Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
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: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 15 of 18
Found at i:2420161 original size:29 final size:29
Alignment explanation
Indices: 2420120--2420183 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
2420110 GCTTAAAAGG
* *
2420120 AAAAAG-GTGCCACGGAGGTGTGGGCTTT
1 AAAAAGAGTGCCACAGAGGTGTGGACTTT
*
2420148 AAAAAGAGTGCCACAGAGTTGTGGACTTT
1 AAAAAGAGTGCCACAGAGGTGTGGACTTT
*
2420177 GAAAAGA
1 AAAAAGA
2420184 AAAAGGTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.20
Consensus pattern (29 bp):
AAAAAGAGTGCCACAGAGGTGTGGACTTT
Found at i:2420195 original size:96 final size:96
Alignment explanation
Indices: 2419816--2420188 Score: 579
Period size: 96 Copynumber: 3.9 Consensus size: 96
2419806 CACCGACTTG
* * **
2419816 TGTGGGCTTTGAAAAGGAGAAAGATGCCATGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTG
1 TGTGGGC-TT-AAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTG
2419880 TGGACTTTAAAAGGAAAAAGAATGCCACGCAGT
64 TGGACTTTAAAAGGAAAAAGAATGCCACGCAGT
* *
2419913 TGTCGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGTCTTTAAAAGGGTGCCACGGAGTTGTG
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTG
2419978 GACTTTAAAAGGAAAAAGAATGCCACGCAGT
66 GACTTTAAAAGGAAAAAGAATGCCACGCAGT
*
2420009 TGTGGGCTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTG
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTG
*
2420074 GACTTTAAAAGGAAAAAGAATGCCACGTAGT
66 GACTTTAAAAGGAAAAAGAATGCCACGCAGT
* * * * *
2420105 TGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGGTGTGGGCTTTAAAAAGAGTGCCACAGAGTTGT
1 TGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGT
2420170 GGACTTTGAAAA-GAAAAAG
65 GGACTTT-AAAAGGAAAAAG
2420189 GTGCCACAGA
Statistics
Matches: 257, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
95 26 0.10
96 188 0.73
97 39 0.15
98 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (96 bp):
TGTGGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTG
GACTTTAAAAGGAAAAAGAATGCCACGCAGT
Found at i:2420247 original size:32 final size:33
Alignment explanation
Indices: 2420059--2420319 Score: 220
Period size: 32 Copynumber: 8.0 Consensus size: 33
2420049 TTTAAAAGGG
* * *
2420059 TGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAA
1 TGCCACTGAGTCGTGGACTTTAGAA-GAAAAAG-A
* * * *
2420094 TGCCAC-GTAGTTGTGGGC-TTAAAAGGAAAAAGG
1 TGCCACTG-AGTCGTGGACTTTAGAA-GAAAAAGA
* * *
2420127 TGCCACGGAGGT-GTGGGCTTT--AA-AAAGAG-
1 TGCCACTGA-GTCGTGGACTTTAGAAGAAAAAGA
* * * *
2420156 TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGG
1 TGCCACTGAGTCGTGGACTTT-AGAAGAAAAAGA
*
2420190 TGCCACAGAGTCGTGGACTTT-GAAG-AAAAGA
1 TGCCACTGAGTCGTGGACTTTAGAAGAAAAAGA
2420221 TGCCACTGAGTCGTGGACTTTAGAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTAGAAGAAAAAGA
* *
2420254 TGTCACTAAGTCGTGGACTTT-GAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTAGAAGAAAAAGA
*
2420286 TGCCACTAAGTCGTGGACTTTA-AAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTAGAAGAAAA-AGA
2420319 T
1 T
2420320 TTGAAAAATT
Statistics
Matches: 199, Mismatches: 13, Indels: 30
0.82 0.05 0.12
Matches are distributed among these distances:
28 2 0.01
29 16 0.08
30 5 0.03
31 25 0.13
32 49 0.25
33 47 0.24
34 40 0.20
35 15 0.08
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.21
Consensus pattern (33 bp):
TGCCACTGAGTCGTGGACTTTAGAAGAAAAAGA
Found at i:2420291 original size:192 final size:192
Alignment explanation
Indices: 2419827--2420291 Score: 518
Period size: 192 Copynumber: 2.4 Consensus size: 192
2419817 GTGGGCTTTG
** * * * * *
2419827 AAAAGGAGA-AAGATGCCATGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAA
1 AAAAGGA-ACAAGATGCCACAGAGTCGTGGACTTTAAAAAGATGCCACGAAGTCGTGGACTTTAA
* *
2419890 AAGGAAAAAGAATGCCACGCAGTTGTCGGCTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGTCTT
65 AAGGAAAAAGAATGCCACGCAGTTGTCGGCTTAAAAGGAAAAAGGTGCCACAGAGGTGTGGGCTT
* * * *
2419955 TAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTTGTGGGCTT
130 TAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTCGTGGACTT
* * * * * *
2420018 AAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAA
1 AAAAGGAACAAGATGCCACAGAGTCGTGGACTTTAAAAAGATGCCACGAAGTCGTGGACTTTAAA
* * *
2420083 AGGAAAAAGAATGCCACGTAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACGGAGGTGTGGGCTTT
66 AGGAAAAAGAATGCCACGCAGTTGTCGGCTTAAAAGGAAAAAGGTGCCACAGAGGTGTGGGCTTT
*
2420148 AAAAAGAGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAG-GTGCCACAG-AGTCGTGGACTT
131 -AAAAGAGTGCCACAGAGTTGTGGACTTT-AAAAGGAAAAAGAATGCCAC-GCAGTCGTGGACTT
** * * *
2420210 TGAA-GAA-AAGATGCCACTGAGTCGTGGACTTTAGAAGAAAAAGATGTCACTAAGTCGTGGACT
1 AAAAGGAACAAGATGCCACAGAGTCGTGGACTTT-----AAAAAGATGCCACGAAGTCGTGGACT
*
2420273 TT-GAA-GAAAAAG-ATGCCAC
61 TTAAAAGGAAAAAGAATGCCAC
2420292 TAAGTCGTGG
Statistics
Matches: 239, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
190 23 0.10
191 29 0.12
192 118 0.49
193 41 0.17
194 6 0.03
195 22 0.09
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.21
Consensus pattern (192 bp):
AAAAGGAACAAGATGCCACAGAGTCGTGGACTTTAAAAAGATGCCACGAAGTCGTGGACTTTAAA
AGGAAAAAGAATGCCACGCAGTTGTCGGCTTAAAAGGAAAAAGGTGCCACAGAGGTGTGGGCTTT
AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGCAGTCGTGGACTT
Found at i:2420307 original size:159 final size:158
Alignment explanation
Indices: 2419990--2420309 Score: 357
Period size: 159 Copynumber: 2.0 Consensus size: 158
2419980 CTTTAAAAGG
* * *
2419990 AAAAAGAATGCCACGCAGTTGTGGGCTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTAAA
1 AAAAAGAATGCCACGCAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTCGTGGACTTTAAA
* * * * *
2420055 AGGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAAGAATGCCACGTAGTTGTGGGCTTAAAAGG
66 AAGATGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGAATGCCACGTAGTCGTGGACTTAAAAGG
* * *
2420120 AAAAAGGTGCCACGGAGGTGTGGGCTTT
131 AAAAAGATGCCACGGAAGTGTGGACTTT
*
2420148 AAAAAGAGTGCCACAG-AGTTGTGGACTTTGAAAA-GAAAAAGGTGCCACAGAGTCGTGGACTTT
1 AAAAAGAATGCCAC-GCAGTTGTGGAC-TT-AAAAGGAAAAAGGTGCCACAGAGTCGTGGACTTT
* * *
2420211 GAAGAAAAGATGCCACTGAGTCGTGGACTTTAGAA-GAAAAAG-ATGTCAC-TAAGTCGTGGACT
63 --A-AAAAGATGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGAATGCCACGT-AGTCGTGGACT
** *
2420273 TTGAA-GAAAAAGATGCCAC-TAAGTCGTGGACTTT
124 TAAAAGGAAAAAGATGCCACGGAAGT-GTGGACTTT
2420307 AAA
1 AAA
2420310 GAAAAGAGAT
Statistics
Matches: 136, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
158 25 0.18
159 55 0.40
160 22 0.16
161 8 0.06
162 26 0.19
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.21
Consensus pattern (158 bp):
AAAAAGAATGCCACGCAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTCGTGGACTTTAAA
AAGATGCCACGGAGTCGTGGACTTTAAAAGGAAAAAGAATGCCACGTAGTCGTGGACTTAAAAGG
AAAAAGATGCCACGGAAGTGTGGACTTT
Found at i:2432082 original size:1 final size:1
Alignment explanation
Indices: 2432078--2432135 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
2432068 ATGAAACAAT
* * * * * * *
2432078 AAAAAACAAAAAAAAAAAAAACAACAAAAAAAAAGAAAAAAAAGAGAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2432136 CCTACTTAAG
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:2432092 original size:28 final size:25
Alignment explanation
Indices: 2432051--2432120 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
2432041 TTTCTAAACA
** *
2432051 AAAAAACAACAAAAACAATGAAACAAT
1 AAAAAACAA-AAAAA-AAAAAAACAAC
2432078 AAAAAACAAAAAAAAAAAAAACAAC
1 AAAAAACAAAAAAAAAAAAAACAAC
*
2432103 AAAAAA-AAAGAAAAAAAA
1 AAAAAACAAAAAAAAAAAA
2432121 GAGAAAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 11 0.28
25 14 0.36
26 5 0.13
27 9 0.23
ACGTcount: A:0.84, C:0.10, G:0.03, T:0.03
Consensus pattern (25 bp):
AAAAAACAAAAAAAAAAAAAACAAC
Found at i:2432108 original size:17 final size:16
Alignment explanation
Indices: 2432046--2432136 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 16
2432036 TCTTTTTTCT
*
2432046 AAACAAAAAAACAACAA
1 AAACAAAAAAA-AAAAA
* *
2432063 AAACAATGAAACAATAAA
1 AAACAA--AAAAAAAAAA
2432081 AAACAAAAAAAAAAAAA
1 AAAC-AAAAAAAAAAAA
2432098 ACAACAAAAAAAAAGAAA
1 A-AACAAAAAAAAA-AAA
*
2432116 AAA-AAGAGAAAAGAAAA
1 AAACAA-A-AAAAAAAAA
2432133 AAAC
1 AAAC
2432137 CTACTTAAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
16 2 0.03
17 33 0.55
18 19 0.32
19 6 0.10
ACGTcount: A:0.82, C:0.10, G:0.05, T:0.02
Consensus pattern (16 bp):
AAACAAAAAAAAAAAA
Found at i:2433304 original size:61 final size:61
Alignment explanation
Indices: 2433105--2433688 Score: 424
Period size: 61 Copynumber: 9.4 Consensus size: 61
2433095 AACCTTTTAT
* * * * * * *
2433105 CCTTTCAGTCCTTAAAGAGCATGACATCCTTTTCTTTTCAAAGCCCATACAAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGAC-GCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* ** * * * *
2433167 TCTTTTAGTTTTCAAAAAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
2433228 CCTTTTAGTCGTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGCCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * ** **** *
2433289 CCTGTCAATCCTCAAAGAGCAAGATGCCTTTTCCAAGATGCCTTTTCCTTTCAAAGTCCACA-TA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC----TTTCAAAGCC---CACA---CA-AGT-
* * **
2433353 AGTTGGTGG
54 TGGTGG-CA
* * * * * *
2433362 TCCCTTTCAATCTTCAAAGAGTAGGATG--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCT-TTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
2433423 CATTTCAGTCCTCAAAGAGTAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
2433484 CCTTTCAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
2433545 CCTGTCAGTCCTCAAAGAGTAGGAC-CACTTTTCCTTTTAAAGCCCGCACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGC-CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * **
2433606 CCTTCTAGTCCTTAAAGAGCAAGATG--TTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
2433665 CCTTCTAGTCCTCAAAGAGCAGGA
1 CCTTTTAGTCCTCAAAGAGCAGGA
2433689 TGAAAGCCTA
Statistics
Matches: 409, Mismatches: 93, Indels: 43
0.75 0.17 0.08
Matches are distributed among these distances:
59 66 0.16
60 3 0.01
61 268 0.66
62 23 0.06
63 3 0.01
65 4 0.01
66 3 0.01
68 3 0.01
69 4 0.01
71 3 0.01
72 4 0.01
73 7 0.02
74 1 0.00
75 17 0.04
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:2433327 original size:14 final size:14
Alignment explanation
Indices: 2433308--2433336 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2433298 CCTCAAAGAG
2433308 CAAGATGCCTTTTC
1 CAAGATGCCTTTTC
2433322 CAAGATGCCTTTTC
1 CAAGATGCCTTTTC
2433336 C
1 C
2433337 TTTCAAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (14 bp):
CAAGATGCCTTTTC
Found at i:2433429 original size:59 final size:59
Alignment explanation
Indices: 2433331--2433978 Score: 655
Period size: 59 Copynumber: 11.0 Consensus size: 59
2433321 CCAAGATGCC
* * * * * *
2433331 TTTTCCTTTCAAAGTCCACATAAGTTGGTGGTC-CCTTTCAATCTTCAAAGAGTAGGATG
1 TTTTCCTTTCAAAGCCCACACAAGTTGGTGG-CACCTTTCAGTCCTCAAAGAGCAGGACG
* * *
2433390 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAGAGTAAGACG
1 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* * * *
2433449 CCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAAAGCAGGACG
1 --TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* * * *
2433510 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTGTCAGTCCTCAAAGAGTAGGACCAC
1 --TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA-C-G
* * * * * *
2433573 TTTTCCTTTTAAAGCCCGCACGAGTTGGTGGCACC-TTCTAGTCCTTAAAGAGCAAGATG
1 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACG
**
2433632 TTTTTTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAGGA--
1 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACG
* * * * *
2433689 --------TGAAAGCCTACACAAGTTGGTGGCACCTGTCAGTCCTCAAAAAGTAGGACG
1 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* * * * *
2433740 CATTTTCCTTTCAAAGCTCACACAAGTTGGTAGCACCTTCCAGTCCTTAAAGAGCAAGACG
1 --TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
* * **
2433801 TTTTCCTTTCAAAGCCAACACAAGTTGGTGGCACC-TTCTAGTGCC-CAAAGAGTAGGATA
1 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGT-CCTCAAAGAGCAGGACG
*
2433860 CTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAGGACG
1 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACG
* * *
2433919 TTTTCCTTTCAAAGCCCACATAAGTTGGTGGCACC-TTCTAGTCCCCAAAGAGCTGGACG
1 TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACG
2433978 T
1 T
2433979 GATTTAATTT
Statistics
Matches: 499, Mismatches: 68, Indels: 44
0.82 0.11 0.07
Matches are distributed among these distances:
49 41 0.08
50 2 0.00
58 5 0.01
59 251 0.50
60 4 0.01
61 195 0.39
62 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:2433440 original size:134 final size:135
Alignment explanation
Indices: 2433193--2433563 Score: 396
Period size: 134 Copynumber: 2.8 Consensus size: 135
2433183 AAGCAGGACA
* * *
2433193 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCGTCAAAGAGCAGGACGCCTT
1 CCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCGTCAAAGAGCAGGACG-CTT
* *
2433258 TTCCTTTCAAAGCCCACACAAGTTGGTGCCACCTGTCAATCCTCAAAGAGCAAGATGCCTTTTCC
65 TTCCTTTCAAAGCCCACACAAGTTGGTGCCACATGTCAATCCTCAAAGAGCAAGACGCCTTTTCC
2433323 AAGATG
130 AAGATG
* * * * * *
2433329 CCTTTTCCTTTCAAAGTCCACATAAGTTGGTGGTC-CCTTTCAATCTTCAAAGAGTAGGATG-TT
1 CCTTCTCCTTTCAAAGCCCACACAAGTTGGTGG-CACCTTTCAATCGTCAAAGAGCAGGACGCTT
* * * *
2433392 TTCCTTTCAAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAGAGTAAGACGCC--TT-C
65 TTCCTTTCAAAGCCCACACAAGTTGGTGCCACATGTCAATCCTCAAAGAGCAAGACGCCTTTTCC
2433454 ----T-
130 AAGATG
* * * *
2433455 -C--CT--TTT-AAAGCCCACACAAGTTAGTGGCACCTTTCAGTCCTCAAAAAGCAGGACGCCTT
1 CCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCGTCAAAGAGCAGGACG-CTT
* * * *
2433514 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTGTCAGTCCTCAAAGAG
65 TTCCTTTCAAAGCCCACACAAGTTGGTGCCACATGTCAATCCTCAAAGAG
2433564 TAGGACCACT
Statistics
Matches: 204, Mismatches: 27, Indels: 22
0.81 0.11 0.09
Matches are distributed among these distances:
119 1 0.00
120 39 0.19
121 3 0.01
122 49 0.24
123 1 0.00
125 1 0.00
127 1 0.00
131 1 0.00
132 2 0.01
134 55 0.27
136 50 0.25
137 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (135 bp):
CCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAATCGTCAAAGAGCAGGACGCTTT
TCCTTTCAAAGCCCACACAAGTTGGTGCCACATGTCAATCCTCAAAGAGCAAGACGCCTTTTCCA
AGATG
Found at i:2433813 original size:169 final size:171
Alignment explanation
Indices: 2433338--2433971 Score: 637
Period size: 169 Copynumber: 3.6 Consensus size: 171
2433328 GCCTTTTCCT
* * * * * *
2433338 TTCAAAGTCCACATAAGTTGGTGGTC-CCTTTCAATCTTCAAAGAGTAGGATG--TTTTCCTTTC
1 TTCAAAGCCCACACAAGTTGGTGG-CACCTGTCAGTCCTCAAAGAGTAGGACGCATTTTCCTTTC
* * * * *
2433400 AAAGCCCACACAAGTTGGTGGCACATT-TCAGTCCTCAAAGAGTAAGACGCCTTCTCCTTTTAAA
65 AAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTTAAAGAGCAAGACG--TTTTCCTTTCAAA
* * * *
2433464 GCCCACACAAGTTAGTGGCACCTT-TCAGT-CCTCAAAAAGCAGGACGCCTT
127 GCCAACACAAGTTGGTGGCACCTTCT-AGTGCC-CAAAGAGCAGGA-----A
2433514 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTGTCAGTCCTCAAAGAGTAGGAC-CACTTTTC
1 TT-C----AAAGCCCACACAAGTTGGTGGCACCTGTCAGTCCTCAAAGAGTAGGACGCA-TTTTC
* * * * **
2433578 CTTTTAAAGCCCGCACGAGTTGGTGGCACCTTCTAGTCCTTAAAGAGCAAGATGTTTTTTTTTCA
60 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGCAAGACGTTTTCCTTTCA
