Multiple sequence alignment - TraesCS1B01G303500

Loading Multiple Alignment...

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 TraesCS1B01G303500 chr1B 100.000 2378 0 0 1 2378 525125274 525127651 0.000000e+00 4392.0
1 TraesCS1B01G303500 chr1B 97.645 2123 46 4 6 2126 559438221 559436101 0.000000e+00 3640.0
2 TraesCS1B01G303500 chr1B 96.656 1555 48 2 1 1555 92300963 92302513 0.000000e+00 2580.0
3 TraesCS1B01G303500 chr1B 88.832 197 17 1 2108 2299 153500953 153500757 1.100000e-58 237.0
4 TraesCS1B01G303500 chrUn 97.980 2129 37 6 1 2126 328534511 328532386 0.000000e+00 3688.0
5 TraesCS1B01G303500 chrUn 97.954 1662 28 6 468 2126 375861244 375859586 0.000000e+00 2876.0
6 TraesCS1B01G303500 chrUn 90.686 204 6 4 2110 2300 51564852 51564649 2.340000e-65 259.0
7 TraesCS1B01G303500 chrUn 90.547 201 8 4 2110 2299 261201570 261201770 3.030000e-64 255.0
8 TraesCS1B01G303500 chrUn 88.942 208 8 4 2110 2302 104464242 104464035 2.360000e-60 243.0
9 TraesCS1B01G303500 chrUn 88.177 203 11 4 2110 2299 3331050 3330848 1.840000e-56 230.0
10 TraesCS1B01G303500 chrUn 83.981 206 17 5 2110 2299 7892465 7892670 1.450000e-42 183.0
11 TraesCS1B01G303500 chr5B 97.744 2128 45 3 1 2126 152508191 152510317 0.000000e+00 3661.0
12 TraesCS1B01G303500 chr5B 93.713 2020 99 5 1 2019 87588375 87590367 0.000000e+00 3001.0
13 TraesCS1B01G303500 chr2B 97.649 2127 47 3 1 2126 186776758 186778882 0.000000e+00 3648.0
14 TraesCS1B01G303500 chr2B 96.336 2129 48 12 1 2126 465517760 465515659 0.000000e+00 3472.0
15 TraesCS1B01G303500 chr3B 94.884 1466 63 7 2 1466 733133670 733132216 0.000000e+00 2281.0
16 TraesCS1B01G303500 chr7B 94.526 950 23 9 1179 2126 256347417 256348339 0.000000e+00 1439.0
17 TraesCS1B01G303500 chr7B 91.707 205 3 5 2110 2300 6556862 6557066 3.010000e-69 272.0
18 TraesCS1B01G303500 chr5A 94.280 542 26 5 1588 2126 532809094 532809633 0.000000e+00 824.0
19 TraesCS1B01G303500 chr4B 94.085 541 28 4 1588 2126 630329534 630328996 0.000000e+00 819.0
20 TraesCS1B01G303500 chr6A 88.889 657 36 8 1374 2020 595241458 595240829 0.000000e+00 774.0
21 TraesCS1B01G303500 chr6A 100.000 79 0 0 2300 2378 68400723 68400801 1.900000e-31 147.0
22 TraesCS1B01G303500 chr6A 100.000 79 0 0 2300 2378 375804585 375804507 1.900000e-31 147.0
23 TraesCS1B01G303500 chr1A 89.316 599 35 11 1374 1970 337520789 337521360 0.000000e+00 725.0
24 TraesCS1B01G303500 chr1A 85.202 223 26 6 2081 2298 392751882 392751662 3.080000e-54 222.0
25 TraesCS1B01G303500 chr1A 100.000 79 0 0 2300 2378 147984695 147984617 1.900000e-31 147.0
26 TraesCS1B01G303500 chr1A 100.000 79 0 0 2300 2378 184406005 184406083 1.900000e-31 147.0
27 TraesCS1B01G303500 chr1A 100.000 79 0 0 2300 2378 215812560 215812638 1.900000e-31 147.0
28 TraesCS1B01G303500 chr1A 100.000 79 0 0 2300 2378 381036288 381036210 1.900000e-31 147.0
29 TraesCS1B01G303500 chr1A 100.000 79 0 0 2300 2378 472737959 472738037 1.900000e-31 147.0
30 TraesCS1B01G303500 chr1A 100.000 79 0 0 2300 2378 478886848 478886926 1.900000e-31 147.0
31 TraesCS1B01G303500 chr4D 90.950 221 14 5 2081 2299 456606242 456606026 2.310000e-75 292.0
32 TraesCS1B01G303500 chr4D 85.496 262 17 9 2081 2324 257340460 257340718 1.090000e-63 254.0
33 TraesCS1B01G303500 chr4D 86.154 130 4 3 2110 2225 63126423 63126552 6.900000e-26 128.0
34 TraesCS1B01G303500 chr4D 100.000 36 0 0 2110 2145 5219065 5219100 1.530000e-07 67.6
35 TraesCS1B01G303500 chr4A 87.600 250 12 8 2081 2314 193487773 193487527 3.010000e-69 272.0
36 TraesCS1B01G303500 chr6D 87.500 248 13 8 2081 2314 55744762 55745005 1.080000e-68 270.0
37 TraesCS1B01G303500 chr6D 87.685 203 7 5 2110 2299 3416706 3416903 1.110000e-53 220.0
38 TraesCS1B01G303500 chr6D 100.000 79 0 0 2300 2378 181262050 181262128 1.900000e-31 147.0
39 TraesCS1B01G303500 chr6B 88.066 243 10 9 2081 2307 648144094 648143855 1.080000e-68 270.0
40 TraesCS1B01G303500 chr5D 94.545 165 7 2 2150 2313 323371674 323371837 1.090000e-63 254.0
41 TraesCS1B01G303500 chr2D 88.991 109 12 0 1381 1489 30444536 30444644 4.120000e-28 135.0


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 TraesCS1B01G303500 chr1B 525125274 525127651 2377 False 4392 4392 100.000 1 2378 1 chr1B.!!$F2 2377
1 TraesCS1B01G303500 chr1B 559436101 559438221 2120 True 3640 3640 97.645 6 2126 1 chr1B.!!$R2 2120
2 TraesCS1B01G303500 chr1B 92300963 92302513 1550 False 2580 2580 96.656 1 1555 1 chr1B.!!$F1 1554
3 TraesCS1B01G303500 chrUn 328532386 328534511 2125 True 3688 3688 97.980 1 2126 1 chrUn.!!$R4 2125
4 TraesCS1B01G303500 chrUn 375859586 375861244 1658 True 2876 2876 97.954 468 2126 1 chrUn.!!$R5 1658
5 TraesCS1B01G303500 chr5B 152508191 152510317 2126 False 3661 3661 97.744 1 2126 1 chr5B.!!$F2 2125
