Multiple sequence alignment - TraesCS7B01G459000

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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 TraesCS7B01G459000 chr7B 100.000 2621 0 0 1 2621 717029857 717027237 0.000000e+00 4841
1 TraesCS7B01G459000 chr7B 94.111 917 40 6 1182 2085 717052470 717051555 0.000000e+00 1382
2 TraesCS7B01G459000 chr7B 92.424 198 12 3 2419 2615 717038783 717038588 1.990000e-71 279
3 TraesCS7B01G459000 chr7B 90.604 149 13 1 2269 2417 717051505 717051358 2.060000e-46 196
4 TraesCS7B01G459000 chr7A 93.074 2108 112 12 7 2085 11943326 11945428 0.000000e+00 3053
5 TraesCS7B01G459000 chr7A 88.573 1724 187 7 7 1726 11583129 11581412 0.000000e+00 2084
6 TraesCS7B01G459000 chr7A 93.367 1372 73 9 729 2085 11844464 11845832 0.000000e+00 2013
7 TraesCS7B01G459000 chr7A 92.497 773 42 7 1327 2085 11891004 11891774 0.000000e+00 1092
8 TraesCS7B01G459000 chr7A 94.075 692 33 3 7 693 11843475 11844163 0.000000e+00 1044
9 TraesCS7B01G459000 chr7A 90.571 350 29 3 2266 2612 11891820 11892168 6.610000e-126 460
10 TraesCS7B01G459000 chr7A 90.000 350 30 4 2266 2612 11845878 11846225 5.150000e-122 448
11 TraesCS7B01G459000 chr7A 89.685 349 32 3 2266 2612 11945474 11945820 2.390000e-120 442
12 TraesCS7B01G459000 chr7A 77.741 611 102 16 1133 1723 11106209 11106805 6.950000e-91 344
13 TraesCS7B01G459000 chr7D 88.364 1693 185 10 7 1694 12189524 12187839 0.000000e+00 2025
14 TraesCS7B01G459000 chr4A 88.469 980 108 5 749 1726 725859902 725860878 0.000000e+00 1179
15 TraesCS7B01G459000 chr4A 94.180 189 10 1 2081 2268 11180663 11180475 1.190000e-73 287
16 TraesCS7B01G459000 chr4A 93.651 189 11 1 2081 2268 572708604 572708416 5.520000e-72 281
17 TraesCS7B01G459000 chr2A 94.180 189 10 1 2081 2268 729555056 729555244 1.190000e-73 287
18 TraesCS7B01G459000 chr4D 93.651 189 11 1 2081 2268 226385137 226384949 5.520000e-72 281
19 TraesCS7B01G459000 chr3D 93.684 190 9 3 2081 2268 488121086 488120898 5.520000e-72 281
20 TraesCS7B01G459000 chr3D 93.651 189 11 1 2081 2268 590751943 590751755 5.520000e-72 281
21 TraesCS7B01G459000 chr5A 93.158 190 11 2 2081 2268 148835692 148835881 7.140000e-71 278
22 TraesCS7B01G459000 chr5D 92.308 195 14 1 2075 2268 535008472 535008278 2.570000e-70 276
23 TraesCS7B01G459000 chr4B 91.837 196 16 0 2081 2276 132047381 132047186 9.240000e-70 274


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 TraesCS7B01G459000 chr7B 717027237 717029857 2620 True 4841.000000 4841 100.000000 1 2621 1 chr7B.!!$R1 2620
1 TraesCS7B01G459000 chr7B 717051358 717052470 1112 True 789.000000 1382 92.357500 1182 2417 2 chr7B.!!$R3 1235
2 TraesCS7B01G459000 chr7A 11581412 11583129 1717 True 2084.000000 2084 88.573000 7 1726 1 chr7A.!!$R1 1719
3 TraesCS7B01G459000 chr7A 11943326 11945820 2494 False 1747.500000 3053 91.379500 7 2612 2 chr7A.!!$F4 2605
4 TraesCS7B01G459000 chr7A 11843475 11846225 2750 False 1168.333333 2013 92.480667 7 2612 3 chr7A.!!$F2 2605
5 TraesCS7B01G459000 chr7A 11891004 11892168 1164 False 776.000000 1092 91.534000 1327 2612 2 chr7A.!!$F3 1285
6 TraesCS7B01G459000 chr7A 11106209 11106805 596 False 344.000000 344 77.741000 1133 1723 1 chr7A.!!$F1 590
7 TraesCS7B01G459000 chr7D 12187839 12189524 1685 True 2025.000000 2025 88.364000 7 1694 1 chr7D.!!$R1 1687
8 TraesCS7B01G459000 chr4A 725859902 725860878 976 False 1179.000000 1179 88.469000 749 1726 1 chr4A.!!$F1 977

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
640 646 0.592637 TCCATGACGCAACTTGCAAG 59.407 50.0 24.84 24.84 45.36 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2161 2483 0.033601 ATGAGCACCTCCGAGAGACT 60.034 55.0 0.0 0.0 0.0 3.24 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
34 35 2.945447 CATGCGTCCATGGATGTTTT 57.055 45.000 30.22 15.49 44.07 2.43
77 83 3.780294 AGTGTAGGATATGCCCTTTGTCA 59.220 43.478 0.00 0.00 37.74 3.58
