATGTATCGATACA
449402 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:449412 original size:32 final size:33
Alignment explanation
Indices: 449371--449435 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
449361 CAATTATCTA
*
449371 TGTATCGATACAATG-A-ACATGTATCAATACAT
1 TGTATCGATACAAAGCATA-ATGTATCAATACAT
449403 TGTATCGATACAAAGCATAATGTATCAATACAT
1 TGTATCGATACAAAGCATAATGTATCAATACAT
449436 CTGGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAAAGCATAATGTATCAATACAT
Found at i:451420 original size:65 final size:65
Alignment explanation
Indices: 451313--451454 Score: 212
Period size: 65 Copynumber: 2.2 Consensus size: 65
451303 CCGAGAAGAT
**
451313 ACTCCAACCCCATTTTTACATTAAAATTTGATTTATTTAAACATCAAATCGTCATCTTCGGAGAC
1 ACTCCAACCCCATTTTTACATTAAAATTTGATTTATAAAAACATCAAATCGTCATCTTCGGAGAC
** * * * *
451378 ACTCCAACCCTGTTTTTATATTAAAATTTGATTTATAAAAACATCAAATTGTCATCTTCGGTGAT
1 ACTCCAACCCCATTTTTACATTAAAATTTGATTTATAAAAACATCAAATCGTCATCTTCGGAGAC
451443 ACTCCAACCCCA
1 ACTCCAACCCCA
451455 CTATTTTCGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (65 bp):
ACTCCAACCCCATTTTTACATTAAAATTTGATTTATAAAAACATCAAATCGTCATCTTCGGAGAC
Found at i:451526 original size:158 final size:158
Alignment explanation
Indices: 451231--451545 Score: 375
Period size: 158 Copynumber: 2.0 Consensus size: 158
451221 GAGTAATATC
*
451231 GTTTTTACACTAAAATTCGATTTATAAAAAATATCAAATTGTCATTTCGAGGACACTCCAACCCC
1 GTTTTTACACTAAAATTCGATTTATAAAAAACATCAAATTGTCATTTCGAGGACACTCCAACCCC
* * **
451296 ACCATTTCCGAGAAGATACTCCAACCCCATTTTTACATTAAAATTTGATTTATTTAAACATCAAA
66 ACCATTTCCGAGAAGATACTCCAACCCCATTTTTACACTAAAATTCGATTTATGAAAACATCAAA
*
451361 TCGTCATCTTC-GGAGACACTCCAACCCT
131 TCGTCATCTCCAGG-GACACTCCAACCCT
* * * *
451389 GTTTTTATATTAAAATTTGATTTAT-AAAAACATCAAATTGTCATCTTCG-GTGATACTCCAACC
1 GTTTTTACACTAAAATTCGATTTATAAAAAACATCAAATTGTCAT-TTCGAG-GACACTCCAACC
* * ** * * * * *
451452 CCACTATTTTCGAGGGGATACTCTAACCTCTTTTTTGCACTAAAATTCGATTTATGAAAATATCA
64 CCACCATTTCCGAGAAGATACTCCAACCCCATTTTTACACTAAAATTCGATTTATGAAAACATCA
* ** *
451517 ATTTTTCATCTCCAGGGATACTCCAACCC
129 AATCGTCATCTCCAGGGACACTCCAACCC
451546 CACCATCTTC
Statistics
Matches: 131, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
157 19 0.15
158 110 0.84
159 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (158 bp):
GTTTTTACACTAAAATTCGATTTATAAAAAACATCAAATTGTCATTTCGAGGACACTCCAACCCC
ACCATTTCCGAGAAGATACTCCAACCCCATTTTTACACTAAAATTCGATTTATGAAAACATCAAA
TCGTCATCTCCAGGGACACTCCAACCCT
Found at i:451557 original size:93 final size:93
Alignment explanation
Indices: 451399--451572 Score: 251
Period size: 93 Copynumber: 1.9 Consensus size: 93
451389 GTTTTTATAT
* * * *
451399 TAAAATTTGATTTATAAAAACATCAAATTGTCATCTTCGGTGATACTCCAACCCCACTATTTTCG
1 TAAAATTCGATTTATAAAAACATCAAATTGTCATCTCCGGTGATACTCCAACCCCACCATCTTCG
*
451464 AGGGGATACTCTAACCTCTTTTTTGCAC
66 AGGGGATACTCCAACCTCTTTTTTGCAC
* * * *
451492 TAAAATTCGATTTATGAAAATATCAATTTTTCATCTCCAGG-GATACTCCAACCCCACCATCTTC
1 TAAAATTCGATTTATAAAAACATCAAATTGTCATCTCC-GGTGATACTCCAACCCCACCATCTTC
451556 GAGGGGATACTCCAACC
65 GAGGGGATACTCCAACC
451573 CTGCTTGTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (93 bp):
TAAAATTCGATTTATAAAAACATCAAATTGTCATCTCCGGTGATACTCCAACCCCACCATCTTCG
AGGGGATACTCCAACCTCTTTTTTGCAC
Found at i:453499 original size:20 final size:19
Alignment explanation
Indices: 453476--453547 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 19
453466 CACACCCAGA
*
453476 TGTATCGATACATCTTGCTT
1 TGTATCGATACATCTT-CAT
*
453496 TGTATCGATACATGTTCAT
1 TGTATCGATACATCTTCAT
** *
453515 TGTATCGATACATGGATAAT
1 TGTATCGATACAT-CTTCAT
453535 TGTATCGATACAT
1 TGTATCGATACAT
453548 GCAACTGGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
19 15 0.32
20 32 0.68
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATCTTCAT
Found at i:453548 original size:20 final size:20
Alignment explanation