6 TraesCS1B01G303500 chr5B 87588375 87590367 1992 False 3001 3001 93.713 1 2019 1 chr5B.!!$F1 2018
7 TraesCS1B01G303500 chr2B 186776758 186778882 2124 False 3648 3648 97.649 1 2126 1 chr2B.!!$F1 2125
8 TraesCS1B01G303500 chr2B 465515659 465517760 2101 True 3472 3472 96.336 1 2126 1 chr2B.!!$R1 2125
9 TraesCS1B01G303500 chr3B 733132216 733133670 1454 True 2281 2281 94.884 2 1466 1 chr3B.!!$R1 1464
10 TraesCS1B01G303500 chr7B 256347417 256348339 922 False 1439 1439 94.526 1179 2126 1 chr7B.!!$F2 947
11 TraesCS1B01G303500 chr5A 532809094 532809633 539 False 824 824 94.280 1588 2126 1 chr5A.!!$F1 538
12 TraesCS1B01G303500 chr4B 630328996 630329534 538 True 819 819 94.085 1588 2126 1 chr4B.!!$R1 538
13 TraesCS1B01G303500 chr6A 595240829 595241458 629 True 774 774 88.889 1374 2020 1 chr6A.!!$R2 646
14 TraesCS1B01G303500 chr1A 337520789 337521360 571 False 725 725 89.316 1374 1970 1 chr1A.!!$F3 596

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
104 105 1.137086 TCTAGAACAGCGCTGATTCCC 59.863 52.381 42.03 23.52 0.0 3.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1792 1848 0.104934 GCCTATTCCTCTCCCTCCCA 60.105 60.0 0.0 0.0 0.0 4.37 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
104 105 1.137086 TCTAGAACAGCGCTGATTCCC 59.863 52.381 42.03 23.52 0.00 3.97
366 367 4.168291 CGGCCTCCTCCTTGCTCC 62.168 72.222 0.00 0.00 0.00 4.70
549 551 4.261447 GGTAAACTTGGTTGGTGACACATC 60.261 45.833 8.08 0.00 42.67 3.06
730 732 9.361315 GTTGTCAAAATTTACTTGGTTGTAAGT 57.639 29.630 0.00 0.00 43.03 2.24
836 838 3.008375 TGGATCAGAAGTTCAGAACCCAG 59.992 47.826 18.12 0.11 26.31 4.45
926 928 2.756760 CGGGTGTTACTTAGCTCACCTA 59.243 50.000 16.91 0.00 46.42 3.08
933 935 9.147554 GGTGTTACTTAGCTCACCTAGGAAACT 62.148 44.444 17.98 9.52 44.57 2.66
964 966 4.212913 ATGCGCGCAGGAGACGAT 62.213 61.111 38.44 17.30 0.00 3.73
1388 1391 3.126831 AGCTGCGATGATACTTGTAAGC 58.873 45.455 0.00 0.00 0.00 3.09
1815 1871 1.152312 GGGAGAGGAATAGGCGGGA 60.152 63.158 0.00 0.00 0.00 5.14
1857 1913 1.977544 CGAAGTCGAGGGAGGTGGT 60.978 63.158 0.00 0.00 43.02 4.16
1877 1934 1.003233 GGGTGTGTCAGGAGGAAGC 60.003 63.158 0.00 0.00 0.00 3.86
2119 2188 2.173669 CCGACAGGTGCGCCATTAG 61.174 63.158 20.59 7.78 37.19 1.73
2122 2191 1.538204 CGACAGGTGCGCCATTAGTAT 60.538 52.381 20.59 0.00 37.19 2.12
2123 2192 1.867233 GACAGGTGCGCCATTAGTATG 59.133 52.381 20.59 8.54 37.19 2.39
2125 2194 2.288666 CAGGTGCGCCATTAGTATGTT 58.711 47.619 20.59 0.00 37.19 2.71
2126 2195 2.682856 CAGGTGCGCCATTAGTATGTTT 59.317 45.455 20.59 0.00 37.19 2.83
2127 2196 2.682856 AGGTGCGCCATTAGTATGTTTG 59.317 45.455 20.59 0.00 37.19 2.93
2128 2197 2.223479 GGTGCGCCATTAGTATGTTTGG 60.223 50.000 12.58 0.00 34.09 3.28
2129 2198 2.680841 GTGCGCCATTAGTATGTTTGGA 59.319 45.455 4.18 0.00 0.00 3.53
2130 2199 2.680841 TGCGCCATTAGTATGTTTGGAC 59.319 45.455 4.18 0.00 0.00 4.02
2131 2200 2.680841 GCGCCATTAGTATGTTTGGACA 59.319 45.455 0.00 0.00 40.71 4.02
2132 2201 3.242739 GCGCCATTAGTATGTTTGGACAG 60.243 47.826 0.00 0.00 39.58 3.51
2133 2202 3.312421 CGCCATTAGTATGTTTGGACAGG 59.688 47.826 0.00 0.00 39.58 4.00
2134 2203 3.066760 GCCATTAGTATGTTTGGACAGGC 59.933 47.826 0.00 0.00 39.58 4.85
2135 2204 3.312421 CCATTAGTATGTTTGGACAGGCG 59.688 47.826 0.00 0.00 39.58 5.52
2136 2205 2.018542 TAGTATGTTTGGACAGGCGC 57.981 50.000 0.00 0.00 39.58 6.53
2137 2206 0.036164 AGTATGTTTGGACAGGCGCA 59.964 50.000 10.83 0.00 39.58 6.09
2138 2207 0.168128 GTATGTTTGGACAGGCGCAC 59.832 55.000 10.83 0.00 39.58 5.34
2139 2208 0.036164 TATGTTTGGACAGGCGCACT 59.964 50.000 10.83 0.02 39.58 4.40
2140 2209 0.036164 ATGTTTGGACAGGCGCACTA 59.964 50.000 10.83 0.00 39.58 2.74
2141 2210 0.602638 TGTTTGGACAGGCGCACTAG 60.603 55.000 10.83 0.00 0.00 2.57
2142 2211 0.602905 GTTTGGACAGGCGCACTAGT 60.603 55.000 10.83 0.47 0.00 2.57
2143 2212 0.107831 TTTGGACAGGCGCACTAGTT 59.892 50.000 10.83 0.00 0.00 2.24
2144 2213 0.970640 TTGGACAGGCGCACTAGTTA 59.029 50.000 10.83 0.00 0.00 2.24
2145 2214 0.530744 TGGACAGGCGCACTAGTTAG 59.469 55.000 10.83 0.00 0.00 2.34
2146 2215 0.531200 GGACAGGCGCACTAGTTAGT 59.469 55.000 10.83 0.00 36.90 2.24
2147 2216 1.747355 GGACAGGCGCACTAGTTAGTA 59.253 52.381 10.83 0.00 34.13 1.82
2148 2217 2.361438 GGACAGGCGCACTAGTTAGTAT 59.639 50.000 10.83 0.00 34.13 2.12
2149 2218 3.567164 GGACAGGCGCACTAGTTAGTATA 59.433 47.826 10.83 0.00 34.13 1.47
2150 2219 4.217983 GGACAGGCGCACTAGTTAGTATAT 59.782 45.833 10.83 0.00 34.13 0.86
2151 2220 5.122512 ACAGGCGCACTAGTTAGTATATG 57.877 43.478 10.83 0.00 34.13 1.78
2152 2221 4.022242 ACAGGCGCACTAGTTAGTATATGG 60.022 45.833 10.83 0.00 34.13 2.74
2153 2222 3.056749 AGGCGCACTAGTTAGTATATGGC 60.057 47.826 10.83 0.00 34.13 4.40
2154 2223 3.305813 GGCGCACTAGTTAGTATATGGCA 60.306 47.826 10.83 0.00 34.13 4.92