*
2433643 AAGCCCACACAAGTTGGTGGCACCTTCTAGT-CCTCAAAGAGCAGG-A
125 AAGCCAACACAAGTTGGTGGCACCTTCTAGTGCC-CAAAGAGCAGGAA
* * *
2433689 -TGAAAGCCTACACAAGTTGGTGGCACCTGTCAGTCCTCAAAAAGTAGGACGCATTTTCCTTTCA
1 TTCAAAGCCCACACAAGTTGGTGGCACCTGTCAGTCCTCAAAGAGTAGGACGCATTTTCCTTTCA
* * *
2433753 AAGCTCACACAAGTTGGTAGCACCTTCCAGTCCTTAAAGAGCAAGACGTTTTCCTTTCAAAGCCA
66 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGCAAGACGTTTTCCTTTCAAAGCCA
*
2433818 ACACAAGTTGGTGGCACCTTCTAGTGCCCAAAGAGTAGGATA
131 ACACAAGTTGGTGGCACCTTCTAGTGCCCAAAGAGCAGGA-A
*
2433860 CTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT-TCTAGTCCTCAAAGAGCAGGACG--TTT
1 -------TTCAAAGCCCACACAAGTTGGTGGCACCTGTC-AGTCCTCAAAGAGTAGGACGCATTT
* **
2433922 TCCTTTCAAAGCCCACATAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGC
58 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGC
2433972 TGGACGTGAT
Statistics
Matches: 390, Mismatches: 44, Indels: 47
0.81 0.09 0.10
Matches are distributed among these distances:
169 147 0.38
170 4 0.01
171 1 0.00
174 1 0.00
176 2 0.01
177 48 0.12
178 2 0.01
179 44 0.11
180 1 0.00
181 88 0.23
182 1 0.00
183 50 0.13
184 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (171 bp):
TTCAAAGCCCACACAAGTTGGTGGCACCTGTCAGTCCTCAAAGAGTAGGACGCATTTTCCTTTCA
AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGCAAGACGTTTTCCTTTCAAAGCCA
ACACAAGTTGGTGGCACCTTCTAGTGCCCAAAGAGCAGGAA
Found at i:2436345 original size:672 final size:671
Alignment explanation
Indices: 2435063--2437066 Score: 3864
Period size: 672 Copynumber: 3.0 Consensus size: 671
2435053 ACTGCATTGT
*
2435063 AGAACCAATGGCAATGAGGGGCAGACTGAGCTAGTGAGTGGTTATCTCCTTATGAAAAGGAAAAT
1 AGAACCAATGGCAATGAGGGGCAGACTGAGCTAGTGAGTGGTTATCTCCTTATGCAAAGGAAAAT
2435128 CCCCACAATGCCCTTGGTTTGTCTCCTAATCCTATTGACTGAGCATGATGATAAATAAAGGTTGT
66 CCCCACAATGCCCTTGGTTTGTCTCCTAATCCTATTGACTGAGCATGATGATAAATAAAGGTTGT
*
2435193 TGGCTCAACAAAGAGGATCATTTTCAGAAAAAAAAAGTTTCGACAGTAGAGAATCCTTCAGCAAC
131 TGGCTCAACAAAGAGGATCCTTTTCAGAAAAAAAAAGTTTCGACAGTAGAGAATCCTTCAGCAAC
2435258 CAAAAAACCAAAAATACTTAGAAAAACACTATTCCATTGGTCTCAAAACTCTATTCCTGTAGCTC
196 CAAAAAACCAAAAATACTTAGAAAAACACTATTCCATTGGTCTCAAAACTCTATTCCTGTAGCTC
2435323 TCAAAACCACCACCAAAAAACCTCTCAAAACTCAACATTCCTCATATCTTCACCCACCAATAGCC
261 TCAAAACCACCACCAAAAAACCTCTCAAAACTCAACATTCCTCATATCTTCACCCACCAATAGCC
2435388 TCTCCCTCAACCATACTACCAAAAAGCCACCTCCTTTCATCCTTTTCTTGCTAAATAATAGCAAA
326 TCTCCCTCAACCATACTACCAAAAAGCCACCTCCTTTCATCCTTTTCTTGCTAAATAATAGCAAA
*
2435453 GAAAGGGAGCTAACTTAGCCAACAACCTTTGCTCCGAGAAACAAGGGAAGTTCAAGCTCTTCGGT
391 GAAAGGGAGATAACTTAGCCAACAACCTTTGCTCCGAGAAACAAGGGAAGTTCAAGCTCTTCGGT
*
2435518 ATATCTTCTCTACCTTGATCCTTTTGGTTTCTATTTTGGCCATTAATTTCATCATAGAAATCCCT
456 ATATCTTCTCTACCTTGATCCTTTTGGTTTCTATTTTGGCCATTAATGTCATCATAGAAATCCCT
2435583 TGCTATGATCAAAAACTCCTTAGGACTCCCATGGATTCTTGTGGCTTTGGTTGTGGTAGCTTAGG
521 TGCTATGATCAAAAACTCCTTAGGACTCCCATGGATTCTTGTGGCTTTGGTTGTGGTAGCTTAGG
*
2435648 ACTTTATTGTTCCTTGGTTTTGTTTGCATCTTCATCACCATAACAGCCTTTATTTTTGCATTCCT
586 ACTTTGTTGTTCCTTGGTTTTGTTTGCATCTTCATCACCATAACAGCCTTTATTTTTGCATTCCT
2435713 TGCTCATTCCCACAATGCCTC
651 TGCTCATTCCCACAATGCCTC
2435734 AGAACCAATGGCAATGAGGGGCAGACTGAGCTAGTGAGTGGTTATCTCCTTATGCAAAGGAAAAT
1 AGAACCAATGGCAATGAGGGGCAGACTGAGCTAGTGAGTGGTTATCTCCTTATGCAAAGGAAAAT
2435799 CCCCACAATGCCCTTGGTTTGTCTCCTAATCCTATTGACTGAGCATGATGATAAATAAAGGTTGT
66 CCCCACAATGCCCTTGGTTTGTCTCCTAATCCTATTGACTGAGCATGATGATAAATAAAGGTTGT
2435864 TGGCTCAACAAAGAGGATCCTTTTCAGAAAAAAAAAAGTTTCGACAGTAGAGAATCCTTCAGCAA
131 TGGCTCAACAAAGAGGATCCTTTTCAG-AAAAAAAAAGTTTCGACAGTAGAGAATCCTTCAGCAA
2435929 CCAAAAAACCAAAAATACTTAGAAAAACACTATTCCATTGGTCTCAAAACTCTATTCCTGTAGCT
195 CCAAAAAACCAAAAATACTTAGAAAAACACTATTCCATTGGTCTCAAAACTCTATTCCTGTAGCT
2435994 CTCAAAACCACCACCAAAAAACCTCTCAAAACTCAACATTCCTCATATCTTCACCCACCAATAGC
260 CTCAAAACCACCACCAAAAAACCTCTCAAAACTCAACATTCCTCATATCTTCACCCACCAATAGC
2436059 CTCTCCCTCAACCATACTACCAAAAAGCCACCTCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
325 CTCTCCCTCAACCATACTACCAAAAAGCCACCTCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
2436124 AGAAAGGGAGATAACTTAGCCAACAACCTTTGCTCCGAGAAACAAGGGAAGTTCAAGCTCTTCGG
390 AGAAAGGGAGATAACTTAGCCAACAACCTTTGCTCCGAGAAACAAGGGAAGTTCAAGCTCTTCGG
*
2436189 TATATCTTCTCTACCTTGATCCTTTTGGTTTCTGTTTTGGCCATTAATGTCATCATAGAAATCCC
455 TATATCTTCTCTACCTTGATCCTTTTGGTTTCTATTTTGGCCATTAATGTCATCATAGAAATCCC
*
2436254 TTGCTATGATCAAAAACTCCTTAGGACTCCCATGGATTCTTGTGGCTTTGGTTATGGTAGCTTAG
520 TTGCTATGATCAAAAACTCCTTAGGACTCCCATGGATTCTTGTGGCTTTGGTTGTGGTAGCTTAG
2436319 GACTTTGTTGTTCCTTGGTTTTGTTTGCATCTTCATCACCATAACAGCCTTTATTTTTGCATTCC
585 GACTTTGTTGTTCCTTGGTTTTGTTTGCATCTTCATCACCATAACAGCCTTTATTTTTGCATTCC
2436384 TTGCTCATTCCCACAATGCCTC
650 TTGCTCATTCCCACAATGCCTC
*
2436406 AGAACCAATGGCAATGAGGGGCAGACTGAGCTAGTGAATGGTTATCTCCTTATGCAAAGGAAAAT
1 AGAACCAATGGCAATGAGGGGCAGACTGAGCTAGTGAGTGGTTATCTCCTTATGCAAAGGAAAAT
* *
2436471 CTCCACAATGCCCTTGGTTTGTCTCTTAATCCTATTGACTGAGCATGATGATAAATAAAGGTTGT
66 CCCCACAATGCCCTTGGTTTGTCTCCTAATCCTATTGACTGAGCATGATGATAAATAAAGGTTGT
*
2436536 TGGCTCAACAAAGAGGATCCTTTTCAGTAAAAAAAAGGTTTCGACAGTAGAGAATCCTTCAGCAA
131 TGGCTCAACAAAGAGGATCCTTTTCAG-AAAAAAAAAGTTTCGACAGTAGAGAATCCTTCAGCAA
*
2436601 CCATAAAACCAAAAATACTTAGAAAAACACTATTCCATTGGTCTCAAAACTCTATTCCTGTAGCT
195 CCAAAAAACCAAAAATACTTAGAAAAACACTATTCCATTGGTCTCAAAACTCTATTCCTGTAGCT
*
2436666 CTCAAAACCACCACCAAAAAACCTCTCAAAACTCAACATTCCTCATATCTTCACCCACCAACAGC
260 CTCAAAACCACCACCAAAAAACCTCTCAAAACTCAACATTCCTCATATCTTCACCCACCAATAGC
2436731 CTCTCCCTCAACCATACTACCAAAAAGCCACCTCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
325 CTCTCCCTCAACCATACTACCAAAAAGCCACCTCCTTTCATCCTTTTCTTGCTAAATAATAGCAA
*
2436796 AGAAAGGGAGATAACTTAGCCAACAACCTTTGCTCTGAGAAACAAGGGAAGTTCAAGCTCTTCGG
390 AGAAAGGGAGATAACTTAGCCAACAACCTTTGCTCCGAGAAACAAGGGAAGTTCAAGCTCTTCGG
2436861 TATATCTTCTCTACCTTGATCCTTTTGGTTTCTATTTTGGCCATTAATGTCATCATAGAAATCCC
455 TATATCTTCTCTACCTTGATCCTTTTGGTTTCTATTTTGGCCATTAATGTCATCATAGAAATCCC
2436926 TTGCTATGATCAAAAACTCCTTAGGACTCCCATGGATTCTTGTGGCTTTGGTTGTGGTAGCTTAG
520 TTGCTATGATCAAAAACTCCTTAGGACTCCCATGGATTCTTGTGGCTTTGGTTGTGGTAGCTTAG
2436991 GACTTTGTTGTTCCTTGGTTTTGTTTGCATCTTCATCACCATAACAGCCTTTATTTTTGCATTCC
585 GACTTTGTTGTTCCTTGGTTTTGTTTGCATCTTCATCACCATAACAGCCTTTATTTTTGCATTCC
2437056 TTGCTCATTCC
650 TTGCTCATTCC
2437067 TTCCATACTC
Statistics
Matches: 1315, Mismatches: 17, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
671 155 0.12
672 1160 0.88
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (671 bp):
AGAACCAATGGCAATGAGGGGCAGACTGAGCTAGTGAGTGGTTATCTCCTTATGCAAAGGAAAAT
CCCCACAATGCCCTTGGTTTGTCTCCTAATCCTATTGACTGAGCATGATGATAAATAAAGGTTGT
TGGCTCAACAAAGAGGATCCTTTTCAGAAAAAAAAAGTTTCGACAGTAGAGAATCCTTCAGCAAC
CAAAAAACCAAAAATACTTAGAAAAACACTATTCCATTGGTCTCAAAACTCTATTCCTGTAGCTC
TCAAAACCACCACCAAAAAACCTCTCAAAACTCAACATTCCTCATATCTTCACCCACCAATAGCC
TCTCCCTCAACCATACTACCAAAAAGCCACCTCCTTTCATCCTTTTCTTGCTAAATAATAGCAAA
GAAAGGGAGATAACTTAGCCAACAACCTTTGCTCCGAGAAACAAGGGAAGTTCAAGCTCTTCGGT
ATATCTTCTCTACCTTGATCCTTTTGGTTTCTATTTTGGCCATTAATGTCATCATAGAAATCCCT
TGCTATGATCAAAAACTCCTTAGGACTCCCATGGATTCTTGTGGCTTTGGTTGTGGTAGCTTAGG
ACTTTGTTGTTCCTTGGTTTTGTTTGCATCTTCATCACCATAACAGCCTTTATTTTTGCATTCCT
TGCTCATTCCCACAATGCCTC
Found at i:2438667 original size:28 final size:28
Alignment explanation
Indices: 2438604--2438674 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
2438594 TCCACAATCA
* *
2438604 AGGATACTTCAACCCTATTTTTTTCGAG
1 AGGATACTCCAACCCTATTTTTCTCGAG
* * *
2438632 GGGGTACTCCAACCCTGTTATTTCT-GAG
1 AGGATACTCCAACCCTATT-TTTCTCGAG
*
2438660 AGGATACTCTAACCC
1 AGGATACTCCAACCC
2438675 CGGTTTTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
AGGATACTCCAACCCTATTTTTCTCGAG
Found at i:2438741 original size:108 final size:107
Alignment explanation
Indices: 2438525--2438756 Score: 281
Period size: 108 Copynumber: 2.2 Consensus size: 107
2438515 TCCACAATCA
* *
2438525 GGGATACTCCAACCGC-GTTATTTTCGATGGGATACTCCAACTCCGGTTTTGTTTCCAAAACATC
1 GGGATACTCCAACC-CTGTTATTTTCGATGGGATACTCCAACCCCGGTTTTGTTTCAAAAACATC
* * *
2438589 AATTCTCCACAATCAAGGATACTTCAACCCTATTTTTTTCGAG
65 AATTCTCCACAATCAAGGATACTCCAACCCCATTATTTTCGAG
* * *
2438632 GGGGTACTCCAACCCTGTTA-TTTCTGA-GAGGATACTCTAACCCCGGTTTTATTTTCAAAAACA
1 GGGATACTCCAACCCTGTTATTTTC-GATG-GGATACTCCAACCCCGGTTTT-GTTTCAAAAACA
* * * ** *
2438695 TCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAG
63 TCAATTCTCCACAATCAAGGATACTCCAACCCCATTATTTTCGAG
2438740 GGGATACTCCAACCCTG
1 GGGATACTCCAACCCTG
2438757 ATTTTATTTC
Statistics
Matches: 106, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
106 6 0.06
107 38 0.36
108 62 0.58
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (107 bp):
GGGATACTCCAACCCTGTTATTTTCGATGGGATACTCCAACCCCGGTTTTGTTTCAAAAACATCA
ATTCTCCACAATCAAGGATACTCCAACCCCATTATTTTCGAG
Found at i:2438811 original size:79 final size:79
Alignment explanation
Indices: 2438631--2438939 Score: 377
Period size: 79 Copynumber: 3.9 Consensus size: 79
2438621 TTTTTTTCGA
* * * * *
2438631 GGGGGTACTCCAACCCTGTTA-TTTCTGAGAGGATACTCTAACCCCGGTTTTATTTTCAAAAACA
1 GGGGATACTCCAACCCTGTTATTTTC-GAGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACA
* *
2438695 TCGATTTTTCACAATC
64 CCAATTTTTCACAATC
* * * *
2438711 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTCCAAAACATC
1 GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
2438776 AATTTTTCACAATC
66 AATTTTTCACAATC
* * * * *
2438790 CGAGATACTCCAACCCTGTTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTCTAAAATACC
1 GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
* *
2438855 GATTTTTCACAATT
66 AATTTTTCACAATC
* * * ** *
2438869 GGGGATATTCCAACCCTATTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTTTTAAAACACC
1 GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
2438934 AATTTT
66 AATTTT
2438940 CAACCGTCGA
Statistics
Matches: 197, Mismatches: 31, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
79 152 0.77
80 41 0.21
81 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
AATTTTTCACAATC
Found at i:2438963 original size:158 final size:159
Alignment explanation
Indices: 2438636--2438939 Score: 430
Period size: 158 Copynumber: 1.9 Consensus size: 159
2438626 TTCGAGGGGG
* * *
2438636 TACTCCAACCCTGTTATTTCTGAGAGGATACTCTAACCCCGGTTTTATTTTCAAAAACATCGATT
1 TACTCCAACCCTGTTATTTCTGAGAGGATACTCCAACCCCGATTTTATTTTCAAAAACACCGATT
* * * *
2438701 TTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTT
66 TTTCACAATCGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCGACTTTATTT
*
2438766 CCAAAACATCAATTTTTCACAATCCGAGA
131 CCAAAACACCAATTTTTCACAATCCGAGA
* * * * *
2438795 TACTCCAACCCTGTTATTTTTGAGGGGATACTCCAACCTCGATTTTA-TTTCTAAAATACCGATT
1 TACTCCAACCCTGTTATTTCTGAGAGGATACTCCAACCCCGATTTTATTTTCAAAAACACCGATT
* * * *
2438859 TTTCACAATTGGGGATATTCCAACCCTATTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTT
66 TTTCACAATCGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCGACTTTATTT
**
2438924 TTAAAACACCAATTTT
131 CCAAAACACCAATTTT
2438940 CAACCGTCGA
Statistics
Matches: 126, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
158 84 0.67
159 42 0.33
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (159 bp):
TACTCCAACCCTGTTATTTCTGAGAGGATACTCCAACCCCGATTTTATTTTCAAAAACACCGATT
TTTCACAATCGGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCGACTTTATTT
CCAAAACACCAATTTTTCACAATCCGAGA
Found at i:2439120 original size:51 final size:51
Alignment explanation
Indices: 2439046--2439142 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
2439036 TCAACTTCGT
* *
2439046 TTTTATTTCCAAAACACCAATTTTCCACCATCGGGGATACTGCAACCCCAA
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCCAA
* *** * *
2439097 TTTTATTTCCAGAACATTGATTTTTCATAATCGGGGATACTCCAAC
1 TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
2439143 TCTGTTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCCCAA
Found at i:2439162 original size:79 final size:77
Alignment explanation
Indices: 2439079--2439250 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 77
2439069 TCCACCATCG
* * * ** * *
2439079 GGGATACTGCAACCCCAATTTTATTTCCAGAACATTGATTTTTCATAATCGGGGATACTCCAACT
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTCCCACAATCGGAGATACTCCAAC-
*
2439144 CTGTTATTTCCGAA
65 CCGTTATTTCCG-A
** * *
2439158 GGGATACTTTAACCCCGATTTTATTTCCAAAACATCGATTTCCCACAATCGGAGATACTCCAGCC
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTCCCACAATCGGAGATACTCCAACC
*
2439223 CGTTATTTCTGA
66 CGTTATTTCCGA
*
2439235 GGGATACCCCAACCCC
1 GGGATACTCCAACCCC
2439251 GTCTATATCT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
77 14 0.18
78 10 0.13
79 54 0.69
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (77 bp):
GGGATACTCCAACCCCAATTTTATTTCCAAAACATCGATTTCCCACAATCGGAGATACTCCAACC
CGTTATTTCCGA
Found at i:2439209 original size:130 final size:130
Alignment explanation
Indices: 2438818--2439216 Score: 483
Period size: 130 Copynumber: 3.1 Consensus size: 130
2438808 TTATTTTTGA
* * * * * ** * *
2438818 GGGGATACTCCAACCTCGATTTTATTTCTAAAATACCGATTTTTCACAATTGGGGATATTCCAAC
1 GGGGATACTGCAACCCCGATTTTATTTCCAGAACATTGATTTTTCACAATCGGGGATACTCCAAC
* * ** ** * *
2438883 CCTATTATTTTCGAAGGGATACTCCAACCCCGGCTTTATTTTTAAAACACCAATTTTCAACCGTC
66 CCTGTTATTTTCGAAGGGATACTTCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATC
* * *
2438948 GAGGATACTGCAACCCCGATTTTATTTCCAGAACATTGATTTTCCACAATCGAGGATACTCCAAC
1 GGGGATACTGCAACCCCGATTTTATTTCCAGAACATTGATTTTTCACAATCGGGGATACTCCAAC
* * ** *
2439013 CCCGTTATTTTCGAGGGGATACTTCAACTTCGTTTTTATTTCCAAAACACCAATTTTCCACCATC
66 CCTGTTATTTTCGAAGGGATACTTCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATC
* *
2439078 GGGGATACTGCAACCCCAATTTTATTTCCAGAACATTGATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTGCAACCCCGATTTTATTTCCAGAACATTGATTTTTCACAATCGGGGATACTCCAAC
* * * * * * *
2439143 TCTGTTATTTCCGAAGGGATACTTTAACCCCGATTTTATTTCCAAAACATCGATTTCCCACAATC
66 CCTGTTATTTTCGAAGGGATACTTCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATC
*
2439208 GGAGATACT
1 GGGGATACT
2439217 CCAGCCCGTT
Statistics
Matches: 227, Mismatches: 42, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
130 227 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (130 bp):
GGGGATACTGCAACCCCGATTTTATTTCCAGAACATTGATTTTTCACAATCGGGGATACTCCAAC
CCTGTTATTTTCGAAGGGATACTTCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACCATC
Found at i:2440504 original size:50 final size:50
Alignment explanation
Indices: 2440429--2440611 Score: 280
Period size: 50 Copynumber: 3.7 Consensus size: 50
2440419 TTTCACAATT
2440429 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTCTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTCTTACCCAGA
* *
2440479 TGTATTGATACATTGTTCATTGTATCGATACATTTTGGGTCTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTCTTACCCAGA
* *
2440529 TGTATGGATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCTA-A
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTCTTACCC-AGA
* *
2440579 TGTATCGATACATT-TCTCAATGTATGGATACAT
1 TGTATCGATACATTGT-TCATTGTATCGATACAT
2440612 CCAAGCATTT
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
49 1 0.01
50 121 0.98
51 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (50 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTCTTACCCAGA
Found at i:2443054 original size:51 final size:51
Alignment explanation
Indices: 2442965--2443074 Score: 123
