Multiple sequence alignment - TraesCS2D01G312500

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2D01G312500 chr2D 100.000 3108 0 0 540 3647 402244010 402240903 0.000000e+00 5740.0
1 TraesCS2D01G312500 chr2D 100.000 239 0 0 1 239 402244549 402244311 3.340000e-120 442.0
2 TraesCS2D01G312500 chr2D 82.353 187 27 5 2 187 643889619 643889438 1.360000e-34 158.0
3 TraesCS2D01G312500 chr2B 96.515 3070 101 5 578 3647 476455040 476458103 0.000000e+00 5072.0
4 TraesCS2D01G312500 chr2B 81.443 194 26 4 2 185 513249848 513250041 2.270000e-32 150.0
5 TraesCS2D01G312500 chr2B 79.812 213 33 6 1 203 790374513 790374301 2.930000e-31 147.0
6 TraesCS2D01G312500 chr2A 96.368 2285 74 2 555 2839 539016972 539014697 0.000000e+00 3751.0
7 TraesCS2D01G312500 chr2A 96.770 805 22 3 2837 3641 539014583 539013783 0.000000e+00 1339.0
8 TraesCS2D01G312500 chr3A 79.457 258 33 10 1 238 158163429 158163686 8.100000e-37 165.0
9 TraesCS2D01G312500 chr3A 78.788 198 36 5 10 204 63170162 63170356 1.060000e-25 128.0
10 TraesCS2D01G312500 chr6B 84.146 164 26 0 38 201 182577477 182577314 3.770000e-35 159.0
11 TraesCS2D01G312500 chr7D 81.356 177 25 7 14 186 571275970 571276142 1.770000e-28 137.0
12 TraesCS2D01G312500 chr5B 89.623 106 11 0 564 669 679310077 679310182 6.350000e-28 135.0
13 TraesCS2D01G312500 chr5D 78.302 212 36 4 2 203 438821473 438821262 1.060000e-25 128.0
14 TraesCS2D01G312500 chr5D 83.495 103 17 0 101 203 498646300 498646198 3.000000e-16 97.1
15 TraesCS2D01G312500 chr1B 77.889 199 32 10 10 197 110121357 110121554 2.980000e-21 113.0
16 TraesCS2D01G312500 chr1B 78.613 173 26 8 25 186 26262964 26262792 1.790000e-18 104.0
17 TraesCS2D01G312500 chr1B 77.966 177 29 4 38 204 675456014 675455838 6.440000e-18 102.0
18 TraesCS2D01G312500 chr4B 78.313 166 25 6 47 202 31683931 31684095 3.000000e-16 97.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2D01G312500 chr2D 402240903 402244549 3646 True 3091 5740 100.000 1 3647 2 chr2D.!!$R2 3646
1 TraesCS2D01G312500 chr2B 476455040 476458103 3063 False 5072 5072 96.515 578 3647 1 chr2B.!!$F1 3069
2 TraesCS2D01G312500 chr2A 539013783 539016972 3189 True 2545 3751 96.569 555 3641 2 chr2A.!!$R1 3086

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
601 602 0.029167 GCTTCTAGTCGTCGGTAGGC 59.971 60.0 0.0 0.0 0.00 3.93 F
1488 1489 0.680280 CTGCAGGCCTTCTTGATGCT 60.680 55.0 0.0 0.0 37.76 3.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1632 1633 1.039233 TCCAGACGTCCGGGGAATAC 61.039 60.0 17.7 0.0 0.0 1.89 R
3376 3493 0.978907 CAGCAGGCCCCTTGAAATTT 59.021 50.0 0.0 0.0 0.0 1.82 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.805928 TCCGTCCCAGTGATGCTT 58.194 55.556 0.00 0.00 0.00 3.91
18 19 1.596934 TCCGTCCCAGTGATGCTTC 59.403 57.895 0.00 0.00 0.00 3.86
19 20 1.191489 TCCGTCCCAGTGATGCTTCA 61.191 55.000 0.00 0.00 0.00 3.02
20 21 0.321564 CCGTCCCAGTGATGCTTCAA 60.322 55.000 3.51 0.00 32.48 2.69
21 22 1.081892 CGTCCCAGTGATGCTTCAAG 58.918 55.000 3.51 0.48 32.48 3.02
22 23 0.807496 GTCCCAGTGATGCTTCAAGC 59.193 55.000 1.04 1.04 42.82 4.01
23 24 0.674581 TCCCAGTGATGCTTCAAGCG 60.675 55.000 4.57 0.00 46.26 4.68
24 25 0.957395 CCCAGTGATGCTTCAAGCGT 60.957 55.000 2.94 2.94 46.26 5.07
29 30 1.341802 GATGCTTCAAGCGTCGTCG 59.658 57.895 15.85 0.00 45.95 5.12
30 31 1.071019 GATGCTTCAAGCGTCGTCGA 61.071 55.000 15.85 0.00 45.95 4.20
31 32 0.666274 ATGCTTCAAGCGTCGTCGAA 60.666 50.000 4.57 0.00 46.26 3.71
32 33 1.275471 TGCTTCAAGCGTCGTCGAAG 61.275 55.000 4.57 3.62 46.26 3.79
33 34 1.002250 GCTTCAAGCGTCGTCGAAGA 61.002 55.000 12.54 0.00 37.63 2.87
34 35 0.978385 CTTCAAGCGTCGTCGAAGAG 59.022 55.000 12.54 0.97 37.63 2.85
35 36 1.002250 TTCAAGCGTCGTCGAAGAGC 61.002 55.000 12.54 10.92 36.95 4.09
36 37 1.729484 CAAGCGTCGTCGAAGAGCA 60.729 57.895 12.54 0.00 36.95 4.26
37 38 1.073216 CAAGCGTCGTCGAAGAGCAT 61.073 55.000 12.54 9.09 36.95 3.79
38 39 1.073216 AAGCGTCGTCGAAGAGCATG 61.073 55.000 12.54 0.00 36.95 4.06
39 40 1.801913 GCGTCGTCGAAGAGCATGT 60.802 57.895 12.54 0.00 36.95 3.21
40 41 1.983907 CGTCGTCGAAGAGCATGTG 59.016 57.895 0.00 0.00 36.95 3.21
41 42 1.406219 CGTCGTCGAAGAGCATGTGG 61.406 60.000 0.00 0.00 36.95 4.17
42 43 0.109272 GTCGTCGAAGAGCATGTGGA 60.109 55.000 0.00 0.00 36.95 4.02
43 44 0.171231 TCGTCGAAGAGCATGTGGAG 59.829 55.000 0.00 0.00 36.95 3.86
44 45 0.803768 CGTCGAAGAGCATGTGGAGG 60.804 60.000 0.00 0.00 36.95 4.30
45 46 0.247736 GTCGAAGAGCATGTGGAGGT 59.752 55.000 0.00 0.00 36.95 3.85
46 47 0.247460 TCGAAGAGCATGTGGAGGTG 59.753 55.000 0.00 0.00 0.00 4.00
47 48 0.036952 CGAAGAGCATGTGGAGGTGT 60.037 55.000 0.00 0.00 0.00 4.16
48 49 1.446907 GAAGAGCATGTGGAGGTGTG 58.553 55.000 0.00 0.00 0.00 3.82
49 50 0.767375 AAGAGCATGTGGAGGTGTGT 59.233 50.000 0.00 0.00 0.00 3.72
50 51 1.644509 AGAGCATGTGGAGGTGTGTA 58.355 50.000 0.00 0.00 0.00 2.90
51 52 2.191400 AGAGCATGTGGAGGTGTGTAT 58.809 47.619 0.00 0.00 0.00 2.29
52 53 2.169352 AGAGCATGTGGAGGTGTGTATC 59.831 50.000 0.00 0.00 0.00 2.24
