Multiple sequence alignment - TraesCS7B01G153800

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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 TraesCS7B01G153800 chr7B 100.000 2449 0 0 1 2449 204459304 204461752 0.000000e+00 4523.0
1 TraesCS7B01G153800 chr7B 98.199 1499 27 0 1 1499 13054141 13052643 0.000000e+00 2619.0
2 TraesCS7B01G153800 chr7B 97.778 495 10 1 1481 1974 13052577 13052083 0.000000e+00 852.0
3 TraesCS7B01G153800 chr7B 92.233 309 22 1 2141 2449 513915267 513915573 1.040000e-118 436.0
4 TraesCS7B01G153800 chr7B 91.909 309 23 2 2141 2449 147172376 147172682 4.840000e-117 431.0
5 TraesCS7B01G153800 chr7B 92.409 303 19 2 2147 2449 258318562 258318264 1.740000e-116 429.0
6 TraesCS7B01G153800 chr2A 98.244 2050 34 2 1 2049 682560615 682558567 0.000000e+00 3585.0
7 TraesCS7B01G153800 chr2A 98.006 2056 40 1 1 2056 509973528 509971474 0.000000e+00 3568.0
8 TraesCS7B01G153800 chr2A 93.939 66 3 1 2093 2158 509971483 509971419 5.570000e-17 99.0
9 TraesCS7B01G153800 chr1B 98.010 2060 41 0 1 2060 222287286 222285227 0.000000e+00 3578.0
10 TraesCS7B01G153800 chr1B 92.233 309 22 1 2141 2449 409542208 409541902 1.040000e-118 436.0
11 TraesCS7B01G153800 chr1B 100.000 57 0 0 2089 2145 222285240 222285184 3.330000e-19 106.0
12 TraesCS7B01G153800 chr3B 98.184 2037 37 0 1 2037 689987807 689985771 0.000000e+00 3557.0
13 TraesCS7B01G153800 chr3B 92.233 309 22 1 2141 2449 312506650 312506344 1.040000e-118 436.0
14 TraesCS7B01G153800 chr3B 85.523 373 52 2 1255 1626 131567592 131567963 2.950000e-104 388.0
15 TraesCS7B01G153800 chr3A 98.468 1501 21 1 1 1499 210126907 210125407 0.000000e+00 2643.0
16 TraesCS7B01G153800 chr3A 97.444 665 12 2 1481 2144 210125341 210124681 0.000000e+00 1129.0
17 TraesCS7B01G153800 chr3A 89.216 102 11 0 380 481 734118645 734118746 7.110000e-26 128.0
18 TraesCS7B01G153800 chr1A 80.033 1222 182 47 865 2054 537147174 537145983 0.000000e+00 848.0
19 TraesCS7B01G153800 chr1A 84.882 807 106 11 865 1664 323704475 323703678 0.000000e+00 800.0
20 TraesCS7B01G153800 chr1D 85.006 787 99 12 865 1643 440875019 440875794 0.000000e+00 782.0
21 TraesCS7B01G153800 chr4B 92.557 309 21 1 2141 2449 344306429 344306735 2.230000e-120 442.0
22 TraesCS7B01G153800 chr4B 90.323 62 4 2 2094 2155 529200063 529200004 2.020000e-11 80.5
23 TraesCS7B01G153800 chr4B 85.915 71 9 1 2082 2151 660194382 660194312 9.390000e-10 75.0
24 TraesCS7B01G153800 chr5D 91.909 309 23 2 2141 2449 300698923 300698617 4.840000e-117 431.0
25 TraesCS7B01G153800 chr2B 91.883 308 23 1 2141 2448 499075760 499075455 1.740000e-116 429.0
26 TraesCS7B01G153800 chr4D 91.613 310 23 2 2141 2449 331708282 331707975 2.250000e-115 425.0
27 TraesCS7B01G153800 chr6B 96.667 60 2 0 2096 2155 460917422 460917363 1.550000e-17 100.0
28 TraesCS7B01G153800 chrUn 94.545 55 3 0 2094 2148 90100623 90100569 4.340000e-13 86.1
29 TraesCS7B01G153800 chr6D 96.226 53 0 2 2094 2146 366997786 366997736 4.340000e-13 86.1
30 TraesCS7B01G153800 chr5A 91.667 60 4 1 2093 2152 488415397 488415455 5.610000e-12 82.4


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 TraesCS7B01G153800 chr7B 204459304 204461752 2448 False 4523.0 4523 100.0000 1 2449 1 chr7B.!!$F2 2448
1 TraesCS7B01G153800 chr7B 13052083 13054141 2058 True 1735.5 2619 97.9885 1 1974 2 chr7B.!!$R2 1973
2 TraesCS7B01G153800 chr2A 682558567 682560615 2048 True 3585.0 3585 98.2440 1 2049 1 chr2A.!!$R1 2048
3 TraesCS7B01G153800 chr2A 509971419 509973528 2109 True 1833.5 3568 95.9725 1 2158 2 chr2A.!!$R2 2157
4 TraesCS7B01G153800 chr1B 222285184 222287286 2102 True 1842.0 3578 99.0050 1 2145 2 chr1B.!!$R2 2144
5 TraesCS7B01G153800 chr3B 689985771 689987807 2036 True 3557.0 3557 98.1840 1 2037 1 chr3B.!!$R2 2036
6 TraesCS7B01G153800 chr3A 210124681 210126907 2226 True 1886.0 2643 97.9560 1 2144 2 chr3A.!!$R1 2143
7 TraesCS7B01G153800 chr1A 537145983 537147174 1191 True 848.0 848 80.0330 865 2054 1 chr1A.!!$R2 1189
8 TraesCS7B01G153800 chr1A 323703678 323704475 797 True 800.0 800 84.8820 865 1664 1 chr1A.!!$R1 799
9 TraesCS7B01G153800 chr1D 440875019 440875794 775 False 782.0 782 85.0060 865 1643 1 chr1D.!!$F1 778

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
347 348 0.762842 ACTAGGTGACACCCTGCACA 60.763 55.0 21.32 0.0 39.75 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2221 2481 0.025513 GCATCAGTTCATGACGCGTC 59.974 55.0 31.66 31.66 37.38 5.19 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
264 265 8.341892 AGAAGAATTGTACCCTGAGAAAATTC 57.658 34.615 0.00 0.00 35.33 2.17
342 343 7.983166 TGTTTAATATACTAGGTGACACCCT 57.017 36.000 21.32 10.95 39.75 4.34
347 348 0.762842 ACTAGGTGACACCCTGCACA 60.763 55.000 21.32 0.00 39.75 4.57
729 732 8.931775 TGTATATGTACATTTGTGAGTGTTGAC 58.068 33.333 14.77 0.00 35.94 3.18