Period size: 51 Copynumber: 2.2 Consensus size: 51
2442955 ATTTCCGAGG
* ** *
2442965 GGATACTCCAACCCCGGTTTTATTTCTAAAGTACCGATTTTTCACAATCGA
1 GGATACTCCAACCCCAGTTTTATTTCTAAAACACCGATTTTCCACAATCGA
* * * *
2443016 GGATACTCCAACCTCAGTTTTATTT-TCAAAACATCGATTTTCCATAATCGC
1 GGATACTCCAACCCCAGTTTTATTTCT-AAAACACCGATTTTCCACAATCGA
*
2443067 GAATACTC
1 GGATACTC
2443075 TAATCCCGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.02
51 48 0.98
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
GGATACTCCAACCCCAGTTTTATTTCTAAAACACCGATTTTCCACAATCGA
Found at i:2443105 original size:79 final size:79
Alignment explanation
Indices: 2443016--2443454 Score: 392
Period size: 79 Copynumber: 5.6 Consensus size: 79
2443006 TCACAATCGA
* * * * *
2443016 GGATACTCCAACCTCAG-TTTTATTTTCAAAACATCGATTTTCCATAATCGCGAATACTCTAATC
1 GGATACTCCAACCTCAGATTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAA-C
**
2443080 CCGTTATTTTTGAGG
65 CCGTTATTTCCGAGG
* * * * *
2443095 GGATACTCCAACCCCAG-TTTT-TTTTCCAAAACATCAATTTTTCACCATCAGGGATACTTCAAC
1 GGATACTCCAACCTCAGATTTTATTTT-CAAAACATCAATTTTCCACAATCGGGGATACTCCAA-
* * *
2443158 CCCATTATTTCCAAGA
64 CCCGTTATTTCCGAGG
* * * * **
2443174 GGATACTCTAACC-CCGATTTTATTTCCAAAACA-CTAATTTTCCATAATCAAGGATACTCCAAC
1 GGATACTCCAACCTCAGATTTTATTTTCAAAACATC-AATTTTCCACAATCGGGGATACTCCAAC
* *
2443237 CCTATTATTTCCGAAG
65 CC-GTTATTTCCGAGG
* * *
2443253 GGATACTCCAACCTC-GATTTT-GTTTCGAAAACATCAATTTTTCACAATTGGGGATACTCCAAC
1 GGATACTCCAACCTCAGATTTTATTTTC-AAAACATCAATTTTCCACAATCGGGGATACTCCAA-
**
2443316 CCCGTTATTTTTGAGG
64 CCCGTTATTTCCGAGG
* * * ** *
2443332 GGACACTCCAACC-CTGATTTTATTTTGAAAACATTGATTTTTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCTCAGATTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAACC
*
2443396 CTGTTATTTCCGTGG
66 C-GTTATTTCCGAGG
* * * *
2443411 GGATACTCCAATCTCAG-TTTTATTTCCAAAACACCGATTTTCCA
1 GGATACTCCAACCTCAGATTTTATTTTCAAAACATCAATTTTCCA
2443455 TACTTGGAAT
Statistics
Matches: 291, Mismatches: 56, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
78 17 0.06
79 261 0.90
80 13 0.04
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCTCAGATTTTATTTTCAAAACATCAATTTTCCACAATCGGGGATACTCCAACC
CGTTATTTCCGAGG
Found at i:2443178 original size:28 final size:30
Alignment explanation
Indices: 2443146--2443202 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 30
2443136 TCACCATCAG
2443146 GGATACT-TCAACCCC-A-TTATTTCCAAGA
1 GGATACTCT-AACCCCGATTTATTTCCAAGA
2443174 GGATACTCTAACCCCGATTTTATTTCCAA
1 GGATACTCTAACCCCGA-TTTATTTCCAA
2443203 AACACTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 13 0.52
29 2 0.08
31 10 0.40
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.32
Consensus pattern (30 bp):
GGATACTCTAACCCCGATTTATTTCCAAGA
Found at i:2443434 original size:237 final size:237
Alignment explanation
Indices: 2443016--2443456 Score: 559
Period size: 237 Copynumber: 1.9 Consensus size: 237
2443006 TCACAATCGA
* * * * *
2443016 GGATACTCCAACCTCAGTTTTATTTTCAAAACATCGATTTTCCATAATCGCGAATACTCTAATCC
1 GGATACTCCAACCTCAGTTTTAGTTTCAAAACATCAATTTTCCACAATCGCGAATACTCCAACCC
* *
2443081 CGTTATTTTTGAGGGGATACTCCAACCCCAGTTTTTTTTCCAAAACATCAATTTTTCACCATCAG
66 CGTTATTTTTGAGGGGACACTCCAACCCCAGTTTTTTTTCCAAAACATCAATTTTTCACAATCAG
* * * *
2443146 GGATACTTCAACCCCATTATTTCCAAGAGGATACTCTAACCCCGATTTTATTTCCAAAACACTAA
131 GGATACTCCAACCCCATTATTTCCAAGAGGATACTCCAACCCAGATTTTATTTCCAAAACACCAA
2443211 TTTTCCATAATCAAGGATACTCCAACCCTATTATTTCCGAAG
196 TTTTCCATAATCAAGGATACTCCAACCCTATTATTTCCGAAG
* * * *
2443253 GGATACTCCAACCTC-GATTTT-GTTTCGAAAACATCAATTTTTCACAATTGGGGATACTCCAAC
1 GGATACTCCAACCTCAG-TTTTAGTTTC-AAAACATCAATTTTCCACAATCGCGAATACTCCAAC
* * **
2443316 CCCGTTATTTTTGAGGGGACACTCCAA-CCCTGATTTTATTTT-GAAAACATTGATTTTTCACAA
64 CCCGTTATTTTTGAGGGGACACTCCAACCCCAG-TTTT-TTTTCCAAAACATCAATTTTTCACAA
* ** ** * *
2443379 TCGGGGATACTCCAACCCTGTTATTTCCGTGGGGATACTCCAATCTCAG-TTTTATTTCCAAAAC
127 TCAGGGATACTCCAACCCCATTATTTCCAAGAGGATACTCCAA-CCCAGATTTTATTTCCAAAAC
*
2443443 ACCGATTTTCCATA
191 ACCAATTTTCCATA
2443457 CTTGGAATAC
Statistics
Matches: 172, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
236 9 0.05
237 156 0.91
238 7 0.04
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (237 bp):
GGATACTCCAACCTCAGTTTTAGTTTCAAAACATCAATTTTCCACAATCGCGAATACTCCAACCC
CGTTATTTTTGAGGGGACACTCCAACCCCAGTTTTTTTTCCAAAACATCAATTTTTCACAATCAG
GGATACTCCAACCCCATTATTTCCAAGAGGATACTCCAACCCAGATTTTATTTCCAAAACACCAA
TTTTCCATAATCAAGGATACTCCAACCCTATTATTTCCGAAG
Found at i:2443451 original size:158 final size:157
Alignment explanation
Indices: 2443014--2443476 Score: 491
Period size: 158 Copynumber: 2.9 Consensus size: 157
2443004 TTTCACAATC
* * * * * *
2443014 GAGGATACTCCAA-CCTCAGTTTTATTTTCAAAACATCGATTTTCCATAATCGCGAATACTCTAA
1 GAGGACACTCCAACCCTGA-TTTTATTTTCAAAACATTGATTTTCCATAATCGAGGATACTCCAA
** * * *
2443078 TCCC-GTTATTTTTGAGGGGATACTCCAACCCCAGTTTTTTTTCCAAAACATCAATTTTTCACCA
65 -CCCTGTTATTTCCGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATCAATTTTTCACAA
* *
2443142 TCAGGGATACTTCAACCCCATTATTTCCAA
129 T-TGGGATACTCCAACCCCATTATTTCCAA
* * * * * * *
2443172 GAGGATACTCTAACCCCGATTTTATTTCCAAAACACTAATTTTCCATAATCAAGGATACTCCAAC
1 GAGGACACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTCCATAATCGAGGATACTCCAAC
* * * *
2443237 CCTATTATTTCCGAAGGGATACTCCAACCTC-GATTTTGTTTCGAAAACATCAATTTTTCACAAT
66 CCTGTTATTTCCGAGGGGATACTCCAACCTCAG-TTTTATTTCCAAAACATCAATTTTTCACAAT
* ***
2443301 TGGGGATACTCCAACCCCGTTATTTTTGA
130 T-GGGATACTCCAACCCCATTATTTCCAA
* * * * *
2443330 GGGGACACTCCAACCCTGATTTTATTTTGAAAACATTGATTTTTCACAATCGGGGATACTCCAAC
1 GAGGACACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTCCATAATCGAGGATACTCCAAC
* * * * * * *
2443395 CCTGTTATTTCCGTGGGGATACTCCAATCTCAGTTTTATTTCCAAAACACCGATTTTCCATACTT
66 CCTGTTATTTCCGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATCAATTTTTCACAATT
*
2443460 GGAATACTCCAACCCCA
131 GGGATACTCCAACCCCA
2443477 GTTTTATTTC
Statistics
Matches: 250, Mismatches: 50, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
157 19 0.08
158 227 0.91
159 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (157 bp):
GAGGACACTCCAACCCTGATTTTATTTTCAAAACATTGATTTTCCATAATCGAGGATACTCCAAC
CCTGTTATTTCCGAGGGGATACTCCAACCTCAGTTTTATTTCCAAAACATCAATTTTTCACAATT
GGGATACTCCAACCCCATTATTTCCAA
Found at i:2445013 original size:17 final size:19
Alignment explanation
Indices: 2444981--2445015 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2444971 ATAATTATAA
2444981 TAATCATAATTATAAAAAC
1 TAATCATAATTATAAAAAC
2445000 TAAT-ATAA-TATAAAAA
1 TAATCATAATTATAAAAA
2445016 TTTATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
TAATCATAATTATAAAAAC
Found at i:2445370 original size:20 final size:19
Alignment explanation
Indices: 2445315--2445372 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 19
2445305 AATAAAAATT
2445315 ATTATAAAATTCAAATATAA
1 ATTATAAAATT-AAATATAA
2445335 ATTATAAAATAATAAA-ATAA
1 ATTATAAAAT--TAAATATAA
2445355 ATGTATAATAATTAAATA
1 AT-TATAA-AATTAAATA
2445373 CTTTTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 20 0.61
21 9 0.27
22 4 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
ATTATAAAATTAAATATAA
Found at i:2450788 original size:13 final size:13
Alignment explanation
Indices: 2450770--2450797 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2450760 ATACAAAGGT
2450770 CAATGTATCGATA
1 CAATGTATCGATA
2450783 CAATGTATCGATA
1 CAATGTATCGATA
2450796 CA
1 CA
2450798 TTTGAGTAAT
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:2450860 original size:13 final size:13
Alignment explanation
Indices: 2450842--2450925 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
2450832 AGCTTCGTAG
2450842 CGATACATTGTAT
1 CGATACATTGTAT
2450855 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2450874 CGATACATTGTAT
1 CGATACATTGTAT
2450887 CGATACAAAAATTATGTAT
1 CGATAC----A-T-TGTAT
2450906 CGATACATTGTAT
1 CGATACATTGTAT
2450919 CGATACA
1 CGATACA
2450926 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 28 0.47
14 1 0.02
15 3 0.05
16 2 0.03
17 3 0.05
18 1 0.02
19 21 0.36
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2450874 original size:19 final size:17
Alignment explanation
Indices: 2450850--2450944 Score: 71
Period size: 19 Copynumber: 5.7 Consensus size: 17
2450840 AGCGATACAT
2450850 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAA-TTA
2450869 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
2450882 TGTATCGATACAAAAATTA
1 TGTATCGATAC--AAATTA
2450901 TGTATCGATAC--A-T-
1 TGTATCGATACAAATTA
2450914 TGTATCGATACAACACTTA
1 TGTATCGATACAA-A-TTA
*
2450933 TGTATTGATACA
1 TGTATCGATACA
2450945 GTTACAGTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 22 0.35
14 2 0.03
15 1 0.02
16 2 0.03
17 1 0.02
18 2 0.03
19 33 0.52
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (17 bp):
TGTATCGATACAAATTA
Found at i:2450883 original size:32 final size:32
Alignment explanation
Indices: 2450842--2450944 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
2450832 AGCTTCGTAG
2450842 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2450874 CGATACATTGTATCGATACAAAAATTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2450906 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2450938 TGATACA
1 CGATACA
2450945 GTTACAGTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:2450963 original size:21 final size:18
Alignment explanation
Indices: 2450849--2450966 Score: 67
Period size: 19 Copynumber: 6.8 Consensus size: 18
2450839 TAGCGATACA
*
2450849 TTGTATCGATACAAAACT
1 TTGTATCGATACAACACT
2450867 TATGTATCGAT---ACA--
1 T-TGTATCGATACAACACT
* *
2450881 TTGTATCGATACAAAAAT
1 TTGTATCGATACAACACT
2450899 TATGTATCGAT---ACA--
1 T-TGTATCGATACAACACT
2450913 TTGTATCGATACAACACT
1 TTGTATCGATACAACACT
* *
2450931 TATGTATTGATACAGTTACAGT
1 T-TGTATCGATACA---ACACT
2450953 TTGTATCGATACAA
1 TTGTATCGATACAA
2450967 ATTGTTGAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 32
0.67 0.05 0.28
Matches are distributed among these distances:
13 18 0.23
14 2 0.03
16 9 0.12
18 4 0.05
19 29 0.37
21 11 0.14
22 5 0.06
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
TTGTATCGATACAACACT
Found at i:2452044 original size:13 final size:13
Alignment explanation
Indices: 2452022--2452063 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
2452012 GATACTATTC
2452022 ACAATGTATCGAT
1 ACAATGTATCGAT
*
2452035 ACACTGTATCGAT
1 ACAATGTATCGAT
*
2452048 ACAATGTCTCGAT
1 ACAATGTATCGAT
2452061 ACA
1 ACA
2452064 TGAACAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:2452138 original size:32 final size:33
Alignment explanation
Indices: 2452097--2452172 Score: 127
Period size: 32 Copynumber: 2.3 Consensus size: 33
2452087 ATAGTGATAA
*
2452097 ATGAACAGTGATGTATCGATACATG-AATAGTG
1 ATGAACAGTGATGTATCGATACATGAAACAGTG
*
2452129 ATGAACAGTGATGTATCGATATATGAAACAGTG
1 ATGAACAGTGATGTATCGATACATGAAACAGTG
2452162 ATGAACAGTGA
1 ATGAACAGTGA
2452173 AAAATGAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 24 0.59
33 17 0.41
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.26
Consensus pattern (33 bp):
ATGAACAGTGATGTATCGATACATGAAACAGTG
Found at i:2452219 original size:13 final size:13
Alignment explanation
Indices: 2452201--2452225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2452191 TGTCAGTTTT
2452201 ATGTATCGATACA
1 ATGTATCGATACA
2452214 ATGTATCGATAC
1 ATGTATCGATAC
2452226 TAAGTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2455154 original size:157 final size:158
Alignment explanation
Indices: 2454965--2455285 Score: 420
Period size: 157 Copynumber: 2.0 Consensus size: 158
2454955 TATTTTGGAG
* * * * *
2454965 ATAAAACTAGGGTTGGAGTATCGCCTCGAAAATAACAGGGTTGGAGTATTCC-TAATTGTGAAAA
1 ATAAAACTAGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTGGAGTA-TCCTTAATGGTGAAAA
* * *
2455029 ATCAG-TGTTTT-GAAGATAAAA-CTA-GGTTGGAGTCTTCCCTCGAAAATAACGGGGTTGGAGT
65 AT-AGATGTTTTGGAA-ATAAAATC-AGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGT
* *
2455090 ATCCCCGATTGTG-GAAAATCGATGTTTTAGAA
127 ATCCCCGATGGTGAAAAAAT-GATGTTTTAGAA
*
2455122 ATAAAACTAGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCTTGATGGTGAAAAA
1 ATAAAACTAGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCTTAATGGTGAAAAA
* * *
2455187 TTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAGTAACGAGGTTGGAGTATTC
66 TAGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCC
*
2455252 CCGATGGTGAAAAAATGATGTTTTGGAA
131 CCGATGGTGAAAAAATGATGTTTTAGAA
2455280 ATAAAA
1 ATAAAA
2455286 TCGAGGTTGG
Statistics
Matches: 143, Mismatches: 15, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
156 4 0.03
157 69 0.48
158 65 0.45
159 5 0.03
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (158 bp):
ATAAAACTAGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCTTAATGGTGAAAAA
TAGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCC
CCGATGGTGAAAAAATGATGTTTTAGAA
Found at i:2455169 original size:79 final size:79
Alignment explanation
Indices: 2454957--2455306 Score: 392
Period size: 79 Copynumber: 4.5 Consensus size: 79
2454947 AAATTTAATA
* * * * ** *
2454957 TTTTGGAGATAAAACTAGGGTTGGAGTATCGCCTCGAAAATAACAGGGTTGGAGTATTCCTAATT
1 TTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCGATG
2455022 GTGAAAAATC-AGTG
66 GTGAAAAATCGA-TG
* * **
2455036 TTTT-GAAGATAAAACTA-GGTTGGAGTCTTCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1 TTTTGGAA-ATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCGAT
* *
2455099 TGTGGAAAATCGATG
65 GGTGAAAAATCGATG
* * * **
2455114 TTTTAGAAATAAAACTAGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCTTGATG
1 TTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCGATG
*
2455179 GTGAAAAATTGATG
66 GTGAAAAATCGATG
* * *
2455193 TTTTGGAAATAAAA-TCAGGGTTGGAGTATCCCCTCGAAAGTAACGAGGTTGGAGTATTCCCGAT
1 TTTTGGAAATAAAACT-AGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCGAT
2455257 GGTGAAAAAAT-GATG
65 GGTG-AAAAATCGATG
*
2455272 TTTTGGAAATAAAA-TCGAGGTTGGAGTA--CCCTCGA
1 TTTTGGAAATAAAACTAG-GGTTGGAGTATCCCCTCGA
2455307 TAGTGGAAAA
Statistics
Matches: 235, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
77 7 0.03
78 68 0.29
79 154 0.66
80 6 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
TTTTGGAAATAAAACTAGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTATCCCCGATG
GTGAAAAATCGATG
Found at i:2455325 original size:51 final size:51
Alignment explanation
Indices: 2455236--2455355 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
2455226 TCGAAAGTAA
* * *
2455236 CGAGGTTGGAGTATTCCCGATGGTGAAAAAATGATGTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATAGTGAAAAAATGATGTTTTGGAAATAAAAC
* *
2455287 CGAGGTTGGAGTA-CCCTCGATAGTG-GAAAATCGGTGTTTTGGAAATAAAAC
1 CGAGGTTGGAGTATCCC-CGATAGTGAAAAAAT-GATGTTTTGGAAATAAAAC
*
2455338 CAAGGTTGGAGTATCCCC
1 CGAGGTTGGAGTATCCCC
2455356 TCAGAAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
50 7 0.12
51 50 0.83
52 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (51 bp):
CGAGGTTGGAGTATCCCCGATAGTGAAAAAATGATGTTTTGGAAATAAAAC
Found at i:2455373 original size:79 final size:78
Alignment explanation
Indices: 2455290--2455511 Score: 241
Period size: 78 Copynumber: 2.8 Consensus size: 78
2455280 ATAAAATCGA
* * *
2455290 GGTTGGAGTACCCTCGATAGTGGAAAATCGGTGTTTTGGAAATAAAACCAAGGTTGGAGTATCCC
1 GGTTGGAGTAACCTCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACC-AGGTTGGAGTATCCC