53 54 1.210478 AGCATGTGGAGGTGTGTATCC 59.790 52.381 0.00 0.00 36.05 2.59
54 55 1.939974 CATGTGGAGGTGTGTATCCG 58.060 55.000 0.00 0.00 38.52 4.18
55 56 0.830648 ATGTGGAGGTGTGTATCCGG 59.169 55.000 0.00 0.00 38.52 5.14
56 57 1.153429 GTGGAGGTGTGTATCCGGC 60.153 63.158 0.00 0.00 38.52 6.13
57 58 1.610967 TGGAGGTGTGTATCCGGCA 60.611 57.895 0.00 0.00 38.52 5.69
58 59 1.144057 GGAGGTGTGTATCCGGCAG 59.856 63.158 0.00 0.00 0.00 4.85
59 60 1.327690 GGAGGTGTGTATCCGGCAGA 61.328 60.000 0.00 0.00 0.00 4.26
60 61 0.753262 GAGGTGTGTATCCGGCAGAT 59.247 55.000 0.00 0.00 39.15 2.90
61 62 0.753262 AGGTGTGTATCCGGCAGATC 59.247 55.000 0.00 0.00 36.33 2.75
62 63 0.753262 GGTGTGTATCCGGCAGATCT 59.247 55.000 0.00 0.00 36.33 2.75
63 64 1.269831 GGTGTGTATCCGGCAGATCTC 60.270 57.143 0.00 0.00 36.33 2.75
64 65 0.668535 TGTGTATCCGGCAGATCTCG 59.331 55.000 0.00 0.00 36.33 4.04
65 66 0.952280 GTGTATCCGGCAGATCTCGA 59.048 55.000 5.45 0.00 36.33 4.04
66 67 1.068885 GTGTATCCGGCAGATCTCGAG 60.069 57.143 5.93 5.93 36.33 4.04
67 68 0.523966 GTATCCGGCAGATCTCGAGG 59.476 60.000 13.56 3.33 36.33 4.63
68 69 0.609406 TATCCGGCAGATCTCGAGGG 60.609 60.000 13.56 3.81 36.33 4.30
69 70 2.359015 ATCCGGCAGATCTCGAGGGA 62.359 60.000 13.56 9.67 0.00 4.20
70 71 1.905843 CCGGCAGATCTCGAGGGAT 60.906 63.158 13.56 0.00 0.00 3.85
71 72 1.467678 CCGGCAGATCTCGAGGGATT 61.468 60.000 13.56 0.00 0.00 3.01
72 73 0.038709 CGGCAGATCTCGAGGGATTC 60.039 60.000 13.56 5.14 0.00 2.52
80 81 4.925576 CGAGGGATTCGGTCGGCG 62.926 72.222 0.00 0.00 45.54 6.46
81 82 3.834799 GAGGGATTCGGTCGGCGT 61.835 66.667 6.85 0.00 0.00 5.68
82 83 3.366739 GAGGGATTCGGTCGGCGTT 62.367 63.158 6.85 0.00 0.00 4.84
83 84 2.435410 GGGATTCGGTCGGCGTTT 60.435 61.111 6.85 0.00 0.00 3.60
84 85 2.746803 GGGATTCGGTCGGCGTTTG 61.747 63.158 6.85 0.00 0.00 2.93
85 86 2.030958 GGATTCGGTCGGCGTTTGT 61.031 57.895 6.85 0.00 0.00 2.83
86 87 1.418755 GATTCGGTCGGCGTTTGTC 59.581 57.895 6.85 0.00 0.00 3.18
87 88 1.005394 ATTCGGTCGGCGTTTGTCT 60.005 52.632 6.85 0.00 0.00 3.41
88 89 0.601841 ATTCGGTCGGCGTTTGTCTT 60.602 50.000 6.85 0.00 0.00 3.01
89 90 1.216941 TTCGGTCGGCGTTTGTCTTC 61.217 55.000 6.85 0.00 0.00 2.87
90 91 2.851104 GGTCGGCGTTTGTCTTCG 59.149 61.111 6.85 0.00 0.00 3.79
91 92 2.664436 GGTCGGCGTTTGTCTTCGG 61.664 63.158 6.85 0.00 0.00 4.30
92 93 1.952635 GTCGGCGTTTGTCTTCGGT 60.953 57.895 6.85 0.00 0.00 4.69
93 94 1.952133 TCGGCGTTTGTCTTCGGTG 60.952 57.895 6.85 0.00 0.00 4.94
94 95 2.943653 GGCGTTTGTCTTCGGTGG 59.056 61.111 0.00 0.00 0.00 4.61
95 96 1.595929 GGCGTTTGTCTTCGGTGGA 60.596 57.895 0.00 0.00 0.00 4.02
96 97 1.568025 GCGTTTGTCTTCGGTGGAC 59.432 57.895 0.00 0.00 0.00 4.02
97 98 1.838568 GCGTTTGTCTTCGGTGGACC 61.839 60.000 0.00 0.00 33.22 4.46
98 99 1.226030 CGTTTGTCTTCGGTGGACCC 61.226 60.000 0.00 0.00 33.22 4.46
99 100 0.179040 GTTTGTCTTCGGTGGACCCA 60.179 55.000 0.00 0.00 33.22 4.51
100 101 0.107831 TTTGTCTTCGGTGGACCCAG 59.892 55.000 0.00 0.00 33.22 4.45
101 102 1.052124 TTGTCTTCGGTGGACCCAGT 61.052 55.000 0.00 0.00 33.22 4.00
102 103 1.292541 GTCTTCGGTGGACCCAGTC 59.707 63.158 0.00 0.00 0.00 3.51
103 104 1.155390 TCTTCGGTGGACCCAGTCT 59.845 57.895 0.00 0.00 32.47 3.24
104 105 0.471211 TCTTCGGTGGACCCAGTCTT 60.471 55.000 0.00 0.00 32.47 3.01
105 106 0.037232 CTTCGGTGGACCCAGTCTTC 60.037 60.000 0.00 0.00 32.47 2.87
106 107 0.761323 TTCGGTGGACCCAGTCTTCA 60.761 55.000 0.00 0.00 32.47 3.02
107 108 0.544357 TCGGTGGACCCAGTCTTCAT 60.544 55.000 0.00 0.00 32.47 2.57
108 109 0.324943 CGGTGGACCCAGTCTTCATT 59.675 55.000 0.00 0.00 32.47 2.57
109 110 1.676014 CGGTGGACCCAGTCTTCATTC 60.676 57.143 0.00 0.00 32.47 2.67
110 111 1.351017 GGTGGACCCAGTCTTCATTCA 59.649 52.381 0.00 0.00 32.47 2.57
111 112 2.025887 GGTGGACCCAGTCTTCATTCAT 60.026 50.000 0.00 0.00 32.47 2.57
112 113 3.274288 GTGGACCCAGTCTTCATTCATC 58.726 50.000 0.00 0.00 32.47 2.92
113 114 3.054802 GTGGACCCAGTCTTCATTCATCT 60.055 47.826 0.00 0.00 32.47 2.90
114 115 4.162320 GTGGACCCAGTCTTCATTCATCTA 59.838 45.833 0.00 0.00 32.47 1.98
115 116 4.162320 TGGACCCAGTCTTCATTCATCTAC 59.838 45.833 0.00 0.00 32.47 2.59
116 117 4.363999 GACCCAGTCTTCATTCATCTACG 58.636 47.826 0.00 0.00 0.00 3.51
117 118 3.769844 ACCCAGTCTTCATTCATCTACGT 59.230 43.478 0.00 0.00 0.00 3.57
118 119 4.223032 ACCCAGTCTTCATTCATCTACGTT 59.777 41.667 0.00 0.00 0.00 3.99
119 120 4.806247 CCCAGTCTTCATTCATCTACGTTC 59.194 45.833 0.00 0.00 0.00 3.95
120 121 4.500837 CCAGTCTTCATTCATCTACGTTCG 59.499 45.833 0.00 0.00 0.00 3.95
121 122 5.096169 CAGTCTTCATTCATCTACGTTCGT 58.904 41.667 0.00 2.91 0.00 3.85
122 123 5.003872 CAGTCTTCATTCATCTACGTTCGTG 59.996 44.000 8.14 0.00 0.00 4.35
123 124 4.857588 GTCTTCATTCATCTACGTTCGTGT 59.142 41.667 8.14 0.00 0.00 4.49
124 125 4.857037 TCTTCATTCATCTACGTTCGTGTG 59.143 41.667 8.14 4.85 0.00 3.82
125 126 4.168922 TCATTCATCTACGTTCGTGTGT 57.831 40.909 8.14 0.00 0.00 3.72
126 127 4.163552 TCATTCATCTACGTTCGTGTGTC 58.836 43.478 8.14 0.00 0.00 3.67
127 128 3.909776 TTCATCTACGTTCGTGTGTCT 57.090 42.857 8.14 0.00 0.00 3.41