820 823 4.261867 GGCAAATATTTAAGGTAAGGGCGG 60.262 45.833 0.00 0.00 0.00 6.13
894 898 3.574074 TTGCCCCTGCTCCTCTTGC 62.574 63.158 0.00 0.00 38.71 4.01
1214 1225 3.749226 TGTGAATGGTGTAACATCTGCA 58.251 40.909 0.00 0.00 39.98 4.41
1479 1576 8.729756 TGTATGATGGAGTTTTTGTTGATACAG 58.270 33.333 0.00 0.00 35.28 2.74
1704 1909 4.569228 GGGATTGGATGTGATGGCTGATAT 60.569 45.833 0.00 0.00 0.00 1.63
1854 2063 3.901844 CGGGGAATCTTTATGGAGTCCTA 59.098 47.826 11.33 0.00 46.09 2.94
1896 2105 0.899019 TCTACCCATGCAACACGCTA 59.101 50.000 0.00 0.00 43.06 4.26
1980 2189 1.689575 CGGAGGAAGGGAGAGATGGAA 60.690 57.143 0.00 0.00 0.00 3.53
2003 2219 6.693315 AATATATAGAGAGAGGAAGAGCGC 57.307 41.667 0.00 0.00 0.00 5.92
2145 2405 4.393062 GCACGGGCGTTCTACTAGTATATA 59.607 45.833 2.33 0.00 0.00 0.86
2147 2407 6.258727 GCACGGGCGTTCTACTAGTATATATA 59.741 42.308 2.33 0.00 0.00 0.86
2148 2408 7.041508 GCACGGGCGTTCTACTAGTATATATAT 60.042 40.741 2.33 0.00 0.00 0.86
2149 2409 9.481340 CACGGGCGTTCTACTAGTATATATATA 57.519 37.037 2.33 0.00 0.00 0.86
2172 2432 6.732531 ATATATGAGCACATACACACATGC 57.267 37.500 5.96 0.00 41.03 4.06
2173 2433 2.181954 TGAGCACATACACACATGCA 57.818 45.000 0.00 0.00 40.63 3.96
2174 2434 2.713877 TGAGCACATACACACATGCAT 58.286 42.857 0.00 0.00 40.63 3.96
2175 2435 2.420722 TGAGCACATACACACATGCATG 59.579 45.455 25.09 25.09 40.63 4.06
2176 2436 2.421073 GAGCACATACACACATGCATGT 59.579 45.455 26.61 26.61 42.55 3.21
2177 2437 3.608796 AGCACATACACACATGCATGTA 58.391 40.909 30.92 16.84 40.27 2.29
2178 2438 4.201657 AGCACATACACACATGCATGTAT 58.798 39.130 30.92 19.33 40.27 2.29
2179 2439 5.367302 AGCACATACACACATGCATGTATA 58.633 37.500 30.92 22.21 40.27 1.47
2180 2440 5.999600 AGCACATACACACATGCATGTATAT 59.000 36.000 30.92 23.26 40.27 0.86
2181 2441 6.072893 AGCACATACACACATGCATGTATATG 60.073 38.462 31.95 31.95 40.27 1.78
2195 2455 6.446781 CATGTATATGCATGAATCCCTTCC 57.553 41.667 24.68 0.00 46.65 3.46
2196 2456 5.581350 TGTATATGCATGAATCCCTTCCA 57.419 39.130 10.16 0.00 0.00 3.53
2197 2457 6.143551 TGTATATGCATGAATCCCTTCCAT 57.856 37.500 10.16 0.00 0.00 3.41
2198 2458 6.182627 TGTATATGCATGAATCCCTTCCATC 58.817 40.000 10.16 0.00 0.00 3.51
2199 2459 1.971481 TGCATGAATCCCTTCCATCG 58.029 50.000 0.00 0.00 0.00 3.84
2200 2460 1.490069 TGCATGAATCCCTTCCATCGA 59.510 47.619 0.00 0.00 0.00 3.59
2201 2461 2.149578 GCATGAATCCCTTCCATCGAG 58.850 52.381 0.00 0.00 0.00 4.04
2202 2462 2.486191 GCATGAATCCCTTCCATCGAGT 60.486 50.000 0.00 0.00 0.00 4.18
2203 2463 3.397482 CATGAATCCCTTCCATCGAGTC 58.603 50.000 0.00 0.00 0.00 3.36
2204 2464 1.409064 TGAATCCCTTCCATCGAGTCG 59.591 52.381 6.09 6.09 0.00 4.18
2205 2465 1.681793 GAATCCCTTCCATCGAGTCGA 59.318 52.381 19.06 19.06 41.13 4.20
2206 2466 1.776662 ATCCCTTCCATCGAGTCGAA 58.223 50.000 20.74 0.00 39.99 3.71
2207 2467 1.103803 TCCCTTCCATCGAGTCGAAG 58.896 55.000 20.74 15.42 39.99 3.79
2208 2468 0.818296 CCCTTCCATCGAGTCGAAGT 59.182 55.000 20.74 0.07 39.99 3.01
2209 2469 1.469940 CCCTTCCATCGAGTCGAAGTG 60.470 57.143 20.74 14.03 39.99 3.16
2210 2470 1.469940 CCTTCCATCGAGTCGAAGTGG 60.470 57.143 23.49 23.49 39.99 4.00
2211 2471 0.108804 TTCCATCGAGTCGAAGTGGC 60.109 55.000 24.30 0.00 39.99 5.01
2212 2472 0.965866 TCCATCGAGTCGAAGTGGCT 60.966 55.000 24.30 4.44 39.99 4.75
2213 2473 0.738975 CCATCGAGTCGAAGTGGCTA 59.261 55.000 20.74 0.00 39.99 3.93
2214 2474 1.268794 CCATCGAGTCGAAGTGGCTAG 60.269 57.143 20.74 0.00 39.99 3.42
2215 2475 1.402259 CATCGAGTCGAAGTGGCTAGT 59.598 52.381 20.74 0.00 39.99 2.57
2216 2476 2.391616 TCGAGTCGAAGTGGCTAGTA 57.608 50.000 13.98 0.00 31.06 1.82
2217 2477 2.005451 TCGAGTCGAAGTGGCTAGTAC 58.995 52.381 13.98 0.00 31.06 2.73
2218 2478 1.736126 CGAGTCGAAGTGGCTAGTACA 59.264 52.381 6.73 0.00 0.00 2.90
2219 2479 2.161012 CGAGTCGAAGTGGCTAGTACAA 59.839 50.000 6.73 0.00 0.00 2.41
2220 2480 3.181499 CGAGTCGAAGTGGCTAGTACAAT 60.181 47.826 6.73 0.00 0.00 2.71
2221 2481 4.106197 GAGTCGAAGTGGCTAGTACAATG 58.894 47.826 0.00 0.00 0.00 2.82
2222 2482 3.762288 AGTCGAAGTGGCTAGTACAATGA 59.238 43.478 0.00 0.00 0.00 2.57
2223 2483 3.858238 GTCGAAGTGGCTAGTACAATGAC 59.142 47.826 0.00 0.00 0.00 3.06
2224 2484 2.852413 CGAAGTGGCTAGTACAATGACG 59.148 50.000 0.00 0.00 0.00 4.35
2225 2485 2.295253 AGTGGCTAGTACAATGACGC 57.705 50.000 0.00 0.00 0.00 5.19
2226 2486 0.921347 GTGGCTAGTACAATGACGCG 59.079 55.000 3.53 3.53 0.00 6.01
2227 2487 0.528924 TGGCTAGTACAATGACGCGT 59.471 50.000 13.85 13.85 0.00 6.01
2228 2488 1.197910 GGCTAGTACAATGACGCGTC 58.802 55.000 31.66 31.66 0.00 5.19
2229 2489 1.468565 GGCTAGTACAATGACGCGTCA 60.469 52.381 40.57 40.57 44.59 4.35
2238 2498 3.812577 TGACGCGTCATGAACTGAT 57.187 47.368 36.40 0.00 35.97 2.90
2239 2499 1.349234 TGACGCGTCATGAACTGATG 58.651 50.000 36.40 0.00 42.79 3.07
2243 2503 1.349627 CGTCATGAACTGATGCCGC 59.650 57.895 0.00 0.00 35.97 6.53