87 93 1.551883 GCCCTTTGTCATCAAGGCATT 59.448 47.619 0.00 0.00 41.52 3.56
133 139 7.673926 ACTTTGATTTTTAGAAGGGGCAATAGA 59.326 33.333 0.00 0.00 0.00 1.98
304 310 3.047796 CAGAAGTTGCAGCAATGTGTTC 58.952 45.455 11.96 11.79 0.00 3.18
344 350 1.114627 GGGGCAACTTGATCAATCCC 58.885 55.000 19.15 19.15 0.00 3.85
352 358 1.331756 CTTGATCAATCCCGAAAGCCG 59.668 52.381 8.96 0.00 38.18 5.52
384 390 5.560966 AGCAAATCGGTTATACCAAAGTG 57.439 39.130 0.00 0.00 38.47 3.16
385 391 5.007682 AGCAAATCGGTTATACCAAAGTGT 58.992 37.500 0.00 0.00 38.47 3.55
390 396 7.548196 AATCGGTTATACCAAAGTGTATGTG 57.452 36.000 0.00 0.00 38.47 3.21
475 481 4.998671 TCTTTTTGCATTCAGTGGACAA 57.001 36.364 0.00 0.00 0.00 3.18
492 498 9.347240 CAGTGGACAATATTCTTTTGGATATCT 57.653 33.333 2.05 0.00 0.00 1.98
512 518 6.615264 ATCTATGATCAAGATGTGTTGCAC 57.385 37.500 15.33 0.00 32.44 4.57
556 562 9.971922 TCAGATGTGTAGTATCAACATCATTAG 57.028 33.333 18.32 10.02 39.50 1.73
640 646 0.592637 TCCATGACGCAACTTGCAAG 59.407 50.000 24.84 24.84 45.36 4.01
641 647 0.592637 CCATGACGCAACTTGCAAGA 59.407 50.000 32.50 8.89 45.36 3.02
743 1014 3.487942 CCACGCAAATATTCATGCACATG 59.512 43.478 11.62 4.18 42.68 3.21
787 1059 6.251655 AGATCAAAACTGAGCACTCAAATC 57.748 37.500 1.42 0.00 39.39 2.17
912 1184 8.853077 TCTCATACATCATATCCAACCATTTC 57.147 34.615 0.00 0.00 0.00 2.17
976 1249 3.499157 TGGTTGTAGTACAATTCAACGCC 59.501 43.478 18.35 12.96 40.59 5.68
1050 1327 3.848272 TTTTCCGCCATTGTCTTCATC 57.152 42.857 0.00 0.00 0.00 2.92
1163 1440 3.242712 GCCACATTAAACAACGCATATGC 59.757 43.478 18.08 18.08 37.78 3.14
1175 1452 1.882912 GCATATGCGGATCCTGTCAA 58.117 50.000 12.82 0.00 0.00 3.18
1239 1516 0.389757 CTAAGGCTAAGGACCTCCGC 59.610 60.000 0.00 0.00 42.08 5.54
1305 1583 1.142870 ACTACCAGCAGCAAGGTCAAA 59.857 47.619 12.44 0.00 39.31 2.69
1466 1768 2.327325 TGGTCCAAAGAGCTACTCCT 57.673 50.000 0.00 0.00 41.26 3.69
1550 1852 0.603065 GTGGGGGTTCTTGTCAATGC 59.397 55.000 0.00 0.00 0.00 3.56
1796 2103 0.787084 TTGGGGCCCATTGGTCTTTA 59.213 50.000 29.34 4.55 36.12 1.85
1860 2168 4.522789 GTGGACCTCTCTTTTAAATTGGCA 59.477 41.667 0.00 0.00 0.00 4.92
1870 2178 7.594758 TCTCTTTTAAATTGGCACTTGAAATCG 59.405 33.333 1.37 0.00 0.00 3.34
1880 2188 3.365264 GCACTTGAAATCGCATTGTCAGA 60.365 43.478 0.00 0.00 0.00 3.27
1882 2190 4.849926 CACTTGAAATCGCATTGTCAGAAG 59.150 41.667 0.00 0.00 0.00 2.85
1891 2201 8.641499 AATCGCATTGTCAGAAGTTTTTAAAA 57.359 26.923 0.00 0.00 0.00 1.52
2085 2407 5.784578 AATACCAAAGAACGAAGGCTTTT 57.215 34.783 0.00 0.00 34.86 2.27
2087 2409 4.830826 ACCAAAGAACGAAGGCTTTTAG 57.169 40.909 0.00 0.00 34.86 1.85
2088 2410 4.204799 ACCAAAGAACGAAGGCTTTTAGT 58.795 39.130 0.00 0.00 34.86 2.24
2090 2412 4.537015 CAAAGAACGAAGGCTTTTAGTGG 58.463 43.478 0.00 0.00 34.86 4.00
2091 2413 2.779506 AGAACGAAGGCTTTTAGTGGG 58.220 47.619 0.00 0.00 0.00 4.61
2092 2414 2.370849 AGAACGAAGGCTTTTAGTGGGA 59.629 45.455 0.00 0.00 0.00 4.37
2093 2415 2.474410 ACGAAGGCTTTTAGTGGGAG 57.526 50.000 0.00 0.00 0.00 4.30
2094 2416 1.003233 ACGAAGGCTTTTAGTGGGAGG 59.997 52.381 0.00 0.00 0.00 4.30
2095 2417 1.278127 CGAAGGCTTTTAGTGGGAGGA 59.722 52.381 0.00 0.00 0.00 3.71
2097 2419 2.344093 AGGCTTTTAGTGGGAGGAGA 57.656 50.000 0.00 0.00 0.00 3.71
2099 2421 1.405661 GGCTTTTAGTGGGAGGAGACG 60.406 57.143 0.00 0.00 0.00 4.18
2100 2422 1.275573 GCTTTTAGTGGGAGGAGACGT 59.724 52.381 0.00 0.00 0.00 4.34
2125 2447 4.883300 GACGACGAGGCGCCTACG 62.883 72.222 32.91 32.91 44.07 3.51
2129 2451 2.827190 ACGAGGCGCCTACGATGA 60.827 61.111 37.37 0.00 43.93 2.92
2130 2452 2.353607 CGAGGCGCCTACGATGAC 60.354 66.667 32.97 14.51 43.93 3.06
2131 2453 2.835705 CGAGGCGCCTACGATGACT 61.836 63.158 32.97 3.02 43.93 3.41
2132 2454 1.437986 GAGGCGCCTACGATGACTT 59.562 57.895 32.97 2.04 43.93 3.01
2133 2455 0.595310 GAGGCGCCTACGATGACTTC 60.595 60.000 32.97 9.38 43.93 3.01