Indices: 453495--453548 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
453485 ACATCTTGCT
* *
453495 TTGTATCGATACAT-GTTCA
1 TTGTATCGATACATGGATAA
453514 TTGTATCGATACATGGATAA
1 TTGTATCGATACATGGATAA
453534 TTGTATCGATACATG
1 TTGTATCGATACATG
453549 CAACTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGGATAA
Found at i:453614 original size:13 final size:13
Alignment explanation
Indices: 453593--453623 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
453583 CGATACATGG
*
453593 TACAATGTATCGA
1 TACATTGTATCGA
453606 TACATTGTATCGA
1 TACATTGTATCGA
453619 TACAT
1 TACAT
453624 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:453619 original size:33 final size:32
Alignment explanation
Indices: 453577--453643 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
453567 CTATCACTAT
453577 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
453610 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
453643 T
1 T
453644 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:454431 original size:13 final size:13
Alignment explanation
Indices: 454413--454442 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
454403 ACAATTCATT
454413 ATGTATCGATACA
1 ATGTATCGATACA
454426 ATGTATCGATACA
1 ATGTATCGATACA
454439 ATGT
1 ATGT
454443 GCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:454513 original size:20 final size:19
Alignment explanation
Indices: 454488--454560 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
454478 CTACCAGTTT
* *
454488 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGA-A
454508 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
454527 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
454548 -ATGTATCGATACA
1 CATGTATCGATACA
454561 TCTGAGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 16 0.33
20 31 0.65
21 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:455178 original size:28 final size:28
Alignment explanation
Indices: 455146--455201 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
455136 CAAACGGTTA
455146 AAAAGATTTTCTCCCCCTTAATAAAAAT
1 AAAAGATTTTCTCCCCCTTAATAAAAAT
*
455174 AAAAGATTTTCTCCCCCTTGATAAAAAT
1 AAAAGATTTTCTCCCCCTTAATAAAAAT
455202 TTATTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAAGATTTTCTCCCCCTTAATAAAAAT
Found at i:456934 original size:10 final size:10
Alignment explanation
Indices: 456906--456939 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
456896 GAAAAATAAA
*
456906 AAATTTGAAG
1 AAATTTGATG
456916 AAGATTTGATG
1 AA-ATTTGATG
456927 AAATTTGATG
1 AAATTTGATG
456937 AAA
1 AAA
456940 GGATGTTAGG
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:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (10 bp):
AAATTTGATG
Found at i:457042 original size:13 final size:13
Alignment explanation
Indices: 457024--457049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
457014 TAGTAACCCT
457024 TGTATCGATACAA
1 TGTATCGATACAA
457037 TGTATCGATACAA
1 TGTATCGATACAA
457050 AGAATATTGT
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):
TGTATCGATACAA
Found at i:463230 original size:33 final size:32
Alignment explanation
Indices: 463168--463236 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
463158 CCGTTTGAAG
*
463168 CAATGTATCGATATAATTCATTATATATCGATA
1 CAATGTATCGATATAATTCA-CATATATCGATA
*
463201 CAATGTATCGATATAATATGC-CATGTATCGATA
1 CAATGTATCGATATAAT-T-CACATATATCGATA
463234 CAA
1 CAA
463237 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATATAATTCACATATATCGATA
Found at i:463309 original size:19 final size:19
Alignment explanation
Indices: 463266--463337 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
463256 TGCCAGTTTT
**
463266 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAA-TGAAC
463286 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
*
463305 ATGTATCGATACAAAGCATA-
1 ATGTATCGATACAATG-A-AC
463325 ATGTATCGATACA
1 ATGTATCGATACA
463338 TTCAAGGGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 18 0.38