2155 2224 4.495422 GCGCACTAGTTAGTATATGGCAT 58.505 43.478 0.30 4.88 34.13 4.40
2156 2225 5.393787 GGCGCACTAGTTAGTATATGGCATA 60.394 44.000 10.83 10.07 34.13 3.14
2157 2226 5.515626 GCGCACTAGTTAGTATATGGCATAC 59.484 44.000 9.83 0.13 34.13 2.39
2158 2227 6.034591 CGCACTAGTTAGTATATGGCATACC 58.965 44.000 9.83 3.64 34.13 2.73
2159 2228 6.127703 CGCACTAGTTAGTATATGGCATACCT 60.128 42.308 9.83 11.06 34.13 3.08
2160 2229 7.577046 CGCACTAGTTAGTATATGGCATACCTT 60.577 40.741 9.83 0.00 34.13 3.50
2161 2230 7.545965 GCACTAGTTAGTATATGGCATACCTTG 59.454 40.741 9.83 4.49 34.13 3.61
2162 2231 8.035394 CACTAGTTAGTATATGGCATACCTTGG 58.965 40.741 9.83 0.00 34.13 3.61
2163 2232 6.374417 AGTTAGTATATGGCATACCTTGGG 57.626 41.667 9.83 0.00 36.63 4.12
2164 2233 3.721087 AGTATATGGCATACCTTGGGC 57.279 47.619 9.83 0.00 36.63 5.36
2168 2237 2.123726 GGCATACCTTGGGCCAGG 60.124 66.667 17.29 17.29 46.92 4.45
2179 2248 3.211963 GGCCAGGTGCGCCATTAG 61.212 66.667 20.59 4.76 46.27 1.73
2180 2249 2.438434 GCCAGGTGCGCCATTAGT 60.438 61.111 20.59 0.00 37.19 2.24
2181 2250 1.153249 GCCAGGTGCGCCATTAGTA 60.153 57.895 20.59 0.00 37.19 1.82
2182 2251 1.160329 GCCAGGTGCGCCATTAGTAG 61.160 60.000 20.59 0.00 37.19 2.57
2183 2252 0.178068 CCAGGTGCGCCATTAGTAGT 59.822 55.000 20.59 0.00 37.19 2.73
2184 2253 1.406887 CCAGGTGCGCCATTAGTAGTT 60.407 52.381 20.59 0.00 37.19 2.24
2185 2254 2.356135 CAGGTGCGCCATTAGTAGTTT 58.644 47.619 20.59 0.00 37.19 2.66
2186 2255 2.351726 CAGGTGCGCCATTAGTAGTTTC 59.648 50.000 20.59 0.00 37.19 2.78
2187 2256 2.027561 AGGTGCGCCATTAGTAGTTTCA 60.028 45.455 20.59 0.00 37.19 2.69
2188 2257 2.745281 GGTGCGCCATTAGTAGTTTCAA 59.255 45.455 12.58 0.00 34.09 2.69
2189 2258 3.425758 GGTGCGCCATTAGTAGTTTCAAC 60.426 47.826 12.58 0.00 34.09 3.18
2190 2259 3.435671 GTGCGCCATTAGTAGTTTCAACT 59.564 43.478 4.18 0.00 42.91 3.16
2191 2260 3.682858 TGCGCCATTAGTAGTTTCAACTC 59.317 43.478 4.18 0.00 40.37 3.01
2192 2261 3.933332 GCGCCATTAGTAGTTTCAACTCT 59.067 43.478 0.00 0.00 40.37 3.24
2193 2262 5.107133 GCGCCATTAGTAGTTTCAACTCTA 58.893 41.667 0.00 0.00 40.37 2.43
2194 2263 5.579511 GCGCCATTAGTAGTTTCAACTCTAA 59.420 40.000 0.00 5.13 40.37 2.10
2195 2264 6.258068 GCGCCATTAGTAGTTTCAACTCTAAT 59.742 38.462 0.00 13.27 40.37 1.73
2196 2265 7.621991 CGCCATTAGTAGTTTCAACTCTAATG 58.378 38.462 24.33 24.33 44.21 1.90
2199 2268 8.492673 CATTAGTAGTTTCAACTCTAATGGCA 57.507 34.615 24.00 0.00 43.04 4.92
2200 2269 9.113838 CATTAGTAGTTTCAACTCTAATGGCAT 57.886 33.333 24.00 0.00 43.04 4.40
2203 2272 8.894768 AGTAGTTTCAACTCTAATGGCATATC 57.105 34.615 0.00 0.00 40.37 1.63
2204 2273 8.486210 AGTAGTTTCAACTCTAATGGCATATCA 58.514 33.333 0.00 0.00 40.37 2.15
2205 2274 7.798596 AGTTTCAACTCTAATGGCATATCAG 57.201 36.000 0.00 0.00 32.86 2.90
2206 2275 7.568349 AGTTTCAACTCTAATGGCATATCAGA 58.432 34.615 0.00 3.35 32.86 3.27
2207 2276 8.049117 AGTTTCAACTCTAATGGCATATCAGAA 58.951 33.333 0.00 0.00 32.86 3.02
2208 2277 8.341173 GTTTCAACTCTAATGGCATATCAGAAG 58.659 37.037 0.00 1.96 0.00 2.85
2209 2278 6.528321 TCAACTCTAATGGCATATCAGAAGG 58.472 40.000 0.00 0.00 0.00 3.46
2210 2279 6.100279 TCAACTCTAATGGCATATCAGAAGGT 59.900 38.462 0.00 0.00 0.00 3.50
2211 2280 5.862845 ACTCTAATGGCATATCAGAAGGTG 58.137 41.667 0.00 0.00 0.00 4.00
2212 2281 5.221803 ACTCTAATGGCATATCAGAAGGTGG 60.222 44.000 0.00 0.00 0.00 4.61
2213 2282 3.959495 AATGGCATATCAGAAGGTGGT 57.041 42.857 0.00 0.00 0.00 4.16
2214 2283 2.715749 TGGCATATCAGAAGGTGGTG 57.284 50.000 0.00 0.00 0.00 4.17
2215 2284 1.312815 GGCATATCAGAAGGTGGTGC 58.687 55.000 0.00 0.00 0.00 5.01
2216 2285 0.940126 GCATATCAGAAGGTGGTGCG 59.060 55.000 0.00 0.00 0.00 5.34
2217 2286 0.940126 CATATCAGAAGGTGGTGCGC 59.060 55.000 0.00 0.00 0.00 6.09
2218 2287 0.179045 ATATCAGAAGGTGGTGCGCC 60.179 55.000 10.11 10.11 0.00 6.53
2219 2288 1.549243 TATCAGAAGGTGGTGCGCCA 61.549 55.000 16.89 16.89 43.73 5.69
2243 2312 4.106029 AGTATATACTAATGGCGCACCG 57.894 45.455 13.88 0.00 34.69 4.94
2244 2313 3.675228 AGTATATACTAATGGCGCACCGC 60.675 47.826 13.88 0.24 42.89 5.68
2245 2314 5.884255 AGTATATACTAATGGCGCACCGCT 61.884 45.833 13.88 0.00 43.06 5.52
2246 2315 7.298323 AGTATATACTAATGGCGCACCGCTT 62.298 44.000 13.88 0.00 43.06 4.68
2247 2316 9.900090 TAGTATATACTAATGGCGCACCGCTTG 62.900 44.444 18.36 0.00 42.82 4.01
2260 2329 3.058160 GCTTGTCTGGTGCGCCAT 61.058 61.111 21.54 0.00 45.05 4.40
2261 2330 2.629656 GCTTGTCTGGTGCGCCATT 61.630 57.895 21.54 0.00 45.05 3.16
2262 2331 1.305219 GCTTGTCTGGTGCGCCATTA 61.305 55.000 21.54 8.54 45.05 1.90
2263 2332 0.729116 CTTGTCTGGTGCGCCATTAG 59.271 55.000 21.54 8.73 45.05 1.73
2264 2333 0.036164 TTGTCTGGTGCGCCATTAGT 59.964 50.000 21.54 0.00 45.05 2.24
2265 2334 0.673333 TGTCTGGTGCGCCATTAGTG 60.673 55.000 21.54 7.89 45.05 2.74