2134 2456 1.141019 GGCGCCTACGATGACTTCA 59.859 57.895 22.15 0.00 43.93 3.02
2135 2457 0.249489 GGCGCCTACGATGACTTCAT 60.249 55.000 22.15 0.00 43.93 2.57
2136 2458 1.000607 GGCGCCTACGATGACTTCATA 60.001 52.381 22.15 0.00 43.93 2.15
2137 2459 2.545113 GGCGCCTACGATGACTTCATAA 60.545 50.000 22.15 0.00 43.93 1.90
2138 2460 3.120792 GCGCCTACGATGACTTCATAAA 58.879 45.455 0.00 0.00 43.93 1.40
2139 2461 3.741344 GCGCCTACGATGACTTCATAAAT 59.259 43.478 0.00 0.00 43.93 1.40
2140 2462 4.211374 GCGCCTACGATGACTTCATAAATT 59.789 41.667 0.00 0.00 43.93 1.82
2141 2463 5.277345 GCGCCTACGATGACTTCATAAATTT 60.277 40.000 0.00 0.00 43.93 1.82
2142 2464 6.355638 CGCCTACGATGACTTCATAAATTTC 58.644 40.000 0.00 0.00 43.93 2.17
2143 2465 6.019075 CGCCTACGATGACTTCATAAATTTCA 60.019 38.462 0.00 0.00 43.93 2.69
2144 2466 7.465379 CGCCTACGATGACTTCATAAATTTCAA 60.465 37.037 0.00 0.00 43.93 2.69
2145 2467 7.852945 GCCTACGATGACTTCATAAATTTCAAG 59.147 37.037 0.00 0.00 36.57 3.02
2146 2468 9.098355 CCTACGATGACTTCATAAATTTCAAGA 57.902 33.333 0.00 0.00 36.57 3.02
2149 2471 9.166173 ACGATGACTTCATAAATTTCAAGATGA 57.834 29.630 0.00 0.00 36.57 2.92
2156 2478 9.338291 CTTCATAAATTTCAAGATGATATGCCG 57.662 33.333 0.00 0.00 0.00 5.69
2157 2479 7.819644 TCATAAATTTCAAGATGATATGCCGG 58.180 34.615 0.00 0.00 0.00 6.13
2158 2480 7.448161 TCATAAATTTCAAGATGATATGCCGGT 59.552 33.333 1.90 0.00 0.00 5.28
2159 2481 5.695851 AATTTCAAGATGATATGCCGGTC 57.304 39.130 1.90 0.00 0.00 4.79
2160 2482 2.839486 TCAAGATGATATGCCGGTCC 57.161 50.000 1.90 0.00 0.00 4.46
2161 2483 2.046292 TCAAGATGATATGCCGGTCCA 58.954 47.619 1.90 0.00 0.00 4.02
2162 2484 2.037641 TCAAGATGATATGCCGGTCCAG 59.962 50.000 1.90 0.00 0.00 3.86
2163 2485 1.722034 AGATGATATGCCGGTCCAGT 58.278 50.000 1.90 0.00 0.00 4.00
2164 2486 1.620819 AGATGATATGCCGGTCCAGTC 59.379 52.381 1.90 0.00 0.00 3.51
2165 2487 1.620819 GATGATATGCCGGTCCAGTCT 59.379 52.381 1.90 0.00 0.00 3.24
2166 2488 1.040646 TGATATGCCGGTCCAGTCTC 58.959 55.000 1.90 0.00 0.00 3.36
2167 2489 1.333177 GATATGCCGGTCCAGTCTCT 58.667 55.000 1.90 0.00 0.00 3.10
2168 2490 1.271102 GATATGCCGGTCCAGTCTCTC 59.729 57.143 1.90 0.00 0.00 3.20
2169 2491 1.101635 TATGCCGGTCCAGTCTCTCG 61.102 60.000 1.90 0.00 0.00 4.04
2170 2492 3.827898 GCCGGTCCAGTCTCTCGG 61.828 72.222 1.90 0.00 43.13 4.63
2171 2493 2.045242 CCGGTCCAGTCTCTCGGA 60.045 66.667 0.00 0.00 42.94 4.55
2172 2494 2.115911 CCGGTCCAGTCTCTCGGAG 61.116 68.421 0.00 0.00 42.94 4.63
2173 2495 2.115911 CGGTCCAGTCTCTCGGAGG 61.116 68.421 4.96 0.00 29.98 4.30
2174 2496 1.000646 GGTCCAGTCTCTCGGAGGT 60.001 63.158 4.96 0.00 29.98 3.85
2175 2497 1.316706 GGTCCAGTCTCTCGGAGGTG 61.317 65.000 4.96 0.00 29.98 4.00
2176 2498 1.679305 TCCAGTCTCTCGGAGGTGC 60.679 63.158 4.96 0.00 0.00 5.01
2177 2499 1.680651 CCAGTCTCTCGGAGGTGCT 60.681 63.158 4.96 0.00 0.00 4.40
2178 2500 1.662438 CCAGTCTCTCGGAGGTGCTC 61.662 65.000 4.96 0.00 0.00 4.26
2179 2501 0.962855 CAGTCTCTCGGAGGTGCTCA 60.963 60.000 4.96 0.00 31.08 4.26
2180 2502 0.033601 AGTCTCTCGGAGGTGCTCAT 60.034 55.000 4.96 0.00 31.08 2.90
2181 2503 1.213182 AGTCTCTCGGAGGTGCTCATA 59.787 52.381 4.96 0.00 31.08 2.15
2182 2504 1.606668 GTCTCTCGGAGGTGCTCATAG 59.393 57.143 4.96 0.00 31.08 2.23
2183 2505 0.958091 CTCTCGGAGGTGCTCATAGG 59.042 60.000 4.96 0.00 31.08 2.57
2184 2506 0.551396 TCTCGGAGGTGCTCATAGGA 59.449 55.000 4.96 0.00 31.08 2.94
2185 2507 0.958091 CTCGGAGGTGCTCATAGGAG 59.042 60.000 0.00 0.00 44.33 3.69
2186 2508 0.259065 TCGGAGGTGCTCATAGGAGT 59.741 55.000 6.23 0.00 43.37 3.85
2187 2509 1.493446 TCGGAGGTGCTCATAGGAGTA 59.507 52.381 6.23 0.00 43.37 2.59
2188 2510 1.883275 CGGAGGTGCTCATAGGAGTAG 59.117 57.143 6.23 0.00 43.37 2.57
2189 2511 2.243810 GGAGGTGCTCATAGGAGTAGG 58.756 57.143 6.23 0.00 43.37 3.18
2190 2512 2.243810 GAGGTGCTCATAGGAGTAGGG 58.756 57.143 6.23 0.00 43.37 3.53