128 129 3.197434 TCATCTACGTTCGTGTGTCTG 57.803 47.619 8.14 4.47 0.00 3.51
129 130 2.551032 TCATCTACGTTCGTGTGTCTGT 59.449 45.455 8.14 0.00 0.00 3.41
130 131 3.747529 TCATCTACGTTCGTGTGTCTGTA 59.252 43.478 8.14 0.00 0.00 2.74
131 132 3.800929 TCTACGTTCGTGTGTCTGTAG 57.199 47.619 8.14 0.00 0.00 2.74
132 133 3.392882 TCTACGTTCGTGTGTCTGTAGA 58.607 45.455 8.14 0.00 36.79 2.59
133 134 3.999001 TCTACGTTCGTGTGTCTGTAGAT 59.001 43.478 8.14 0.00 34.88 1.98
134 135 3.637998 ACGTTCGTGTGTCTGTAGATT 57.362 42.857 0.00 0.00 0.00 2.40
135 136 3.305964 ACGTTCGTGTGTCTGTAGATTG 58.694 45.455 0.00 0.00 0.00 2.67
136 137 2.661675 CGTTCGTGTGTCTGTAGATTGG 59.338 50.000 0.00 0.00 0.00 3.16
137 138 3.610821 CGTTCGTGTGTCTGTAGATTGGA 60.611 47.826 0.00 0.00 0.00 3.53
138 139 4.495422 GTTCGTGTGTCTGTAGATTGGAT 58.505 43.478 0.00 0.00 0.00 3.41
139 140 4.371855 TCGTGTGTCTGTAGATTGGATC 57.628 45.455 0.00 0.00 0.00 3.36
140 141 3.130516 TCGTGTGTCTGTAGATTGGATCC 59.869 47.826 4.20 4.20 0.00 3.36
141 142 3.131223 CGTGTGTCTGTAGATTGGATCCT 59.869 47.826 14.23 0.00 0.00 3.24
142 143 4.382040 CGTGTGTCTGTAGATTGGATCCTT 60.382 45.833 14.23 0.00 0.00 3.36
143 144 5.112686 GTGTGTCTGTAGATTGGATCCTTC 58.887 45.833 14.23 10.08 0.00 3.46
144 145 4.162320 TGTGTCTGTAGATTGGATCCTTCC 59.838 45.833 14.23 1.48 42.94 3.46
145 146 3.384789 TGTCTGTAGATTGGATCCTTCCG 59.615 47.826 14.23 0.40 45.89 4.30
146 147 3.637229 GTCTGTAGATTGGATCCTTCCGA 59.363 47.826 14.23 0.00 45.89 4.55
153 154 4.608948 ATTGGATCCTTCCGATCTACAC 57.391 45.455 14.23 0.00 41.66 2.90
154 155 3.314307 TGGATCCTTCCGATCTACACT 57.686 47.619 14.23 0.00 45.90 3.55
155 156 3.643237 TGGATCCTTCCGATCTACACTT 58.357 45.455 14.23 0.00 45.90 3.16
156 157 3.637229 TGGATCCTTCCGATCTACACTTC 59.363 47.826 14.23 0.00 45.90 3.01
157 158 3.892588 GGATCCTTCCGATCTACACTTCT 59.107 47.826 3.84 0.00 45.90 2.85
158 159 4.022676 GGATCCTTCCGATCTACACTTCTC 60.023 50.000 3.84 0.00 45.90 2.87
159 160 4.237976 TCCTTCCGATCTACACTTCTCT 57.762 45.455 0.00 0.00 0.00 3.10
160 161 4.601084 TCCTTCCGATCTACACTTCTCTT 58.399 43.478 0.00 0.00 0.00 2.85
161 162 4.641094 TCCTTCCGATCTACACTTCTCTTC 59.359 45.833 0.00 0.00 0.00 2.87
162 163 4.399618 CCTTCCGATCTACACTTCTCTTCA 59.600 45.833 0.00 0.00 0.00 3.02
163 164 5.068460 CCTTCCGATCTACACTTCTCTTCAT 59.932 44.000 0.00 0.00 0.00 2.57
164 165 5.506686 TCCGATCTACACTTCTCTTCATG 57.493 43.478 0.00 0.00 0.00 3.07
165 166 4.339530 TCCGATCTACACTTCTCTTCATGG 59.660 45.833 0.00 0.00 0.00 3.66
166 167 4.500545 CCGATCTACACTTCTCTTCATGGG 60.501 50.000 0.00 0.00 0.00 4.00
167 168 3.895232 TCTACACTTCTCTTCATGGGC 57.105 47.619 0.00 0.00 0.00 5.36
168 169 2.166459 TCTACACTTCTCTTCATGGGCG 59.834 50.000 0.00 0.00 0.00 6.13
169 170 0.976641 ACACTTCTCTTCATGGGCGA 59.023 50.000 0.00 0.00 0.00 5.54
170 171 1.338200 ACACTTCTCTTCATGGGCGAC 60.338 52.381 0.00 0.00 0.00 5.19
171 172 0.976641 ACTTCTCTTCATGGGCGACA 59.023 50.000 0.00 0.00 0.00 4.35
172 173 1.066573 ACTTCTCTTCATGGGCGACAG 60.067 52.381 0.00 0.00 0.00 3.51
173 174 0.976641 TTCTCTTCATGGGCGACAGT 59.023 50.000 0.00 0.00 0.00 3.55
174 175 0.976641 TCTCTTCATGGGCGACAGTT 59.023 50.000 0.00 0.00 0.00 3.16
175 176 1.081892 CTCTTCATGGGCGACAGTTG 58.918 55.000 0.00 0.00 0.00 3.16
176 177 0.955428 TCTTCATGGGCGACAGTTGC 60.955 55.000 3.86 3.86 0.00 4.17
177 178 0.957395 CTTCATGGGCGACAGTTGCT 60.957 55.000 12.78 0.00 0.00 3.91
178 179 1.236616 TTCATGGGCGACAGTTGCTG 61.237 55.000 12.78 3.59 37.52 4.41
180 181 1.228245 ATGGGCGACAGTTGCTGTT 60.228 52.632 12.78 0.00 45.44 3.16
181 182 1.237285 ATGGGCGACAGTTGCTGTTC 61.237 55.000 12.78 0.00 45.44 3.18
182 183 1.598130 GGGCGACAGTTGCTGTTCT 60.598 57.895 12.78 0.00 45.44 3.01
183 184 1.571460 GGCGACAGTTGCTGTTCTG 59.429 57.895 12.78 0.00 45.44 3.02
184 185 1.571460 GCGACAGTTGCTGTTCTGG 59.429 57.895 5.41 0.00 45.44 3.86
185 186 1.160329 GCGACAGTTGCTGTTCTGGT 61.160 55.000 5.41 0.00 45.44 4.00
186 187 0.583438 CGACAGTTGCTGTTCTGGTG 59.417 55.000 3.16 0.00 45.44 4.17
187 188 0.308993 GACAGTTGCTGTTCTGGTGC 59.691 55.000 3.16 0.00 45.44 5.01
188 189 0.394216 ACAGTTGCTGTTCTGGTGCA 60.394 50.000 0.00 0.00 42.59 4.57
189 190 0.956633 CAGTTGCTGTTCTGGTGCAT 59.043 50.000 0.00 0.00 36.55 3.96
190 191 1.338973 CAGTTGCTGTTCTGGTGCATT 59.661 47.619 0.00 0.00 36.55 3.56
191 192 1.338973 AGTTGCTGTTCTGGTGCATTG 59.661 47.619 0.00 0.00 36.55 2.82
192 193 0.675083 TTGCTGTTCTGGTGCATTGG 59.325 50.000 0.00 0.00 36.55 3.16
193 194 0.467844 TGCTGTTCTGGTGCATTGGT 60.468 50.000 0.00 0.00 0.00 3.67
194 195 0.242017 GCTGTTCTGGTGCATTGGTC 59.758 55.000 0.00 0.00 0.00 4.02
195 196 0.883833 CTGTTCTGGTGCATTGGTCC 59.116 55.000 0.00 0.00 0.00 4.46
196 197 0.478072 TGTTCTGGTGCATTGGTCCT 59.522 50.000 0.00 0.00 0.00 3.85
197 198 0.883833 GTTCTGGTGCATTGGTCCTG 59.116 55.000 0.00 0.00 0.00 3.86
198 199 0.478072 TTCTGGTGCATTGGTCCTGT 59.522 50.000 0.00 0.00 0.00 4.00
199 200 0.250858 TCTGGTGCATTGGTCCTGTG 60.251 55.000 0.00 0.00 0.00 3.66
200 201 1.228521 TGGTGCATTGGTCCTGTGG 60.229 57.895 0.00 0.00 0.00 4.17