2244 2504 1.086067 CGTCATGAACTGATGCCGCT 61.086 55.000 0.00 0.00 35.97 5.52
2245 2505 0.654683 GTCATGAACTGATGCCGCTC 59.345 55.000 0.00 0.00 35.97 5.03
2246 2506 0.538584 TCATGAACTGATGCCGCTCT 59.461 50.000 0.00 0.00 0.00 4.09
2247 2507 0.656259 CATGAACTGATGCCGCTCTG 59.344 55.000 0.00 0.00 0.00 3.35
2248 2508 0.251354 ATGAACTGATGCCGCTCTGT 59.749 50.000 0.00 0.00 0.00 3.41
2249 2509 0.671472 TGAACTGATGCCGCTCTGTG 60.671 55.000 0.00 0.00 0.00 3.66
2250 2510 0.671781 GAACTGATGCCGCTCTGTGT 60.672 55.000 0.00 0.00 0.00 3.72
2251 2511 0.952497 AACTGATGCCGCTCTGTGTG 60.952 55.000 0.00 0.00 0.00 3.82
2253 2513 2.821366 GATGCCGCTCTGTGTGGG 60.821 66.667 10.92 0.00 46.08 4.61
2254 2514 4.415150 ATGCCGCTCTGTGTGGGG 62.415 66.667 10.92 4.57 46.08 4.96
2256 2516 4.767255 GCCGCTCTGTGTGGGGAG 62.767 72.222 10.92 0.00 46.08 4.30
2257 2517 2.997315 CCGCTCTGTGTGGGGAGA 60.997 66.667 1.43 0.00 42.43 3.71
2258 2518 2.575993 CGCTCTGTGTGGGGAGAG 59.424 66.667 0.00 0.00 39.05 3.20
2259 2519 2.279069 CGCTCTGTGTGGGGAGAGT 61.279 63.158 0.00 0.00 38.41 3.24
2260 2520 1.294780 GCTCTGTGTGGGGAGAGTG 59.705 63.158 0.00 0.00 38.41 3.51
2261 2521 1.476007 GCTCTGTGTGGGGAGAGTGT 61.476 60.000 0.00 0.00 38.41 3.55
2262 2522 1.924731 CTCTGTGTGGGGAGAGTGTA 58.075 55.000 0.00 0.00 32.51 2.90
2263 2523 1.546476 CTCTGTGTGGGGAGAGTGTAC 59.454 57.143 0.00 0.00 32.51 2.90
2264 2524 0.243907 CTGTGTGGGGAGAGTGTACG 59.756 60.000 0.00 0.00 0.00 3.67
2265 2525 0.178984 TGTGTGGGGAGAGTGTACGA 60.179 55.000 0.00 0.00 0.00 3.43
2266 2526 1.183549 GTGTGGGGAGAGTGTACGAT 58.816 55.000 0.00 0.00 0.00 3.73
2267 2527 1.549170 GTGTGGGGAGAGTGTACGATT 59.451 52.381 0.00 0.00 0.00 3.34
2268 2528 2.028385 GTGTGGGGAGAGTGTACGATTT 60.028 50.000 0.00 0.00 0.00 2.17
2269 2529 2.635915 TGTGGGGAGAGTGTACGATTTT 59.364 45.455 0.00 0.00 0.00 1.82
2270 2530 3.259902 GTGGGGAGAGTGTACGATTTTC 58.740 50.000 0.00 0.00 0.00 2.29
2271 2531 2.094390 TGGGGAGAGTGTACGATTTTCG 60.094 50.000 0.00 0.00 46.93 3.46
2272 2532 2.165030 GGGGAGAGTGTACGATTTTCGA 59.835 50.000 3.62 0.00 43.74 3.71
2273 2533 3.177487 GGGAGAGTGTACGATTTTCGAC 58.823 50.000 3.62 0.00 43.74 4.20
2274 2534 2.844804 GGAGAGTGTACGATTTTCGACG 59.155 50.000 3.62 0.00 43.74 5.12
2275 2535 2.248487 AGAGTGTACGATTTTCGACGC 58.752 47.619 3.62 4.81 43.74 5.19
2276 2536 1.980844 GAGTGTACGATTTTCGACGCA 59.019 47.619 3.62 0.00 43.74 5.24
2277 2537 1.717645 AGTGTACGATTTTCGACGCAC 59.282 47.619 3.62 8.90 43.74 5.34
2278 2538 0.704008 TGTACGATTTTCGACGCACG 59.296 50.000 3.62 0.00 43.74 5.34
2279 2539 0.704551 GTACGATTTTCGACGCACGT 59.295 50.000 3.62 0.00 43.74 4.49
2280 2540 0.704008 TACGATTTTCGACGCACGTG 59.296 50.000 12.28 12.28 43.74 4.49
2281 2541 1.853192 CGATTTTCGACGCACGTGC 60.853 57.895 30.42 30.42 43.74 5.34
2282 2542 1.509162 GATTTTCGACGCACGTGCC 60.509 57.895 33.23 19.84 43.13 5.01
2283 2543 2.165362 GATTTTCGACGCACGTGCCA 62.165 55.000 33.23 13.16 43.13 4.92
2284 2544 2.438385 ATTTTCGACGCACGTGCCAC 62.438 55.000 33.23 24.61 43.13 5.01
2285 2545 4.874977 TTCGACGCACGTGCCACA 62.875 61.111 33.23 13.16 43.13 4.17
2286 2546 4.656117 TCGACGCACGTGCCACAT 62.656 61.111 33.23 17.23 43.13 3.21
2287 2547 4.134187 CGACGCACGTGCCACATC 62.134 66.667 33.23 22.94 37.91 3.06
2288 2548 3.041351 GACGCACGTGCCACATCA 61.041 61.111 33.23 0.00 37.91 3.07
2289 2549 2.590291 ACGCACGTGCCACATCAA 60.590 55.556 33.23 0.00 37.91 2.57
2290 2550 1.911293 GACGCACGTGCCACATCAAT 61.911 55.000 33.23 9.64 37.91 2.57
2291 2551 0.672091 ACGCACGTGCCACATCAATA 60.672 50.000 33.23 0.00 37.91 1.90
2292 2552 0.657312 CGCACGTGCCACATCAATAT 59.343 50.000 33.23 0.00 37.91 1.28
2293 2553 1.063912 CGCACGTGCCACATCAATATT 59.936 47.619 33.23 0.00 37.91 1.28
2294 2554 2.453080 GCACGTGCCACATCAATATTG 58.547 47.619 30.12 9.29 34.31 1.90
2295 2555 2.159393 GCACGTGCCACATCAATATTGT 60.159 45.455 30.12 0.43 34.31 2.71
2296 2556 3.428163 CACGTGCCACATCAATATTGTG 58.572 45.455 14.97 13.96 43.25 3.33
2297 2557 3.126686 CACGTGCCACATCAATATTGTGA 59.873 43.478 14.97 0.00 45.83 3.58
2298 2558 3.755905 ACGTGCCACATCAATATTGTGAA 59.244 39.130 14.97 0.00 45.83 3.18
2299 2559 4.217334 ACGTGCCACATCAATATTGTGAAA 59.783 37.500 14.97 0.00 45.83 2.69
2300 2560 5.105797 ACGTGCCACATCAATATTGTGAAAT 60.106 36.000 14.97 0.00 45.83 2.17
2301 2561 5.230516 CGTGCCACATCAATATTGTGAAATG 59.769 40.000 14.97 12.93 45.83 2.32
2302 2562 5.521010 GTGCCACATCAATATTGTGAAATGG 59.479 40.000 14.97 15.64 45.83 3.16
2303 2563 5.187381 TGCCACATCAATATTGTGAAATGGT 59.813 36.000 14.97 2.41 45.83 3.55
2304 2564 6.379417 TGCCACATCAATATTGTGAAATGGTA 59.621 34.615 14.97 12.48 45.83 3.25
2305 2565 7.069702 TGCCACATCAATATTGTGAAATGGTAT 59.930 33.333 14.97 0.00 45.83 2.73
2306 2566 7.927629 GCCACATCAATATTGTGAAATGGTATT 59.072 33.333 14.97 0.00 45.83 1.89