2266 2335 0.673644 GTCTGGTGCGCCATTAGTGT 60.674 55.000 21.54 0.00 45.05 3.55
2267 2336 0.391130 TCTGGTGCGCCATTAGTGTC 60.391 55.000 21.54 0.00 45.05 3.67
2268 2337 0.673333 CTGGTGCGCCATTAGTGTCA 60.673 55.000 21.54 0.00 45.05 3.58
2269 2338 0.250510 TGGTGCGCCATTAGTGTCAA 60.251 50.000 16.89 0.00 40.46 3.18
2270 2339 1.094785 GGTGCGCCATTAGTGTCAAT 58.905 50.000 12.58 0.00 34.09 2.57
2271 2340 1.064060 GGTGCGCCATTAGTGTCAATC 59.936 52.381 12.58 0.00 34.09 2.67
2272 2341 1.064060 GTGCGCCATTAGTGTCAATCC 59.936 52.381 4.18 0.00 0.00 3.01
2273 2342 0.663153 GCGCCATTAGTGTCAATCCC 59.337 55.000 0.00 0.00 0.00 3.85
2274 2343 2.016604 GCGCCATTAGTGTCAATCCCA 61.017 52.381 0.00 0.00 0.00 4.37
2275 2344 2.575532 CGCCATTAGTGTCAATCCCAT 58.424 47.619 0.00 0.00 0.00 4.00
2276 2345 3.738982 CGCCATTAGTGTCAATCCCATA 58.261 45.455 0.00 0.00 0.00 2.74
2277 2346 4.326826 CGCCATTAGTGTCAATCCCATAT 58.673 43.478 0.00 0.00 0.00 1.78
2278 2347 5.487433 CGCCATTAGTGTCAATCCCATATA 58.513 41.667 0.00 0.00 0.00 0.86
2279 2348 6.115446 CGCCATTAGTGTCAATCCCATATAT 58.885 40.000 0.00 0.00 0.00 0.86
2280 2349 7.272244 CGCCATTAGTGTCAATCCCATATATA 58.728 38.462 0.00 0.00 0.00 0.86
2281 2350 7.439356 CGCCATTAGTGTCAATCCCATATATAG 59.561 40.741 0.00 0.00 0.00 1.31
2282 2351 7.227512 GCCATTAGTGTCAATCCCATATATAGC 59.772 40.741 0.00 0.00 0.00 2.97
2283 2352 7.716998 CCATTAGTGTCAATCCCATATATAGCC 59.283 40.741 0.00 0.00 0.00 3.93
2284 2353 5.700402 AGTGTCAATCCCATATATAGCCC 57.300 43.478 0.00 0.00 0.00 5.19
2285 2354 5.353986 AGTGTCAATCCCATATATAGCCCT 58.646 41.667 0.00 0.00 0.00 5.19
2286 2355 5.792712 AGTGTCAATCCCATATATAGCCCTT 59.207 40.000 0.00 0.00 0.00 3.95
2287 2356 6.275618 AGTGTCAATCCCATATATAGCCCTTT 59.724 38.462 0.00 0.00 0.00 3.11
2288 2357 6.948309 GTGTCAATCCCATATATAGCCCTTTT 59.052 38.462 0.00 0.00 0.00 2.27
2289 2358 7.451566 GTGTCAATCCCATATATAGCCCTTTTT 59.548 37.037 0.00 0.00 0.00 1.94
2290 2359 7.669722 TGTCAATCCCATATATAGCCCTTTTTC 59.330 37.037 0.00 0.00 0.00 2.29
2291 2360 7.890655 GTCAATCCCATATATAGCCCTTTTTCT 59.109 37.037 0.00 0.00 0.00 2.52
2292 2361 9.122954 TCAATCCCATATATAGCCCTTTTTCTA 57.877 33.333 0.00 0.00 0.00 2.10
2293 2362 9.401058 CAATCCCATATATAGCCCTTTTTCTAG 57.599 37.037 0.00 0.00 0.00 2.43
2294 2363 8.701643 ATCCCATATATAGCCCTTTTTCTAGT 57.298 34.615 0.00 0.00 0.00 2.57
2295 2364 9.799223 ATCCCATATATAGCCCTTTTTCTAGTA 57.201 33.333 0.00 0.00 0.00 1.82
2296 2365 9.268282 TCCCATATATAGCCCTTTTTCTAGTAG 57.732 37.037 0.00 0.00 0.00 2.57
2297 2366 9.047947 CCCATATATAGCCCTTTTTCTAGTAGT 57.952 37.037 0.00 0.00 0.00 2.73
2298 2367 9.877178 CCATATATAGCCCTTTTTCTAGTAGTG 57.123 37.037 0.00 0.00 0.00 2.74
2299 2368 9.372369 CATATATAGCCCTTTTTCTAGTAGTGC 57.628 37.037 0.00 0.00 0.00 4.40
2300 2369 5.693769 ATAGCCCTTTTTCTAGTAGTGCA 57.306 39.130 0.00 0.00 0.00 4.57
2301 2370 4.367039 AGCCCTTTTTCTAGTAGTGCAA 57.633 40.909 0.00 0.00 0.00 4.08
2302 2371 4.923415 AGCCCTTTTTCTAGTAGTGCAAT 58.077 39.130 0.00 0.00 0.00 3.56
2303 2372 4.702131 AGCCCTTTTTCTAGTAGTGCAATG 59.298 41.667 0.00 0.00 0.00 2.82
2304 2373 4.675408 GCCCTTTTTCTAGTAGTGCAATGC 60.675 45.833 0.00 0.00 0.00 3.56
2305 2374 4.702131 CCCTTTTTCTAGTAGTGCAATGCT 59.298 41.667 10.19 10.19 0.00 3.79
2306 2375 5.163713 CCCTTTTTCTAGTAGTGCAATGCTC 60.164 44.000 8.35 2.32 0.00 4.26
2307 2376 5.412594 CCTTTTTCTAGTAGTGCAATGCTCA 59.587 40.000 8.35 0.00 0.00 4.26
2308 2377 5.862924 TTTTCTAGTAGTGCAATGCTCAC 57.137 39.130 8.35 4.48 34.80 3.51
2309 2378 4.808414 TTCTAGTAGTGCAATGCTCACT 57.192 40.909 8.35 11.26 45.71 3.41
2310 2379 4.115401 TCTAGTAGTGCAATGCTCACTG 57.885 45.455 8.35 0.00 43.85 3.66
2311 2380 3.763897 TCTAGTAGTGCAATGCTCACTGA 59.236 43.478 8.35 0.91 43.85 3.41
2312 2381 3.407424 AGTAGTGCAATGCTCACTGAA 57.593 42.857 6.82 0.00 43.85 3.02
2313 2382 3.070018 AGTAGTGCAATGCTCACTGAAC 58.930 45.455 6.82 0.00 43.85 3.18
2314 2383 1.971481 AGTGCAATGCTCACTGAACA 58.029 45.000 6.82 0.00 42.63 3.18
2315 2384 1.605710 AGTGCAATGCTCACTGAACAC 59.394 47.619 6.82 0.00 42.63 3.32
2316 2385 1.334556 GTGCAATGCTCACTGAACACA 59.665 47.619 6.82 0.00 0.00 3.72
2317 2386 1.334556 TGCAATGCTCACTGAACACAC 59.665 47.619 6.82 0.00 0.00 3.82
2318 2387 1.334556 GCAATGCTCACTGAACACACA 59.665 47.619 0.00 0.00 0.00 3.72
2319 2388 2.603892 GCAATGCTCACTGAACACACAG 60.604 50.000 0.00 0.00 42.78 3.66
2320 2389 2.874086 CAATGCTCACTGAACACACAGA 59.126 45.455 0.00 0.00 40.63 3.41
2321 2390 2.689553 TGCTCACTGAACACACAGAA 57.310 45.000 0.00 0.00 40.63 3.02
2322 2391 2.554142 TGCTCACTGAACACACAGAAG 58.446 47.619 0.00 0.00 40.63 2.85
2323 2392 1.262683 GCTCACTGAACACACAGAAGC 59.737 52.381 0.00 0.00 40.08 3.86
2324 2393 2.831333 CTCACTGAACACACAGAAGCT 58.169 47.619 0.00 0.00 40.63 3.74
2325 2394 2.543012 CTCACTGAACACACAGAAGCTG 59.457 50.000 0.00 0.00 40.63 4.24