* *
2455355 CTCAGAAATAACGG
65 CTCAAAAATAACCG
* * * ** *
2455369 GGTTGGAGTATCCAC-ATTGTGAAAAATCAGTGTTTTAAAAATAAAACC-GGAATTGGAGTATCT
1 GGTTGGAGTAACCTCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACCAGG--TTGGAGTATCC
2455432 CCTCAAAAATAACCG
64 CCTCAAAAATAACCG
* * * * * *
2455447 GGTTGGAGTAACCTTGATTGTGAAAAATTGATATTTTGGAAATAAAACCGAGGTTGTAGTGTCCC
1 GGTTGGAGTAACCTCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACC-AGGTTGGAGTATCCC
2455512 TGATTATGGA
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
76 2 0.02
78 63 0.54
79 49 0.42
81 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (78 bp):
GGTTGGAGTAACCTCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACCAGGTTGGAGTATCCCC
TCAAAAATAACCG
Found at i:2455501 original size:208 final size:209
Alignment explanation
Indices: 2455081--2455562 Score: 548
Period size: 208 Copynumber: 2.3 Consensus size: 209
2455071 AAAATAACGG
* * * *
2455081 GGTTGGAGTATCCC-CGATTGTGGAAAATCGATGTTTTAGAAATAAAACTAGGGTTAGAGTATCC
1 GGTTGGAGTA-CCCTCGATAGTGGAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCC
** * **
2455145 CCTCAAAAATAACAAGGTTGGAGTATCCTTGATGGTGAAAAATTGATGTTTTGGAAATAAAATCA
65 CCTCAAAAATAACAAGGTTGGAGTATCCTACATGGTGAAAAATAGATGTTTTAAAAATAAAATCA
* * * * *
2455210 GGGTTGGAGTATCCCCTCGAAAGTAACGAGGTTGGAGTATTCCCGATGGTGAAAAAATGATGTTT
130 GGATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATACCCGATGGTGAAAAAATGATATTT
*
2455275 TGGAAATAAAATCGA
195 TGGAAATAAAACCGA
* *
2455290 GGTTGGAGTACCCTCGATAGTGGAAAATCGGTGTTTTGGAAATAAAACCAAGGTTGGAGTATCCC
1 GGTTGGAGTACCCTCGATAGTGGAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
* ** * *
2455355 CTCAGAAATAACGGGGTTGGAGTATCC-ACATTGTGAAAAATCAG-TGTTTTAAAAATAAAA-CC
66 CTCAAAAATAACAAGGTTGGAGTATCCTACATGGTGAAAAAT-AGATGTTTTAAAAATAAAATCA
* * * *
2455417 GGAATTGGAGTATCTCCTCAAAAATAACCG-GGTTGGAGTA-ACCTTGATTGTGAAAAATTGATA
130 GG-ATTGGAGTATCCCCTCAAAAATAA-CGAGGTTGGAGTATACC-CGATGGTGAAAAAATGATA
2455480 TTTTGGAAATAAAACCGA
192 TTTTGGAAATAAAACCGA
* * * * * * *
2455498 GGTTGTAGTGTCCCT-GATTA-TGGAAAATCAGTATTTTAGAAACAAAATCGGGGTTGGAGTATC
1 GGTTGGAGT-ACCCTCGA-TAGTGGAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTATC
2455561 CC
64 CC
2455563 TGATGGTGAA
Statistics
Matches: 231, Mismatches: 35, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
207 5 0.02
208 138 0.60
209 88 0.38
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (209 bp):
GGTTGGAGTACCCTCGATAGTGGAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCC
CTCAAAAATAACAAGGTTGGAGTATCCTACATGGTGAAAAATAGATGTTTTAAAAATAAAATCAG
GATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATACCCGATGGTGAAAAAATGATATTTT
GGAAATAAAACCGA
Found at i:2455577 original size:51 final size:51
Alignment explanation
Indices: 2455442--2455595 Score: 150
Period size: 51 Copynumber: 3.0 Consensus size: 51
2455432 CCTCAAAAAT
* * * *
2455442 AACC-GGGTTGGAGTAACCTTGATTGTGAAAAAT-TGATATTTTGGAAATAA
1 AACCGGGGTTGGAGTATCCCTGATTGTGAAAAATCAG-TATTTTAGAAATAA
* * * * * *
2455492 AACCGAGGTTGTAGTGTCCCTGATTATGGAAAATCAGTATTTTAGAAACAA
1 AACCGGGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTAGAAATAA
* * * * *
2455543 AATCGGGGTTGGAGTATCCCTGATGGTGAAAAATCGGTACTTTAAAAATAA
1 AACCGGGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTAGAAATAA
2455594 AA
1 AA
2455596 ACATGAATGA
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
50 4 0.05
51 76 0.94
52 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (51 bp):
AACCGGGGTTGGAGTATCCCTGATTGTGAAAAATCAGTATTTTAGAAATAA
Found at i:2457368 original size:17 final size:16
Alignment explanation
Indices: 2457346--2457380 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2457336 TATAAATATT
*
2457346 AAAAAATAAAATCCAAA
1 AAAAAAGAAAAT-CAAA
2457363 AAAAAAGAAAATCAAA
1 AAAAAAGAAAATCAAA
2457379 AA
1 AA
2457381 TTCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.09
Consensus pattern (16 bp):
AAAAAAGAAAATCAAA
Found at i:2457796 original size:19 final size:21
Alignment explanation
Indices: 2457751--2457800 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
2457741 CAATAATTTG
* *
2457751 TATCGATACATTCAGTAAATG
1 TATCGATACATTAAGTAAATA
2457772 TATCGATACA-TAAGT-AATA
1 TATCGATACATTAAGTAAATA
2457791 TATCGATACA
1 TATCGATACA
2457801 GTGTATCACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 13 0.48
20 4 0.15
21 10 0.37
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (21 bp):
TATCGATACATTAAGTAAATA
Found at i:2459625 original size:9 final size:10
Alignment explanation
Indices: 2459602--2459626 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2459592 TTGAAACGAT
2459602 TTTTTTGATA
1 TTTTTTGATA
2459612 TTTTTTGATA
1 TTTTTTGATA
2459622 TTTTT
1 TTTTT
2459627 CCCTCAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTGATA
Found at i:2460410 original size:52 final size:51
Alignment explanation
Indices: 2460235--2460520 Score: 344
Period size: 51 Copynumber: 5.6 Consensus size: 51
2460225 TTAAGTTTCT
* * *
2460235 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * *
2460286 TAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCGAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
2460337 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTTC-AAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTA-TTTTCAAAACAC
** * *
2460388 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * * *
2460441 CAATTCTCCACAATCGTGGATATTCCAACTCCAATTTTA-TTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * *
2460491 TAATTTTTCATAATCGAGGATACTCCAACC
1 CAATTTTCCACAATCGGGGATACTCCAACC
2460521 TCGTTATTTC
Statistics
Matches: 204, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
50 30 0.15
51 99 0.49
52 61 0.30
53 14 0.07
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.33
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:2460539 original size:28 final size:28
Alignment explanation
Indices: 2460503--2460579 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
2460493 ATTTTTCATA
* *
2460503 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
* *
2460531 ATCGGGGATACTCCAACCCCATTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
***
2460559 CGAGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
2460580 GCTTTATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:2460690 original size:79 final size:79
Alignment explanation
Indices: 2460531--2460708 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 79
2460521 TCGTTATTTC
* * *
2460531 ATCGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCTCGGCTTTATTTTCAAAAT
1 ATCGGGGATACTCCAACCCTATTACTTCCGAGGGGATACTCCAACCTCGACTTTATTTTCAAAAC
2460596 ATTGATTTCTCATA
66 ATTGATTTCTCATA
* * * * * **
2460610 ATTGGGGATACTCCAACCCTATTATTTTCGCGGGGATACTCCAATCTCGACTTTATTTTTGAAAC
1 ATCGGGGATACTCCAACCCTATTACTTCCGAGGGGATACTCCAACCTCGACTTTATTTTCAAAAC
2460675 ATCT-ATTT-TCTATA
66 AT-TGATTTCTC-ATA
* *
2460689 ATCGGGGACACTTCAACCCT
1 ATCGGGGATACTCCAACCCT
2460709 TGTCTTATTT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 2 0.02
79 81 0.96
80 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCTATTACTTCCGAGGGGATACTCCAACCTCGACTTTATTTTCAAAAC
ATTGATTTCTCATA
Found at i:2462122 original size:13 final size:13
Alignment explanation
Indices: 2462104--2462153 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 13
2462094 TTCAATGATT
2462104 TGTATCGATACAA
1 TGTATCGATACAA
2462117 TGTATCGATACATAA
1 TGTATCGATAC--AA
2462132 GTTGTATCGATACAA
1 --TGTATCGATACAA
2462147 TGTATCG
1 TGTATCG
2462154 CTACGAAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 18 0.55
15 4 0.12
17 11 0.33
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2462276 original size:52 final size:52
Alignment explanation
Indices: 2462231--2462360 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
2462221 CACTGATCTT
*
2462231 TGTATCGATACATGCAGGCAATTTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACACTATAAAA
* * * *
2462283 TGTATCAATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACACTATAAAA
2462335 TGTATCGATACATGCAGGCAAATTTT
1 TGTATCGATACATGCAGGC-AATTTT
2462361 CATATTTTGG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
52 64 0.93
53 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2465807 original size:41 final size:40
Alignment explanation
Indices: 2465762--2466179 Score: 266
Period size: 41 Copynumber: 10.2 Consensus size: 40
2465752 AGGAAAGGGG
* *
2465762 GCATTTGAAACCAACATCAACAGCAGCTTCCAGCAGCAAGA
1 GCATTTGAAACCAACA-CGACAGCAGCTTCCAGCAGCAGGA
* ** *
2465803 GCATTTGAAACCAACACCGACAGTAGCTTTTAGTAGCAGGA
1 GCATTTGAAACCAACA-CGACAGCAGCTTCCAGCAGCAGGA
** *
2465844 GCATCCGAAACCAACACTGACAGCAGCTTCCTA-CAGTAGGA
1 GCATTTGAAACCAACAC-GACAGCAGCTTCC-AGCAGCAGGA
* * * *
2465885 GCATTTAAAACCAACATCGGCAGCAGCTTCCAACAGTAGGA
1 GCATTTGAAACCAACA-CGACAGCAGCTTCCAGCAGCAGGA
* * * * *
2465926 GCATTTGGAACCAACACTGGCAGTAGCTTTCAGCAGCAAGA
1 GCATTTGAAACCAACAC-GACAGCAGCTTCCAGCAGCAGGA
** * * *
2465967 GCATCCGAAACCAACAACGATAGTAGCTTCTAGCAGCAGGA
1 GCATTTGAAACCAAC-ACGACAGCAGCTTCCAGCAGCAGGA
*** * * * *
2466008 GCATCAAAAACCAACACCGGCAGCAGCTTTCAACAG--GGG
1 GCATTTGAAACCAACA-CGACAGCAGCTTCCAGCAGCAGGA
*** * *
2466047 GCATCCAAAACCAACACTGACAGTAGCTTCCAGTAGCAGGA
1 GCATTTGAAACCAACAC-GACAGCAGCTTCCAGCAGCAGGA
** * * * **
2466088 GCATCCGAAACCGACATCGGCAGTAGCTTTTAGCAGCAGGA
1 GCATTTGAAACCAACA-CGACAGCAGCTTCCAGCAGCAGGA
** * * * * * *
2466129 GCATCCGAAACTAATATCGATAGTAGCTTCCAGCAACATGA
1 GCATTTGAAACCAACA-CGACAGCAGCTTCCAGCAGCAGGA
2466170 GCATTTGAAA
1 GCATTTGAAA
2466180 GCAGCTTCCA
Statistics
Matches: 300, Mismatches: 66, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
38 1 0.00
39 30 0.10
40 4 0.01
41 260 0.87
42 5 0.02
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (40 bp):
GCATTTGAAACCAACACGACAGCAGCTTCCAGCAGCAGGA
Found at i:2465867 original size:82 final size:82
Alignment explanation
Indices: 2465768--2466444 Score: 324
Period size: 82 Copynumber: 8.6 Consensus size: 82
2465758 GGGGGCATTT
* ***
2465768 GAAACCAACA-TCAACAGCAGCTTCCAGCAGCAAGAGCATTTGAAACCAACACCGACAGTAGCTT
1 GAAACCAACACT-GACAGCAGCTTCCAGCAGCAAGAGCATCCAAAACCAACACCGACAGTAGCTT
** *
2465832 TTAGTAGCAGGAGCATCC
65 CCAGCAGCAGGAGCATCC
* * ** * * *
2465850 GAAACCAACACTGACAGCAGCTTCCTA-CAGTAGGAGCATTTAAAACCAACATCGGCAGCAGCTT
1 GAAACCAACACTGACAGCAGCTTCC-AGCAGCAAGAGCATCCAAAACCAACACCGACAGTAGCTT
* * **
2465914 CCAACAGTAGGAGCATTT
65 CCAGCAGCAGGAGCATCC
* * * * * * *
2465932 GGAACCAACACTGGCAGTAGCTTTCAGCAGCAAGAGCATCCGAAACCAACAACGATAGTAGCTTC
1 GAAACCAACACTGACAGCAGCTTCCAGCAGCAAGAGCATCCAAAACCAACACCGACAGTAGCTTC
* *
2465997 TAGCAGCAGGAGCATCA
66 CAGCAGCAGGAGCATCC
* * * * * * * *
2466014 AAAACCAACACCGGCAGCAGCTTTCAACAG--GGGGCATCCAAAACCAACACTGACAGTAGCTTC
1 GAAACCAACACTGACAGCAGCTTCCAGCAGCAAGAGCATCCAAAACCAACACCGACAGTAGCTTC
*
2466077 CAGTAGCAGGAGCATCC
66 CAGCAGCAGGAGCATCC
* * * ** * * * * * *
2466094 GAAACCGACA-TCGGCAGTAGCTTTTAGCAGCAGGAGCATCCGAAACTAATATCGATAGTAGCTT
1 GAAACCAACACT-GACAGCAGCTTCCAGCAGCAAGAGCATCCAAAACCAACACCGACAGTAGCTT
2466158 -C--CAGCA--A-CAT--
65 CCAGCAGCAGGAGCATCC
* ** * * * * * * *
2466168 G--AGC-A-TTTGAAAGCAGCTTCCAGCAGTAGGGGGATCTAAAACCAACACCGACAGTAACTTC
1 GAAACCAACACTGACAGCAGCTTCCAGCAGCAAGAGCATCCAAAACCAACACCGACAGTAGCTTC
* *
2466229 CAGCAGTAGGAGCATTC
66 CAGCAGCAGGAGCATCC
* * * * *
2466246 GAAACCAACA-TCGGCAGCAG--T--AG--G--A-A-TATCAAAAACCAACACTGGCAGTAGCTT
1 GAAACCAACACT-GACAGCAGCTTCCAGCAGCAAGAGCATCCAAAACCAACACCGACAGTAGCTT
* * *
2466300 CCAGTAGTAGGAGCATTC
65 CCAGCAGCAGGAGCATCC
* * * * *
2466318 GAAACCAACAC-CAGCAGCAGCTTCTAGC-CCACGAGCA-CCTGAAACCAACACC-AGCAGTAGC
1 GAAACCAACACTGA-CAGCAGCTTCCAGCAGCAAGAGCATCC-AAAACCAACACCGA-CAGTAGC
* * *
2466379 TTCCAACAG-ACGATCATCC
63 TTCCAGCAGCAGGAGCATCC
* * * * * *
2466398 AAAACCAACACTGGCAGCAACTTCTAGCAG-ACGAGCATCCGAAACCA
1 GAAACCAACACTGACAGCAGCTTCCAGCAGCAAGAGCATCCAAAACCA
2466445 GCACTAGCAA
Statistics
Matches: 450, Mismatches: 109, Indels: 74
0.71 0.17 0.12
Matches are distributed among these distances:
70 37 0.08
71 3 0.01
72 58 0.13
73 4 0.01
74 2 0.00
75 1 0.00
76 9 0.02
77 1 0.00
78 3 0.01
79 4 0.01
80 113 0.25
81 31 0.07
82 182 0.40
83 2 0.00
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (82 bp):
GAAACCAACACTGACAGCAGCTTCCAGCAGCAAGAGCATCCAAAACCAACACCGACAGTAGCTTC
CAGCAGCAGGAGCATCC
Found at i:2465909 original size:123 final size:122
Alignment explanation
Indices: 2465762--2466132 Score: 433
Period size: 123 Copynumber: 3.0 Consensus size: 122
2465752 AGGAAAGGGG
* ** * * *
2465762 GCATTTGAAACCAACATCAACAGCAGCTTCCAGCAGCAAGAGCATTTGAAACCAACACCGACAGT
1 GCATTTAAAACCAACATCGGCAGCAGCTTCCAACAG-AGGAGCATTTGAAACCAACACTGACAGT
* *
2465827 AGCTTTTAGTAGCAGGAGCATCCGAAACCAAC-ACTGACAGCAGCTTCCTA-CAGTAGGA
65 AGCTTTCAGTAGCAGGAGCATCCGAAACCAACAAC-GACAGCAGCTT-CTAGCAGCAGGA
* *
2465885 GCATTTAAAACCAACATCGGCAGCAGCTTCCAACAGTAGGAGCATTTGGAACCAACACTGGCAGT
1 GCATTTAAAACCAACATCGGCAGCAGCTTCCAACAG-AGGAGCATTTGAAACCAACACTGACAGT
* * * *
2465950 AGCTTTCAGCAGCAAGAGCATCCGAAACCAACAACGATAGTAGCTTCTAGCAGCAGGA
65 AGCTTTCAGTAGCAGGAGCATCCGAAACCAACAACGACAGCAGCTTCTAGCAGCAGGA
** * * * ***
2466008 GCATCAAAAACCAACACCGGCAGCAGCTTTCAACAG-GGGGCATCCAAAACCAACACTGACAGTA
1 GCATTTAAAACCAACATCGGCAGCAGCTTCCAACAGAGGAGCATTTGAAACCAACACTGACAGTA
* * * * * *
2466072 GCTTCCAGTAGCAGGAGCATCCGAAACCGACATCGGCAGTAGCTTTTAGCAGCAGGA
66 GCTTTCAGTAGCAGGAGCATCCGAAACCAACAACGACAGCAGCTTCTAGCAGCAGGA
2466129 GCAT
1 GCAT
2466133 CCGAAACTAA
Statistics
Matches: 213, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
121 75 0.35
122 3 0.01
123 133 0.62
124 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (122 bp):
GCATTTAAAACCAACATCGGCAGCAGCTTCCAACAGAGGAGCATTTGAAACCAACACTGACAGTA
GCTTTCAGTAGCAGGAGCATCCGAAACCAACAACGACAGCAGCTTCTAGCAGCAGGA
Found at i:2466403 original size:40 final size:40
Alignment explanation
Indices: 2466278--2466453 Score: 165
Period size: 40 Copynumber: 4.4 Consensus size: 40
2466268 GGAATATCAA
* * * * *
2466278 AAACCAACACTGGCAGTAGCTTCCAGTAGTAGGAGCATTCG
1 AAACCAACACTAGCAGCAGCTTCCAGCAG-ACGAGCATCCG
* * **
2466319 AAACCAACACCAGCAGCAGCTTCTAGCCCACGAGCA-CCTG
1 AAACCAACACTAGCAGCAGCTTCCAGCAGACGAGCATCC-G
* * * * *
2466359 AAACCAACACCAGCAGTAGCTTCCAACAGACGATCATCCA
1 AAACCAACACTAGCAGCAGCTTCCAGCAGACGAGCATCCG
* * *
2466399 AAACCAACACTGGCAGCAACTTCTAGCAGACGAGCATCCG
1 AAACCAACACTAGCAGCAGCTTCCAGCAGACGAGCATCCG
*
2466439 AAACCAGCACTAGCA
1 AAACCAACACTAGCA
2466454 ATAACGTCCA
Statistics
Matches: 107, Mismatches: 26, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
39 1 0.01
40 82 0.77
41 24 0.22
ACGTcount: A:0.36, C:0.33, G:0.18, T:0.13
Consensus pattern (40 bp):
AAACCAACACTAGCAGCAGCTTCCAGCAGACGAGCATCCG
Found at i:2466424 original size:80 final size:81
Alignment explanation
Indices: 2466278--2466453 Score: 203
Period size: 80 Copynumber: 2.2 Consensus size: 81
2466268 GGAATATCAA
* ** * * * *
2466278 AAACCAACACTGGCAGTAGCTTCCAGTAGTAGGAGCATTCGAAACCAACACCAGCAGCAGCTTCT
1 AAACCAACACTAGCAGTAGCTTCCAACAGTACGAGCATCCAAAACCAACACCAGCAGCAACTTCT
*
2466343 AGCCCACGAGCA-CCTG
66 AGCACACGAGCATCC-G
* * **
2466359 AAACCAACACCAGCAGTAGCTTCCAACAG-ACGATCATCCAAAACCAACACTGGCAGCAACTTCT
1 AAACCAACACTAGCAGTAGCTTCCAACAGTACGAGCATCCAAAACCAACACCAGCAGCAACTTCT
*
2466423 AGCAGACGAGCATCCG
66 AGCACACGAGCATCCG
*
2466439 AAACCAGCACTAGCA
1 AAACCAACACTAGCA
2466454 ATAACGTCCA
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
80 52 0.66
81 27 0.34
ACGTcount: A:0.36, C:0.33, G:0.18, T:0.13