2307 2567 9.467258 CCACATCAATATTGTGAAATGGTATTC 57.533 33.333 14.97 0.00 45.83 1.75
2315 2575 7.599630 ATTGTGAAATGGTATTCAAACATGC 57.400 32.000 0.00 0.00 40.76 4.06
2316 2576 6.094193 TGTGAAATGGTATTCAAACATGCA 57.906 33.333 0.00 0.00 40.76 3.96
2317 2577 6.699366 TGTGAAATGGTATTCAAACATGCAT 58.301 32.000 0.00 0.00 40.76 3.96
2318 2578 6.590677 TGTGAAATGGTATTCAAACATGCATG 59.409 34.615 25.09 25.09 40.76 4.06
2319 2579 5.581479 TGAAATGGTATTCAAACATGCATGC 59.419 36.000 26.53 11.82 36.42 4.06
2320 2580 4.739587 ATGGTATTCAAACATGCATGCA 57.260 36.364 26.53 25.04 0.00 3.96
2321 2581 4.739587 TGGTATTCAAACATGCATGCAT 57.260 36.364 27.46 27.46 37.08 3.96
2333 2593 2.801859 CATGCATGCATCACCTCCA 58.198 52.632 30.07 0.00 33.90 3.86
2334 2594 1.328279 CATGCATGCATCACCTCCAT 58.672 50.000 30.07 4.31 33.90 3.41
2335 2595 2.510613 CATGCATGCATCACCTCCATA 58.489 47.619 30.07 0.00 33.90 2.74
2336 2596 1.971481 TGCATGCATCACCTCCATAC 58.029 50.000 18.46 0.00 0.00 2.39
2337 2597 1.212441 TGCATGCATCACCTCCATACA 59.788 47.619 18.46 0.00 0.00 2.29
2338 2598 2.158579 TGCATGCATCACCTCCATACAT 60.159 45.455 18.46 0.00 0.00 2.29
2339 2599 3.072768 TGCATGCATCACCTCCATACATA 59.927 43.478 18.46 0.00 0.00 2.29
2340 2600 4.263594 TGCATGCATCACCTCCATACATAT 60.264 41.667 18.46 0.00 0.00 1.78
2341 2601 4.095932 GCATGCATCACCTCCATACATATG 59.904 45.833 14.21 0.00 0.00 1.78
2342 2602 3.678289 TGCATCACCTCCATACATATGC 58.322 45.455 1.58 0.00 38.90 3.14
2343 2603 3.072768 TGCATCACCTCCATACATATGCA 59.927 43.478 1.58 0.00 44.16 3.96
2344 2604 4.263594 TGCATCACCTCCATACATATGCAT 60.264 41.667 3.79 3.79 42.22 3.96
2345 2605 4.095932 GCATCACCTCCATACATATGCATG 59.904 45.833 10.16 8.73 38.44 4.06
2357 2617 5.102953 ACATATGCATGTAGTGGTTGTCT 57.897 39.130 10.16 0.00 43.74 3.41
2358 2618 5.500234 ACATATGCATGTAGTGGTTGTCTT 58.500 37.500 10.16 0.00 43.74 3.01
2359 2619 5.586243 ACATATGCATGTAGTGGTTGTCTTC 59.414 40.000 10.16 0.00 43.74 2.87
2360 2620 3.483808 TGCATGTAGTGGTTGTCTTCA 57.516 42.857 0.00 0.00 0.00 3.02
2361 2621 3.814625 TGCATGTAGTGGTTGTCTTCAA 58.185 40.909 0.00 0.00 0.00 2.69
2362 2622 4.203226 TGCATGTAGTGGTTGTCTTCAAA 58.797 39.130 0.00 0.00 35.20 2.69
2363 2623 4.036262 TGCATGTAGTGGTTGTCTTCAAAC 59.964 41.667 0.00 0.00 41.22 2.93
2364 2624 4.772434 CATGTAGTGGTTGTCTTCAAACG 58.228 43.478 0.00 0.00 43.50 3.60
2365 2625 3.199677 TGTAGTGGTTGTCTTCAAACGG 58.800 45.455 0.00 0.00 43.50 4.44
2366 2626 2.413310 AGTGGTTGTCTTCAAACGGT 57.587 45.000 0.00 0.00 43.50 4.83
2367 2627 3.547054 AGTGGTTGTCTTCAAACGGTA 57.453 42.857 0.00 0.00 43.50 4.02
2368 2628 3.200483 AGTGGTTGTCTTCAAACGGTAC 58.800 45.455 0.00 0.00 43.50 3.34
2369 2629 2.937799 GTGGTTGTCTTCAAACGGTACA 59.062 45.455 0.00 0.00 43.50 2.90
2370 2630 2.937799 TGGTTGTCTTCAAACGGTACAC 59.062 45.455 0.00 0.00 43.50 2.90
2371 2631 3.200483 GGTTGTCTTCAAACGGTACACT 58.800 45.455 0.00 0.00 35.20 3.55
2372 2632 3.246936 GGTTGTCTTCAAACGGTACACTC 59.753 47.826 0.00 0.00 35.20 3.51
2373 2633 3.102052 TGTCTTCAAACGGTACACTCC 57.898 47.619 0.00 0.00 0.00 3.85
2374 2634 2.224113 TGTCTTCAAACGGTACACTCCC 60.224 50.000 0.00 0.00 0.00 4.30
2375 2635 2.036862 GTCTTCAAACGGTACACTCCCT 59.963 50.000 0.00 0.00 0.00 4.20
2376 2636 2.298163 TCTTCAAACGGTACACTCCCTC 59.702 50.000 0.00 0.00 0.00 4.30
2377 2637 0.599558 TCAAACGGTACACTCCCTCG 59.400 55.000 0.00 0.00 0.00 4.63
2378 2638 1.012486 CAAACGGTACACTCCCTCGC 61.012 60.000 0.00 0.00 0.00 5.03
2379 2639 2.482296 AAACGGTACACTCCCTCGCG 62.482 60.000 0.00 0.00 0.00 5.87
2380 2640 3.437795 CGGTACACTCCCTCGCGT 61.438 66.667 5.77 0.00 0.00 6.01
2381 2641 2.181021 GGTACACTCCCTCGCGTG 59.819 66.667 5.77 2.75 37.18 5.34
2382 2642 2.181021 GTACACTCCCTCGCGTGG 59.819 66.667 20.08 20.08 35.51 4.94
2383 2643 2.282674 TACACTCCCTCGCGTGGT 60.283 61.111 24.30 9.25 35.51 4.16
2384 2644 2.338015 TACACTCCCTCGCGTGGTC 61.338 63.158 24.30 0.00 35.51 4.02
2385 2645 3.680786 CACTCCCTCGCGTGGTCA 61.681 66.667 24.30 10.67 0.00 4.02
2386 2646 2.680352 ACTCCCTCGCGTGGTCAT 60.680 61.111 24.30 7.41 0.00 3.06
2387 2647 2.105128 CTCCCTCGCGTGGTCATC 59.895 66.667 24.30 0.00 0.00 2.92
2388 2648 3.758088 CTCCCTCGCGTGGTCATCG 62.758 68.421 24.30 9.91 0.00 3.84
2389 2649 4.873129 CCCTCGCGTGGTCATCGG 62.873 72.222 24.30 5.55 0.00 4.18
2395 2655 2.431771 CGTGGTCATCGGCGACAA 60.432 61.111 13.76 0.00 37.66 3.18
2396 2656 2.444624 CGTGGTCATCGGCGACAAG 61.445 63.158 13.76 5.50 37.66 3.16
2412 2672 5.702622 CGACAAGCATATATATTCGTGGG 57.297 43.478 11.56 1.93 0.00 4.61
2413 2673 4.032900 CGACAAGCATATATATTCGTGGGC 59.967 45.833 11.56 3.56 0.00 5.36
2414 2674 4.261801 ACAAGCATATATATTCGTGGGCC 58.738 43.478 11.56 0.00 0.00 5.80
2415 2675 4.019321 ACAAGCATATATATTCGTGGGCCT 60.019 41.667 4.53 0.00 0.00 5.19
2416 2676 4.142609 AGCATATATATTCGTGGGCCTG 57.857 45.455 4.53 0.00 0.00 4.85