201 202 1.978617 GGTGCATTGGTCCTGTGGG 60.979 63.158 0.00 0.00 0.00 4.61
202 203 1.978617 GTGCATTGGTCCTGTGGGG 60.979 63.158 0.00 0.00 0.00 4.96
203 204 2.440599 GCATTGGTCCTGTGGGGT 59.559 61.111 0.00 0.00 36.25 4.95
204 205 1.228862 GCATTGGTCCTGTGGGGTT 60.229 57.895 0.00 0.00 36.25 4.11
205 206 1.535204 GCATTGGTCCTGTGGGGTTG 61.535 60.000 0.00 0.00 36.25 3.77
206 207 0.112218 CATTGGTCCTGTGGGGTTGA 59.888 55.000 0.00 0.00 36.25 3.18
207 208 0.112412 ATTGGTCCTGTGGGGTTGAC 59.888 55.000 0.00 0.00 36.25 3.18
208 209 2.002018 TTGGTCCTGTGGGGTTGACC 62.002 60.000 0.00 0.00 45.99 4.02
209 210 2.154074 GGTCCTGTGGGGTTGACCT 61.154 63.158 0.00 0.00 43.16 3.85
210 211 1.716028 GGTCCTGTGGGGTTGACCTT 61.716 60.000 0.00 0.00 43.16 3.50
211 212 0.185175 GTCCTGTGGGGTTGACCTTT 59.815 55.000 0.00 0.00 40.03 3.11
212 213 0.476771 TCCTGTGGGGTTGACCTTTC 59.523 55.000 0.00 0.00 40.03 2.62
213 214 0.889186 CCTGTGGGGTTGACCTTTCG 60.889 60.000 0.00 0.00 40.03 3.46
214 215 0.107831 CTGTGGGGTTGACCTTTCGA 59.892 55.000 0.00 0.00 40.03 3.71
215 216 0.179040 TGTGGGGTTGACCTTTCGAC 60.179 55.000 0.00 0.00 40.03 4.20
216 217 0.108019 GTGGGGTTGACCTTTCGACT 59.892 55.000 0.00 0.00 40.03 4.18
217 218 0.107831 TGGGGTTGACCTTTCGACTG 59.892 55.000 0.00 0.00 40.03 3.51
218 219 0.108019 GGGGTTGACCTTTCGACTGT 59.892 55.000 0.00 0.00 40.03 3.55
219 220 1.509703 GGGTTGACCTTTCGACTGTC 58.490 55.000 0.00 0.00 36.47 3.51
220 221 1.070289 GGGTTGACCTTTCGACTGTCT 59.930 52.381 6.21 0.00 36.47 3.41
221 222 2.298163 GGGTTGACCTTTCGACTGTCTA 59.702 50.000 6.21 0.00 36.47 2.59
222 223 3.315418 GGTTGACCTTTCGACTGTCTAC 58.685 50.000 6.21 11.59 36.47 2.59
223 224 3.005578 GGTTGACCTTTCGACTGTCTACT 59.994 47.826 16.36 0.00 36.47 2.57
224 225 4.217118 GGTTGACCTTTCGACTGTCTACTA 59.783 45.833 16.36 0.00 36.47 1.82
225 226 5.152804 GTTGACCTTTCGACTGTCTACTAC 58.847 45.833 6.21 3.42 33.70 2.73
226 227 4.392047 TGACCTTTCGACTGTCTACTACA 58.608 43.478 6.21 0.00 36.42 2.74
227 228 4.823442 TGACCTTTCGACTGTCTACTACAA 59.177 41.667 6.21 0.00 37.74 2.41
228 229 5.475909 TGACCTTTCGACTGTCTACTACAAT 59.524 40.000 6.21 0.00 37.74 2.71
229 230 6.656270 TGACCTTTCGACTGTCTACTACAATA 59.344 38.462 6.21 0.00 37.74 1.90
230 231 7.175467 TGACCTTTCGACTGTCTACTACAATAA 59.825 37.037 6.21 0.00 37.74 1.40
231 232 8.064336 ACCTTTCGACTGTCTACTACAATAAT 57.936 34.615 6.21 0.00 37.74 1.28
232 233 8.529476 ACCTTTCGACTGTCTACTACAATAATT 58.471 33.333 6.21 0.00 37.74 1.40
233 234 9.367444 CCTTTCGACTGTCTACTACAATAATTT 57.633 33.333 6.21 0.00 37.74 1.82
237 238 8.653338 TCGACTGTCTACTACAATAATTTTTGC 58.347 33.333 8.35 0.00 37.74 3.68
238 239 8.656849 CGACTGTCTACTACAATAATTTTTGCT 58.343 33.333 8.35 0.28 37.74 3.91
558 559 1.187715 CTTGTGTTGTTTTGACGGCG 58.812 50.000 4.80 4.80 0.00 6.46
559 560 0.179161 TTGTGTTGTTTTGACGGCGG 60.179 50.000 13.24 0.00 0.00 6.13
560 561 1.306642 TGTGTTGTTTTGACGGCGGT 61.307 50.000 13.24 0.00 0.00 5.68
586 587 0.319900 TCAGTTCGCTCCAGTGCTTC 60.320 55.000 0.00 0.00 0.00 3.86
596 597 0.179161 CCAGTGCTTCTAGTCGTCGG 60.179 60.000 0.00 0.00 0.00 4.79
601 602 0.029167 GCTTCTAGTCGTCGGTAGGC 59.971 60.000 0.00 0.00 0.00 3.93
654 655 8.362639 ACTTCTCGTGTTTTCTGTATTACCTTA 58.637 33.333 0.00 0.00 0.00 2.69
660 661 8.007716 CGTGTTTTCTGTATTACCTTAACAGTG 58.992 37.037 0.00 0.00 41.12 3.66
785 786 3.896648 TTCAAGCGAAACAAGTGGATC 57.103 42.857 0.00 0.00 0.00 3.36
802 803 5.302568 AGTGGATCTGTGCTTCAAATCAAAA 59.697 36.000 0.00 0.00 0.00 2.44
829 830 9.639601 TCATATTCATACGAGATATTGTTGGAC 57.360 33.333 0.00 0.00 0.00 4.02
835 836 1.599542 GAGATATTGTTGGACCGCTGC 59.400 52.381 0.00 0.00 0.00 5.25
866 867 4.280929 ACAGATTTACAGAAAAGCCCCAAC 59.719 41.667 0.00 0.00 33.86 3.77
976 977 1.431440 CGTCTCCTCCTCTCAAGCG 59.569 63.158 0.00 0.00 0.00 4.68
980 981 0.967887 CTCCTCCTCTCAAGCGACCA 60.968 60.000 0.00 0.00 0.00 4.02
1018 1019 3.647921 ATGCCTCCCCAGCTCCTCA 62.648 63.158 0.00 0.00 0.00 3.86
1092 1093 1.486726 CTCCACTCCTACAACCCCATC 59.513 57.143 0.00 0.00 0.00 3.51
1294 1295 2.033328 CTTCTCTGCGCTGCATTCCG 62.033 60.000 9.73 0.00 38.13 4.30
1488 1489 0.680280 CTGCAGGCCTTCTTGATGCT 60.680 55.000 0.00 0.00 37.76 3.79
1632 1633 1.341156 GGTGGATCCAGGGGAGAGTG 61.341 65.000 16.81 0.00 34.05 3.51
1638 1639 2.176247 TCCAGGGGAGAGTGTATTCC 57.824 55.000 0.00 0.00 0.00 3.01
1647 1648 0.101939 GAGTGTATTCCCCGGACGTC 59.898 60.000 7.13 7.13 0.00 4.34
1656 1657 2.657237 CCGGACGTCTGGAGCTTT 59.343 61.111 35.70 0.00 45.36 3.51
1850 1851 3.708403 TCAGAGAGATGGTGTTTGCAT 57.292 42.857 0.00 0.00 0.00 3.96
2082 2083 5.707298 CCTTCCTGATGTTGTGACATTTAGT 59.293 40.000 0.00 0.00 46.27 2.24
2140 2141 5.270893 TGATGATGCAATGAAGATTTGGG 57.729 39.130 0.00 0.00 0.00 4.12
2232 2233 0.539051 AGAACAGATCAGGGGAAGCG 59.461 55.000 0.00 0.00 0.00 4.68
2282 2283 2.057137 ACAGACATTGCACCACAAGT 57.943 45.000 0.00 0.00 42.87 3.16
2378 2379 4.367450 GAGATGGAAGAGAAAGGATGTCG 58.633 47.826 0.00 0.00 0.00 4.35
2482 2483 4.724279 AAAATGGTAGAGACTGGGTGTT 57.276 40.909 0.00 0.00 0.00 3.32