2191 2513 1.576272 AGGTGCTCATAGGAGTAGGGT 59.424 52.381 6.23 0.00 43.37 4.34
2192 2514 1.689273 GGTGCTCATAGGAGTAGGGTG 59.311 57.143 6.23 0.00 43.37 4.61
2193 2515 2.389715 GTGCTCATAGGAGTAGGGTGT 58.610 52.381 6.23 0.00 43.37 4.16
2194 2516 2.101582 GTGCTCATAGGAGTAGGGTGTG 59.898 54.545 6.23 0.00 43.37 3.82
2195 2517 1.069358 GCTCATAGGAGTAGGGTGTGC 59.931 57.143 6.23 0.00 43.37 4.57
2196 2518 1.338337 CTCATAGGAGTAGGGTGTGCG 59.662 57.143 0.00 0.00 36.36 5.34
2197 2519 1.112113 CATAGGAGTAGGGTGTGCGT 58.888 55.000 0.00 0.00 0.00 5.24
2198 2520 1.112113 ATAGGAGTAGGGTGTGCGTG 58.888 55.000 0.00 0.00 0.00 5.34
2199 2521 0.251474 TAGGAGTAGGGTGTGCGTGT 60.251 55.000 0.00 0.00 0.00 4.49
2200 2522 1.374252 GGAGTAGGGTGTGCGTGTG 60.374 63.158 0.00 0.00 0.00 3.82
2201 2523 1.366366 GAGTAGGGTGTGCGTGTGT 59.634 57.895 0.00 0.00 0.00 3.72
2202 2524 0.944311 GAGTAGGGTGTGCGTGTGTG 60.944 60.000 0.00 0.00 0.00 3.82
2203 2525 2.280524 TAGGGTGTGCGTGTGTGC 60.281 61.111 0.00 0.00 0.00 4.57
2206 2528 3.871574 GGTGTGCGTGTGTGCGTT 61.872 61.111 0.00 0.00 37.81 4.84
2207 2529 2.350760 GTGTGCGTGTGTGCGTTC 60.351 61.111 0.00 0.00 37.81 3.95
2208 2530 2.815647 TGTGCGTGTGTGCGTTCA 60.816 55.556 0.00 0.00 37.81 3.18
2209 2531 2.176926 TGTGCGTGTGTGCGTTCAT 61.177 52.632 0.00 0.00 37.81 2.57
2210 2532 0.876342 TGTGCGTGTGTGCGTTCATA 60.876 50.000 0.00 0.00 37.81 2.15
2211 2533 0.450482 GTGCGTGTGTGCGTTCATAC 60.450 55.000 0.00 0.00 37.81 2.39
2225 2547 3.425525 CGTTCATACGGATGAGTGTATGC 59.574 47.826 10.87 0.00 44.76 3.14
2226 2548 3.282831 TCATACGGATGAGTGTATGCG 57.717 47.619 6.12 0.00 44.76 4.73
2229 2551 3.345737 CGGATGAGTGTATGCGTGT 57.654 52.632 0.00 0.00 37.17 4.49
2230 2552 2.485266 CGGATGAGTGTATGCGTGTA 57.515 50.000 0.00 0.00 37.17 2.90
2231 2553 3.013276 CGGATGAGTGTATGCGTGTAT 57.987 47.619 0.00 0.00 37.17 2.29
2232 2554 2.726241 CGGATGAGTGTATGCGTGTATG 59.274 50.000 0.00 0.00 37.17 2.39
2233 2555 3.717707 GGATGAGTGTATGCGTGTATGT 58.282 45.455 0.00 0.00 0.00 2.29
2234 2556 4.555906 CGGATGAGTGTATGCGTGTATGTA 60.556 45.833 0.00 0.00 37.17 2.29
2235 2557 5.470368 GGATGAGTGTATGCGTGTATGTAT 58.530 41.667 0.00 0.00 0.00 2.29
2236 2558 5.346011 GGATGAGTGTATGCGTGTATGTATG 59.654 44.000 0.00 0.00 0.00 2.39
2237 2559 5.508200 TGAGTGTATGCGTGTATGTATGA 57.492 39.130 0.00 0.00 0.00 2.15
2238 2560 5.519722 TGAGTGTATGCGTGTATGTATGAG 58.480 41.667 0.00 0.00 0.00 2.90
2239 2561 4.299155 AGTGTATGCGTGTATGTATGAGC 58.701 43.478 0.00 0.00 0.00 4.26
2240 2562 3.119628 GTGTATGCGTGTATGTATGAGCG 59.880 47.826 0.00 0.00 0.00 5.03
2241 2563 1.139989 ATGCGTGTATGTATGAGCGC 58.860 50.000 0.00 0.00 44.29 5.92
2242 2564 0.102300 TGCGTGTATGTATGAGCGCT 59.898 50.000 11.27 11.27 44.34 5.92
2243 2565 1.209128 GCGTGTATGTATGAGCGCTT 58.791 50.000 13.26 0.00 41.37 4.68
2244 2566 1.071239 GCGTGTATGTATGAGCGCTTG 60.071 52.381 13.26 0.00 41.37 4.01
2245 2567 1.071239 CGTGTATGTATGAGCGCTTGC 60.071 52.381 13.26 0.00 39.58 4.01
2246 2568 1.071239 GTGTATGTATGAGCGCTTGCG 60.071 52.381 13.26 10.90 45.69 4.85
2247 2569 1.209128 GTATGTATGAGCGCTTGCGT 58.791 50.000 13.26 3.97 45.69 5.24
2248 2570 1.190323 GTATGTATGAGCGCTTGCGTC 59.810 52.381 13.26 12.36 45.69 5.19
2249 2571 0.179100 ATGTATGAGCGCTTGCGTCT 60.179 50.000 13.26 13.17 45.69 4.18
2250 2572 1.078201 TGTATGAGCGCTTGCGTCTG 61.078 55.000 13.26 0.00 45.69 3.51
2251 2573 1.078759 GTATGAGCGCTTGCGTCTGT 61.079 55.000 13.26 7.66 45.69 3.41
2252 2574 0.454196 TATGAGCGCTTGCGTCTGTA 59.546 50.000 13.26 6.26 45.69 2.74
2253 2575 1.078759 ATGAGCGCTTGCGTCTGTAC 61.079 55.000 13.26 0.00 45.69 2.90
2254 2576 1.444553 GAGCGCTTGCGTCTGTACT 60.445 57.895 13.26 3.73 45.69 2.73
2255 2577 1.678269 GAGCGCTTGCGTCTGTACTG 61.678 60.000 13.26 0.00 45.69 2.74
2256 2578 1.733041 GCGCTTGCGTCTGTACTGA 60.733 57.895 16.38 0.00 0.00 3.41
2257 2579 1.078759 GCGCTTGCGTCTGTACTGAT 61.079 55.000 16.38 0.00 0.00 2.90