2326 2395 2.168313 TCACTGAACACACAGAAGCTGA 59.832 45.455 0.82 0.00 40.63 4.26
2327 2396 2.938451 CACTGAACACACAGAAGCTGAA 59.062 45.455 0.82 0.00 40.63 3.02
2328 2397 3.562973 CACTGAACACACAGAAGCTGAAT 59.437 43.478 0.82 0.00 40.63 2.57
2329 2398 4.751600 CACTGAACACACAGAAGCTGAATA 59.248 41.667 0.82 0.00 40.63 1.75
2330 2399 5.237127 CACTGAACACACAGAAGCTGAATAA 59.763 40.000 0.82 0.00 40.63 1.40
2331 2400 5.237344 ACTGAACACACAGAAGCTGAATAAC 59.763 40.000 0.82 0.00 40.63 1.89
2332 2401 5.122519 TGAACACACAGAAGCTGAATAACA 58.877 37.500 0.82 0.00 35.18 2.41
2333 2402 5.588246 TGAACACACAGAAGCTGAATAACAA 59.412 36.000 0.82 0.00 35.18 2.83
2334 2403 5.679734 ACACACAGAAGCTGAATAACAAG 57.320 39.130 0.82 0.00 35.18 3.16
2335 2404 5.368145 ACACACAGAAGCTGAATAACAAGA 58.632 37.500 0.82 0.00 35.18 3.02
2336 2405 5.468072 ACACACAGAAGCTGAATAACAAGAG 59.532 40.000 0.82 0.00 35.18 2.85
2337 2406 5.468072 CACACAGAAGCTGAATAACAAGAGT 59.532 40.000 0.82 0.00 35.18 3.24
2338 2407 5.698545 ACACAGAAGCTGAATAACAAGAGTC 59.301 40.000 0.82 0.00 35.18 3.36
2339 2408 5.931146 CACAGAAGCTGAATAACAAGAGTCT 59.069 40.000 0.82 0.00 35.18 3.24
2340 2409 6.426328 CACAGAAGCTGAATAACAAGAGTCTT 59.574 38.462 0.00 0.00 35.18 3.01
2341 2410 7.600375 CACAGAAGCTGAATAACAAGAGTCTTA 59.400 37.037 4.74 0.00 35.18 2.10
2342 2411 7.600752 ACAGAAGCTGAATAACAAGAGTCTTAC 59.399 37.037 4.74 0.00 35.18 2.34
2343 2412 7.600375 CAGAAGCTGAATAACAAGAGTCTTACA 59.400 37.037 4.74 0.00 32.44 2.41
2344 2413 8.317679 AGAAGCTGAATAACAAGAGTCTTACAT 58.682 33.333 4.74 0.00 0.00 2.29
2345 2414 8.485976 AAGCTGAATAACAAGAGTCTTACATC 57.514 34.615 4.74 1.34 0.00 3.06
2346 2415 7.044798 AGCTGAATAACAAGAGTCTTACATCC 58.955 38.462 4.74 0.00 0.00 3.51
2347 2416 6.818644 GCTGAATAACAAGAGTCTTACATCCA 59.181 38.462 4.74 0.00 0.00 3.41
2348 2417 7.497249 GCTGAATAACAAGAGTCTTACATCCAT 59.503 37.037 4.74 0.00 0.00 3.41
2350 2419 9.817809 TGAATAACAAGAGTCTTACATCCATAC 57.182 33.333 4.74 0.00 0.00 2.39
2351 2420 9.817809 GAATAACAAGAGTCTTACATCCATACA 57.182 33.333 4.74 0.00 0.00 2.29
2355 2424 7.727181 ACAAGAGTCTTACATCCATACATACC 58.273 38.462 4.74 0.00 0.00 2.73
2356 2425 6.576662 AGAGTCTTACATCCATACATACCG 57.423 41.667 0.00 0.00 0.00 4.02
2357 2426 6.069331 AGAGTCTTACATCCATACATACCGT 58.931 40.000 0.00 0.00 0.00 4.83
2358 2427 6.550108 AGAGTCTTACATCCATACATACCGTT 59.450 38.462 0.00 0.00 0.00 4.44
2359 2428 7.069578 AGAGTCTTACATCCATACATACCGTTT 59.930 37.037 0.00 0.00 0.00 3.60
2360 2429 7.562135 AGTCTTACATCCATACATACCGTTTT 58.438 34.615 0.00 0.00 0.00 2.43
2361 2430 8.698210 AGTCTTACATCCATACATACCGTTTTA 58.302 33.333 0.00 0.00 0.00 1.52
2362 2431 8.758715 GTCTTACATCCATACATACCGTTTTAC 58.241 37.037 0.00 0.00 0.00 2.01
2363 2432 8.476447 TCTTACATCCATACATACCGTTTTACA 58.524 33.333 0.00 0.00 0.00 2.41
2364 2433 6.913873 ACATCCATACATACCGTTTTACAC 57.086 37.500 0.00 0.00 0.00 2.90
2365 2434 6.408035 ACATCCATACATACCGTTTTACACA 58.592 36.000 0.00 0.00 0.00 3.72
2366 2435 6.879993 ACATCCATACATACCGTTTTACACAA 59.120 34.615 0.00 0.00 0.00 3.33
2367 2436 6.971527 TCCATACATACCGTTTTACACAAG 57.028 37.500 0.00 0.00 0.00 3.16
2368 2437 6.465948 TCCATACATACCGTTTTACACAAGT 58.534 36.000 0.00 0.00 0.00 3.16
2369 2438 7.609960 TCCATACATACCGTTTTACACAAGTA 58.390 34.615 0.00 0.00 0.00 2.24
2370 2439 7.760794 TCCATACATACCGTTTTACACAAGTAG 59.239 37.037 0.00 0.00 0.00 2.57
2371 2440 7.010738 CCATACATACCGTTTTACACAAGTAGG 59.989 40.741 0.00 0.00 0.00 3.18
2372 2441 6.100404 ACATACCGTTTTACACAAGTAGGA 57.900 37.500 0.00 0.00 0.00 2.94
2373 2442 5.928264 ACATACCGTTTTACACAAGTAGGAC 59.072 40.000 0.00 0.00 0.00 3.85
2374 2443 3.732212 ACCGTTTTACACAAGTAGGACC 58.268 45.455 0.00 0.00 0.00 4.46
2375 2444 3.134442 ACCGTTTTACACAAGTAGGACCA 59.866 43.478 0.00 0.00 0.00 4.02
2376 2445 4.202388 ACCGTTTTACACAAGTAGGACCAT 60.202 41.667 0.00 0.00 0.00 3.55
2377 2446 4.758165 CCGTTTTACACAAGTAGGACCATT 59.242 41.667 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 2.154462 GCTGCACTAAAAGAGGCTTCA 58.846 47.619 0.00 0.00 0.00 3.02
104 105 3.429543 ACATGCTTTGCGTTGCTTATTTG 59.570 39.130 0.00 0.00 0.00 2.32
549 551 7.379529 GTGAAATACCAACAACTTCACAATCAG 59.620 37.037 8.06 0.00 43.37 2.90
690 692 8.776376 AATTTTGACAACAAATTCACTTCTGT 57.224 26.923 0.00 0.00 43.99 3.41
730 732 2.111999 CTGGCGTTCTTCACCTCCCA 62.112 60.000 0.00 0.00 0.00 4.37
836 838 4.008330 CCTACATCATGCCATCTGAATCC 58.992 47.826 0.00 0.00 0.00 3.01
926 928 3.236896 TCCGTCCACTTCTTAGTTTCCT 58.763 45.455 0.00 0.00 30.26 3.36
933 935 0.459585 GCGCATCCGTCCACTTCTTA 60.460 55.000 0.30 0.00 36.67 2.10
964 966 1.992667 CAAGTTGAGCGCTTCGTATCA 59.007 47.619 13.26 0.00 0.00 2.15
1388 1391 3.388308 CTCCGAGGCTATGATTCTGTTG 58.612 50.000 0.00 0.00 0.00 3.33