Consensus pattern (81 bp):
AAACCAACACTAGCAGTAGCTTCCAACAGTACGAGCATCCAAAACCAACACCAGCAGCAACTTCT
AGCACACGAGCATCCG
Found at i:2466677 original size:69 final size:69
Alignment explanation
Indices: 2466588--2466720 Score: 191
Period size: 69 Copynumber: 1.9 Consensus size: 69
2466578 AGCCAATGAC
*
2466588 AGCTTCAGCAACTACCACAGCAACCTTCAGCAACTTCCAAC-AG-CTTCCATAGTAGCCATCAGC
1 AGCTTCAGCAACTACCACAGCAACCTTCAGCAACTTCCAACAAGTC-T-CACAGTAGCCATCAGC
2466651 AACGAT
64 AACGAT
* *
2466657 AGCTTCAGCAGCT-CCTACAGCAACCTTCAGCAACTTCCAGCAAGTCTCACAGTAGCCATCAGCA
1 AGCTTCAGCAACTACC-ACAGCAACCTTCAGCAACTTCCAACAAGTCTCACAGTAGCCATCAGCA
2466721 GCTCAAAGCA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
68 2 0.03
69 52 0.90
70 3 0.05
71 1 0.02
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (69 bp):
AGCTTCAGCAACTACCACAGCAACCTTCAGCAACTTCCAACAAGTCTCACAGTAGCCATCAGCAA
CGAT
Found at i:2480318 original size:42 final size:42
Alignment explanation
Indices: 2480255--2481084 Score: 216
Period size: 42 Copynumber: 19.8 Consensus size: 42
2480245 GTTTTCCCTT
*
2480255 AGTCTGCCTGTCG-GCTTTGACCCTGGAGACTGCCTCATCTAA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCCT-ATCTAA
* * * *
2480297 AGTCAGTCTGTCGAG-TTTGACCCTGGAGACTTTCCTACCCT-C
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGAC-TGCCTA-TCTAA
*
2480339 AGTCTGCCTGTC-AGCTTTGACCCTGGAGACTGCCTTATCTAA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCC-TATCTAA
** ** * *
2480381 AGTCTA-CCTGTCG-GCTTTGACTTTGGAGACTTTTCTACACT-C
1 AGTC-AGCCTGTCGAGCTTTGACCCTGGAGAC-TGCCTA-TCTAA
* * * * * * *
2480423 AGTCTGCCTATTG-GCTTTAACCCTAGAGACTGCCTTATTTTA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCC-TATCTAA
* * * *
2480465 AGTCTA-CCTATTG-GCTTTGACCTTGGAGACTACCTTATCTAA
1 AGTC-AGCCTGTCGAGCTTTGACCCTGGAGACTGCC-TATCTAA
* * * * * *
2480507 AGTCTGCCTGTC-AACTTTGACCCTGGAGACTTTCTTACCCT-C
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGAC-TGCCTA-TCTAA
* ** *
2480549 AGTCTGCCTGTCGA-CTTTGACCCAAGAGACTGCCTCAACTAA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCCT-ATCTAA
* * * * * * *
2480591 AGTTTATG--TGTTG-GCTTTAACCCTGAAGACTTTCCTACCCTCA
1 AG-TCA-GCCTGTCGAGCTTTGACCCTGGAGAC-TGCCTA-TCTAA
* * * * * * *
2480634 A-TCTGCTTGTC-AGCTTTGACCCTAGAGACTACTTTATTTTA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGC-CTATCTAA
** * * *
2480675 AGT-ATGTTTATCG-GCTTTGACCCTAGAGATTGCCTTATCTAA
1 AGTCA-GCCTGTCGAGCTTTGACCCTGGAGACTGCC-TATCTAA
** * * * ** * *
2480717 AGTTTGCCTAT-TAGCTTTGACCCTAGAGACTTTTCTACCCTTA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGAC-TGCCTA-TCTAA
** * * *
2480760 A-TTTGCCTGTCGA-CTTTGACCTTAGAGACTACCTCATCTAA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCCT-ATCTAA
* * * * * *
2480801 AGTCTGCCTATCG-GCTTTGACCCTAGAGGCTTTCCTACTCT-C
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGAC-TGCCTA-TCTAA
* * * * *
2480843 TGTCTGCCTATCGA-CTTTGACCCTAGAGATTGCCTTATCTAAA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCC-TATCT-AA
* * * * * **
2480886 AGTCTGCCTGTCGA-CTTTGACCCTAGAAACTTTCCTACCCTCT
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGAC-TGCCTA-TCTAA
** * * *
2480929 A-TTTGCCTATCGA-CTTTGACCTTGGAGGCTGCCTTATCTAA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCC-TATCTAA
* * *
2480970 AGTCTGCCTGTCG-GCTTTGATCCC-GGAGACTTTCCTACTCT-T
1 AGTCAGCCTGTCGAGCTTTGA-CCCTGGAGAC-TGCCTA-TCTAA
* * * *
2481012 AGTCTGCCTATCGA-CTTTGACCTTGGAGACTACCTTATCTAA
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCC-TATCTAA
* * **
2481054 AGTCTGCCTGTTG-GCTTTGACTTTGGAGACT
1 AGTCAGCCTGTCGAGCTTTGACCCTGGAGACT
2481085 TTCCTACCCT
Statistics
Matches: 589, Mismatches: 138, Indels: 122
0.69 0.16 0.14
Matches are distributed among these distances:
40 1 0.00
41 48 0.08
42 458 0.78
43 76 0.13
44 6 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (42 bp):
AGTCAGCCTGTCGAGCTTTGACCCTGGAGACTGCCTATCTAA
Found at i:2480392 original size:84 final size:83
Alignment explanation
Indices: 2480250--2481126 Score: 590
Period size: 84 Copynumber: 10.4 Consensus size: 83
2480240 TTTTTGTTTT
* * * *
2480250 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTGCCTCATCTAAAGTCAGTCTGTCGAG-TT
1 CCCTCAGTCTGCCTGTC-GCTTTGACCCTGGAGACTGCCTTATCTAAAGTCTGCCTGTCG-GCTT
*
2480314 TGACCCTGGAGACTTTCCTA
64 TGACCCTAGAGACTTTCCTA
*
2480334 CCCTCAGTCTGCCTGTCAGCTTTGACCCTGGAGACTGCCTTATCTAAAGTCTACCTGTCGGCTTT
1 CCCTCAGTCTGCCTGTC-GCTTTGACCCTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTT
** * *
2480399 GACTTTGGAGACTTTTCTA
65 GACCCTAGAGACTTTCCTA
* * * * * * * * * *
2480418 CACTCAGTCTGCCTATTGGCTTTAACCCTAGAGACTGCCTTATTTTAAGTCTACCTATTGGCTTT
1 CCCTCAGTCTGCCT-GTCGCTTTGACCCTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTT
* * *
2480483 GACCTTGGAGAC-TACCTTA
65 GACCCTAGAGACTTTCC-TA
* * * ** * * *
2480502 -TCTAAAGTCTGCCTGTCAACTTTGACCCTGGAGACTTTCTTACCCT-CAGTCTGCCTGTCGACT
1 CCCT-CAGTCTGCCTGTC-GCTTTGACCCTGGAGACTGCCTTA-TCTAAAGTCTGCCTGTCGGCT
* *
2480565 TTGACCCAAGAGAC-TGCCT-
63 TTGACCCTAGAGACTTTCCTA
* * * *** * * * * * * * *
2480584 CAACTAAAGTTTATGTGTTGGCTTTAACCCTGAAGACTTTCC-TACCCTCAA-TCTGCTTGTCAG
1 C-CCT-CAGTCTGCCTG-TCGCTTTGACCCTGGAGAC-TGCCTTA-TCTAAAGTCTGCCTGTCGG
2480647 CTTTGACCCTAGAGACTACTT--TA
61 CTTTGACCCTAGAGACT--TTCCTA
*** * * ** * * * * * **
2480670 TTTTAAGTATGTTTATCGGCTTTGACCCTAGAGATTGCCTTATCTAAAGTTTGCCTATTAGCTTT
1 CCCTCAGTCTGCCTGTC-GCTTTGACCCTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTT
*
2480735 GACCCTAGAGACTTTTCTA
65 GACCCTAGAGACTTTCCTA
* * * * * * * *
2480754 CCCTTAATTTGCCTGTCGACTTTGACCTTAGAGACTACCTCATCTAAAGTCTGCCTATCGGCTTT
1 CCCTCAGTCTGCCTGTCG-CTTTGACCCTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTT
*
2480819 GACCCTAGAGGCTTTCCTA
65 GACCCTAGAGACTTTCCTA
* * * * * *
2480838 CTCTCTGTCTGCCTATCGACTTTGACCCTAGAGATTGCCTTATCTAAAAGTCTGCCTGTCGACTT
1 CCCTCAGTCTGCCTGTCG-CTTTGACCCTGGAGACTGCCTTATCT-AAAGTCTGCCTGTCGGCTT
*
2480903 TGACCCTAGAAACTTTCCTA
64 TGACCCTAGAGACTTTCCTA
* * * *
2480923 CCCTCTA-TTTGCCTATCGACTTTGACCTTGGAGGCTGCCTTATCTAAAGTCTGCCTGTCGGCTT
1 CCCTC-AGTCTGCCTGTCG-CTTTGACCCTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTT
*
2480987 TGATCCC-GGAGACTTTCCTA
64 TGA-CCCTAGAGACTTTCCTA
* * * * * *
2481007 CTCTTAGTCTGCCTATCGACTTTGACCTTGGAGACTACCTTATCTAAAGTCTGCCTGTTGGCTTT
1 CCCTCAGTCTGCCTGTCG-CTTTGACCCTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTT
** *
2481072 GACTTTGGAGACTTTCCTA
65 GACCCTAGAGACTTTCCTA
* * * *
2481091 CCCTCAGTCTGCTTGTTAGTTTTGACCCTAGAGACT
1 CCCTCAGTCTGCCTG-TCGCTTTGACCCTGGAGACT
2481127 TTTTCACTTT
Statistics
Matches: 632, Mismatches: 134, Indels: 54
0.77 0.16 0.07
Matches are distributed among these distances:
82 2 0.00
83 18 0.03
84 525 0.83
85 86 0.14
87 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.35
Consensus pattern (83 bp):
CCCTCAGTCTGCCTGTCGCTTTGACCCTGGAGACTGCCTTATCTAAAGTCTGCCTGTCGGCTTTG
ACCCTAGAGACTTTCCTA
Found at i:2480482 original size:126 final size:126
Alignment explanation
Indices: 2480352--2480583 Score: 331
Period size: 126 Copynumber: 1.8 Consensus size: 126
2480342 CTGCCTGTCA
* ** **
2480352 GCTTTGACCCTGGAGACTGCCTTATCTAAAGTCTACCTGTCGGCTTTGACTTTGGAGACTTT-TC
1 GCTTTGACCCTGGAGACTACCTTATCTAAAGTCTACCTGTCAACTTTGACCCTGGAGACTTTCT-
* * *
2480416 TACACTCAGTCTGCCTATTGGCTTTAACCCTAGAGACTGCCTTATTTTAAGTCTACCTATTG
65 TACACTCAGTCTGCCTATCGACTTTAACCCAAGAGACTGCCTTATTTTAAGTCTACCTATTG
* *
2480478 GCTTTGACCTTGGAGACTACCTTATCTAAAGTCTGCCTGTCAACTTTGACCCTGGAGACTTTCTT
1 GCTTTGACCCTGGAGACTACCTTATCTAAAGTCTACCTGTCAACTTTGACCCTGGAGACTTTCTT
* * *
2480543 ACCCTCAGTCTGCCTGTCGACTTTGACCCAAGAGACTGCCT
66 ACACTCAGTCTGCCTATCGACTTTAACCCAAGAGACTGCCT
2480584 CAACTAAAGT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
126 91 0.99
127 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.34
Consensus pattern (126 bp):
GCTTTGACCCTGGAGACTACCTTATCTAAAGTCTACCTGTCAACTTTGACCCTGGAGACTTTCTT
ACACTCAGTCTGCCTATCGACTTTAACCCAAGAGACTGCCTTATTTTAAGTCTACCTATTG
Found at i:2480605 original size:126 final size:126
Alignment explanation
Indices: 2480352--2480621 Score: 317
Period size: 126 Copynumber: 2.1 Consensus size: 126
2480342 CTGCCTGTCA
* ** **
2480352 GCTTTGACCCTGGAGACTGCCTTATCTAAAGTCTACCTGTCGGCTTTGACTTTGGAGACTTTTCT
1 GCTTTGACCCTGGAGACTACCTTATCTAAAGTCTACCTGTCAACTTTGACCCTGGAGACTTTTCT
* * * * ** *
2480417 ACACTCAGTCTGCCTATTGGCTTTAACCCTAGAGACTGCCTTATTTTAAGTCTACCTATTG
66 ACACTCAGTCTGCCTATCGACTTTAACCCAAGAGACTGCCTCAACTAAAGTCTACCTATTG
* *
2480478 GCTTTGACCTTGGAGACTACCTTATCTAAAGTCTGCCTGTCAACTTTGACCCTGGAGAC-TTTCT
1 GCTTTGACCCTGGAGACTACCTTATCTAAAGTCTACCTGTCAACTTTGACCCTGGAGACTTTTC-
* * * * ** *
2480542 TACCCTCAGTCTGCCTGTCGACTTTGACCCAAGAGACTGCCTCAACTAAAGTTTATGTGTTG
65 TACACTCAGTCTGCCTATCGACTTTAACCCAAGAGACTGCCTCAACTAAAGTCTACCTATTG
* *
2480604 GCTTTAACCCTGAAGACT
1 GCTTTGACCCTGGAGACT
2480622 TTCCTACCCT
Statistics
Matches: 119, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
125 4 0.03
126 115 0.97
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (126 bp):
GCTTTGACCCTGGAGACTACCTTATCTAAAGTCTACCTGTCAACTTTGACCCTGGAGACTTTTCT
ACACTCAGTCTGCCTATCGACTTTAACCCAAGAGACTGCCTCAACTAAAGTCTACCTATTG
Found at i:2480693 original size:126 final size:126
Alignment explanation
Indices: 2480427--2480828 Score: 310
Period size: 126 Copynumber: 3.2 Consensus size: 126
2480417 ACACTCAGTC
* * * ** * * * * * *
2480427 TGCCTATTGGCTTTAACCCTAGAGACTGCCTTATTTTAAGTCTACCTATTGGCTTTGACCTTGGA
1 TGCCTATCGGCTTTGACCCTAGAGACTGCCTCAACTAAAGTTTACCTATTAGCTTTAACCCTAGA
* * * * * ** * * * *
2480492 GAC-TACCTTA-TCTAAAGTCTGCCTGTCAACTTTGACCCTGGAGACTTTCTTACCCT-CAGTC
66 GACTTTCC-TACCCTCAA-TCTGCCTGTCGACTTTGACCCTAGAGACTACCTCA-TCTAAAGTA
* * * ** * *
2480553 TGCCTGTCGACTTTGACCCAAGAGACTGCCTCAACTAAAGTTTATGTGTTGGCTTTAACCCT-GA
1 TGCCTATCGGCTTTGACCCTAGAGACTGCCTCAACTAAAGTTTACCTATTAGCTTTAACCCTAG-
* * * * *
2480617 AGACTTTCCTACCCTCAATCTGCTTGTC-AGCTTTGACCCTAGAGACTACTTTATTTTAAGTA
65 AGACTTTCCTACCCTCAATCTGCCTGTCGA-CTTTGACCCTAGAGACTACCTCATCTAAAGTA
** * * * * *
2480679 TGTTTATCGGCTTTGACCCTAGAGATTGCCTTATCTAAAGTTTGCCTATTAGCTTTGACCCTAGA
1 TGCCTATCGGCTTTGACCCTAGAGACTGCCTCAACTAAAGTTTACCTATTAGCTTTAACCCTAGA
* * * * *
2480744 GACTTTTCTACCCTTAATTTGCCTGTCGACTTTGACCTTAGAGACTACCTCATCTAAAGTC
66 GACTTTCCTACCCTCAATCTGCCTGTCGACTTTGACCCTAGAGACTACCTCATCTAAAGTA
2480805 TGCCTATCGGCTTTGACCCTAGAG
1 TGCCTATCGGCTTTGACCCTAGAG
2480829 GCTTTCCTAC
Statistics
Matches: 216, Mismatches: 53, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
125 3 0.01
126 204 0.94
127 9 0.04
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (126 bp):
TGCCTATCGGCTTTGACCCTAGAGACTGCCTCAACTAAAGTTTACCTATTAGCTTTAACCCTAGA
GACTTTCCTACCCTCAATCTGCCTGTCGACTTTGACCCTAGAGACTACCTCATCTAAAGTA
Found at i:2480970 original size:169 final size:168
Alignment explanation
Indices: 2480683--2481095 Score: 546
Period size: 169 Copynumber: 2.4 Consensus size: 168
2480673 TAAGTATGTT
* * * *
2480683 TATCGGCTTTGACCCTAGAGATTGCCTTATCTAAAGTTTGCCTATTAGCTTTGACCCTAGAGACT
1 TATCGACTTTGACCCTAGAGATTGCCTTATCTAAAGTCTGCCTGTGA-CTTTGACCCTAGAGACT
* *
2480748 TTTCTACCCT-TAATTTGCCTGTCGACTTTGACCTTAGAGACTACCTCATCTAAAGTCTGCCTAT
65 TTCCTACCCTCTAATTTGCCTATCGACTTTGACCTTAGAGACTACCTCATCTAAAGTCTGCCTAT
*
2480812 CGGCTTTGA-CCCTAGAGGCTTTCCTACTCTCT-GTCTGCC
130 CGGCTTTGATCCC-AGAGACTTTCCTACTCT-TAGTCTGCC
*
2480851 TATCGACTTTGACCCTAGAGATTGCCTTATCTAAAAGTCTGCCTGTCGACTTTGACCCTAGAAAC
1 TATCGACTTTGACCCTAGAGATTGCCTTATCT-AAAGTCTGCCTGT-GACTTTGACCCTAGAGAC
* * * * *
2480916 TTTCCTACCCTCT-ATTTGCCTATCGACTTTGACCTTGGAGGCTGCCTTATCTAAAGTCTGCCTG
64 TTTCCTACCCTCTAATTTGCCTATCGACTTTGACCTTAGAGACTACCTCATCTAAAGTCTGCCTA
*
2480980 TCGGCTTTGATCCCGGAGACTTTCCTACTCTTAGTCTGCC
129 TCGGCTTTGATCCCAGAGACTTTCCTACTCTTAGTCTGCC
* * * * * ** *
2481020 TATCGACTTTGACCTTGGAGACTACCTTATCTAAAGTCTGCCTGTTGGCTTTGACTTTGGAGACT
1 TATCGACTTTGACCCTAGAGATTGCCTTATCTAAAGTCTGCCTG-TGACTTTGACCCTAGAGACT
2481085 TTCCTACCCTC
65 TTCCTACCCTC
2481096 AGTCTGCTTG
Statistics
Matches: 216, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
168 69 0.32
169 142 0.66
170 5 0.02
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.35
Consensus pattern (168 bp):
TATCGACTTTGACCCTAGAGATTGCCTTATCTAAAGTCTGCCTGTGACTTTGACCCTAGAGACTT
TCCTACCCTCTAATTTGCCTATCGACTTTGACCTTAGAGACTACCTCATCTAAAGTCTGCCTATC
GGCTTTGATCCCAGAGACTTTCCTACTCTTAGTCTGCC
Found at i:2482068 original size:17 final size:18
Alignment explanation
Indices: 2482046--2482082 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2482036 AACGAGGAAG
*
2482046 AAAATGGAAGA-CAAAGC
1 AAAATGGAACAGCAAAGC
2482063 AAAATGGAACAGCAAAGC
1 AAAATGGAACAGCAAAGC
2482081 AA
1 AA
2482083 TAAGTTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.59, C:0.14, G:0.22, T:0.05
Consensus pattern (18 bp):
AAAATGGAACAGCAAAGC
Found at i:2482181 original size:41 final size:41
Alignment explanation
Indices: 2482136--2482827 Score: 382
Period size: 41 Copynumber: 16.8 Consensus size: 41
2482126 AAGAGAAAGG
* *
2482136 GCATCCAAAACCAACACCGGCAGCAGCTTCTAGCAGCAAGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
** ** * * *
2482177 GCATCTGAAACCAACATTGGCAGCAGCCTCCAACAGTAGGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
* * * ** * *
2482218 GTATCCGAAACCAACATCGATAGTAGCTTCCAGCAGTAGGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
* * * *
2482259 GCACCCAAAACCAACACCAGCAGCAACTTCCAACAGCAGGAA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGG-A
* * * * * *
2482301 GGGGATCTAAAACCAACACCGGGAGTAGCTTCCAACAGCAAGA
1 --GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
** * * *
2482344 GCATATAAAACCAACACCGGTAGCAGCATCTAGCAGCAGGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
** * *
2482385 GCATAAAAAACCAACACCGGCAGTAGCTTCCAGCAACAGGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
* * * * *
2482426 GCATTCAAAACCAACA-CGAACAGCAACTTCCAGAAGTAGGA
1 GCATCCAAAACCAACACCG-GCAGCAGCTTCCAGCAGCAGGA
** * * * * * *
2482467 GCATCTGAAACCAACATCGACAGTAGCTTTCAGTAGCATGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
* ** * * *
2482508 GCATCCGAAACCAACACTAGCAGCAACTTCCAACAACAGGAA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGG-A
* * * * * * **
2482550 GGGGATCTAAAACCAATACTGGGAGTAGCTTCCAATAGCAGGA
1 --GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
*** * * * * * **
2482593 GCATATGAAACTAACACTGGCAACAGCTTCTAGTAGCAAAA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
* * * *
2482634 GCATCAAAAACCAACACCAGCAGTAGCTTCCAGCAGTAGGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
* * * * * * * *
2482675 GCATTCGAAACCAACATCGACAGTAGCTTCCAACAGTAGGG
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
* * ** * * * *
2482716 GGATCC-AAACCAGCACTAGTATCAGCTTCCAGCAGTATGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
* * * * * *
2482756 GCATCCGAAACTAACATCGACAGCAGCTTCCAACAG-ACGA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
** * *
2482796 GCATCTGAAACCAACACCAGCAGCAGCATCCA
1 GCATCCAAAACCAACACCGGCAGCAGCTTCCA
2482828 ACAACAGCTC
Statistics
Matches: 490, Mismatches: 152, Indels: 19
0.74 0.23 0.03
Matches are distributed among these distances:
40 59 0.12
41 363 0.74
42 4 0.01
43 2 0.00
44 62 0.13
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.14
Consensus pattern (41 bp):
GCATCCAAAACCAACACCGGCAGCAGCTTCCAGCAGCAGGA
Found at i:2482398 original size:167 final size:167
Alignment explanation
Indices: 2482132--2482457 Score: 400
Period size: 167 Copynumber: 2.0 Consensus size: 167
2482122 TTCCAAGAGA
* * * * **