2613 2614 4.352298 AGTTGGAAAGATCCTTCTCCTGTT 59.648 41.667 4.11 0.00 46.70 3.16
2755 2756 1.000283 AGAACAAGCTCTGGTGAGTCG 60.000 52.381 0.00 0.00 42.13 4.18
2821 2822 9.329913 CTACTACATTTTGCACATTTGAACTAC 57.670 33.333 0.00 0.00 0.00 2.73
2833 2834 7.865385 GCACATTTGAACTACTTCCATACAAAA 59.135 33.333 0.00 0.00 31.45 2.44
2999 3116 3.567164 AGTCTGTTCGAGTCCGTAGAAAA 59.433 43.478 0.00 0.00 37.05 2.29
3020 3137 7.761249 AGAAAATGTGAGCAATATTTTACTGCC 59.239 33.333 6.79 0.00 35.00 4.85
3122 3239 4.994852 TGAACTGTACTGCACTTGTATTCC 59.005 41.667 0.00 0.00 0.00 3.01
3132 3249 5.527951 TGCACTTGTATTCCATTGAAACAC 58.472 37.500 0.00 0.00 33.32 3.32
3162 3279 8.217111 TGAATATTGGAAGGCATTATACTGACA 58.783 33.333 0.00 0.00 0.00 3.58
3195 3312 5.789643 ACATTAGTGGTTTTGCAGAACAT 57.210 34.783 20.43 9.16 0.00 2.71
3202 3319 3.698539 TGGTTTTGCAGAACATTCAGTCA 59.301 39.130 20.43 5.79 0.00 3.41
3206 3323 6.237915 GGTTTTGCAGAACATTCAGTCAAAAG 60.238 38.462 20.43 0.00 34.28 2.27
3224 3341 7.123547 AGTCAAAAGGAACTCAAATGTAACCAA 59.876 33.333 0.00 0.00 38.49 3.67
3276 3393 8.260818 TGGAACTATTGAGAGACTAATCCAAAG 58.739 37.037 0.00 0.00 30.77 2.77
3281 3398 9.658799 CTATTGAGAGACTAATCCAAAGTTTCA 57.341 33.333 0.00 0.00 32.07 2.69
3287 3404 8.103305 AGAGACTAATCCAAAGTTTCATGCTAA 58.897 33.333 0.00 0.00 32.07 3.09
3324 3441 3.752796 GCTTGGTGCTCCGTGTATA 57.247 52.632 0.00 0.00 38.95 1.47
3376 3493 2.436417 GAAGCAAATGGTGGAGCTGTA 58.564 47.619 0.00 0.00 37.41 2.74
3510 3627 5.922053 TGATAAGATCATCCAGTCACTTGG 58.078 41.667 0.00 0.00 35.44 3.61
3530 3647 0.846693 ACCTGCCTGTCAAGAACCTT 59.153 50.000 0.00 0.00 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.191489 TGAAGCATCACTGGGACGGA 61.191 55.000 0.00 0.00 38.67 4.69
1 2 0.321564 TTGAAGCATCACTGGGACGG 60.322 55.000 0.00 0.00 42.99 4.79
2 3 1.081892 CTTGAAGCATCACTGGGACG 58.918 55.000 0.00 0.00 34.61 4.79
3 4 0.807496 GCTTGAAGCATCACTGGGAC 59.193 55.000 13.09 0.00 41.89 4.46
5 6 0.957395 ACGCTTGAAGCATCACTGGG 60.957 55.000 18.22 0.37 42.58 4.45
7 8 0.094216 CGACGCTTGAAGCATCACTG 59.906 55.000 18.22 1.89 42.58 3.66
8 9 0.319900 ACGACGCTTGAAGCATCACT 60.320 50.000 18.22 0.00 42.58 3.41
9 10 0.093705 GACGACGCTTGAAGCATCAC 59.906 55.000 18.22 4.92 42.58 3.06
10 11 1.344226 CGACGACGCTTGAAGCATCA 61.344 55.000 18.22 0.00 42.58 3.07
11 12 1.071019 TCGACGACGCTTGAAGCATC 61.071 55.000 18.22 10.87 42.58 3.91
12 13 0.666274 TTCGACGACGCTTGAAGCAT 60.666 50.000 18.22 0.20 42.58 3.79
13 14 1.275471 CTTCGACGACGCTTGAAGCA 61.275 55.000 18.22 0.00 42.58 3.91
14 15 1.002250 TCTTCGACGACGCTTGAAGC 61.002 55.000 7.20 7.20 38.14 3.86
15 16 0.978385 CTCTTCGACGACGCTTGAAG 59.022 55.000 14.61 14.61 39.28 3.02
16 17 1.002250 GCTCTTCGACGACGCTTGAA 61.002 55.000 1.48 0.00 39.58 2.69
17 18 1.442184 GCTCTTCGACGACGCTTGA 60.442 57.895 1.48 0.00 39.58 3.02
18 19 1.073216 ATGCTCTTCGACGACGCTTG 61.073 55.000 1.48 0.00 39.58 4.01
19 20 1.073216 CATGCTCTTCGACGACGCTT 61.073 55.000 1.48 0.00 39.58 4.68
20 21 1.515088 CATGCTCTTCGACGACGCT 60.515 57.895 1.48 0.00 39.58 5.07
21 22 1.801913 ACATGCTCTTCGACGACGC 60.802 57.895 1.48 1.26 39.58 5.19
22 23 1.406219 CCACATGCTCTTCGACGACG 61.406 60.000 0.00 0.00 41.26 5.12
23 24 0.109272 TCCACATGCTCTTCGACGAC 60.109 55.000 0.00 0.00 0.00 4.34
24 25 0.171231 CTCCACATGCTCTTCGACGA 59.829 55.000 0.00 0.00 0.00 4.20
25 26 0.803768 CCTCCACATGCTCTTCGACG 60.804 60.000 0.00 0.00 0.00 5.12
26 27 0.247736 ACCTCCACATGCTCTTCGAC 59.752 55.000 0.00 0.00 0.00 4.20
27 28 0.247460 CACCTCCACATGCTCTTCGA 59.753 55.000 0.00 0.00 0.00 3.71
28 29 0.036952 ACACCTCCACATGCTCTTCG 60.037 55.000 0.00 0.00 0.00 3.79
29 30 1.271054 ACACACCTCCACATGCTCTTC 60.271 52.381 0.00 0.00 0.00 2.87
30 31 0.767375 ACACACCTCCACATGCTCTT 59.233 50.000 0.00 0.00 0.00 2.85
31 32 1.644509 TACACACCTCCACATGCTCT 58.355 50.000 0.00 0.00 0.00 4.09
32 33 2.555199 GATACACACCTCCACATGCTC 58.445 52.381 0.00 0.00 0.00 4.26
33 34 1.210478 GGATACACACCTCCACATGCT 59.790 52.381 0.00 0.00 0.00 3.79
34 35 1.668419 GGATACACACCTCCACATGC 58.332 55.000 0.00 0.00 0.00 4.06
35 36 1.473257 CCGGATACACACCTCCACATG 60.473 57.143 0.00 0.00 0.00 3.21
36 37 0.830648 CCGGATACACACCTCCACAT 59.169 55.000 0.00 0.00 0.00 3.21
37 38 1.895020 GCCGGATACACACCTCCACA 61.895 60.000 5.05 0.00 0.00 4.17
38 39 1.153429 GCCGGATACACACCTCCAC 60.153 63.158 5.05 0.00 0.00 4.02
39 40 1.610967 TGCCGGATACACACCTCCA 60.611 57.895 5.05 0.00 0.00 3.86
40 41 1.144057 CTGCCGGATACACACCTCC 59.856 63.158 5.05 0.00 0.00 4.30
41 42 0.753262 ATCTGCCGGATACACACCTC 59.247 55.000 5.05 0.00 32.04 3.85
42 43 0.753262 GATCTGCCGGATACACACCT 59.247 55.000 5.05 0.00 34.33 4.00
43 44 0.753262 AGATCTGCCGGATACACACC 59.247 55.000 5.05 0.00 34.33 4.16
44 45 1.600663 CGAGATCTGCCGGATACACAC 60.601 57.143 5.05 0.00 34.33 3.82
45 46 0.668535 CGAGATCTGCCGGATACACA 59.331 55.000 5.05 0.00 34.33 3.72
46 47 0.952280 TCGAGATCTGCCGGATACAC 59.048 55.000 5.05 0.00 34.33 2.90
47 48 1.239347 CTCGAGATCTGCCGGATACA 58.761 55.000 6.58 0.00 34.33 2.29