1623 1678 2.365370 AGCTGCAGGAGGAGGAGG 60.365 66.667 17.12 0.00 33.18 4.30
1792 1848 0.104934 GCCTATTCCTCTCCCTCCCA 60.105 60.000 0.00 0.00 0.00 4.37
1857 1913 0.764890 CTTCCTCCTGACACACCCAA 59.235 55.000 0.00 0.00 0.00 4.12
1877 1934 0.687757 TCATGTTCTCTCCCCTCCCG 60.688 60.000 0.00 0.00 0.00 5.14
2119 2188 0.168128 GTGCGCCTGTCCAAACATAC 59.832 55.000 4.18 0.00 34.13 2.39
2122 2191 0.602638 CTAGTGCGCCTGTCCAAACA 60.603 55.000 4.18 0.00 0.00 2.83
2123 2192 0.602905 ACTAGTGCGCCTGTCCAAAC 60.603 55.000 4.18 0.00 0.00 2.93
2125 2194 0.970640 TAACTAGTGCGCCTGTCCAA 59.029 50.000 4.18 0.00 0.00 3.53
2126 2195 0.530744 CTAACTAGTGCGCCTGTCCA 59.469 55.000 4.18 0.00 0.00 4.02
2127 2196 0.531200 ACTAACTAGTGCGCCTGTCC 59.469 55.000 4.18 0.00 34.72 4.02
2128 2197 3.712091 ATACTAACTAGTGCGCCTGTC 57.288 47.619 4.18 0.00 37.10 3.51
2129 2198 4.022242 CCATATACTAACTAGTGCGCCTGT 60.022 45.833 4.18 0.00 37.10 4.00
2130 2199 4.486090 CCATATACTAACTAGTGCGCCTG 58.514 47.826 4.18 0.00 37.10 4.85
2131 2200 3.056749 GCCATATACTAACTAGTGCGCCT 60.057 47.826 4.18 3.99 37.10 5.52
2132 2201 3.251571 GCCATATACTAACTAGTGCGCC 58.748 50.000 4.18 0.00 37.10 6.53
2133 2202 3.909430 TGCCATATACTAACTAGTGCGC 58.091 45.455 0.00 0.00 37.10 6.09
2134 2203 6.034591 GGTATGCCATATACTAACTAGTGCG 58.965 44.000 0.00 0.00 34.75 5.34
2135 2204 7.171630 AGGTATGCCATATACTAACTAGTGC 57.828 40.000 1.54 0.00 36.06 4.40
2136 2205 8.035394 CCAAGGTATGCCATATACTAACTAGTG 58.965 40.741 1.54 0.00 36.06 2.74
2137 2206 7.180408 CCCAAGGTATGCCATATACTAACTAGT 59.820 40.741 1.54 0.00 37.51 2.57
2138 2207 7.556844 CCCAAGGTATGCCATATACTAACTAG 58.443 42.308 1.54 0.00 37.19 2.57
2139 2208 6.070424 GCCCAAGGTATGCCATATACTAACTA 60.070 42.308 1.54 0.00 37.19 2.24
2140 2209 5.280521 GCCCAAGGTATGCCATATACTAACT 60.281 44.000 1.54 0.00 37.19 2.24
2141 2210 4.941873 GCCCAAGGTATGCCATATACTAAC 59.058 45.833 1.54 0.00 37.19 2.34
2142 2211 4.018779 GGCCCAAGGTATGCCATATACTAA 60.019 45.833 1.54 0.00 44.70 2.24
2143 2212 3.521937 GGCCCAAGGTATGCCATATACTA 59.478 47.826 1.54 0.00 44.70 1.82
2144 2213 2.308866 GGCCCAAGGTATGCCATATACT 59.691 50.000 1.54 0.00 44.70 2.12
2145 2214 2.723273 GGCCCAAGGTATGCCATATAC 58.277 52.381 1.54 0.00 44.70 1.47
2151 2220 2.123726 CCTGGCCCAAGGTATGCC 60.124 66.667 0.00 0.00 45.56 4.40
2163 2232 1.153249 TACTAATGGCGCACCTGGC 60.153 57.895 10.83 0.00 36.63 4.85
2164 2233 0.178068 ACTACTAATGGCGCACCTGG 59.822 55.000 10.83 0.00 36.63 4.45
2165 2234 2.024176 AACTACTAATGGCGCACCTG 57.976 50.000 10.83 0.00 36.63 4.00
2166 2235 2.027561 TGAAACTACTAATGGCGCACCT 60.028 45.455 10.83 0.00 36.63 4.00
2167 2236 2.352388 TGAAACTACTAATGGCGCACC 58.648 47.619 10.83 0.00 0.00 5.01
2168 2237 3.435671 AGTTGAAACTACTAATGGCGCAC 59.564 43.478 10.83 0.00 37.52 5.34
2169 2238 3.670625 AGTTGAAACTACTAATGGCGCA 58.329 40.909 10.83 0.00 37.52 6.09
2170 2239 3.933332 AGAGTTGAAACTACTAATGGCGC 59.067 43.478 0.00 0.00 39.88 6.53
2171 2240 7.621991 CATTAGAGTTGAAACTACTAATGGCG 58.378 38.462 25.29 14.16 43.04 5.69
2174 2243 8.492673 TGCCATTAGAGTTGAAACTACTAATG 57.507 34.615 25.60 25.60 44.21 1.90
2177 2246 9.982651 GATATGCCATTAGAGTTGAAACTACTA 57.017 33.333 0.00 0.00 39.88 1.82
2178 2247 8.486210 TGATATGCCATTAGAGTTGAAACTACT 58.514 33.333 0.00 0.00 39.88 2.57
2179 2248 8.662781 TGATATGCCATTAGAGTTGAAACTAC 57.337 34.615 0.00 0.00 39.88 2.73
2180 2249 8.704668 TCTGATATGCCATTAGAGTTGAAACTA 58.295 33.333 0.00 0.00 39.88 2.24
2181 2250 7.568349 TCTGATATGCCATTAGAGTTGAAACT 58.432 34.615 0.00 0.00 43.16 2.66
2182 2251 7.792374 TCTGATATGCCATTAGAGTTGAAAC 57.208 36.000 0.00 0.00 0.00 2.78
2183 2252 7.500227 CCTTCTGATATGCCATTAGAGTTGAAA 59.500 37.037 0.00 0.00 0.00 2.69
2184 2253 6.994496 CCTTCTGATATGCCATTAGAGTTGAA 59.006 38.462 0.00 0.00 0.00 2.69
2185 2254 6.100279 ACCTTCTGATATGCCATTAGAGTTGA 59.900 38.462 0.00 0.00 0.00 3.18
2186 2255 6.204301 CACCTTCTGATATGCCATTAGAGTTG 59.796 42.308 0.00 0.00 0.00 3.16
2187 2256 6.294473 CACCTTCTGATATGCCATTAGAGTT 58.706 40.000 0.00 0.00 0.00 3.01
2188 2257 5.221803 CCACCTTCTGATATGCCATTAGAGT 60.222 44.000 0.00 0.00 0.00 3.24
2189 2258 5.221803 ACCACCTTCTGATATGCCATTAGAG 60.222 44.000 0.00 0.00 0.00 2.43
2190 2259 4.660303 ACCACCTTCTGATATGCCATTAGA 59.340 41.667 0.00 0.00 0.00 2.10
2191 2260 4.758674 CACCACCTTCTGATATGCCATTAG 59.241 45.833 0.00 0.00 0.00 1.73
2192 2261 4.717877 CACCACCTTCTGATATGCCATTA 58.282 43.478 0.00 0.00 0.00 1.90
2193 2262 3.559069 CACCACCTTCTGATATGCCATT 58.441 45.455 0.00 0.00 0.00 3.16
2194 2263 2.750807 GCACCACCTTCTGATATGCCAT 60.751 50.000 0.00 0.00 0.00 4.40
2195 2264 1.408683 GCACCACCTTCTGATATGCCA 60.409 52.381 0.00 0.00 0.00 4.92
2196 2265 1.312815 GCACCACCTTCTGATATGCC 58.687 55.000 0.00 0.00 0.00 4.40
2197 2266 0.940126 CGCACCACCTTCTGATATGC 59.060 55.000 0.00 0.00 0.00 3.14