2482132 AAGGGCATCCAAAACCAACACCGGCAGCAGCTTCTAGCAGCAAGAGCATCTGAAACCAACATTGG
1 AAGGGCATCCAAAACCAACACCGGCAGCAGCTTCCAACAGCAAGAGCATATAAAACCAACACCGG
* * * *** * * **
2482197 CAGCAGCCTCCAACAGTAGGAGTATCCGAAACCAACATCGATAGTAGCTTCCAGCAGTAGGAGCA
66 CAGCAGCATCCAACAGCAGGAGCATAAAAAACCAACACCGACAGTAGCTTCCAGCAACAGGAGCA
*
2482262 CCCAAAACCAACACCAGCAGCAACTTCCAACAGCAGG
131 CCCAAAACCAACACCAACAGCAACTTCCAACAGCAGG
* * * *
2482299 AAGGGGATCTAAAACCAACACCGGGAGTAGCTTCCAACAGCAAGAGCATATAAAACCAACACCGG
1 AAGGGCATCCAAAACCAACACCGGCAGCAGCTTCCAACAGCAAGAGCATATAAAACCAACACCGG
* * * *
2482364 TAGCAGCATCTAGCAGCAGGAGCATAAAAAACCAACACCGGCAGTAGCTTCCAGCAACAGGAGCA
66 CAGCAGCATCCAACAGCAGGAGCATAAAAAACCAACACCGACAGTAGCTTCCAGCAACAGGAGCA
** *
2482429 TTCAAAACCAACACGAACAGCAACTTCCA
131 CCCAAAACCAACACCAACAGCAACTTCCA
2482458 GAAGTAGGAG
Statistics
Matches: 131, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
167 131 1.00
ACGTcount: A:0.39, C:0.30, G:0.20, T:0.12
Consensus pattern (167 bp):
AAGGGCATCCAAAACCAACACCGGCAGCAGCTTCCAACAGCAAGAGCATATAAAACCAACACCGG
CAGCAGCATCCAACAGCAGGAGCATAAAAAACCAACACCGACAGTAGCTTCCAGCAACAGGAGCA
CCCAAAACCAACACCAACAGCAACTTCCAACAGCAGG
Found at i:2482580 original size:249 final size:249
Alignment explanation
Indices: 2482142--2482727 Score: 748
Period size: 249 Copynumber: 2.4 Consensus size: 249
2482132 AAGGGCATCC
* * * * * *
2482142 AAAACCAACACCGGCAGCAGCTTCTAGCAGCAAGAGCA-TCTGAAACCAACATTGGCAGCAGCCT
1 AAAACCAACACCGGCAGTAGCTTCCAGCAGCAGGAGCATTC-GAAACCAACATCGACAGCAACCT
* * *
2482206 CCAACAGTAGGAGTATCCGAAACCAACATCGATAGTAGCTTCCAGCAGTAGGAGCACCCAAAACC
65 CCAACAGTAGGAGCATCCGAAACCAACATCGACAGTAGCTTCCAGCAGCAGGAGCACCCAAAACC
*
2482271 AACACCAGCAGCAACTTCCAACAGCAGGAAGGGGATCTAAAACCAACACCGGGAGTAGCTTCCAA
130 AACACCAGCAGCAACTTCCAACAACAGGAAGGGGATCTAAAACCAACACCGGGAGTAGCTTCCAA
* * **
2482336 CAGCAAGAGCATATAAAACCAACACCGGTAGCAGCATCTAGCAGCAGGAGCATAA
195 CAGCAAGAGCATATAAAACCAACACCGGCAACAGCATCTAGCAGCAAAAGCATAA
* * *
2482391 AAAACCAACACCGGCAGTAGCTTCCAGCAACAGGAGCATTCAAAACCAACA-CGAACAGCAACTT
1 AAAACCAACACCGGCAGTAGCTTCCAGCAGCAGGAGCATTCGAAACCAACATCG-ACAGCAACCT
* * * * * *
2482455 CCAGA-AGTAGGAGCATCTGAAACCAACATCGACAGTAGCTTTCAGTAGCATGAGCATCCGAAAC
65 CCA-ACAGTAGGAGCATCCGAAACCAACATCGACAGTAGCTTCCAGCAGCAGGAGCACCCAAAAC
* * *
2482519 CAACACTAGCAGCAACTTCCAACAACAGGAAGGGGATCTAAAACCAATACTGGGAGTAGCTTCCA
129 CAACACCAGCAGCAACTTCCAACAACAGGAAGGGGATCTAAAACCAACACCGGGAGTAGCTTCCA
* * * * * * * *
2482584 ATAGCAGGAGCATATGAAACTAACACTGGCAACAGCTTCTAGTAGCAAAAGCATCA
194 ACAGCAAGAGCATATAAAACCAACACCGGCAACAGCATCTAGCAGCAAAAGCATAA
* * * * *
2482640 AAAACCAACACCAGCAGTAGCTTCCAGCAGTAGGAGCATTCGAAACCAACATCGACAGTAGCTTC
1 AAAACCAACACCGGCAGTAGCTTCCAGCAGCAGGAGCATTCGAAACCAACATCGACAGCAACCTC
* *
2482705 CAACAGTAGGGGGATCC-AAACCA
66 CAACAGTAGGAGCATCCGAAACCA
2482728 GCACTAGTAT
Statistics
Matches: 289, Mismatches: 43, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
248 8 0.03
249 276 0.96
250 5 0.02
ACGTcount: A:0.39, C:0.28, G:0.20, T:0.14
Consensus pattern (249 bp):
AAAACCAACACCGGCAGTAGCTTCCAGCAGCAGGAGCATTCGAAACCAACATCGACAGCAACCTC
CAACAGTAGGAGCATCCGAAACCAACATCGACAGTAGCTTCCAGCAGCAGGAGCACCCAAAACCA
ACACCAGCAGCAACTTCCAACAACAGGAAGGGGATCTAAAACCAACACCGGGAGTAGCTTCCAAC
AGCAAGAGCATATAAAACCAACACCGGCAACAGCATCTAGCAGCAAAAGCATAA
Found at i:2483063 original size:59 final size:59
Alignment explanation
Indices: 2482987--2483099 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
2482977 CTTCAGTAAT
* * *
2482987 TTCCAGTAGCTCCCACAGCAGCCATTAACAACGATAGCTTCAGCAGCTCCTACAGCAAC
1 TTCCAGCAGCTCCCACAGCAGCCATCAACAACGACAGCTTCAGCAGCTCCTACAGCAAC
* * *
2483046 TTCCAGCAGCTCTCACAGCAGCCATCAGCAACGACAGCTTCAGTAGCTCCTACA
1 TTCCAGCAGCTCCCACAGCAGCCATCAACAACGACAGCTTCAGCAGCTCCTACA
2483100 ACAGCCCCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.19
Consensus pattern (59 bp):
TTCCAGCAGCTCCCACAGCAGCCATCAACAACGACAGCTTCAGCAGCTCCTACAGCAAC
Found at i:2487151 original size:43 final size:42
Alignment explanation
Indices: 2487069--2487229 Score: 189
Period size: 42 Copynumber: 3.8 Consensus size: 42
2487059 GTACACCCTG
* *
2487069 CTCTTTGAGGACAAAGAACAAAAGGAAATAAAATGTGTCTTA
1 CTCTTTGAGGACAAAGAAAAAAAGGAAATAAAGTGTGTCTTA
* * * *
2487111 CTCTTTGAGGAGAAAGAAAAATAAGGAAATTAAGTATGTCTTG
1 CTCTTTGAGGACAAAGAAAAA-AAGGAAATAAAGTGTGTCTTA
* * ** *
2487154 CTCTTTGAGGACAAAGAAGAAAAGGAAATGAAGTGCATCCTA
1 CTCTTTGAGGACAAAGAAAAAAAGGAAATAAAGTGTGTCTTA
**
2487196 CTCTTTGAGGACAAAGGGAAAAA-GAAATAAAGTG
1 CTCTTTGAGGACAAAGAAAAAAAGGAAATAAAGTG
2487230 CATCCTGCTC
Statistics
Matches: 100, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
41 10 0.10
42 54 0.54
43 36 0.36
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (42 bp):
CTCTTTGAGGACAAAGAAAAAAAGGAAATAAAGTGTGTCTTA
Found at i:2487229 original size:41 final size:41
Alignment explanation
Indices: 2487065--2487300 Score: 186
Period size: 41 Copynumber: 5.6 Consensus size: 41
2487055 AGGAGTACAC
* * *
2487065 CCTGCTCTTTGAGGACAAA-GAACAAAAGGAAATAAAATGTGT
1 CCTGCTCTTTGAGGACAAAGGGA-AAAA-GAAATAAAGTGTAT
* * * ** * * *
2487107 CTTACTCTTTGAGGAGAAAGAAAAATAAGGAAATTAAGTATGT
1 CCTGCTCTTTGAGGACAAAGGGAAA-AA-GAAATAAAGTGTAT
* * * * *
2487150 CTTGCTCTTTGAGGACAAAGAAGAAAAGGAAATGAAGTGCAT
1 CCTGCTCTTTGAGGACAAAG-GGAAAAAGAAATAAAGTGTAT
* *
2487192 CCTACTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGCAT
1 CCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGTAT
* * * * *
2487233 CCTGCTCTTTGAAGATAAAGGGAAAAGGAAGTAAAATGTAT
1 CCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGTAT
* *
2487274 CCTGCTCTTTGAAGATAAAAGGGAAAA
1 CCTGCTCTTTGAGGA-CAAAGGGAAAA
2487301 GAAGGAACTG
Statistics
Matches: 162, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
41 67 0.41
42 56 0.35
43 35 0.22
44 4 0.02
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (41 bp):
CCTGCTCTTTGAGGACAAAGGGAAAAAGAAATAAAGTGTAT
Found at i:2487595 original size:61 final size:60
Alignment explanation
Indices: 2487450--2487829 Score: 500
Period size: 61 Copynumber: 6.3 Consensus size: 60
2487440 AAGTGTTTTA
* * *
2487450 CTCTTTGAGGAATAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCATCCTG
1 CTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
* *
2487509 CTCTTTGAAGACTGAAATGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
1 CTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
* * *
2487570 CTCTTTGAGGACTGAAAGATGCCACCAACTTATATGGGCTTTAAAAGGAAAAGGCATCCTA
1 CTCTTTGAGGACTGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
* * *
2487631 CTCTTTGAGGACTGAAATGTGCCACCAACTTGTATGGGTTTTAAAAGGAAAAGGCATTCTG
1 CTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
* * * *
2487692 CTCTTTGAGGACTAGAAAGTGCTACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTA
1 CTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
* * *
2487753 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGTG--TCATG
1 CTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-GCATCCTG
2487812 CTCTTTGAGGACTGAAAG
1 CTCTTTGAGGACTGAAAG
2487830 GATAAAAGGT
Statistics
Matches: 286, Mismatches: 28, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
58 7 0.02
59 55 0.19
60 8 0.03
61 211 0.74
62 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (60 bp):
CTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
Found at i:2487674 original size:122 final size:121
Alignment explanation
Indices: 2487318--2487829 Score: 520
Period size: 122 Copynumber: 4.2 Consensus size: 121
2487308 CTGAAGTGCG
* * * * * *
2487318 TCCTGCTCTTTAAGGACTAAAAGTTGCCACCAACTTGTGTAGGCTTTAAGATGAAAAAGGAAAGT
1 TCCTGCTCTTTGAGGACTGAAAG-TGCCACCAACTTGTGTGGGCTTTAA-AAGGAAAAGG-CA--
* * * * * * ** *
2487383 GTCCTGCTTTTTGGGGACT-AGAAGGTGCCACTAACTTGTGTGAGCTTTGCAAGAAGAAAGTG--
61 -TCCTACTCTTTGAGGACTGA-AATGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAG-GCA
** * * * *
2487445 TTTTACTCTTTGAGGAATAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAA-GCATCCT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * *
2487508 GCTCTTTGAAGACTGAAATGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGCA
65 ACTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
2487565 TCCTGCTCTTTGAGGACTGAAAGATGCCACCAACTTATATGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* *
2487630 ACTCTTTGAGGACTGAAATGTGCCACCAACTTGTATGGGTTTTAAAAGGAAAAGGCA
65 ACTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
2487687 TTCTGCTCTTTGAGGACTAGAAAGTGCTACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* *
2487752 ACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGTG--
65 ACTCTTTGAGGACTGA-AATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-GCA
*
2487807 TCATGCTCTTTGAGGACTGAAAG
1 TCCTGCTCTTTGAGGACTGAAAG
2487830 GATAAAAGGT
Statistics
Matches: 328, Mismatches: 47, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
118 1 0.00
119 13 0.04
120 98 0.30
121 9 0.03
122 156 0.48
123 6 0.02
124 1 0.00
125 3 0.01
126 2 0.01
127 36 0.11
128 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (121 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTA
CTCTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:2487759 original size:183 final size:179
Alignment explanation
Indices: 2487318--2487830 Score: 518
Period size: 181 Copynumber: 2.8 Consensus size: 179
2487308 CTGAAGTGCG
* * * * *
2487318 TCCTGCTCTTT-AAGGACT-AAAAGTTGCCACCAACTTGTGTAGGCTTTAAGATGAAAAAGGAAA
1 TCCTGCTCTTTGAA-GACTGAAATG-TGCCACCAACTTGTGTGGGCTTTAA-AAGGAAAAGG-CA
* * * * * * * *
2487381 GTGTCCTGCTTTTTGGGGACTAGAAGGTGCCACTAACTTGTGTGAGCTTTGCAAGAA-GAAAGTG
62 ---TCCTACTCTTTGAGGACTAGAAGATGCCACCAACTTATATGGGCTTT--AA-AAGGAAAGTG
** * * *
2487445 TTTTACTCTTTGAGGAAT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCA
121 TCATACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAGCA
*
2487504 TCCTGCTCTTTGAAGACTGAAATGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAAGACTGAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* *
2487569 GCTCTTTGAGGACT-GAAAGATGCCACCAACTTATATGGGCTTTAAAAGGAAAAG-GCATCCTAC
66 ACTCTTTGAGGACTAG-AAGATGCCACCAACTTATATGGGCTTTAAAAGG-AAAGTG--TCATAC
* *
2487632 TCTTTGAGGACTGAAATGTGCCACCAACTTGTATGGGTTTTAAAAGGAAAAGGCA
127 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGG-AAA-GCA
* * * * *
2487687 TTCTGCTCTTTGAGGACTAGAAA-GTGCTACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TCCTGCTCTTTGAAGACT-GAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
* * * * *
2487751 TACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGTGTCATGCTCT
65 TACTCTTTGAGGACTAGAAGATGCCACCAACTTATATGGGCTTTAAAAGGAAAGTGTCATACTCT
2487816 TTGAGGACTGAAAGG
130 TTGAGGACTGAAAGG
2487831 ATAAAAGGTT
Statistics
Matches: 280, Mismatches: 34, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
178 2 0.01
179 4 0.01
180 5 0.02
181 103 0.37
182 8 0.03
183 100 0.36
184 6 0.02
185 8 0.03
186 38 0.14
187 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (179 bp):
TCCTGCTCTTTGAAGACTGAAATGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
ACTCTTTGAGGACTAGAAGATGCCACCAACTTATATGGGCTTTAAAAGGAAAGTGTCATACTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAGCA
Found at i:2488833 original size:8 final size:8
Alignment explanation
Indices: 2488808--2488843 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
2488798 GGTTCTTTTC
2488808 TTTTCTTT
1 TTTTCTTT
* *
2488816 TTTCCCTT
1 TTTTCTTT
2488824 TTTTCTTT
1 TTTTCTTT
2488832 TTTTCTTT
1 TTTTCTTT
2488840 TTTT
1 TTTT
2488844 TTTGGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCTTT
Found at i:2488835 original size:10 final size:10
Alignment explanation
Indices: 2488822--2488877 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
2488812 CTTTTTTCCC
*
2488822 TTTTTTCTTT
1 TTTTTTGTTT
*
2488832 TTTTCT-TTT
1 TTTTTTGTTT
*
2488841 TTTTTTGGTT
1 TTTTTTGTTT
2488851 TTTTTTGTTT
1 TTTTTTGTTT
*
2488861 TGTTTTGTTT
1 TTTTTTGTTT
2488871 ATTTTTT
1 -TTTTTT
2488878 TTGGAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
9 8 0.21
10 25 0.66
11 5 0.13
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.86
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:2492286 original size:13 final size:14
Alignment explanation
Indices: 2492266--2492303 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
2492256 AGATAGAGTG
2492266 ATAAATAAAAAATA
1 ATAAATAAAAAATA
2492280 A-AAATAAAAAA-A
1 ATAAATAAAAAATA
2492292 ATAAA-AAAAAAT
1 ATAAATAAAAAAT
2492304 TATCCAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.36
13 13 0.59
14 1 0.05
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
ATAAATAAAAAATA
Found at i:2492292 original size:15 final size:14
Alignment explanation
Indices: 2492272--2492302 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
2492262 AGTGATAAAT
2492272 AAAAAATAAAAATAA
1 AAAAAATAAAAA-AA
2492287 AAAAAATAAAAAAA
1 AAAAAATAAAAAAA
2492301 AA
1 AA
2492303 TTATCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAAAATAAAAAAA
Found at i:2492358 original size:21 final size:21
Alignment explanation
Indices: 2492308--2492365 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
2492298 AAAAATTATC
*
2492308 CAAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGA
** *
2492329 GGAACGTATCGATACATTCT-A
1 CAAATGTATCGATACATT-TGA
2492350 CAAATGTATCGATACA
1 CAAATGTATCGATACA
2492366 GGGTCCCAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (21 bp):
CAAATGTATCGATACATTTGA
Found at i:2492426 original size:19 final size:18
Alignment explanation
Indices: 2492400--2492468 Score: 76
Period size: 19 Copynumber: 4.0 Consensus size: 18
2492390 AATTTCAGCG
2492400 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
2492418 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
2492434 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
2492450 GTATTGTATCGATACATAA
1 AT-TTGTATCGATACATAA
2492469 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
16 3 0.07
18 2 0.05
19 27 0.63
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:2492439 original size:32 final size:32
Alignment explanation
Indices: 2492403--2492465 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2492393 TTCAGCGATT
*
2492403 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATATTGTATCGATACAA
*
2492435 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAATATTGTATCGATACA
2492466 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAATATTGTATCGATACAA
Found at i:2492440 original size:13 final size:13
Alignment explanation
Indices: 2492422--2492446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2492412 ACATAAATGT
2492422 TGTATCGATACAA
1 TGTATCGATACAA
2492435 TGTATCGATACA
1 TGTATCGATACA
2492447 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2492526 original size:13 final size:13
Alignment explanation
Indices: 2492508--2492533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2492498 CATTTTTCTG
2492508 TGTATCGATACAT
1 TGTATCGATACAT
2492521 TGTATCGATACAT
1 TGTATCGATACAT
2492534 CTATTCTTTG
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:2492552 original size:34 final size:33
Alignment explanation
Indices: 2492488--2492554 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
2492478 GCCAAGGGAA
*
2492488 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
* *
2492521 TGTATCGATACATCTATTCTTTGTATTGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
2492555 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:2493502 original size:20 final size:20