48 49 0.523966 CCTCGAGATCTGCCGGATAC 59.476 60.000 15.71 0.00 34.33 2.24
49 50 0.609406 CCCTCGAGATCTGCCGGATA 60.609 60.000 15.71 0.00 34.33 2.59
50 51 1.905843 CCCTCGAGATCTGCCGGAT 60.906 63.158 15.71 0.00 37.37 4.18
51 52 2.359015 ATCCCTCGAGATCTGCCGGA 62.359 60.000 15.71 10.46 0.00 5.14
52 53 1.467678 AATCCCTCGAGATCTGCCGG 61.468 60.000 15.71 4.50 0.00 6.13
53 54 0.038709 GAATCCCTCGAGATCTGCCG 60.039 60.000 15.71 0.00 0.00 5.69
54 55 3.904586 GAATCCCTCGAGATCTGCC 57.095 57.895 15.71 0.00 0.00 4.85
64 65 2.847435 AAACGCCGACCGAATCCCTC 62.847 60.000 0.00 0.00 41.02 4.30
65 66 2.951101 AAACGCCGACCGAATCCCT 61.951 57.895 0.00 0.00 41.02 4.20
66 67 2.435410 AAACGCCGACCGAATCCC 60.435 61.111 0.00 0.00 41.02 3.85
67 68 1.963190 GACAAACGCCGACCGAATCC 61.963 60.000 0.00 0.00 41.02 3.01
68 69 1.012486 AGACAAACGCCGACCGAATC 61.012 55.000 0.00 0.00 41.02 2.52
69 70 0.601841 AAGACAAACGCCGACCGAAT 60.602 50.000 0.00 0.00 41.02 3.34
70 71 1.216941 GAAGACAAACGCCGACCGAA 61.217 55.000 0.00 0.00 41.02 4.30
71 72 1.662446 GAAGACAAACGCCGACCGA 60.662 57.895 0.00 0.00 41.02 4.69
72 73 2.851104 GAAGACAAACGCCGACCG 59.149 61.111 0.00 0.00 44.21 4.79
73 74 2.664436 CCGAAGACAAACGCCGACC 61.664 63.158 0.00 0.00 0.00 4.79
74 75 1.952635 ACCGAAGACAAACGCCGAC 60.953 57.895 0.00 0.00 0.00 4.79
75 76 1.952133 CACCGAAGACAAACGCCGA 60.952 57.895 0.00 0.00 0.00 5.54
76 77 2.549282 CACCGAAGACAAACGCCG 59.451 61.111 0.00 0.00 0.00 6.46
77 78 1.595929 TCCACCGAAGACAAACGCC 60.596 57.895 0.00 0.00 0.00 5.68
78 79 1.568025 GTCCACCGAAGACAAACGC 59.432 57.895 0.00 0.00 34.27 4.84
79 80 1.226030 GGGTCCACCGAAGACAAACG 61.226 60.000 0.00 0.00 35.89 3.60
80 81 0.179040 TGGGTCCACCGAAGACAAAC 60.179 55.000 0.00 0.00 44.64 2.93
81 82 0.107831 CTGGGTCCACCGAAGACAAA 59.892 55.000 0.00 0.00 44.64 2.83
82 83 1.052124 ACTGGGTCCACCGAAGACAA 61.052 55.000 4.50 0.00 44.64 3.18
83 84 1.458777 ACTGGGTCCACCGAAGACA 60.459 57.895 4.50 0.00 44.64 3.41
84 85 1.186267 AGACTGGGTCCACCGAAGAC 61.186 60.000 4.50 0.00 44.64 3.01
85 86 0.471211 AAGACTGGGTCCACCGAAGA 60.471 55.000 4.50 0.00 44.64 2.87
86 87 0.037232 GAAGACTGGGTCCACCGAAG 60.037 60.000 0.00 0.00 44.64 3.79
87 88 0.761323 TGAAGACTGGGTCCACCGAA 60.761 55.000 0.00 0.00 44.64 4.30
88 89 0.544357 ATGAAGACTGGGTCCACCGA 60.544 55.000 0.00 0.00 44.64 4.69
89 90 0.324943 AATGAAGACTGGGTCCACCG 59.675 55.000 0.00 0.00 44.64 4.94
90 91 1.351017 TGAATGAAGACTGGGTCCACC 59.649 52.381 0.00 0.00 40.81 4.61
91 92 2.859165 TGAATGAAGACTGGGTCCAC 57.141 50.000 0.00 0.00 32.18 4.02
92 93 3.184628 AGATGAATGAAGACTGGGTCCA 58.815 45.455 0.00 0.00 32.18 4.02
93 94 3.922171 AGATGAATGAAGACTGGGTCC 57.078 47.619 0.00 0.00 32.18 4.46
94 95 4.142138 ACGTAGATGAATGAAGACTGGGTC 60.142 45.833 0.00 0.00 0.00 4.46
95 96 3.769844 ACGTAGATGAATGAAGACTGGGT 59.230 43.478 0.00 0.00 0.00 4.51
96 97 4.392921 ACGTAGATGAATGAAGACTGGG 57.607 45.455 0.00 0.00 0.00 4.45
97 98 4.500837 CGAACGTAGATGAATGAAGACTGG 59.499 45.833 0.00 0.00 0.00 4.00
98 99 5.003872 CACGAACGTAGATGAATGAAGACTG 59.996 44.000 0.00 0.00 0.00 3.51
99 100 5.096169 CACGAACGTAGATGAATGAAGACT 58.904 41.667 0.00 0.00 0.00 3.24
100 101 4.857588 ACACGAACGTAGATGAATGAAGAC 59.142 41.667 0.00 0.00 0.00 3.01
101 102 4.857037 CACACGAACGTAGATGAATGAAGA 59.143 41.667 0.00 0.00 0.00 2.87
102 103 4.621460 ACACACGAACGTAGATGAATGAAG 59.379 41.667 0.00 0.00 0.00 3.02
103 104 4.552355 ACACACGAACGTAGATGAATGAA 58.448 39.130 0.00 0.00 0.00 2.57
104 105 4.082949 AGACACACGAACGTAGATGAATGA 60.083 41.667 0.00 0.00 0.00 2.57
105 106 4.030641 CAGACACACGAACGTAGATGAATG 59.969 45.833 0.00 1.52 0.00 2.67
106 107 4.166523 CAGACACACGAACGTAGATGAAT 58.833 43.478 0.00 0.00 0.00 2.57
107 108 3.004002 ACAGACACACGAACGTAGATGAA 59.996 43.478 0.00 0.00 0.00 2.57
108 109 2.551032 ACAGACACACGAACGTAGATGA 59.449 45.455 0.00 0.00 0.00 2.92
109 110 2.929960 ACAGACACACGAACGTAGATG 58.070 47.619 0.00 2.24 0.00 2.90
110 111 3.999001 TCTACAGACACACGAACGTAGAT 59.001 43.478 0.00 0.00 32.54 1.98
111 112 3.392882 TCTACAGACACACGAACGTAGA 58.607 45.455 0.00 0.00 34.49 2.59
112 113 3.800929 TCTACAGACACACGAACGTAG 57.199 47.619 0.00 0.00 0.00 3.51
113 114 4.469552 CAATCTACAGACACACGAACGTA 58.530 43.478 0.00 0.00 0.00 3.57
114 115 3.305964 CAATCTACAGACACACGAACGT 58.694 45.455 0.00 0.00 0.00 3.99
115 116 2.661675 CCAATCTACAGACACACGAACG 59.338 50.000 0.00 0.00 0.00 3.95
116 117 3.909430 TCCAATCTACAGACACACGAAC 58.091 45.455 0.00 0.00 0.00 3.95
117 118 4.381612 GGATCCAATCTACAGACACACGAA 60.382 45.833 6.95 0.00 0.00 3.85
118 119 3.130516 GGATCCAATCTACAGACACACGA 59.869 47.826 6.95 0.00 0.00 4.35
119 120 3.131223 AGGATCCAATCTACAGACACACG 59.869 47.826 15.82 0.00 0.00 4.49
120 121 4.744795 AGGATCCAATCTACAGACACAC 57.255 45.455 15.82 0.00 0.00 3.82
121 122 4.162320 GGAAGGATCCAATCTACAGACACA 59.838 45.833 15.82 0.00 45.79 3.72
122 123 4.698575 GGAAGGATCCAATCTACAGACAC 58.301 47.826 15.82 0.00 45.79 3.67
123 124 3.384789 CGGAAGGATCCAATCTACAGACA 59.615 47.826 15.82 0.00 46.97 3.41