2198 2267 0.940126 GCGCACCACCTTCTGATATG 59.060 55.000 0.30 0.00 0.00 1.78
2199 2268 0.179045 GGCGCACCACCTTCTGATAT 60.179 55.000 10.83 0.00 35.26 1.63
2200 2269 1.220749 GGCGCACCACCTTCTGATA 59.779 57.895 10.83 0.00 35.26 2.15
2201 2270 2.045926 GGCGCACCACCTTCTGAT 60.046 61.111 10.83 0.00 35.26 2.90
2202 2271 3.555324 TGGCGCACCACCTTCTGA 61.555 61.111 10.83 0.00 42.67 3.27
2205 2274 9.615037 AGTATATACTAATGGCGCACCACCTTC 62.615 44.444 13.88 0.00 41.40 3.46
2206 2275 7.929446 AGTATATACTAATGGCGCACCACCTT 61.929 42.308 13.88 0.00 41.40 3.50
2207 2276 6.510790 AGTATATACTAATGGCGCACCACCT 61.511 44.000 13.88 0.00 41.40 4.00
2208 2277 4.322499 AGTATATACTAATGGCGCACCACC 60.322 45.833 13.88 0.00 41.40 4.61
2209 2278 4.817517 AGTATATACTAATGGCGCACCAC 58.182 43.478 13.88 0.00 41.40 4.16
2210 2279 6.593268 TTAGTATATACTAATGGCGCACCA 57.407 37.500 25.06 0.00 42.34 4.17
2221 2290 5.239359 CGGTGCGCCATTAGTATATACTA 57.761 43.478 18.18 17.03 34.75 1.82
2222 2291 4.106029 CGGTGCGCCATTAGTATATACT 57.894 45.455 19.07 19.07 36.14 2.12
2237 2306 3.716006 CACCAGACAAGCGGTGCG 61.716 66.667 0.00 0.00 45.77 5.34
2251 2320 1.064060 GATTGACACTAATGGCGCACC 59.936 52.381 10.83 0.00 36.14 5.01
2252 2321 1.064060 GGATTGACACTAATGGCGCAC 59.936 52.381 10.83 0.00 36.14 5.34
2253 2322 1.378531 GGATTGACACTAATGGCGCA 58.621 50.000 10.83 0.00 36.14 6.09
2254 2323 0.663153 GGGATTGACACTAATGGCGC 59.337 55.000 0.00 0.00 36.14 6.53
2255 2324 2.036958 TGGGATTGACACTAATGGCG 57.963 50.000 0.00 0.00 36.14 5.69
2256 2325 7.227512 GCTATATATGGGATTGACACTAATGGC 59.772 40.741 0.00 0.00 0.00 4.40
2257 2326 7.716998 GGCTATATATGGGATTGACACTAATGG 59.283 40.741 0.00 0.00 0.00 3.16
2258 2327 7.716998 GGGCTATATATGGGATTGACACTAATG 59.283 40.741 0.00 0.00 0.00 1.90
2259 2328 7.629315 AGGGCTATATATGGGATTGACACTAAT 59.371 37.037 0.00 0.00 0.00 1.73
2260 2329 6.965866 AGGGCTATATATGGGATTGACACTAA 59.034 38.462 0.00 0.00 0.00 2.24
2261 2330 6.512120 AGGGCTATATATGGGATTGACACTA 58.488 40.000 0.00 0.00 0.00 2.74
2262 2331 5.353986 AGGGCTATATATGGGATTGACACT 58.646 41.667 0.00 0.00 0.00 3.55
2263 2332 5.700402 AGGGCTATATATGGGATTGACAC 57.300 43.478 0.00 0.00 0.00 3.67
2264 2333 6.718593 AAAGGGCTATATATGGGATTGACA 57.281 37.500 0.00 0.00 0.00 3.58
2265 2334 7.890655 AGAAAAAGGGCTATATATGGGATTGAC 59.109 37.037 0.00 0.00 0.00 3.18
2266 2335 8.000171 AGAAAAAGGGCTATATATGGGATTGA 58.000 34.615 0.00 0.00 0.00 2.57
2267 2336 9.401058 CTAGAAAAAGGGCTATATATGGGATTG 57.599 37.037 0.00 0.00 0.00 2.67
2268 2337 9.128715 ACTAGAAAAAGGGCTATATATGGGATT 57.871 33.333 0.00 0.00 0.00 3.01
2269 2338 8.701643 ACTAGAAAAAGGGCTATATATGGGAT 57.298 34.615 0.00 0.00 0.00 3.85
2270 2339 9.268282 CTACTAGAAAAAGGGCTATATATGGGA 57.732 37.037 0.00 0.00 0.00 4.37
2271 2340 9.047947 ACTACTAGAAAAAGGGCTATATATGGG 57.952 37.037 0.00 0.00 0.00 4.00
2272 2341 9.877178 CACTACTAGAAAAAGGGCTATATATGG 57.123 37.037 0.00 0.00 0.00 2.74
2273 2342 9.372369 GCACTACTAGAAAAAGGGCTATATATG 57.628 37.037 0.00 0.00 36.70 1.78
2274 2343 9.101325 TGCACTACTAGAAAAAGGGCTATATAT 57.899 33.333 0.00 0.00 40.40 0.86
2275 2344 8.486942 TGCACTACTAGAAAAAGGGCTATATA 57.513 34.615 0.00 0.00 40.40 0.86
2276 2345 7.374975 TGCACTACTAGAAAAAGGGCTATAT 57.625 36.000 0.00 0.00 40.40 0.86
2277 2346 6.801718 TGCACTACTAGAAAAAGGGCTATA 57.198 37.500 0.00 0.00 40.40 1.31
2278 2347 5.693769 TGCACTACTAGAAAAAGGGCTAT 57.306 39.130 0.00 0.00 40.40 2.97
2279 2348 5.492855 TTGCACTACTAGAAAAAGGGCTA 57.507 39.130 0.00 0.00 40.40 3.93
2280 2349 4.367039 TTGCACTACTAGAAAAAGGGCT 57.633 40.909 0.00 0.00 40.40 5.19
2281 2350 4.675408 GCATTGCACTACTAGAAAAAGGGC 60.675 45.833 3.15 1.55 40.16 5.19
2282 2351 4.702131 AGCATTGCACTACTAGAAAAAGGG 59.298 41.667 11.91 0.00 0.00 3.95
2283 2352 5.412594 TGAGCATTGCACTACTAGAAAAAGG 59.587 40.000 11.91 0.00 0.00 3.11
2284 2353 6.148480 AGTGAGCATTGCACTACTAGAAAAAG 59.852 38.462 11.91 0.00 44.27 2.27
2285 2354 5.997746 AGTGAGCATTGCACTACTAGAAAAA 59.002 36.000 11.91 0.00 44.27 1.94
2286 2355 5.409520 CAGTGAGCATTGCACTACTAGAAAA 59.590 40.000 11.91 0.00 44.28 2.29
2287 2356 4.931601 CAGTGAGCATTGCACTACTAGAAA 59.068 41.667 11.91 0.00 44.28 2.52
2288 2357 4.220602 TCAGTGAGCATTGCACTACTAGAA 59.779 41.667 11.91 0.00 44.28 2.10
2289 2358 3.763897 TCAGTGAGCATTGCACTACTAGA 59.236 43.478 11.91 8.89 44.28 2.43
2290 2359 4.115401 TCAGTGAGCATTGCACTACTAG 57.885 45.455 11.91 7.08 44.28 2.57
2291 2360 4.245660 GTTCAGTGAGCATTGCACTACTA 58.754 43.478 11.91 0.00 44.28 1.82
2292 2361 3.070018 GTTCAGTGAGCATTGCACTACT 58.930 45.455 11.91 8.79 44.28 2.57
2293 2362 2.807967 TGTTCAGTGAGCATTGCACTAC 59.192 45.455 11.91 6.62 44.28 2.73
2294 2363 2.807967 GTGTTCAGTGAGCATTGCACTA 59.192 45.455 13.12 0.00 44.28 2.74