2258 2580 0.642291 CGCTTGCGTCTGTACTGATG 59.358 55.000 15.57 15.57 0.00 3.07
2259 2581 1.714794 GCTTGCGTCTGTACTGATGT 58.285 50.000 19.48 0.00 0.00 3.06
2260 2582 2.069273 GCTTGCGTCTGTACTGATGTT 58.931 47.619 19.48 0.00 0.00 2.71
2261 2583 3.250744 GCTTGCGTCTGTACTGATGTTA 58.749 45.455 19.48 9.40 0.00 2.41
2262 2584 3.678072 GCTTGCGTCTGTACTGATGTTAA 59.322 43.478 19.48 14.64 0.00 2.01
2263 2585 4.151689 GCTTGCGTCTGTACTGATGTTAAA 59.848 41.667 19.48 12.39 0.00 1.52
2264 2586 5.333798 GCTTGCGTCTGTACTGATGTTAAAA 60.334 40.000 19.48 10.58 0.00 1.52
2287 2609 7.778470 AAAAACATAAAAATTGACAGCCGAA 57.222 28.000 0.00 0.00 0.00 4.30
2327 2649 6.494893 ACACACATGTAATAACGAAAGCAT 57.505 33.333 0.00 0.00 37.26 3.79
2339 2661 4.281525 ACGAAAGCATACAAACAAACGT 57.718 36.364 0.00 0.00 0.00 3.99
2435 2757 8.601047 TCCTATACATCAGATCTATTTCCTGG 57.399 38.462 0.00 0.00 0.00 4.45
2446 2768 5.505181 TCTATTTCCTGGCAATCCCTATC 57.495 43.478 0.00 0.00 0.00 2.08
2451 2773 0.604780 CTGGCAATCCCTATCTGGCG 60.605 60.000 0.00 0.00 38.41 5.69
2457 2779 2.109517 ATCCCTATCTGGCGCTGCAG 62.110 60.000 10.11 10.11 0.00 4.41
2507 2830 4.051167 CCTGCAGCCCACATCCCA 62.051 66.667 8.66 0.00 0.00 4.37
2509 2832 4.365111 TGCAGCCCACATCCCACC 62.365 66.667 0.00 0.00 0.00 4.61
2523 2846 4.457496 CACCGATGCGACTGGGCT 62.457 66.667 0.00 0.00 0.00 5.19
2526 2849 4.147449 CGATGCGACTGGGCTGGA 62.147 66.667 0.00 0.00 0.00 3.86
2600 2925 5.352284 GCAGGAAATCGAACTCAAGATCTA 58.648 41.667 0.00 0.00 0.00 1.98
2612 2937 9.872757 CGAACTCAAGATCTACTCTAGTAAATC 57.127 37.037 0.00 0.00 32.41 2.17
2615 2940 9.349713 ACTCAAGATCTACTCTAGTAAATCAGG 57.650 37.037 0.00 0.00 31.98 3.86
2616 2941 9.567776 CTCAAGATCTACTCTAGTAAATCAGGA 57.432 37.037 0.00 2.98 31.98 3.86
2617 2942 9.567776 TCAAGATCTACTCTAGTAAATCAGGAG 57.432 37.037 0.00 0.00 31.98 3.69
2618 2943 9.567776 CAAGATCTACTCTAGTAAATCAGGAGA 57.432 37.037 0.00 0.00 31.98 3.71
2619 2944 9.793259 AAGATCTACTCTAGTAAATCAGGAGAG 57.207 37.037 0.00 0.00 39.65 3.20
2620 2945 7.883311 AGATCTACTCTAGTAAATCAGGAGAGC 59.117 40.741 6.30 0.00 37.72 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.024579 GCATGTCCGAACATTCCCGT 61.025 55.000 0.00 0.00 43.74 5.28
1 2 1.721487 GCATGTCCGAACATTCCCG 59.279 57.895 0.00 0.00 43.74 5.14
2 3 1.024579 ACGCATGTCCGAACATTCCC 61.025 55.000 0.00 0.00 43.74 3.97
3 4 0.373716 GACGCATGTCCGAACATTCC 59.626 55.000 0.00 0.00 43.74 3.01
4 5 3.877801 GACGCATGTCCGAACATTC 57.122 52.632 0.00 0.00 43.74 2.67
344 350 2.927477 TGCTATTTCTACACGGCTTTCG 59.073 45.455 0.00 0.00 45.88 3.46
352 358 8.493547 GGTATAACCGATTTGCTATTTCTACAC 58.506 37.037 0.00 0.00 0.00 2.90
390 396 7.119699 TGTCAAATCCAGATTGATGTGTTCTAC 59.880 37.037 0.00 0.00 32.70 2.59
407 413 4.083110 CCCTCGCATTGATATGTCAAATCC 60.083 45.833 9.08 0.38 46.67 3.01
492 498 7.769970 TCATTAGTGCAACACATCTTGATCATA 59.230 33.333 0.00 0.00 41.43 2.15
504 510 4.022416 TCCACCATTTCATTAGTGCAACAC 60.022 41.667 0.00 0.00 41.43 3.32
512 518 6.600822 ACATCTGACTTCCACCATTTCATTAG 59.399 38.462 0.00 0.00 0.00 1.73
640 646 9.878599 CGTATAGTTGGGTTTCATAAATGAATC 57.121 33.333 6.24 5.85 45.30 2.52
641 647 8.349983 GCGTATAGTTGGGTTTCATAAATGAAT 58.650 33.333 6.24 0.00 45.30 2.57
688 694 5.044624 AGTTGGATGGATATGATGTATGGGG 60.045 44.000 0.00 0.00 0.00 4.96
912 1184 2.402564 ACAGATGGATGTGTAGGGGAG 58.597 52.381 0.00 0.00 31.96 4.30
976 1249 3.988379 TTGTTGCAAGGCTTGTTAGAG 57.012 42.857 26.71 2.31 0.00 2.43
1113 1390 2.481969 GCACGCTTCTATCATGAGGTCA 60.482 50.000 0.09 0.00 0.00 4.02
1163 1440 3.550437 ATTCCTCTTTGACAGGATCCG 57.450 47.619 5.98 3.99 39.91 4.18
1175 1452 4.065789 GGTCGTCAAACAGAATTCCTCTT 58.934 43.478 0.65 0.00 29.07 2.85
1305 1583 6.374053 CCTTCTTGGTGTTTTCCAACATTTTT 59.626 34.615 0.00 0.00 44.85 1.94
1354 1656 4.156008 GTCATAATCCACCTCACACAAACC 59.844 45.833 0.00 0.00 0.00 3.27