2417 2677 2.614057 GCATATATATTCGTGGGCCTGC 59.386 50.000 4.53 0.00 0.00 4.85
2418 2678 2.665649 TATATATTCGTGGGCCTGCG 57.334 50.000 4.53 10.03 0.00 5.18
2419 2679 0.685097 ATATATTCGTGGGCCTGCGT 59.315 50.000 17.58 5.50 0.00 5.24
2420 2680 0.249699 TATATTCGTGGGCCTGCGTG 60.250 55.000 17.58 0.00 0.00 5.34
2421 2681 2.940890 ATATTCGTGGGCCTGCGTGG 62.941 60.000 17.58 0.00 39.35 4.94
2425 2685 4.101448 GTGGGCCTGCGTGGAGAT 62.101 66.667 4.53 0.00 38.35 2.75
2426 2686 3.785859 TGGGCCTGCGTGGAGATC 61.786 66.667 4.53 0.00 38.35 2.75
2427 2687 4.554036 GGGCCTGCGTGGAGATCC 62.554 72.222 0.84 0.00 38.35 3.36
2428 2688 3.785859 GGCCTGCGTGGAGATCCA 61.786 66.667 0.00 0.00 45.30 3.41
2439 2699 3.851458 TGGAGATCCATGATCACCTTG 57.149 47.619 17.55 0.00 45.57 3.61
2440 2700 3.387012 TGGAGATCCATGATCACCTTGA 58.613 45.455 17.55 0.00 45.57 3.02
2441 2701 3.978672 TGGAGATCCATGATCACCTTGAT 59.021 43.478 17.55 0.00 45.57 2.57
2442 2702 4.041321 TGGAGATCCATGATCACCTTGATC 59.959 45.833 17.55 8.90 45.57 2.92
2443 2703 4.858732 GGAGATCCATGATCACCTTGATCG 60.859 50.000 11.76 0.00 44.66 3.69
2444 2704 7.020652 GGAGATCCATGATCACCTTGATCGA 62.021 48.000 11.76 0.00 44.66 3.59
2445 2705 8.941372 GGAGATCCATGATCACCTTGATCGAC 62.941 50.000 11.76 7.23 44.66 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 5.048782 GGTGTTGCTTCTACAATCATCAACA 60.049 40.000 0.00 0.00 39.63 3.33
264 265 9.277565 CCAAAGTTACATACAATTGATTTCTCG 57.722 33.333 13.59 0.00 31.28 4.04
342 343 7.628769 AGTTACATACAATCATCAATGTGCA 57.371 32.000 0.00 0.00 34.54 4.57
438 439 6.447409 AGCTACCCCCTCTAACTATTTTTCTT 59.553 38.462 0.00 0.00 0.00 2.52
442 443 7.949468 AATAGCTACCCCCTCTAACTATTTT 57.051 36.000 0.00 0.00 0.00 1.82
486 487 7.742556 TGACTTTTCACATGTTGTATGATCA 57.257 32.000 0.00 0.00 0.00 2.92
578 581 5.689383 TTGTCAGTTCAATTGAGGCTTAC 57.311 39.130 8.41 12.27 0.00 2.34
792 795 6.273071 CCTTACCTTAAATATTTGCCTGCAC 58.727 40.000 11.05 0.00 0.00 4.57
820 823 9.726438 ATTTACACTCCAATATAATAGAGCCAC 57.274 33.333 0.00 0.00 0.00 5.01
894 898 0.386352 CAATGTGGCTCGTGTTGCTG 60.386 55.000 0.00 0.00 0.00 4.41
1214 1225 6.173339 ACGTTGAACTTGTTGATATCATCCT 58.827 36.000 6.17 0.00 0.00 3.24
1479 1576 3.484407 AGGCCTCACATGAATATTGCTC 58.516 45.455 0.00 0.00 0.00 4.26
1854 2063 5.155905 AGTTGGGGGATACGAGAAGAATAT 58.844 41.667 0.00 0.00 37.60 1.28
1864 2073 1.046204 GGGTAGAGTTGGGGGATACG 58.954 60.000 0.00 0.00 37.60 3.06
1980 2189 6.184068 TGCGCTCTTCCTCTCTCTATATATT 58.816 40.000 9.73 0.00 0.00 1.28
2003 2219 3.107601 TCATGTAAACCTCCCCTCTCTG 58.892 50.000 0.00 0.00 0.00 3.35
2093 2353 9.250246 TGCTACGGGCTATAATGCATATATATA 57.750 33.333 0.00 0.00 42.39 0.86
2094 2354 8.134202 TGCTACGGGCTATAATGCATATATAT 57.866 34.615 0.00 0.00 42.39 0.86
2095 2355 7.533289 TGCTACGGGCTATAATGCATATATA 57.467 36.000 0.00 4.29 42.39 0.86
2096 2356 6.419484 TGCTACGGGCTATAATGCATATAT 57.581 37.500 0.00 3.28 42.39 0.86
2097 2357 5.862678 TGCTACGGGCTATAATGCATATA 57.137 39.130 0.00 0.00 42.39 0.86
2098 2358 4.753516 TGCTACGGGCTATAATGCATAT 57.246 40.909 0.00 0.00 42.39 1.78
2099 2359 4.250464 GTTGCTACGGGCTATAATGCATA 58.750 43.478 0.00 0.00 42.39 3.14
2100 2360 3.074412 GTTGCTACGGGCTATAATGCAT 58.926 45.455 0.00 0.00 42.39 3.96
2101 2361 2.489971 GTTGCTACGGGCTATAATGCA 58.510 47.619 0.00 0.00 42.39 3.96
2147 2407 8.042515 TGCATGTGTGTATGTGCTCATATATAT 58.957 33.333 11.38 3.80 38.56 0.86
2148 2408 7.385267 TGCATGTGTGTATGTGCTCATATATA 58.615 34.615 11.38 5.02 38.56 0.86
2149 2409 6.232692 TGCATGTGTGTATGTGCTCATATAT 58.767 36.000 11.38 0.86 38.56 0.86
2150 2410 5.609423 TGCATGTGTGTATGTGCTCATATA 58.391 37.500 11.38 6.45 38.56 0.86
2151 2411 4.453751 TGCATGTGTGTATGTGCTCATAT 58.546 39.130 11.38 0.00 38.56 1.78
2152 2412 3.871485 TGCATGTGTGTATGTGCTCATA 58.129 40.909 4.38 4.38 38.37 2.15
2153 2413 2.713877 TGCATGTGTGTATGTGCTCAT 58.286 42.857 6.50 6.50 38.37 2.90
2154 2414 2.181954 TGCATGTGTGTATGTGCTCA 57.818 45.000 0.00 0.00 38.37 4.26
2155 2415 3.060978 CATGCATGTGTGTATGTGCTC 57.939 47.619 18.91 0.00 41.71 4.26
2173 2433 6.143551 TGGAAGGGATTCATGCATATACAT 57.856 37.500 0.00 0.00 0.00 2.29
2174 2434 5.581350 TGGAAGGGATTCATGCATATACA 57.419 39.130 0.00 0.00 0.00 2.29
2175 2435 5.295292 CGATGGAAGGGATTCATGCATATAC 59.705 44.000 0.00 0.00 0.00 1.47
2176 2436 5.189539 TCGATGGAAGGGATTCATGCATATA 59.810 40.000 0.00 0.00 0.00 0.86
2177 2437 4.019051 TCGATGGAAGGGATTCATGCATAT 60.019 41.667 0.00 0.00 0.00 1.78
2178 2438 3.327464 TCGATGGAAGGGATTCATGCATA 59.673 43.478 0.00 0.00 0.00 3.14
2179 2439 2.107031 TCGATGGAAGGGATTCATGCAT 59.893 45.455 0.00 0.00 0.00 3.96
2180 2440 1.490069 TCGATGGAAGGGATTCATGCA 59.510 47.619 0.00 0.00 0.00 3.96
2181 2441 2.149578 CTCGATGGAAGGGATTCATGC 58.850 52.381 0.00 0.00 0.00 4.06
2182 2442 3.397482 GACTCGATGGAAGGGATTCATG 58.603 50.000 0.00 0.00 0.00 3.07