124 125 3.637229 TCGGAAGGATCCAATCTACAGAC 59.363 47.826 15.82 0.00 46.97 3.51
125 126 3.910989 TCGGAAGGATCCAATCTACAGA 58.089 45.455 15.82 7.72 46.97 3.41
126 127 4.526262 AGATCGGAAGGATCCAATCTACAG 59.474 45.833 15.82 5.74 45.76 2.74
127 128 4.483950 AGATCGGAAGGATCCAATCTACA 58.516 43.478 15.82 1.00 45.76 2.74
129 130 5.477291 GTGTAGATCGGAAGGATCCAATCTA 59.523 44.000 15.82 13.86 45.76 1.98
137 138 4.798882 AGAGAAGTGTAGATCGGAAGGAT 58.201 43.478 0.00 0.00 38.35 3.24
138 139 4.237976 AGAGAAGTGTAGATCGGAAGGA 57.762 45.455 0.00 0.00 0.00 3.36
139 140 4.399618 TGAAGAGAAGTGTAGATCGGAAGG 59.600 45.833 0.00 0.00 0.00 3.46
140 141 5.568685 TGAAGAGAAGTGTAGATCGGAAG 57.431 43.478 0.00 0.00 0.00 3.46
141 142 5.163509 CCATGAAGAGAAGTGTAGATCGGAA 60.164 44.000 0.00 0.00 0.00 4.30
142 143 4.339530 CCATGAAGAGAAGTGTAGATCGGA 59.660 45.833 0.00 0.00 0.00 4.55
143 144 4.500545 CCCATGAAGAGAAGTGTAGATCGG 60.501 50.000 0.00 0.00 0.00 4.18
144 145 4.615949 CCCATGAAGAGAAGTGTAGATCG 58.384 47.826 0.00 0.00 0.00 3.69
145 146 4.376146 GCCCATGAAGAGAAGTGTAGATC 58.624 47.826 0.00 0.00 0.00 2.75
146 147 3.181471 CGCCCATGAAGAGAAGTGTAGAT 60.181 47.826 0.00 0.00 0.00 1.98
147 148 2.166459 CGCCCATGAAGAGAAGTGTAGA 59.834 50.000 0.00 0.00 0.00 2.59
148 149 2.166459 TCGCCCATGAAGAGAAGTGTAG 59.834 50.000 0.00 0.00 0.00 2.74
149 150 2.094182 GTCGCCCATGAAGAGAAGTGTA 60.094 50.000 0.00 0.00 0.00 2.90
150 151 0.976641 TCGCCCATGAAGAGAAGTGT 59.023 50.000 0.00 0.00 0.00 3.55
151 152 1.338105 TGTCGCCCATGAAGAGAAGTG 60.338 52.381 0.00 0.00 0.00 3.16
152 153 0.976641 TGTCGCCCATGAAGAGAAGT 59.023 50.000 0.00 0.00 0.00 3.01
153 154 1.066573 ACTGTCGCCCATGAAGAGAAG 60.067 52.381 0.00 0.00 0.00 2.85
154 155 0.976641 ACTGTCGCCCATGAAGAGAA 59.023 50.000 0.00 0.00 0.00 2.87
155 156 0.976641 AACTGTCGCCCATGAAGAGA 59.023 50.000 0.00 0.00 0.00 3.10
156 157 1.081892 CAACTGTCGCCCATGAAGAG 58.918 55.000 0.00 0.00 0.00 2.85
157 158 0.955428 GCAACTGTCGCCCATGAAGA 60.955 55.000 0.00 0.00 0.00 2.87
158 159 0.957395 AGCAACTGTCGCCCATGAAG 60.957 55.000 0.00 0.00 0.00 3.02
159 160 1.073025 AGCAACTGTCGCCCATGAA 59.927 52.632 0.00 0.00 0.00 2.57
160 161 1.672030 CAGCAACTGTCGCCCATGA 60.672 57.895 0.00 0.00 0.00 3.07
161 162 1.518056 AACAGCAACTGTCGCCCATG 61.518 55.000 0.00 0.00 44.62 3.66
162 163 1.228245 AACAGCAACTGTCGCCCAT 60.228 52.632 0.00 0.00 44.62 4.00
163 164 1.891919 GAACAGCAACTGTCGCCCA 60.892 57.895 0.00 0.00 44.62 5.36
164 165 1.598130 AGAACAGCAACTGTCGCCC 60.598 57.895 0.00 0.00 44.62 6.13
165 166 1.571460 CAGAACAGCAACTGTCGCC 59.429 57.895 0.00 0.00 44.62 5.54
166 167 1.160329 ACCAGAACAGCAACTGTCGC 61.160 55.000 0.00 0.00 44.62 5.19
167 168 0.583438 CACCAGAACAGCAACTGTCG 59.417 55.000 0.00 0.00 44.62 4.35
168 169 0.308993 GCACCAGAACAGCAACTGTC 59.691 55.000 0.00 0.00 44.62 3.51
170 171 0.956633 ATGCACCAGAACAGCAACTG 59.043 50.000 0.00 0.00 42.15 3.16
171 172 1.338973 CAATGCACCAGAACAGCAACT 59.661 47.619 0.00 0.00 42.15 3.16
172 173 1.603678 CCAATGCACCAGAACAGCAAC 60.604 52.381 0.00 0.00 42.15 4.17
173 174 0.675083 CCAATGCACCAGAACAGCAA 59.325 50.000 0.00 0.00 42.15 3.91
174 175 0.467844 ACCAATGCACCAGAACAGCA 60.468 50.000 0.00 0.00 43.14 4.41
175 176 0.242017 GACCAATGCACCAGAACAGC 59.758 55.000 0.00 0.00 0.00 4.40
176 177 0.883833 GGACCAATGCACCAGAACAG 59.116 55.000 0.00 0.00 0.00 3.16
177 178 0.478072 AGGACCAATGCACCAGAACA 59.522 50.000 0.00 0.00 0.00 3.18
178 179 0.883833 CAGGACCAATGCACCAGAAC 59.116 55.000 0.00 0.00 0.00 3.01
179 180 0.478072 ACAGGACCAATGCACCAGAA 59.522 50.000 0.00 0.00 0.00 3.02
180 181 0.250858 CACAGGACCAATGCACCAGA 60.251 55.000 0.00 0.00 0.00 3.86
181 182 1.246056 CCACAGGACCAATGCACCAG 61.246 60.000 0.00 0.00 0.00 4.00
182 183 1.228521 CCACAGGACCAATGCACCA 60.229 57.895 0.00 0.00 0.00 4.17
183 184 1.978617 CCCACAGGACCAATGCACC 60.979 63.158 0.00 0.00 33.47 5.01
184 185 1.978617 CCCCACAGGACCAATGCAC 60.979 63.158 0.00 0.00 38.24 4.57
185 186 2.017668 AACCCCACAGGACCAATGCA 62.018 55.000 0.00 0.00 39.89 3.96
186 187 1.228862 AACCCCACAGGACCAATGC 60.229 57.895 0.00 0.00 39.89 3.56
187 188 0.112218 TCAACCCCACAGGACCAATG 59.888 55.000 0.00 0.00 39.89 2.82
188 189 0.112412 GTCAACCCCACAGGACCAAT 59.888 55.000 0.00 0.00 39.89 3.16
189 190 1.534697 GTCAACCCCACAGGACCAA 59.465 57.895 0.00 0.00 39.89 3.67
190 191 3.246687 GTCAACCCCACAGGACCA 58.753 61.111 0.00 0.00 39.89 4.02
191 192 2.434774 GGTCAACCCCACAGGACC 59.565 66.667 0.00 0.00 42.60 4.46
192 193 0.185175 AAAGGTCAACCCCACAGGAC 59.815 55.000 0.00 0.00 39.89 3.85
193 194 0.476771 GAAAGGTCAACCCCACAGGA 59.523 55.000 0.00 0.00 39.89 3.86
194 195 0.889186 CGAAAGGTCAACCCCACAGG 60.889 60.000 0.00 0.00 43.78 4.00
195 196 0.107831 TCGAAAGGTCAACCCCACAG 59.892 55.000 0.00 0.00 36.42 3.66
196 197 0.179040 GTCGAAAGGTCAACCCCACA 60.179 55.000 0.00 0.00 36.42 4.17
197 198 0.108019 AGTCGAAAGGTCAACCCCAC 59.892 55.000 0.00 0.00 36.42 4.61
198 199 0.107831 CAGTCGAAAGGTCAACCCCA 59.892 55.000 0.00 0.00 36.42 4.96