1466 1768 2.092699 TCACGTGCCATATCCATCCAAA 60.093 45.455 11.67 0.00 0.00 3.28
1538 1840 7.254829 CCAATTCATTGTTTGCATTGACAAGAA 60.255 33.333 13.78 15.06 40.21 2.52
1550 1852 3.126171 CAGCATGCCCAATTCATTGTTTG 59.874 43.478 15.66 0.00 36.06 2.93
1796 2103 9.860898 GGCATTATTGTAAGACTTTGAAGAAAT 57.139 29.630 0.00 0.00 0.00 2.17
1860 2168 4.516698 ACTTCTGACAATGCGATTTCAAGT 59.483 37.500 0.00 0.00 0.00 3.16
1891 2201 8.023128 CCGAAAAACATACTGACAATGAGATTT 58.977 33.333 0.00 0.00 0.00 2.17
1893 2203 6.878923 TCCGAAAAACATACTGACAATGAGAT 59.121 34.615 0.00 0.00 0.00 2.75
1894 2204 6.227522 TCCGAAAAACATACTGACAATGAGA 58.772 36.000 0.00 0.00 0.00 3.27
1895 2205 6.480524 TCCGAAAAACATACTGACAATGAG 57.519 37.500 0.00 0.00 0.00 2.90
1896 2206 6.429692 ACATCCGAAAAACATACTGACAATGA 59.570 34.615 0.00 0.00 0.00 2.57
1944 2266 7.201652 GGCTCTTCATACTTGAAAATACTCACC 60.202 40.741 0.00 0.00 41.22 4.02
2001 2323 0.872388 CTGTTGGCTAAACGGGTGAC 59.128 55.000 4.32 0.00 42.10 3.67
2067 2389 4.537015 CACTAAAAGCCTTCGTTCTTTGG 58.463 43.478 0.00 0.00 33.29 3.28
2068 2390 4.537015 CCACTAAAAGCCTTCGTTCTTTG 58.463 43.478 0.00 0.00 33.29 2.77
2077 2399 2.306219 GTCTCCTCCCACTAAAAGCCTT 59.694 50.000 0.00 0.00 0.00 4.35
2085 2407 3.277962 GGAACGTCTCCTCCCACTA 57.722 57.895 8.87 0.00 41.61 2.74
2107 2429 4.883300 GTAGGCGCCTCGTCGTCG 62.883 72.222 36.73 0.00 39.34 5.12
2108 2430 4.883300 CGTAGGCGCCTCGTCGTC 62.883 72.222 36.73 15.88 36.23 4.20
2110 2432 3.950254 ATCGTAGGCGCCTCGTCG 61.950 66.667 36.73 32.16 36.23 5.12
2111 2433 2.353607 CATCGTAGGCGCCTCGTC 60.354 66.667 36.73 22.80 38.14 4.20
2112 2434 2.827190 TCATCGTAGGCGCCTCGT 60.827 61.111 36.73 21.23 38.14 4.18
2113 2435 2.337749 AAGTCATCGTAGGCGCCTCG 62.338 60.000 36.73 32.58 38.14 4.63
2114 2436 0.595310 GAAGTCATCGTAGGCGCCTC 60.595 60.000 36.73 23.04 38.14 4.70
2115 2437 1.320344 TGAAGTCATCGTAGGCGCCT 61.320 55.000 34.85 34.85 38.14 5.52
2117 2439 2.417339 TATGAAGTCATCGTAGGCGC 57.583 50.000 0.00 0.00 37.76 6.53
2118 2440 5.907197 AATTTATGAAGTCATCGTAGGCG 57.093 39.130 0.00 0.00 37.76 5.52
2119 2441 7.246674 TGAAATTTATGAAGTCATCGTAGGC 57.753 36.000 0.00 0.00 37.76 3.93
2120 2442 9.098355 TCTTGAAATTTATGAAGTCATCGTAGG 57.902 33.333 0.00 0.00 37.76 3.18
2123 2445 9.166173 TCATCTTGAAATTTATGAAGTCATCGT 57.834 29.630 0.00 0.00 37.76 3.73
2130 2452 9.338291 CGGCATATCATCTTGAAATTTATGAAG 57.662 33.333 5.66 2.64 32.47 3.02
2131 2453 8.298854 CCGGCATATCATCTTGAAATTTATGAA 58.701 33.333 5.66 0.00 32.47 2.57
2132 2454 7.448161 ACCGGCATATCATCTTGAAATTTATGA 59.552 33.333 0.00 4.30 33.20 2.15
2133 2455 7.596494 ACCGGCATATCATCTTGAAATTTATG 58.404 34.615 0.00 0.00 0.00 1.90
2134 2456 7.094205 GGACCGGCATATCATCTTGAAATTTAT 60.094 37.037 0.00 0.00 0.00 1.40
2135 2457 6.206634 GGACCGGCATATCATCTTGAAATTTA 59.793 38.462 0.00 0.00 0.00 1.40
2136 2458 5.010012 GGACCGGCATATCATCTTGAAATTT 59.990 40.000 0.00 0.00 0.00 1.82
2137 2459 4.520492 GGACCGGCATATCATCTTGAAATT 59.480 41.667 0.00 0.00 0.00 1.82
2138 2460 4.074970 GGACCGGCATATCATCTTGAAAT 58.925 43.478 0.00 0.00 0.00 2.17
2139 2461 3.118075 TGGACCGGCATATCATCTTGAAA 60.118 43.478 0.00 0.00 0.00 2.69
2140 2462 2.437651 TGGACCGGCATATCATCTTGAA 59.562 45.455 0.00 0.00 0.00 2.69
2141 2463 2.037641 CTGGACCGGCATATCATCTTGA 59.962 50.000 0.00 0.00 0.00 3.02
2142 2464 2.224378 ACTGGACCGGCATATCATCTTG 60.224 50.000 0.00 0.00 0.00 3.02
2143 2465 2.037772 GACTGGACCGGCATATCATCTT 59.962 50.000 0.00 0.00 0.00 2.40
2144 2466 1.620819 GACTGGACCGGCATATCATCT 59.379 52.381 0.00 0.00 0.00 2.90
2145 2467 1.620819 AGACTGGACCGGCATATCATC 59.379 52.381 0.00 0.00 0.00 2.92
2146 2468 1.620819 GAGACTGGACCGGCATATCAT 59.379 52.381 0.00 0.00 0.00 2.45
2147 2469 1.040646 GAGACTGGACCGGCATATCA 58.959 55.000 0.00 0.00 0.00 2.15
2148 2470 1.271102 GAGAGACTGGACCGGCATATC 59.729 57.143 0.00 0.00 0.00 1.63
2149 2471 1.333177 GAGAGACTGGACCGGCATAT 58.667 55.000 0.00 0.00 0.00 1.78