2295 2364 1.605710 GTGTTCAGTGAGCATTGCACT 59.394 47.619 13.12 3.51 46.86 4.40
2296 2365 1.334556 TGTGTTCAGTGAGCATTGCAC 59.665 47.619 13.12 5.15 36.53 4.57
2297 2366 1.334556 GTGTGTTCAGTGAGCATTGCA 59.665 47.619 13.12 3.94 0.00 4.08
2298 2367 1.334556 TGTGTGTTCAGTGAGCATTGC 59.665 47.619 13.12 0.00 0.00 3.56
2299 2368 2.874086 TCTGTGTGTTCAGTGAGCATTG 59.126 45.455 13.12 4.46 36.85 2.82
2300 2369 3.198409 TCTGTGTGTTCAGTGAGCATT 57.802 42.857 13.12 0.00 36.85 3.56
2301 2370 2.916702 TCTGTGTGTTCAGTGAGCAT 57.083 45.000 13.12 0.00 36.85 3.79
2302 2371 2.554142 CTTCTGTGTGTTCAGTGAGCA 58.446 47.619 5.45 5.45 36.85 4.26
2303 2372 1.262683 GCTTCTGTGTGTTCAGTGAGC 59.737 52.381 0.00 0.00 37.92 4.26
2304 2373 2.543012 CAGCTTCTGTGTGTTCAGTGAG 59.457 50.000 0.00 0.00 36.85 3.51
2305 2374 2.168313 TCAGCTTCTGTGTGTTCAGTGA 59.832 45.455 0.00 0.00 36.85 3.41
2306 2375 2.554142 TCAGCTTCTGTGTGTTCAGTG 58.446 47.619 0.00 0.00 36.85 3.66
2307 2376 2.988010 TCAGCTTCTGTGTGTTCAGT 57.012 45.000 0.00 0.00 36.85 3.41
2308 2377 5.237127 TGTTATTCAGCTTCTGTGTGTTCAG 59.763 40.000 0.00 0.00 36.85 3.02
2309 2378 5.122519 TGTTATTCAGCTTCTGTGTGTTCA 58.877 37.500 0.00 0.00 32.61 3.18
2310 2379 5.673337 TGTTATTCAGCTTCTGTGTGTTC 57.327 39.130 0.00 0.00 32.61 3.18
2311 2380 5.822519 TCTTGTTATTCAGCTTCTGTGTGTT 59.177 36.000 0.00 0.00 32.61 3.32
2312 2381 5.368145 TCTTGTTATTCAGCTTCTGTGTGT 58.632 37.500 0.00 0.00 32.61 3.72
2313 2382 5.468072 ACTCTTGTTATTCAGCTTCTGTGTG 59.532 40.000 0.00 0.00 32.61 3.82
2314 2383 5.615289 ACTCTTGTTATTCAGCTTCTGTGT 58.385 37.500 0.00 0.00 32.61 3.72
2315 2384 5.931146 AGACTCTTGTTATTCAGCTTCTGTG 59.069 40.000 0.00 0.00 32.61 3.66
2316 2385 6.107901 AGACTCTTGTTATTCAGCTTCTGT 57.892 37.500 0.00 0.00 32.61 3.41
2317 2386 7.600375 TGTAAGACTCTTGTTATTCAGCTTCTG 59.400 37.037 1.17 0.00 0.00 3.02
2318 2387 7.671302 TGTAAGACTCTTGTTATTCAGCTTCT 58.329 34.615 1.17 0.00 0.00 2.85
2319 2388 7.891183 TGTAAGACTCTTGTTATTCAGCTTC 57.109 36.000 1.17 0.00 0.00 3.86
2320 2389 7.550906 GGATGTAAGACTCTTGTTATTCAGCTT 59.449 37.037 1.17 0.00 0.00 3.74
2321 2390 7.044798 GGATGTAAGACTCTTGTTATTCAGCT 58.955 38.462 1.17 0.00 0.00 4.24
2322 2391 6.818644 TGGATGTAAGACTCTTGTTATTCAGC 59.181 38.462 1.17 0.00 0.00 4.26
2323 2392 8.954950 ATGGATGTAAGACTCTTGTTATTCAG 57.045 34.615 1.17 0.00 0.00 3.02
2324 2393 9.817809 GTATGGATGTAAGACTCTTGTTATTCA 57.182 33.333 1.17 0.00 0.00 2.57
2325 2394 9.817809 TGTATGGATGTAAGACTCTTGTTATTC 57.182 33.333 1.17 0.00 0.00 1.75
2329 2398 8.204836 GGTATGTATGGATGTAAGACTCTTGTT 58.795 37.037 1.17 0.00 0.00 2.83
2330 2399 7.470147 CGGTATGTATGGATGTAAGACTCTTGT 60.470 40.741 1.17 0.00 0.00 3.16
2331 2400 6.863645 CGGTATGTATGGATGTAAGACTCTTG 59.136 42.308 1.17 0.00 0.00 3.02
2332 2401 6.550108 ACGGTATGTATGGATGTAAGACTCTT 59.450 38.462 0.00 0.00 0.00 2.85
2333 2402 6.069331 ACGGTATGTATGGATGTAAGACTCT 58.931 40.000 0.00 0.00 0.00 3.24
2334 2403 6.328641 ACGGTATGTATGGATGTAAGACTC 57.671 41.667 0.00 0.00 0.00 3.36
2335 2404 6.726490 AACGGTATGTATGGATGTAAGACT 57.274 37.500 0.00 0.00 0.00 3.24
2336 2405 7.781548 AAAACGGTATGTATGGATGTAAGAC 57.218 36.000 0.00 0.00 0.00 3.01
2337 2406 8.476447 TGTAAAACGGTATGTATGGATGTAAGA 58.524 33.333 0.00 0.00 0.00 2.10
2338 2407 8.545420 GTGTAAAACGGTATGTATGGATGTAAG 58.455 37.037 0.00 0.00 0.00 2.34
2339 2408 8.039538 TGTGTAAAACGGTATGTATGGATGTAA 58.960 33.333 0.00 0.00 0.00 2.41
2340 2409 7.554211 TGTGTAAAACGGTATGTATGGATGTA 58.446 34.615 0.00 0.00 0.00 2.29
2341 2410 6.408035 TGTGTAAAACGGTATGTATGGATGT 58.592 36.000 0.00 0.00 0.00 3.06
2342 2411 6.912203 TGTGTAAAACGGTATGTATGGATG 57.088 37.500 0.00 0.00 0.00 3.51
2343 2412 7.107542 ACTTGTGTAAAACGGTATGTATGGAT 58.892 34.615 0.00 0.00 0.00 3.41
2344 2413 6.465948 ACTTGTGTAAAACGGTATGTATGGA 58.534 36.000 0.00 0.00 0.00 3.41
2345 2414 6.730960 ACTTGTGTAAAACGGTATGTATGG 57.269 37.500 0.00 0.00 0.00 2.74
2346 2415 7.760794 TCCTACTTGTGTAAAACGGTATGTATG 59.239 37.037 0.00 0.00 0.00 2.39
2347 2416 7.761249 GTCCTACTTGTGTAAAACGGTATGTAT 59.239 37.037 0.00 0.00 0.00 2.29
2348 2417 7.090173 GTCCTACTTGTGTAAAACGGTATGTA 58.910 38.462 0.00 0.00 0.00 2.29
2349 2418 5.928264 GTCCTACTTGTGTAAAACGGTATGT 59.072 40.000 0.00 0.00 0.00 2.29
2350 2419 5.349543 GGTCCTACTTGTGTAAAACGGTATG 59.650 44.000 0.00 0.00 0.00 2.39
2351 2420 5.011943 TGGTCCTACTTGTGTAAAACGGTAT 59.988 40.000 0.00 0.00 0.00 2.73
2352 2421 4.343526 TGGTCCTACTTGTGTAAAACGGTA 59.656 41.667 0.00 0.00 0.00 4.02
2353 2422 3.134442 TGGTCCTACTTGTGTAAAACGGT 59.866 43.478 0.00 0.00 0.00 4.83
2354 2423 3.731089 TGGTCCTACTTGTGTAAAACGG 58.269 45.455 0.00 0.00 0.00 4.44
2355 2424 5.934935 AATGGTCCTACTTGTGTAAAACG 57.065 39.130 0.00 0.00 0.00 3.60


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

AutoCloner maintained by Alex Coulton.