199 200 0.108019 ACAGTCGAAAGGTCAACCCC 59.892 55.000 0.00 0.00 36.42 4.95
200 201 1.070289 AGACAGTCGAAAGGTCAACCC 59.930 52.381 12.95 0.00 36.42 4.11
201 202 2.528041 AGACAGTCGAAAGGTCAACC 57.472 50.000 12.95 0.00 34.04 3.77
202 203 4.240175 AGTAGACAGTCGAAAGGTCAAC 57.760 45.455 12.95 0.00 34.04 3.18
203 204 4.823442 TGTAGTAGACAGTCGAAAGGTCAA 59.177 41.667 12.95 0.00 34.04 3.18
204 205 4.392047 TGTAGTAGACAGTCGAAAGGTCA 58.608 43.478 12.95 0.10 34.04 4.02
205 206 5.368256 TTGTAGTAGACAGTCGAAAGGTC 57.632 43.478 0.00 4.66 39.88 3.85
206 207 5.979288 ATTGTAGTAGACAGTCGAAAGGT 57.021 39.130 0.00 0.00 39.88 3.50
207 208 8.928270 AATTATTGTAGTAGACAGTCGAAAGG 57.072 34.615 0.00 0.00 39.88 3.11
211 212 8.653338 GCAAAAATTATTGTAGTAGACAGTCGA 58.347 33.333 0.00 0.00 39.88 4.20
212 213 8.656849 AGCAAAAATTATTGTAGTAGACAGTCG 58.343 33.333 0.00 0.00 39.88 4.18
539 540 1.187715 CGCCGTCAAAACAACACAAG 58.812 50.000 0.00 0.00 0.00 3.16
540 541 0.179161 CCGCCGTCAAAACAACACAA 60.179 50.000 0.00 0.00 0.00 3.33
541 542 1.306642 ACCGCCGTCAAAACAACACA 61.307 50.000 0.00 0.00 0.00 3.72
542 543 0.863957 CACCGCCGTCAAAACAACAC 60.864 55.000 0.00 0.00 0.00 3.32
543 544 1.429825 CACCGCCGTCAAAACAACA 59.570 52.632 0.00 0.00 0.00 3.33
544 545 1.942223 GCACCGCCGTCAAAACAAC 60.942 57.895 0.00 0.00 0.00 3.32
545 546 2.409651 GCACCGCCGTCAAAACAA 59.590 55.556 0.00 0.00 0.00 2.83
546 547 3.943034 CGCACCGCCGTCAAAACA 61.943 61.111 0.00 0.00 0.00 2.83
557 558 3.777925 CGAACTGAAGGCGCACCG 61.778 66.667 10.83 0.00 42.76 4.94
569 570 1.203523 CTAGAAGCACTGGAGCGAACT 59.796 52.381 0.00 0.00 40.15 3.01
570 571 1.067495 ACTAGAAGCACTGGAGCGAAC 60.067 52.381 0.00 0.00 40.15 3.95
571 572 1.202582 GACTAGAAGCACTGGAGCGAA 59.797 52.381 0.00 0.00 40.15 4.70
586 587 1.770085 GACCGCCTACCGACGACTAG 61.770 65.000 0.00 0.00 40.02 2.57
596 597 1.546476 CCAGATCCATAGACCGCCTAC 59.454 57.143 0.00 0.00 0.00 3.18
601 602 5.468540 TTTACATCCAGATCCATAGACCG 57.531 43.478 0.00 0.00 0.00 4.79
642 643 8.964476 ATTCATCCACTGTTAAGGTAATACAG 57.036 34.615 0.00 0.00 43.72 2.74
660 661 8.012241 GCGAGACAACTTTCAATATATTCATCC 58.988 37.037 0.00 0.00 0.00 3.51
669 670 6.556212 TGTTTTTGCGAGACAACTTTCAATA 58.444 32.000 0.00 0.00 38.23 1.90
680 681 3.670991 TGTTGTTGTTGTTTTTGCGAGAC 59.329 39.130 0.00 0.00 0.00 3.36
785 786 9.361315 TGAATATGATTTTGATTTGAAGCACAG 57.639 29.630 0.00 0.00 0.00 3.66
835 836 5.839262 TTTCTGTAAATCTGTACTGTGCG 57.161 39.130 0.00 0.00 0.00 5.34
1018 1019 0.326048 AGCTGGAGGAGGCTGTGTAT 60.326 55.000 0.00 0.00 37.41 2.29
1632 1633 1.039233 TCCAGACGTCCGGGGAATAC 61.039 60.000 17.70 0.00 0.00 1.89
1638 1639 1.601419 TAAAGCTCCAGACGTCCGGG 61.601 60.000 17.70 16.69 0.00 5.73
1647 1648 4.183865 TGATGACGACATTAAAGCTCCAG 58.816 43.478 1.10 0.00 36.82 3.86
1656 1657 2.193127 ACCCCCTTGATGACGACATTA 58.807 47.619 1.10 0.00 36.82 1.90
1850 1851 3.605634 GTGTATGTCACTACATTGGGCA 58.394 45.455 0.00 0.00 44.07 5.36
1897 1898 1.992519 GCATCCTCCATCCTGCCAGT 61.993 60.000 0.00 0.00 0.00 4.00
2082 2083 6.772233 ACCGACAATATCCATCAATCAATGAA 59.228 34.615 0.00 0.00 42.54 2.57
2157 2158 4.626604 GTGTGTGCATTTGGTTGAATATGG 59.373 41.667 0.00 0.00 0.00 2.74
2482 2483 5.461516 TTGACTACTATACTGTCAGGGGA 57.538 43.478 4.53 0.00 41.01 4.81
2613 2614 4.250464 CTGAAATGTCTACGCTTTGGGTA 58.750 43.478 0.00 0.00 0.00 3.69
2755 2756 4.948847 AGAGGCCTTTGATTCAAAACAAC 58.051 39.130 6.77 4.52 32.75 3.32
2845 2962 8.697846 TTTGGAGAGTTAACGTGATACTTATG 57.302 34.615 0.00 0.00 0.00 1.90
2850 2967 7.095355 ACACATTTTGGAGAGTTAACGTGATAC 60.095 37.037 0.00 0.00 0.00 2.24
2856 2973 6.491394 TCAAACACATTTTGGAGAGTTAACG 58.509 36.000 0.00 0.00 0.00 3.18
2999 3116 4.955450 TGGGCAGTAAAATATTGCTCACAT 59.045 37.500 3.62 0.00 45.37 3.21
3020 3137 8.297426 TGTCTATAGAATAAGATTAGCGTGTGG 58.703 37.037 3.40 0.00 0.00 4.17
3054 3171 1.806542 TCAGGAATTTCGCAAGTCAGC 59.193 47.619 0.00 0.00 39.48 4.26
3122 3239 8.686397 TTCCAATATTCAATCGTGTTTCAATG 57.314 30.769 0.00 0.00 0.00 2.82
3132 3249 8.950210 AGTATAATGCCTTCCAATATTCAATCG 58.050 33.333 0.00 0.00 0.00 3.34
3176 3293 5.359576 ACTGAATGTTCTGCAAAACCACTAA 59.640 36.000 0.00 0.00 0.00 2.24
3195 3312 6.773976 ACATTTGAGTTCCTTTTGACTGAA 57.226 33.333 0.00 0.00 0.00 3.02
3202 3319 7.926018 GTCATTGGTTACATTTGAGTTCCTTTT 59.074 33.333 0.00 0.00 0.00 2.27
3206 3323 6.325919 TGTCATTGGTTACATTTGAGTTCC 57.674 37.500 0.00 0.00 0.00 3.62
3276 3393 7.425606 TGTCCTTTTCTTTCTTAGCATGAAAC 58.574 34.615 0.00 0.00 31.21 2.78
3281 3398 5.536161 TGCTTGTCCTTTTCTTTCTTAGCAT 59.464 36.000 0.00 0.00 30.74 3.79
3287 3404 3.560105 AGCTGCTTGTCCTTTTCTTTCT 58.440 40.909 0.00 0.00 0.00 2.52
3324 3441 5.163854 GGAATTCATCGAATCACTTCAACGT 60.164 40.000 7.93 0.00 30.29 3.99
3376 3493 0.978907 CAGCAGGCCCCTTGAAATTT 59.021 50.000 0.00 0.00 0.00 1.82
3510 3627 0.398318 AGGTTCTTGACAGGCAGGTC 59.602 55.000 2.74 2.74 38.29 3.85
3530 3647 1.416401 ACAGCTCCTCCAAAACGAAGA 59.584 47.619 0.00 0.00 0.00 2.87


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.