2183 2443 2.036475 CGACTCGATGGAAGGGATTCAT 59.964 50.000 0.00 0.00 0.00 2.57
2184 2444 1.409064 CGACTCGATGGAAGGGATTCA 59.591 52.381 0.00 0.00 0.00 2.57
2185 2445 1.681793 TCGACTCGATGGAAGGGATTC 59.318 52.381 0.00 0.00 0.00 2.52
2186 2446 1.776662 TCGACTCGATGGAAGGGATT 58.223 50.000 0.00 0.00 0.00 3.01
2187 2447 1.683917 CTTCGACTCGATGGAAGGGAT 59.316 52.381 1.07 0.00 38.99 3.85
2188 2448 1.103803 CTTCGACTCGATGGAAGGGA 58.896 55.000 1.07 0.00 38.99 4.20
2189 2449 0.818296 ACTTCGACTCGATGGAAGGG 59.182 55.000 18.55 3.09 45.02 3.95
2190 2450 1.469940 CCACTTCGACTCGATGGAAGG 60.470 57.143 13.71 10.35 45.02 3.46
2191 2451 1.914634 CCACTTCGACTCGATGGAAG 58.085 55.000 13.71 14.88 45.91 3.46
2192 2452 0.108804 GCCACTTCGACTCGATGGAA 60.109 55.000 20.61 0.00 38.00 3.53
2193 2453 0.965866 AGCCACTTCGACTCGATGGA 60.966 55.000 20.61 0.00 38.00 3.41
2194 2454 0.738975 TAGCCACTTCGACTCGATGG 59.261 55.000 14.38 14.38 38.56 3.51
2195 2455 1.402259 ACTAGCCACTTCGACTCGATG 59.598 52.381 11.69 11.69 35.23 3.84
2196 2456 1.752683 ACTAGCCACTTCGACTCGAT 58.247 50.000 1.07 0.00 35.23 3.59
2197 2457 2.005451 GTACTAGCCACTTCGACTCGA 58.995 52.381 0.00 0.00 0.00 4.04
2198 2458 1.736126 TGTACTAGCCACTTCGACTCG 59.264 52.381 0.00 0.00 0.00 4.18
2199 2459 3.844577 TTGTACTAGCCACTTCGACTC 57.155 47.619 0.00 0.00 0.00 3.36
2200 2460 3.762288 TCATTGTACTAGCCACTTCGACT 59.238 43.478 0.00 0.00 0.00 4.18
2201 2461 3.858238 GTCATTGTACTAGCCACTTCGAC 59.142 47.826 0.00 0.00 0.00 4.20
2202 2462 3.427098 CGTCATTGTACTAGCCACTTCGA 60.427 47.826 0.00 0.00 0.00 3.71
2203 2463 2.852413 CGTCATTGTACTAGCCACTTCG 59.148 50.000 0.00 0.00 0.00 3.79
2204 2464 2.603560 GCGTCATTGTACTAGCCACTTC 59.396 50.000 0.00 0.00 0.00 3.01
2205 2465 2.618053 GCGTCATTGTACTAGCCACTT 58.382 47.619 0.00 0.00 0.00 3.16
2206 2466 1.469251 CGCGTCATTGTACTAGCCACT 60.469 52.381 0.00 0.00 0.00 4.00
2207 2467 0.921347 CGCGTCATTGTACTAGCCAC 59.079 55.000 0.00 0.00 0.00 5.01
2208 2468 0.528924 ACGCGTCATTGTACTAGCCA 59.471 50.000 5.58 0.00 0.00 4.75
2209 2469 1.197910 GACGCGTCATTGTACTAGCC 58.802 55.000 33.09 1.78 0.00 3.93
2210 2470 1.904144 TGACGCGTCATTGTACTAGC 58.096 50.000 36.40 8.58 34.14 3.42
2220 2480 1.349234 CATCAGTTCATGACGCGTCA 58.651 50.000 40.57 40.57 41.91 4.35
2221 2481 0.025513 GCATCAGTTCATGACGCGTC 59.974 55.000 31.66 31.66 37.38 5.19
2222 2482 2.081526 GCATCAGTTCATGACGCGT 58.918 52.632 13.85 13.85 37.38 6.01
2223 2483 4.961622 GCATCAGTTCATGACGCG 57.038 55.556 3.53 3.53 37.38 6.01
2226 2486 0.654683 GAGCGGCATCAGTTCATGAC 59.345 55.000 1.45 0.00 41.91 3.06
2227 2487 0.538584 AGAGCGGCATCAGTTCATGA 59.461 50.000 1.45 0.00 43.70 3.07
2228 2488 0.656259 CAGAGCGGCATCAGTTCATG 59.344 55.000 1.45 0.00 0.00 3.07
2229 2489 0.251354 ACAGAGCGGCATCAGTTCAT 59.749 50.000 1.45 0.00 0.00 2.57
2230 2490 0.671472 CACAGAGCGGCATCAGTTCA 60.671 55.000 1.45 0.00 0.00 3.18
2231 2491 0.671781 ACACAGAGCGGCATCAGTTC 60.672 55.000 1.45 0.00 0.00 3.01
2232 2492 0.952497 CACACAGAGCGGCATCAGTT 60.952 55.000 1.45 0.00 0.00 3.16
2233 2493 1.375140 CACACAGAGCGGCATCAGT 60.375 57.895 1.45 0.00 0.00 3.41
2234 2494 2.104859 CCACACAGAGCGGCATCAG 61.105 63.158 1.45 0.00 0.00 2.90
2235 2495 2.046988 CCACACAGAGCGGCATCA 60.047 61.111 1.45 0.00 0.00 3.07
2236 2496 2.821366 CCCACACAGAGCGGCATC 60.821 66.667 1.45 0.00 0.00 3.91
2237 2497 4.415150 CCCCACACAGAGCGGCAT 62.415 66.667 1.45 0.00 0.00 4.40
2239 2499 4.767255 CTCCCCACACAGAGCGGC 62.767 72.222 0.00 0.00 0.00 6.53
2240 2500 2.997315 TCTCCCCACACAGAGCGG 60.997 66.667 0.00 0.00 0.00 5.52
2241 2501 2.279069 ACTCTCCCCACACAGAGCG 61.279 63.158 0.00 0.00 40.00 5.03
2242 2502 1.294780 CACTCTCCCCACACAGAGC 59.705 63.158 0.00 0.00 40.00 4.09
2243 2503 1.546476 GTACACTCTCCCCACACAGAG 59.454 57.143 0.00 0.00 41.81 3.35
2244 2504 1.629043 GTACACTCTCCCCACACAGA 58.371 55.000 0.00 0.00 0.00 3.41
2245 2505 0.243907 CGTACACTCTCCCCACACAG 59.756 60.000 0.00 0.00 0.00 3.66
2246 2506 0.178984 TCGTACACTCTCCCCACACA 60.179 55.000 0.00 0.00 0.00 3.72
2247 2507 1.183549 ATCGTACACTCTCCCCACAC 58.816 55.000 0.00 0.00 0.00 3.82
2248 2508 1.933021 AATCGTACACTCTCCCCACA 58.067 50.000 0.00 0.00 0.00 4.17
2249 2509 3.259902 GAAAATCGTACACTCTCCCCAC 58.740 50.000 0.00 0.00 0.00 4.61
2250 2510 2.094390 CGAAAATCGTACACTCTCCCCA 60.094 50.000 0.00 0.00 34.72 4.96
2251 2511 2.165030 TCGAAAATCGTACACTCTCCCC 59.835 50.000 0.00 0.00 41.35 4.81
2252 2512 3.177487 GTCGAAAATCGTACACTCTCCC 58.823 50.000 0.00 0.00 41.35 4.30
2253 2513 2.844804 CGTCGAAAATCGTACACTCTCC 59.155 50.000 0.00 0.00 41.35 3.71
2254 2514 2.275767 GCGTCGAAAATCGTACACTCTC 59.724 50.000 0.00 0.00 41.35 3.20
2255 2515 2.248487 GCGTCGAAAATCGTACACTCT 58.752 47.619 0.00 0.00 41.35 3.24
2256 2516 1.980844 TGCGTCGAAAATCGTACACTC 59.019 47.619 0.00 0.00 41.35 3.51