2150 2472 1.101635 CGAGAGACTGGACCGGCATA 61.102 60.000 0.00 0.00 0.00 3.14
2151 2473 2.418910 CGAGAGACTGGACCGGCAT 61.419 63.158 0.00 0.00 0.00 4.40
2152 2474 3.062466 CGAGAGACTGGACCGGCA 61.062 66.667 0.00 0.00 0.00 5.69
2153 2475 3.827898 CCGAGAGACTGGACCGGC 61.828 72.222 0.00 0.00 33.47 6.13
2154 2476 2.045242 TCCGAGAGACTGGACCGG 60.045 66.667 0.00 0.00 41.36 5.28
2155 2477 2.115911 CCTCCGAGAGACTGGACCG 61.116 68.421 0.00 0.00 0.00 4.79
2156 2478 1.000646 ACCTCCGAGAGACTGGACC 60.001 63.158 0.00 0.00 0.00 4.46
2157 2479 1.939769 GCACCTCCGAGAGACTGGAC 61.940 65.000 0.00 0.00 0.00 4.02
2158 2480 1.679305 GCACCTCCGAGAGACTGGA 60.679 63.158 0.00 0.00 0.00 3.86
2159 2481 1.662438 GAGCACCTCCGAGAGACTGG 61.662 65.000 0.00 0.00 0.00 4.00
2160 2482 0.962855 TGAGCACCTCCGAGAGACTG 60.963 60.000 0.00 0.22 0.00 3.51
2161 2483 0.033601 ATGAGCACCTCCGAGAGACT 60.034 55.000 0.00 0.00 0.00 3.24
2162 2484 1.606668 CTATGAGCACCTCCGAGAGAC 59.393 57.143 0.00 0.00 0.00 3.36
2163 2485 1.477740 CCTATGAGCACCTCCGAGAGA 60.478 57.143 0.00 0.00 0.00 3.10
2164 2486 0.958091 CCTATGAGCACCTCCGAGAG 59.042 60.000 0.00 0.00 0.00 3.20
2165 2487 0.551396 TCCTATGAGCACCTCCGAGA 59.449 55.000 0.00 0.00 0.00 4.04
2166 2488 0.958091 CTCCTATGAGCACCTCCGAG 59.042 60.000 0.00 0.00 0.00 4.63
2167 2489 0.259065 ACTCCTATGAGCACCTCCGA 59.741 55.000 0.00 0.00 42.74 4.55
2168 2490 1.883275 CTACTCCTATGAGCACCTCCG 59.117 57.143 0.00 0.00 42.74 4.63
2169 2491 2.243810 CCTACTCCTATGAGCACCTCC 58.756 57.143 0.00 0.00 42.74 4.30
2170 2492 2.243810 CCCTACTCCTATGAGCACCTC 58.756 57.143 0.00 0.00 42.74 3.85
2171 2493 1.576272 ACCCTACTCCTATGAGCACCT 59.424 52.381 0.00 0.00 42.74 4.00
2172 2494 1.689273 CACCCTACTCCTATGAGCACC 59.311 57.143 0.00 0.00 42.74 5.01
2173 2495 2.101582 CACACCCTACTCCTATGAGCAC 59.898 54.545 0.00 0.00 42.74 4.40
2174 2496 2.388735 CACACCCTACTCCTATGAGCA 58.611 52.381 0.00 0.00 42.74 4.26
2175 2497 1.069358 GCACACCCTACTCCTATGAGC 59.931 57.143 0.00 0.00 42.74 4.26
2176 2498 1.338337 CGCACACCCTACTCCTATGAG 59.662 57.143 0.00 0.00 44.62 2.90
2177 2499 1.341679 ACGCACACCCTACTCCTATGA 60.342 52.381 0.00 0.00 0.00 2.15
2178 2500 1.112113 ACGCACACCCTACTCCTATG 58.888 55.000 0.00 0.00 0.00 2.23
2179 2501 1.112113 CACGCACACCCTACTCCTAT 58.888 55.000 0.00 0.00 0.00 2.57
2180 2502 0.251474 ACACGCACACCCTACTCCTA 60.251 55.000 0.00 0.00 0.00 2.94
2181 2503 1.533273 ACACGCACACCCTACTCCT 60.533 57.895 0.00 0.00 0.00 3.69
2182 2504 1.374252 CACACGCACACCCTACTCC 60.374 63.158 0.00 0.00 0.00 3.85
2183 2505 0.944311 CACACACGCACACCCTACTC 60.944 60.000 0.00 0.00 0.00 2.59
2184 2506 1.069090 CACACACGCACACCCTACT 59.931 57.895 0.00 0.00 0.00 2.57
2185 2507 2.604174 GCACACACGCACACCCTAC 61.604 63.158 0.00 0.00 0.00 3.18
2186 2508 2.280524 GCACACACGCACACCCTA 60.281 61.111 0.00 0.00 0.00 3.53
2189 2511 3.783588 GAACGCACACACGCACACC 62.784 63.158 0.00 0.00 36.19 4.16
2190 2512 2.350760 GAACGCACACACGCACAC 60.351 61.111 0.00 0.00 36.19 3.82
2191 2513 0.876342 TATGAACGCACACACGCACA 60.876 50.000 0.00 0.00 36.19 4.57
2192 2514 0.450482 GTATGAACGCACACACGCAC 60.450 55.000 0.00 0.00 36.19 5.34
2193 2515 1.856688 GTATGAACGCACACACGCA 59.143 52.632 0.00 0.00 36.19 5.24
2194 2516 1.225368 CGTATGAACGCACACACGC 60.225 57.895 0.86 0.00 43.12 5.34
2195 2517 4.997419 CGTATGAACGCACACACG 57.003 55.556 0.00 0.00 43.12 4.49
2203 2525 3.425525 GCATACACTCATCCGTATGAACG 59.574 47.826 12.46 0.00 45.09 3.95
2204 2526 3.425525 CGCATACACTCATCCGTATGAAC 59.574 47.826 12.46 0.00 45.09 3.18
2205 2527 3.067601 ACGCATACACTCATCCGTATGAA 59.932 43.478 12.46 0.00 45.09 2.57
2206 2528 2.621526 ACGCATACACTCATCCGTATGA 59.378 45.455 12.46 0.00 45.09 2.15
2207 2529 2.726241 CACGCATACACTCATCCGTATG 59.274 50.000 0.00 0.00 45.07 2.39
2208 2530 2.361119 ACACGCATACACTCATCCGTAT 59.639 45.455 0.00 0.00 0.00 3.06