20 28 0.60
21 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:465013 original size:48 final size:48
Alignment explanation
Indices: 464902--465031 Score: 156
Period size: 48 Copynumber: 2.7 Consensus size: 48
464892 TTTGTATCCT
* * *
464902 TACAGTGAACAATGTATCAATACATATG-GATTTTTCCAAAATGTATCGA
1 TACAATGAA-AATGTATCGATACATCTGAG-TTTTTCCAAAATGTATCGA
* *
464951 TACAATGCAAAATGTATCGATACATCTGAGTTTTT-TAAAATGTATTGA
1 TACAATG-AAAATGTATCGATACATCTGAGTTTTTCCAAAATGTATCGA
*
464999 TACAATGAATAATGTATCGATATATCTGAGTTT
1 TACAATGAA-AATGTATCGATACATCTGAGTTT
465032 CTAAATTATA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
47 2 0.03
48 40 0.56
49 27 0.38
50 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (48 bp):
TACAATGAAAATGTATCGATACATCTGAGTTTTTCCAAAATGTATCGA
Found at i:467180 original size:154 final size:155
Alignment explanation
Indices: 466897--467187 Score: 356
Period size: 154 Copynumber: 1.9 Consensus size: 155
466887 TAAAAATACT
*
466897 TGATACCCCTAAAAGACTTAAAAAGGTAAAAGGATGGGATGAATCTATCCTAAATACCCACCTTC
1 TGATACCCCTAAAAGACTTAAAAAGATAAAAGGATGGGATGAATCTATCCTAAATACCCACCTTC
* * ** *
466962 GGCATAAAAGCGAACTCGATGACAACTTAGGACTCGGTTATGAAAAATTACGAAAATAAACCTAG
66 GACATAAAAGCGAACCCGATGACAACTTAGGACTCAATTATAAAAAATTACGAAAATAAACCTAG
467027 -GGATACCTATGACTTTGAAATGCC
131 AGGATACCTATGACTTTGAAATGCC
* * * * * * *
467051 TGATACCCTTAAATGACTTAAAAAAGATTATA-GATTGGATGAA-CTTATCCTAAGTACCCACTT
1 TGATACCCCTAAAAGACTT-AAAAAGATAAAAGGATGGGATGAATC-TATCCTAAATACCCACCT
* * * ***
467114 TCGACATAAAAGC-AGACCCGATGATAACTTAGTACTCAATTTTAAAAAATTACGAAAATGCTCC
64 TCGACATAAAAGCGA-ACCCGATGACAACTTAGGACTCAATTATAAAAAATTACGAAAATAAACC
467178 TAGAGGATAC
128 TAGAGGATAC
467188 TTTTAATGTA
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
153 2 0.02
154 97 0.85
155 15 0.13
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (155 bp):
TGATACCCCTAAAAGACTTAAAAAGATAAAAGGATGGGATGAATCTATCCTAAATACCCACCTTC
GACATAAAAGCGAACCCGATGACAACTTAGGACTCAATTATAAAAAATTACGAAAATAAACCTAG
AGGATACCTATGACTTTGAAATGCC
Found at i:467588 original size:138 final size:140
Alignment explanation
Indices: 467336--467672 Score: 407
Period size: 138 Copynumber: 2.4 Consensus size: 140
467326 TTTCGAAGAT
* * *
467336 ATCATTTCGTATCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTTAAAGATTGCTATACCCCT
1 ATCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTTAAAGATTGCTATACCCCC
*
467401 ACGAAAAATCATAGAAATATTAGAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATCTTT-
66 ACGAAAAATCATAGAAATATTAGAAATATTAAAAAATTAAGATAATAATTTTTATTTAATCTTTA
467465 ATTTCAAAAA
131 ATTTCAAAAA
* * ** *
467475 ATTCATTTTATTCCTTAATGGAGAATTGAAAAGATA-AAAAAAGTTTTGAAA-ATT-TTCATACC
1 A-TCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTT-AAAGATTGCT-ATACC
* * * * *
467537 CCCAC-AATACTCATGGAAATATTAGAAATATTAAGAAATTAAGATAATAATTTTTATTTAATTT
63 CCCACGAAAAATCATAGAAATATTAGAAATATTAAAAAATTAAGATAATAATTTTTATTTAATCT
*
467601 TTAATTTTAAAAA
128 TTAATTTCAAAAA
* ** *** *
467614 ATCATTTCGTACCTTAATGGAGAACAAAAAAGATGTGAAAAA-TTTTAAAGATTTCTATA
1 ATCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTTAAAGATTGCTATA
467673 TCTCTATGGA
Statistics
Matches: 167, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
137 3 0.02
138 93 0.56
139 40 0.24
140 31 0.19
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (140 bp):
ATCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAAGTTTTAAAGATTGCTATACCCCC
ACGAAAAATCATAGAAATATTAGAAATATTAAAAAATTAAGATAATAATTTTTATTTAATCTTTA
ATTTCAAAAA
Found at i:468798 original size:20 final size:20
Alignment explanation
Indices: 468770--468809 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
468760 TTAGAATTTC
468770 ATTAGATGAAATTTAAAAAT
1 ATTAGATGAAATTTAAAAAT
* *
468790 ATTATATGAATTTTAAAAAT
1 ATTAGATGAAATTTAAAAAT
468810 TTTAAATCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
ATTAGATGAAATTTAAAAAT
Done.