2257 2517 1.717645 GTGCGTCGAAAATCGTACACT 59.282 47.619 8.99 0.00 41.35 3.55
2258 2518 1.521639 CGTGCGTCGAAAATCGTACAC 60.522 52.381 13.11 5.03 41.24 2.90
2259 2519 0.704008 CGTGCGTCGAAAATCGTACA 59.296 50.000 13.11 0.00 41.24 2.90
2260 2520 0.704551 ACGTGCGTCGAAAATCGTAC 59.295 50.000 8.04 4.66 41.35 3.67
2261 2521 0.704008 CACGTGCGTCGAAAATCGTA 59.296 50.000 0.82 0.00 41.35 3.43
2262 2522 1.485514 CACGTGCGTCGAAAATCGT 59.514 52.632 0.82 0.00 41.35 3.73
2263 2523 1.853192 GCACGTGCGTCGAAAATCG 60.853 57.895 26.77 0.00 42.86 3.34
2264 2524 1.509162 GGCACGTGCGTCGAAAATC 60.509 57.895 32.35 12.86 43.26 2.17
2265 2525 2.248135 TGGCACGTGCGTCGAAAAT 61.248 52.632 32.35 0.00 43.26 1.82
2266 2526 2.890961 TGGCACGTGCGTCGAAAA 60.891 55.556 32.35 10.17 43.26 2.29
2267 2527 3.632107 GTGGCACGTGCGTCGAAA 61.632 61.111 32.35 11.91 43.26 3.46
2268 2528 4.874977 TGTGGCACGTGCGTCGAA 62.875 61.111 32.35 14.38 43.26 3.71
2269 2529 4.656117 ATGTGGCACGTGCGTCGA 62.656 61.111 32.35 17.30 43.26 4.20
2270 2530 4.134187 GATGTGGCACGTGCGTCG 62.134 66.667 32.35 0.00 43.26 5.12
2271 2531 1.911293 ATTGATGTGGCACGTGCGTC 61.911 55.000 32.35 26.04 43.26 5.19
2272 2532 0.672091 TATTGATGTGGCACGTGCGT 60.672 50.000 32.35 18.81 43.26 5.24
2273 2533 0.657312 ATATTGATGTGGCACGTGCG 59.343 50.000 32.35 0.65 43.26 5.34
2274 2534 2.159393 ACAATATTGATGTGGCACGTGC 60.159 45.455 32.15 32.15 41.14 5.34
2275 2535 3.126686 TCACAATATTGATGTGGCACGTG 59.873 43.478 22.16 12.28 46.37 4.49
2276 2536 3.342719 TCACAATATTGATGTGGCACGT 58.657 40.909 22.16 13.11 46.37 4.49
2277 2537 4.354071 TTCACAATATTGATGTGGCACG 57.646 40.909 22.16 0.00 46.37 5.34
2278 2538 5.521010 CCATTTCACAATATTGATGTGGCAC 59.479 40.000 22.16 11.55 46.37 5.01
2279 2539 5.187381 ACCATTTCACAATATTGATGTGGCA 59.813 36.000 22.16 2.13 46.37 4.92
2280 2540 5.663456 ACCATTTCACAATATTGATGTGGC 58.337 37.500 22.16 0.00 46.37 5.01
2281 2541 9.467258 GAATACCATTTCACAATATTGATGTGG 57.533 33.333 22.16 20.11 46.37 4.17
2289 2549 9.316730 GCATGTTTGAATACCATTTCACAATAT 57.683 29.630 0.00 0.00 35.42 1.28
2290 2550 8.309656 TGCATGTTTGAATACCATTTCACAATA 58.690 29.630 0.00 0.00 35.42 1.90
2291 2551 7.160049 TGCATGTTTGAATACCATTTCACAAT 58.840 30.769 0.00 0.00 35.42 2.71
2292 2552 6.519382 TGCATGTTTGAATACCATTTCACAA 58.481 32.000 0.00 0.00 35.42 3.33
2293 2553 6.094193 TGCATGTTTGAATACCATTTCACA 57.906 33.333 0.00 0.00 35.42 3.58
2294 2554 6.455913 GCATGCATGTTTGAATACCATTTCAC 60.456 38.462 26.79 0.79 35.42 3.18
2295 2555 5.581479 GCATGCATGTTTGAATACCATTTCA 59.419 36.000 26.79 0.00 33.89 2.69
2296 2556 5.581479 TGCATGCATGTTTGAATACCATTTC 59.419 36.000 26.79 5.79 0.00 2.17
2297 2557 5.489249 TGCATGCATGTTTGAATACCATTT 58.511 33.333 26.79 0.00 0.00 2.32
2298 2558 5.087391 TGCATGCATGTTTGAATACCATT 57.913 34.783 26.79 0.00 0.00 3.16
2299 2559 4.739587 TGCATGCATGTTTGAATACCAT 57.260 36.364 26.79 0.00 0.00 3.55
2300 2560 4.434520 CATGCATGCATGTTTGAATACCA 58.565 39.130 40.30 13.51 46.20 3.25
2315 2575 1.328279 ATGGAGGTGATGCATGCATG 58.672 50.000 36.73 22.70 38.47 4.06
2316 2576 2.158579 TGTATGGAGGTGATGCATGCAT 60.159 45.455 32.66 32.66 45.04 3.96
2317 2577 1.971481 GTATGGAGGTGATGCATGCA 58.029 50.000 25.04 25.04 41.13 3.96
2318 2578 1.971481 TGTATGGAGGTGATGCATGC 58.029 50.000 11.82 11.82 40.65 4.06
2319 2579 4.095932 GCATATGTATGGAGGTGATGCATG 59.904 45.833 2.46 0.00 40.65 4.06
2320 2580 4.263594 TGCATATGTATGGAGGTGATGCAT 60.264 41.667 0.00 0.00 42.26 3.96
2321 2581 3.072768 TGCATATGTATGGAGGTGATGCA 59.927 43.478 4.29 2.68 44.23 3.96
2322 2582 3.678289 TGCATATGTATGGAGGTGATGC 58.322 45.455 4.29 0.00 38.89 3.91
2323 2583 5.250982 ACATGCATATGTATGGAGGTGATG 58.749 41.667 29.77 10.30 45.01 3.07
2324 2584 5.509832 ACATGCATATGTATGGAGGTGAT 57.490 39.130 29.77 10.77 45.01 3.06
2325 2585 4.980339 ACATGCATATGTATGGAGGTGA 57.020 40.909 29.77 0.00 45.01 4.02
2330 2590 5.823861 ACCACTACATGCATATGTATGGA 57.176 39.130 29.77 23.82 45.90 3.41
2331 2591 5.764686 ACAACCACTACATGCATATGTATGG 59.235 40.000 29.77 19.55 45.90 2.74
2332 2592 6.707608 AGACAACCACTACATGCATATGTATG 59.292 38.462 26.44 26.44 45.90 2.39
2333 2593 6.830912 AGACAACCACTACATGCATATGTAT 58.169 36.000 0.00 1.99 45.90 2.29
2334 2594 6.233905 AGACAACCACTACATGCATATGTA 57.766 37.500 0.00 0.00 45.45 2.29
2336 2596 5.585844 TGAAGACAACCACTACATGCATATG 59.414 40.000 0.00 0.00 40.24 1.78
2337 2597 5.744171 TGAAGACAACCACTACATGCATAT 58.256 37.500 0.00 0.00 0.00 1.78
2338 2598 5.159273 TGAAGACAACCACTACATGCATA 57.841 39.130 0.00 0.00 0.00 3.14
2339 2599 4.019792 TGAAGACAACCACTACATGCAT 57.980 40.909 0.00 0.00 0.00 3.96
2340 2600 3.483808 TGAAGACAACCACTACATGCA 57.516 42.857 0.00 0.00 0.00 3.96
2341 2601 4.537015 GTTTGAAGACAACCACTACATGC 58.463 43.478 0.00 0.00 35.63 4.06
2342 2602 4.319477 CCGTTTGAAGACAACCACTACATG 60.319 45.833 0.00 0.00 35.63 3.21