Alignment explanation
Indices: 2493479--2493551 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2493469 ACAATTCAAA
2493479 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2493499 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2493520 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2493540 GTATCGATACAT
1 GTATCGATACAT
2493552 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2493608 original size:13 final size:13
Alignment explanation
Indices: 2493590--2493615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2493580 TACAGCAAGT
2493590 ATGTATCGATACA
1 ATGTATCGATACA
2493603 ATGTATCGATACA
1 ATGTATCGATACA
2493616 TAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2495858 original size:21 final size:21
Alignment explanation
Indices: 2495825--2495869 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2495815 TTGCAAGTTG
*
2495825 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2495847 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2495867 AAA
1 AAA
2495870 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2499799 original size:20 final size:20
Alignment explanation
Indices: 2499720--2499799 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
2499710 AATGTCCAAA
*
2499720 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
2499740 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
2499765 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
2499785 TTGTATCGATACATT
1 ATGTATCGATACATT
2499800 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:2499803 original size:13 final size:13
Alignment explanation
Indices: 2499785--2499823 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2499775 ACATTTTTCT
2499785 TTGTATCGATACA
1 TTGTATCGATACA
2499798 TTGTATCGATACA
1 TTGTATCGATACA
* *
2499811 CTATATCGATACA
1 TTGTATCGATACA
2499824 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2502289 original size:20 final size:20
Alignment explanation
Indices: 2502266--2502338 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2502256 ACAATTCAAA
2502266 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2502286 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2502307 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2502327 GTATCGATACAT
1 GTATCGATACAT
2502339 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2502310 original size:21 final size:21
Alignment explanation
Indices: 2502284--2502359 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2502274 ACATGTTGCA
2502284 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
2502305 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
2502325 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
2502346 ATGTATCGATACAT
1 ATGTATCGATACAT
2502360 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:2502317 original size:41 final size:41
Alignment explanation
Indices: 2502266--2502359 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2502256 ACAATTCAAA
*
2502266 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2502307 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
2502348 GTATCGATACAT
1 GTATCGATACAT
2502360 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:2502416 original size:13 final size:13
Alignment explanation
Indices: 2502398--2502423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2502388 TACAGCAAGT
2502398 ATGTATCGATACA
1 ATGTATCGATACA
2502411 ATGTATCGATACA
1 ATGTATCGATACA
2502424 TAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2505035 original size:27 final size:28
Alignment explanation
Indices: 2505001--2505075 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
2504991 TTTCTTCACA
2505001 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
2505028 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
2505056 -TGAGGGGATACTCCAACCCC
1 AT-CGGGGATACTCCAACCCC
2505076 AACTTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:2505185 original size:52 final size:50
Alignment explanation
Indices: 2505097--2505281 Score: 203
Period size: 52 Copynumber: 3.6 Consensus size: 50
2505087 CAAAATATTG
* * *
2505097 ATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCT-AAAACACTA
1 ATTTTTCACAATCGGGGATACTCCAA-CCCGATTTTATT-CTAAAAACACCA
* *
2505148 ATTTTTCCACAATCGGGGATACTCCAATCCCGATTTTATTTTCAAAACACCA
1 ATTTTT-CACAATCGGGGATACTCCAA-CCCGATTTTATTCTAAAAACACCA
* *
2505200 A-TTTTCCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAATACCA
1 ATTTTTCAC---AATCGGGGATACTCCAAC-CCGATTTTA-TTCTAAAAACACCA
*
2505254 ATTTTTCACAATCGAGGATACTCCAACC
1 ATTTTTCACAATCGGGGATACTCCAACC
2505282 TCGTTATTTC
Statistics
Matches: 115, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
50 2 0.02
51 12 0.10
52 57 0.50
53 26 0.23
54 12 0.10
55 6 0.05
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (50 bp):
ATTTTTCACAATCGGGGATACTCCAACCCGATTTTATTCTAAAAACACCA
Found at i:2505300 original size:28 final size:28
Alignment explanation
Indices: 2505264--2505340 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
2505254 ATTTTTCACA
* * *
2505264 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2505292 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
2505320 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2505341 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2505364 original size:264 final size:263
Alignment explanation
Indices: 2504890--2505391 Score: 803
Period size: 264 Copynumber: 1.9 Consensus size: 263
2504880 TTCTCAATTC
* * *
2504890 TCCATAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTGTAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTGTAATCGGGGA
*
2504955 TACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
2505020 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCAACTTTATT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATT
** *
2505085 TTCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
2505150 TTT
261 TTT
*
2505153 TCCACAATCGGGGATACTCCAA-TCCCGATTTTATTTTCAAAACACCAATTTTCCCTTTAATCGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT--CTGTAATCGG
*
2505217 GGATACTCCAACTCCGATTTTATTT-CTAAAAATACCAATTT-TTCACAATCGAGGATACTCCAA
63 GGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATACTCCAA
* * **
2505280 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTT
128 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTT
*
2505345 TATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TATTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
2505392 ATATTTTCAA
Statistics
Matches: 219, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
262 1 0.00
263 75 0.34
264 109 0.50
265 34 0.16
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (263 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTGTAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATT
CCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:2507081 original size:52 final size:52
Alignment explanation
Indices: 2507003--2507131 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2506993 CGAAATATGA
* *
2507003 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
*
2507055 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
2507107 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2507132 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
Found at i:2507142 original size:52 final size:51
Alignment explanation
Indices: 2507003--2507151 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
2506993 CGAAATATGA
* *
2507003 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
*
2507055 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
*
2507107 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2507152 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGC
Found at i:2507158 original size:13 final size:13
Alignment explanation
Indices: 2507140--2507164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2507130 CAAAGATCAG
2507140 TGTATCGATACAA
1 TGTATCGATACAA
2507153 TGTATCGATACA
1 TGTATCGATACA
2507165 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2507231 original size:19 final size:18
Alignment explanation
Indices: 2507207--2507269 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
2507197 TAGCTTAAAT
2507207 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2507226 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2507239 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2507258 TGTATCGATACA
1 TGTATCGATACA
2507270 TTGTATTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2507244 original size:13 final size:13
Alignment explanation
Indices: 2507226--2507282 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
2507216 ACAAAACTTA
2507226 TGTATCGATACAT
1 TGTATCGATACAT
2507239 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2507257 ATGTATCGATACAT
1 -TGTATCGATACAT
*
2507271 TGTATTGATACA
1 TGTATCGATACA
2507283 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2507246 original size:32 final size:32
Alignment explanation
Indices: 2507205--2507302 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
2507195 AGTAGCTTAA
*
2507205 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
2507237 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
* *
2507269 ATTGTATTGATACAACACTTTATGTATGGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
2507302 A
1 A
2507303 AATCATTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 48 0.77
33 14 0.23
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:2508205 original size:67 final size:68
Alignment explanation
Indices: 2508083--2508209 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
2508073 ATTGGGTTTT
* * *
2508083 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAGATGAAGATG
2508148 AGA
66 AGA
* * * * *
2508151 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAGATGA
2508210 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTAGACTTAAAGATGAAGATG
AGA
Found at i:2508259 original size:55 final size:52
Alignment explanation
Indices: 2508159--2508759 Score: 373
Period size: 43 Copynumber: 12.6 Consensus size: 52
2508149 GAAAAGTGAT
* * * * * * **
2508159 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
2508213 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
2508266 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
2508309 AAAGGTGCCAATGTGTTGATTCAAGGTCAGCTACATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
2508352 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * **
2508402 -AAGATGCTAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----TGG-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
2508446 --AGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAA-TTAAAGATAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATT-GAACTTAAAGATGGA
* *
2508496 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
2508546 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
2508588 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * * * *
2508637 AAAGATACCAATATGTTGATTCAAAGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
2508680 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
2508730 -AAGATGCCAATATGCTGATTCAAGGCCAGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGC
2508760 GATATTGGGC
Statistics
Matches: 454, Mismatches: 57, Indels: 77
0.77 0.10 0.13
Matches are distributed among these distances:
43 181 0.40
44 6 0.01
46 1 0.00
48 3 0.01
49 140 0.31
51 4 0.01
52 72 0.16
53 6 0.01
54 5 0.01
55 36 0.08
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:2508329 original size:43 final size:43
Alignment explanation
Indices: 2508266--2508777 Score: 493
Period size: 43 Copynumber: 11.1 Consensus size: 43
2508256 TAAAGATGGA
2508266 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
2508309 AAAGGTGCCAATGTGTTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2508352 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2508395 AAAGATGAAGATGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
** * * * *
2508444 GGAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAATTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGG-ACT-----T
2508493 AGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
2508539 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2508588 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
2508631 AAAGAAAAAGATACCAATATGTTGATTCAAAGCCAGCGATATTGGACTT
1 AAAG-----G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2508680 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
2508723 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 -AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
2508772 AGAAGG
1 A-AAGG
2508778 GTTGCCACCG
Statistics
Matches: 392, Mismatches: 46, Indels: 60
0.79 0.09 0.12
Matches are distributed among these distances:
43 185 0.47
44 7 0.02
45 4 0.01
46 4 0.01
47 4 0.01
48 5 0.01
49 147 0.38
51 2 0.01
52 34 0.09
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:2508334 original size:21 final size:20
Alignment explanation
Indices: 2508310--2508377 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
2508300 ATTGGACTTA
2508310 AAGGTGCCAATGTGTTGATTC
1 AAGGTGCCAATGTG-TGATTC
* *
2508331 AAGGTCAGCTACAT-TG-GACTTA
1 AAGGT--GCCA-ATGTGTGA-TTC
2508353 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTG-TGATTC
2508374 AAGG
1 AAGG
2508378 CCAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (20 bp):
AAGGTGCCAATGTGTGATTC
Found at i:2508536 original size:144 final size:141
Alignment explanation
Indices: 2508209--2508759 Score: 649
Period size: 144 Copynumber: 3.9 Consensus size: 141
2508199 CTTAAAGATG
* * * * *
2508209 AGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 AGAAAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGATGC
* * *
2508274 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGTTGATTCAAGGTCAG
62 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAG
*
2508339 CTACATTGGACTT--
127 CTACATTGGAATTAA
* * *
2508352 ----AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCTAAT
1 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAAT
* ** *
2508413 ATGCTGATTCAAGGCCAGCGATATTGGGCTTGGAGGTGCCAATGTGCTGATTCAAGGCTAGCTAC
66 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
2508478 ATTGGAATTAA
131 ATTGGAATTAA
*
2508489 AGATAGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCC
1 AG--A-AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCC
*
2508554 AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
63 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGC
*
2508619 TACATTGGACTTAA
128 TACATTGGAATTAA
* * * * *
2508633 AGAAAAAGATACCAATATGTTGATTCAAAGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAAT
1 AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAAT
* * * *
2508692 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
66 ATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATGTGCTGATTCAAGGCC
2508757 AGC
125 AGC
2508760 GATATTGGGC
Statistics
Matches: 363, Mismatches: 30, Indels: 32
0.85 0.07 0.08
Matches are distributed among these distances:
135 111 0.31
136 3 0.01
137 2 0.01
138 44 0.12
139 6 0.02
140 3 0.01
141 64 0.18
142 1 0.00
144 129 0.36
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (141 bp):
AGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAAT
ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC
ATTGGAATTAA
Found at i:2508620 original size:236 final size:230
Alignment explanation
Indices: 2508213--2508777 Score: 841
Period size: 236 Copynumber: 2.4 Consensus size: 230
2508203 AAGATGAGAA
*
2508213 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATT-GAACTTAAAGATGGAAAAGGTGCCAA
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAA-TTAAAGAT-GAAAAGGTGCCAA
* * *
2508277 TATGCTGATTCAAGGCCAGCTATATTGGACTT-AAAGGTGCCAATGTGTTGATTCAAGGTCAGCT
63 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
**
2508341 ACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
128 ACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGA
* * * *
2508406 TGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
193 TACCAATATGCTGATTCAAAGCCAGCGATATTGGACTT
** *
2508444 GGAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGAATTAAAGATAGAAAAGGTGCCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAATTAAAGAT-GAAAAGGTGCCAATA
2508509 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
65 TGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--AAGGTGCCAATATGCTGATTCAAGGCCA
*
2508574 GCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAA
125 GCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAA
*
2508639 AGATACCAATATGTTGATTCAAAGCCAGCGATATTGGACTT
190 AGATACCAATATGCTGATTCAAAGCCAGCGATATTGGACTT
* *
2508680 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG--AAGATGCCAATAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAATTAAAGATGAAAAGGTGCCAATAT
* * *
2508743 GCTGATTCAAGGCCAGCGATATTGGGCTTAGAAGG
66 GCTGATTCAAGGCCAGCTATATTGGACTTAAAAGG
2508778 GTTGCCACCG
Statistics
Matches: 303, Mismatches: 24, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
228 4 0.01
230 83 0.27
231 7 0.02
233 39 0.13
234 1 0.00
235 1 0.00
236 168 0.55
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (230 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAATTAAAGATGAAAAGGTGCCAATAT
GCTGATTCAAGGCCAGCTATATTGGACTTAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACA
TTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGATAC
CAATATGCTGATTCAAAGCCAGCGATATTGGACTT
Found at i:2508657 original size:92 final size:90
Alignment explanation
Indices: 2508213--2508777 Score: 588
Period size: 92 Copynumber: 6.1 Consensus size: 90
2508203 AAGATGAGAA
* *
2508213 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--G-AAAGGTGCCAAT
2508278 ATGCTGATTCAAGGCCAGCTATATTGGACTT
60 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2508309 AAAGGTGCCAATGTGTTGATTCAAGGTCAGCTACATTGGACTT----AAAGGTGCCAATGTGCTG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAGGTGCCAATATGCTG
*
2508370 ATTCAAGGCCAGCTACATTGGACTT
66 ATTCAAGGCCAGCTATATTGGACTT
* * * * * *
2508395 AAAGATGAAGATGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G-GAGGTGCCAAT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAGGTGCCAAT
* * * *
2508456 GTGCTGATTCAAGGCTAGCTACATTGGAATTAAAGAT
60 ATGCTGATTCAAGGCCAGCTATATTGG-ACT-----T
* *
2508493 AGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--AAGGTGCCAATA
2508558 TGCTGATTCAAGGCCAGCTATATTGGACTT
61 TGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
2508588 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGATACCAATATGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG--AAAGGTGCCAATATGC
* *
2508653 TGATTCAAAGCCAGCGATATTGGACTT
64 TGATTCAAGGCCAGCTATATTGGACTT
*
2508680 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--AAGGTGCCAATATGC
* *
2508745 TGATTCAAGGCCAGCGATATTGGGCTT
64 TGATTCAAGGCCAGCTATATTGGACTT
2508772 AGAAGG
1 A-AAGG
2508778 GTTGCCACCG
Statistics
Matches: 408, Mismatches: 35, Indels: 55
0.82 0.07 0.11
Matches are distributed among these distances:
86 41 0.10
87 2 0.00
88 1 0.00
89 1 0.00
90 1 0.00
91 1 0.00
92 235 0.58
93 6 0.01
94 1 0.00
95 70 0.17
96 6 0.01
98 3 0.01
99 1 0.00
100 5 0.01
101 34 0.08
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (90 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAGGTGCCAATATGCTG
ATTCAAGGCCAGCTATATTGGACTT
Found at i:2508799 original size:30 final size:31
Alignment explanation
Indices: 2508765--2508843 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 31
2508755 CCAGCGATAT
2508765 TGGGCTT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTGAGAAGGGTTGCCACCGACTTGTG
*
2508795 TGGGCTTTGGGAAGGGTTGCCACCGACTTGTG
1 TGGGC-TTGAGAAGGGTTGCCACCGACTTGTG
*
2508827 TGGGCTTTGGGAAGGGT
1 TGGGC-TTGAGAAGGGT
2508844 GAAAGATGCC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 5 0.11
31 2 0.04
32 39 0.85
ACGTcount: A:0.14, C:0.16, G:0.42, T:0.28
Consensus pattern (31 bp):
TGGGCTTGAGAAGGGTTGCCACCGACTTGTG
Found at i:2508811 original size:32 final size:32
Alignment explanation
Indices: 2508773--2508843 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
2508763 ATTGGGCTTA
2508773 GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
2508805 GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
2508837 GAAGGGT
1 GAAGGGT
2508844 GAAAGATGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.14, C:0.17, G:0.42, T:0.27
Consensus pattern (32 bp):
GAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
Found at i:2508959 original size:31 final size:31
Alignment explanation
Indices: 2508850--2509500 Score: 428
Period size: 31 Copynumber: 19.7 Consensus size: 31
2508840 GGGTGAAAGA
* * *
2508850 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAA--AAGAAGG
* * *
2508883 TGCCACGAAGTTGTGGGCTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTT-AAA---AAGAAG-G
*
2508919 TGCCACGGAGTTGTGGGCTTTAAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGAAGG
* * *
2508950 TGTCACGGAGTTGCGGACTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGAAGG
* * *
2508981 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAA--AAGAAGG
*** * *
2509014 TGCCACGGAGTCACGGACTTTGAAAGGAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGAAGG
* * *
2509045 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAA--AAGAAGG
* ** *
2509078 TGCCACGGGGTCATGGACTTTAAAAGGGAAAAAAGAG
1 TGCCACGGAGTTGTGGACTTT--AA---AAAGAAG-G
* * *
2509115 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAG
1 TGCCACGGAGTTGTGGACTTTAAAAAGAAGG
*
2509146 TGCCACGGAGTTGTGGAC-TTAGAAGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTA-AA--AAGAAG-G
*
2509180 TGCCACGGAGTTGTTGG-CTTTAAAAAGAAAAAAGA
1 TGCCACGGAGTTG-TGGACTTTAAAAAG----AAGG
* * * *
2509215 TGTCACAGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGAAGG
* * *
2509246 TGCCACGGAGTCGTGGACTTAAAAGAAACAAGG
1 TGCCACGGAGTTGTGGACTT-TAA-AAAGAAGG
*
2509279 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTT-AAA---AAGAAG-G
* *
2509315 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGAAGG
*
2509346 TGCCACAGAGTTGTGGAC-TTAGAAGGAA-ACAGAG
1 TGCCACGGAGTTGTGGACTTTA-AA--AAGA-AG-G
* *
2509380 TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTTAAAAA-G---AAGG
* * *
2509415 TGCCACAGAGTTGTGGGCTTTGAAAAGAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAAGAAGG
* *
2509446 TGCCACGGAGTCGTGGACTTTGAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGACTTT--AAA-AAGAAGG
*
2509480 TGCCACGGAGTCGTGGACTTT
1 TGCCACGGAGTTGTGGACTTT
2509501 GATGCCACTA
Statistics
Matches: 496, Mismatches: 77, Indels: 89
0.75 0.12 0.13
Matches are distributed among these distances:
30 4 0.01
31 151 0.30
32 22 0.04
33 104 0.21
34 70 0.14
35 73 0.15
36 52 0.10
37 19 0.04
38 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (31 bp):
TGCCACGGAGTTGTGGACTTTAAAAAGAAGG
Found at i:2508968 original size:100 final size:100
Alignment explanation
Indices: 2508850--2509500 Score: 836
Period size: 100 Copynumber: 6.5 Consensus size: 100
2508840 GGGTGAAAGA
* * *
2508850 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGGCTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
*
2508915 AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGG
66 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* * ** * * *
2508950 TGTCACGGAGTTGCGGACTTTGAA--AAGAAGGTGCCACGAAGTTGTGGAC-TTAAAA-GGAACA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
*** * *
2509011 AG-GTGCCACGGAGTCACGGACTTTGAAAGGAAGG
66 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* * **
2509045 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTCATGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGG-AAA
*
2509110 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAG
65 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* * * *
2509146 TGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTTGG-CTTTAAAAAGAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGGAGTTG-TGGACTTTAAAAGGGAA
* *
2509210 AAAGA-TGTCACAGAGTTGTGGGCTTTGAAAAGAAGG
64 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* *
2509246 TGCCACGGAGTCGTGGACTTAAAAGAAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
2509311 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
66 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* * * *
2509346 TGCCACAGAGTTGTGGACTTAGAAGGAA-ACAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACA-AG-GTGCCACGGAGTTGTGGACTTTAAAAGGGAA
*
2509410 AAAGA-TGCCACAGAGTTGTGGGCTTTGAAAAGAAGG
64 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
* * *
2509446 TGCCACGGAGTCGTGGACTTTGAAAA-GAAAAAGGTGCCACGGAGTCGTGGACTTT
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT
2509501 GATGCCACTA
Statistics
Matches: 474, Mismatches: 62, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
95 45 0.09
96 7 0.01
97 26 0.05
98 32 0.07
99 33 0.07
100 201 0.42
101 103 0.22
102 24 0.05
103 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (100 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
Found at i:2509382 original size:200 final size:199
Alignment explanation
Indices: 2508850--2509500 Score: 938
Period size: 200 Copynumber: 3.3 Consensus size: 199
2508840 GGGTGAAAGA
* * * * * *
2508850 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGGCTTTAAAAGGGAAAA
1 TGCCACGGAGTCGTGGACTTAAAAGAAACAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAA
* * * *
2508915 AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAGGTGTCACGGAGTTGCGGACTTTGAA--AAGA
66 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGGAA-A
* * * * *** *
2508978 AG-GTGCCACGAAGTTG-TGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTCACGGACTTTGAAA
130 AGAGTGCCACGGAGTTGTTGG-CTTTAAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTTTGAAA
*
2509039 GGAAGG
194 AGAAGG
* * *
2509045 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTCATGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTCGTGGACTTAAAAGAAACAAGGTGCCACGGAGTCGTGGACTTTAAAAGGG-AAA
*
2509110 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTTGTGGACTTAGAAGGAAA
65 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGG-AA
* *
2509175 AAGAGTGCCACGGAGTTGTTGGCTTTAAAAAGAAAAAAGATGTCACAGAGTTGTGGGCTTTGAAA
129 AAGAGTGCCACGGAGTTGTTGGCTTTAAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTTTGAAA
2509240 AGAAGG
194 AGAAGG
*
2509246 TGCCACGGAGTCGTGGACTTAAAAGAAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTCGTGGACTTAAAAGAAACAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAA
*
2509311 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTTGTGGACTTAGAAGGAAAC
66 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAA-
*
2509376 AGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTTTGAAAA
130 AGAGTGCCACGGAGTTGTTGGCTTTAAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTTTGAAAA
2509441 GAAGG
195 GAAGG
2509446 TGCCACGGAGTCGTGGACTTTGAAAAGAAA-AAGGTGCCACGGAGTCGTGGACTTT
1 TGCCACGGAGTCGTGGAC-TT-AAAAGAAACAAGGTGCCACGGAGTCGTGGACTTT
2509501 GATGCCACTA
Statistics
Matches: 412, Mismatches: 33, Indels: 16
0.89 0.07 0.03
Matches are distributed among these distances:
195 54 0.13
196 58 0.14
198 3 0.01
199 19 0.05
200 153 0.37
201 117 0.28
202 8 0.02
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (199 bp):
TGCCACGGAGTCGTGGACTTAAAAGAAACAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAA
AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
GAGTGCCACGGAGTTGTTGGCTTTAAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTTTGAAAAG
AAGG
Found at i:2509514 original size:23 final size:23
Alignment explanation
Indices: 2509488--2509548 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
2509478 GGTGCCACGG
2509488 AGTCGTGGACTTTGATGCCACTA
1 AGTCGTGGACTTTGATGCCACTA
*
2509511 AGTCGTGGACTTTGATGCCACTG
1 AGTCGTGGACTTTGATGCCACTA
2509534 AGTCGTGGACTTTGA
1 AGTCGTGGACTTTGA
2509549 GACAAGATGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (23 bp):
AGTCGTGGACTTTGATGCCACTA
Found at i:2509612 original size:111 final size:111
Alignment explanation
Indices: 2509413--2509613 Score: 255
Period size: 111 Copynumber: 1.8 Consensus size: 111
2509403 AAAGGAAAAA
* * * * *
2509413 GATGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAAGAAAAA
1 GATGCCACAGAGTCGTGGACTTTGAAAACAAGATGCCACGAAGTCGTGGACTTTGAAAAGAAAAA
2509478 GGTGCCACGGAGTCGTGGACTTTGATGCCACTAAGTCGTGGACTTT
66 GGTGCCACGGAGTCGTGGACTTTGATGCCACTAAGTCGTGGACTTT
* * * *
2509524 GATGCCACTGAGTCGTGGACTTTG-AGACAAGATGCCACTAAGTCGTGGAC-TT-AAAAGGCACA
1 GATGCCACAGAGTCGTGGACTTTGAAAACAAGATGCCACGAAGTCGTGGACTTTGAAAA-G-AAA
* *
2509586 AAGAGTGCCACGGAGTTGTGGGCTTTGA
64 AAG-GTGCCACGGAGTCGTGGACTTTGA
2509614 AAAGAAGGTG
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
108 4 0.05
109 3 0.04
110 26 0.34
111 43 0.57
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (111 bp):
GATGCCACAGAGTCGTGGACTTTGAAAACAAGATGCCACGAAGTCGTGGACTTTGAAAAGAAAAA
GGTGCCACGGAGTCGTGGACTTTGATGCCACTAAGTCGTGGACTTT
Found at i:2510620 original size:25 final size:25
Alignment explanation
Indices: 2510592--2510652 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 25
2510582 GGGGTTTTCC
2510592 TTTCTTCTTTTTT-TTTGTTTG-TTTG
1 TTTCTT-TTTTTTCTTT-TTTGTTTTG
2510617 TTTCTTTTTTTTCTTTTTTGTTTTG
1 TTTCTTTTTTTTCTTTTTTGTTTTG
2510642 TTTCTTTTTTT
1 TTTCTTTTTTT
2510653 GGAAAAGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 10 0.29
25 24 0.71
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (25 bp):
TTTCTTTTTTTTCTTTTTTGTTTTG
Found at i:2510636 original size:20 final size:21
Alignment explanation
Indices: 2510600--2510639 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2510590 CCTTTCTTCT
*
2510600 TTTTTTTTGTTTGTTTGTTTC
1 TTTTTTTTCTTTGTTTGTTTC
2510621 TTTTTTTTCTTT-TTTGTTT
1 TTTTTTTTCTTTGTTTGTTT
2510640 TGTTTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (21 bp):
TTTTTTTTCTTTGTTTGTTTC
Found at i:2517828 original size:52 final size:52
Alignment explanation
Indices: 2517750--2517878 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2517740 CGAAATATGA
* *
2517750 AAATTTGCCTGCATATATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
*
2517802 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
2517854 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2517879 CTGATGTATC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
Found at i:2517918 original size:13 final size:13
Alignment explanation
Indices: 2517900--2517927 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2517890 ATACAAAGAT
2517900 CAATGTATCGATA
1 CAATGTATCGATA
2517913 CAATGTATCGATA
1 CAATGTATCGATA
2517926 CA
1 CA
2517928 TTTGAGTAAT
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
Done.