2209 2531 1.746787 ACACGCATACACTCATCCGTA 59.253 47.619 0.00 0.00 0.00 4.02
2210 2532 0.530744 ACACGCATACACTCATCCGT 59.469 50.000 0.00 0.00 0.00 4.69
2211 2533 2.485266 TACACGCATACACTCATCCG 57.515 50.000 0.00 0.00 0.00 4.18
2212 2534 3.717707 ACATACACGCATACACTCATCC 58.282 45.455 0.00 0.00 0.00 3.51
2213 2535 6.149633 TCATACATACACGCATACACTCATC 58.850 40.000 0.00 0.00 0.00 2.92
2214 2536 6.084326 TCATACATACACGCATACACTCAT 57.916 37.500 0.00 0.00 0.00 2.90
2215 2537 5.508200 TCATACATACACGCATACACTCA 57.492 39.130 0.00 0.00 0.00 3.41
2216 2538 4.383052 GCTCATACATACACGCATACACTC 59.617 45.833 0.00 0.00 0.00 3.51
2217 2539 4.299155 GCTCATACATACACGCATACACT 58.701 43.478 0.00 0.00 0.00 3.55
2218 2540 3.119628 CGCTCATACATACACGCATACAC 59.880 47.826 0.00 0.00 0.00 2.90
2219 2541 3.305110 CGCTCATACATACACGCATACA 58.695 45.455 0.00 0.00 0.00 2.29
2220 2542 2.090658 GCGCTCATACATACACGCATAC 59.909 50.000 0.00 0.00 45.25 2.39
2221 2543 2.324860 GCGCTCATACATACACGCATA 58.675 47.619 0.00 0.00 45.25 3.14
2222 2544 1.139989 GCGCTCATACATACACGCAT 58.860 50.000 0.00 0.00 45.25 4.73
2223 2545 2.588731 GCGCTCATACATACACGCA 58.411 52.632 0.00 0.00 45.25 5.24
2224 2546 1.071239 CAAGCGCTCATACATACACGC 60.071 52.381 12.06 0.00 46.20 5.34
2225 2547 1.071239 GCAAGCGCTCATACATACACG 60.071 52.381 12.06 0.00 34.30 4.49
2226 2548 1.071239 CGCAAGCGCTCATACATACAC 60.071 52.381 12.06 0.00 35.30 2.90
2227 2549 1.208259 CGCAAGCGCTCATACATACA 58.792 50.000 12.06 0.00 35.30 2.29
2228 2550 1.190323 GACGCAAGCGCTCATACATAC 59.810 52.381 12.06 0.00 44.19 2.39
2229 2551 1.067060 AGACGCAAGCGCTCATACATA 59.933 47.619 12.06 0.00 44.19 2.29
2230 2552 0.179100 AGACGCAAGCGCTCATACAT 60.179 50.000 12.06 0.00 44.19 2.29
2231 2553 1.078201 CAGACGCAAGCGCTCATACA 61.078 55.000 12.06 0.00 44.19 2.29
2232 2554 1.078759 ACAGACGCAAGCGCTCATAC 61.079 55.000 12.06 1.58 44.19 2.39
2233 2555 0.454196 TACAGACGCAAGCGCTCATA 59.546 50.000 12.06 5.16 44.19 2.15
2234 2556 1.078759 GTACAGACGCAAGCGCTCAT 61.079 55.000 12.06 0.00 44.19 2.90
2235 2557 1.733041 GTACAGACGCAAGCGCTCA 60.733 57.895 12.06 0.83 44.19 4.26
2236 2558 1.444553 AGTACAGACGCAAGCGCTC 60.445 57.895 12.06 11.06 44.19 5.03
2237 2559 1.734477 CAGTACAGACGCAAGCGCT 60.734 57.895 15.09 2.64 44.19 5.92
2238 2560 1.078759 ATCAGTACAGACGCAAGCGC 61.079 55.000 15.09 0.00 44.19 5.92
2239 2561 0.642291 CATCAGTACAGACGCAAGCG 59.358 55.000 13.50 13.50 46.03 4.68
2240 2562 1.714794 ACATCAGTACAGACGCAAGC 58.285 50.000 0.00 0.00 45.62 4.01
2242 2564 6.606234 TTTTTAACATCAGTACAGACGCAA 57.394 33.333 0.00 0.00 0.00 4.85
2263 2585 7.778470 TTCGGCTGTCAATTTTTATGTTTTT 57.222 28.000 0.00 0.00 0.00 1.94
2264 2586 7.778470 TTTCGGCTGTCAATTTTTATGTTTT 57.222 28.000 0.00 0.00 0.00 2.43
2267 2589 7.961325 AAATTTCGGCTGTCAATTTTTATGT 57.039 28.000 10.58 0.00 27.77 2.29
2319 2641 4.497608 ACAACGTTTGTTTGTATGCTTTCG 59.502 37.500 0.00 0.00 42.22 3.46
2327 2649 4.761235 TGTTCCACAACGTTTGTTTGTA 57.239 36.364 0.00 0.00 43.23 2.41
2417 2739 5.415077 GGATTGCCAGGAAATAGATCTGATG 59.585 44.000 5.18 0.00 0.00 3.07
2426 2748 4.043310 CCAGATAGGGATTGCCAGGAAATA 59.957 45.833 0.00 0.00 35.15 1.40
2435 2757 1.072159 AGCGCCAGATAGGGATTGC 59.928 57.895 2.29 0.00 38.09 3.56
2451 2773 1.025041 GTTATAACAGGGCCTGCAGC 58.975 55.000 33.04 13.92 42.60 5.25
2457 2779 4.805219 CACAAAACAGTTATAACAGGGCC 58.195 43.478 17.65 0.00 0.00 5.80
2460 2782 7.160633 GTTTGCACAAAACAGTTATAACAGG 57.839 36.000 17.65 11.30 46.30 4.00
2507 2830 4.457496 CAGCCCAGTCGCATCGGT 62.457 66.667 0.00 0.00 0.00 4.69
2509 2832 4.147449 TCCAGCCCAGTCGCATCG 62.147 66.667 0.00 0.00 0.00 3.84
2523 2846 8.995027 AAATATAAAAGCAGATACATGGTCCA 57.005 30.769 0.00 0.00 0.00 4.02
2580 2905 6.801575 AGAGTAGATCTTGAGTTCGATTTCC 58.198 40.000 0.00 0.00 32.99 3.13


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

AutoCloner maintained by Alex Coulton.