2343 2603 3.813166 CCGTTTGAAGACAACCACTACAT 59.187 43.478 0.00 0.00 35.63 2.29
2344 2604 3.199677 CCGTTTGAAGACAACCACTACA 58.800 45.455 0.00 0.00 35.63 2.74
2345 2605 3.200483 ACCGTTTGAAGACAACCACTAC 58.800 45.455 0.00 0.00 35.63 2.73
2346 2606 3.547054 ACCGTTTGAAGACAACCACTA 57.453 42.857 0.00 0.00 35.63 2.74
2347 2607 2.413310 ACCGTTTGAAGACAACCACT 57.587 45.000 0.00 0.00 35.63 4.00
2348 2608 2.937799 TGTACCGTTTGAAGACAACCAC 59.062 45.455 0.00 0.00 35.63 4.16
2349 2609 2.937799 GTGTACCGTTTGAAGACAACCA 59.062 45.455 0.00 0.00 35.63 3.67
2350 2610 3.200483 AGTGTACCGTTTGAAGACAACC 58.800 45.455 0.00 0.00 35.63 3.77
2351 2611 3.246936 GGAGTGTACCGTTTGAAGACAAC 59.753 47.826 0.00 0.00 35.63 3.32
2352 2612 3.460103 GGAGTGTACCGTTTGAAGACAA 58.540 45.455 0.00 0.00 0.00 3.18
2353 2613 2.224113 GGGAGTGTACCGTTTGAAGACA 60.224 50.000 0.00 0.00 0.00 3.41
2354 2614 2.036862 AGGGAGTGTACCGTTTGAAGAC 59.963 50.000 0.00 0.00 0.00 3.01
2355 2615 2.298163 GAGGGAGTGTACCGTTTGAAGA 59.702 50.000 0.00 0.00 0.00 2.87
2356 2616 2.685100 GAGGGAGTGTACCGTTTGAAG 58.315 52.381 0.00 0.00 0.00 3.02
2357 2617 1.000060 CGAGGGAGTGTACCGTTTGAA 60.000 52.381 0.00 0.00 0.00 2.69
2358 2618 0.599558 CGAGGGAGTGTACCGTTTGA 59.400 55.000 0.00 0.00 0.00 2.69
2359 2619 1.012486 GCGAGGGAGTGTACCGTTTG 61.012 60.000 0.00 0.00 0.00 2.93
2360 2620 1.291272 GCGAGGGAGTGTACCGTTT 59.709 57.895 0.00 0.00 0.00 3.60
2361 2621 2.968206 GCGAGGGAGTGTACCGTT 59.032 61.111 0.00 0.00 0.00 4.44
2362 2622 3.437795 CGCGAGGGAGTGTACCGT 61.438 66.667 0.00 0.00 0.00 4.83
2363 2623 3.437795 ACGCGAGGGAGTGTACCG 61.438 66.667 15.93 0.00 32.47 4.02
2364 2624 2.181021 CACGCGAGGGAGTGTACC 59.819 66.667 15.93 0.00 38.90 3.34
2365 2625 2.181021 CCACGCGAGGGAGTGTAC 59.819 66.667 15.93 0.00 41.72 2.90
2366 2626 2.282674 ACCACGCGAGGGAGTGTA 60.283 61.111 26.38 0.00 41.72 2.90
2367 2627 3.681835 GACCACGCGAGGGAGTGT 61.682 66.667 26.38 4.82 41.72 3.55
2368 2628 2.890847 GATGACCACGCGAGGGAGTG 62.891 65.000 26.38 6.34 42.77 3.51
2369 2629 2.680352 ATGACCACGCGAGGGAGT 60.680 61.111 26.38 5.64 35.60 3.85
2370 2630 2.105128 GATGACCACGCGAGGGAG 59.895 66.667 26.38 5.84 35.60 4.30
2371 2631 3.822192 CGATGACCACGCGAGGGA 61.822 66.667 26.38 12.95 35.60 4.20
2372 2632 4.873129 CCGATGACCACGCGAGGG 62.873 72.222 26.38 21.74 0.00 4.30
2378 2638 2.431771 TTGTCGCCGATGACCACG 60.432 61.111 0.00 0.00 38.11 4.94
2379 2639 2.740714 GCTTGTCGCCGATGACCAC 61.741 63.158 0.00 0.00 38.11 4.16
2380 2640 2.434185 GCTTGTCGCCGATGACCA 60.434 61.111 0.00 0.00 38.11 4.02
2381 2641 0.529773 TATGCTTGTCGCCGATGACC 60.530 55.000 0.00 0.00 38.11 4.02
2382 2642 1.502231 ATATGCTTGTCGCCGATGAC 58.498 50.000 0.00 0.64 39.37 3.06
2383 2643 3.592898 ATATATGCTTGTCGCCGATGA 57.407 42.857 0.00 0.00 38.05 2.92
2384 2644 5.331830 CGAATATATATGCTTGTCGCCGATG 60.332 44.000 0.00 0.00 38.05 3.84
2385 2645 4.740205 CGAATATATATGCTTGTCGCCGAT 59.260 41.667 0.00 0.00 38.05 4.18
2386 2646 4.102649 CGAATATATATGCTTGTCGCCGA 58.897 43.478 0.00 0.00 38.05 5.54
2387 2647 3.857665 ACGAATATATATGCTTGTCGCCG 59.142 43.478 11.77 0.00 38.05 6.46
2388 2648 4.032900 CCACGAATATATATGCTTGTCGCC 59.967 45.833 11.77 0.00 38.05 5.54
2389 2649 4.032900 CCCACGAATATATATGCTTGTCGC 59.967 45.833 11.77 0.00 39.77 5.19
2390 2650 4.032900 GCCCACGAATATATATGCTTGTCG 59.967 45.833 10.71 10.71 0.00 4.35
2391 2651 4.332819 GGCCCACGAATATATATGCTTGTC 59.667 45.833 6.48 0.00 0.00 3.18
2392 2652 4.019321 AGGCCCACGAATATATATGCTTGT 60.019 41.667 0.00 0.00 0.00 3.16
2393 2653 4.333649 CAGGCCCACGAATATATATGCTTG 59.666 45.833 0.00 0.00 0.00 4.01
2394 2654 4.517285 CAGGCCCACGAATATATATGCTT 58.483 43.478 0.00 0.00 0.00 3.91
2395 2655 3.682718 GCAGGCCCACGAATATATATGCT 60.683 47.826 0.00 0.00 0.00 3.79
2396 2656 2.614057 GCAGGCCCACGAATATATATGC 59.386 50.000 0.00 0.00 0.00 3.14
2397 2657 2.866156 CGCAGGCCCACGAATATATATG 59.134 50.000 9.32 0.00 0.00 1.78
2398 2658 2.500098 ACGCAGGCCCACGAATATATAT 59.500 45.455 20.78 0.00 0.00 0.86
2399 2659 1.897133 ACGCAGGCCCACGAATATATA 59.103 47.619 20.78 0.00 0.00 0.86
2400 2660 0.685097 ACGCAGGCCCACGAATATAT 59.315 50.000 20.78 0.00 0.00 0.86
2401 2661 0.249699 CACGCAGGCCCACGAATATA 60.250 55.000 20.78 0.00 0.00 0.86
2402 2662 1.523711 CACGCAGGCCCACGAATAT 60.524 57.895 20.78 0.00 0.00 1.28
2403 2663 2.125310 CACGCAGGCCCACGAATA 60.125 61.111 20.78 0.00 0.00 1.75
2408 2668 4.101448 ATCTCCACGCAGGCCCAC 62.101 66.667 0.00 0.00 37.29 4.61
2409 2669 3.785859 GATCTCCACGCAGGCCCA 61.786 66.667 0.00 0.00 37.29 5.36
2410 2670 4.554036 GGATCTCCACGCAGGCCC 62.554 72.222 0.00 0.00 37.29 5.80
2411 2671 3.785859 TGGATCTCCACGCAGGCC 61.786 66.667 0.00 0.00 42.01 5.19
2420 2680 4.637387 ATCAAGGTGATCATGGATCTCC 57.363 45.455 15.90 15.90 46.78 3.71


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

AutoCloner maintained by Alex Coulton.