Multiple sequence alignment - TraesCS4A01G414500

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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 TraesCS4A01G414500 chr4A 100.000 1839 0 0 870 2708 684905510 684903672 0.000000e+00 3397
1 TraesCS4A01G414500 chr4A 100.000 465 0 0 1 465 684906379 684905915 0.000000e+00 859
2 TraesCS4A01G414500 chr4D 91.400 1628 96 19 1110 2708 478239018 478237406 0.000000e+00 2191
3 TraesCS4A01G414500 chr4D 92.308 286 19 1 870 1155 478239294 478239012 1.170000e-108 403
4 TraesCS4A01G414500 chr4D 85.054 368 33 10 105 465 478240710 478240358 3.320000e-94 355
5 TraesCS4A01G414500 chr4D 93.909 197 12 0 870 1066 478240067 478239871 5.670000e-77 298
6 TraesCS4A01G414500 chr4D 82.946 258 28 10 2084 2332 478235897 478235647 4.540000e-53 219
7 TraesCS4A01G414500 chr4B 90.750 1654 92 28 870 2496 604550542 604548923 0.000000e+00 2150
8 TraesCS4A01G414500 chr4B 78.782 476 48 24 2 465 604551246 604550812 1.240000e-68 270
9 TraesCS4A01G414500 chr4B 84.375 256 26 9 2084 2332 604547904 604547656 3.480000e-59 239
10 TraesCS4A01G414500 chr4B 87.903 124 7 8 2336 2454 604542979 604542859 3.640000e-29 139


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 TraesCS4A01G414500 chr4A 684903672 684906379 2707 True 2128.000000 3397 100.000000 1 2708 2 chr4A.!!$R1 2707
1 TraesCS4A01G414500 chr4D 478235647 478240710 5063 True 693.200000 2191 89.123400 105 2708 5 chr4D.!!$R1 2603
2 TraesCS4A01G414500 chr4B 604547656 604551246 3590 True 886.333333 2150 84.635667 2 2496 3 chr4B.!!$R2 2494

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
57 58 1.153823 CCCTGTCCATGTCGTCGTC 60.154 63.158 0.00 0.0 0.00 4.20 F
1090 1788 0.109412 GCACAGCAATGCAGAGGAAC 60.109 55.000 8.35 0.0 45.39 3.62 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1369 2103 0.486879 TCCCCATTTTTGCACCTCCT 59.513 50.0 0.00 0.0 0.00 3.69 R
2454 3895 0.534203 ACACGAGTGCCAATCGGTTT 60.534 50.0 19.29 0.0 44.36 3.27 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
46 47 2.273449 CCAGCCATGTCCCTGTCC 59.727 66.667 0.00 0.00 0.00 4.02
56 57 1.605451 TCCCTGTCCATGTCGTCGT 60.605 57.895 0.00 0.00 0.00 4.34
57 58 1.153823 CCCTGTCCATGTCGTCGTC 60.154 63.158 0.00 0.00 0.00 4.20
58 59 1.514228 CCTGTCCATGTCGTCGTCG 60.514 63.158 0.00 0.00 38.55 5.12
68 69 4.796231 CGTCGTCGCCCCCTCTTG 62.796 72.222 0.00 0.00 0.00 3.02
75 76 4.416738 GCCCCCTCTTGCGCTTCT 62.417 66.667 9.73 0.00 0.00 2.85
76 77 2.437359 CCCCCTCTTGCGCTTCTG 60.437 66.667 9.73 0.00 0.00 3.02
77 78 3.130160 CCCCTCTTGCGCTTCTGC 61.130 66.667 9.73 0.00 0.00 4.26
78 79 2.046507 CCCTCTTGCGCTTCTGCT 60.047 61.111 9.73 0.00 36.97 4.24
79 80 1.673665 CCCTCTTGCGCTTCTGCTT 60.674 57.895 9.73 0.00 36.97 3.91
80 81 1.642952 CCCTCTTGCGCTTCTGCTTC 61.643 60.000 9.73 0.00 36.97 3.86
81 82 1.642952 CCTCTTGCGCTTCTGCTTCC 61.643 60.000 9.73 0.00 36.97 3.46
88 89 1.845809 CGCTTCTGCTTCCGCTTGTT 61.846 55.000 0.00 0.00 36.97 2.83
108 128 4.087892 CCCACCCTGCCTCACTCG 62.088 72.222 0.00 0.00 0.00 4.18
111 131 3.699894 ACCCTGCCTCACTCGCTG 61.700 66.667 0.00 0.00 0.00 5.18
118 138 1.214062 CCTCACTCGCTGACTCACC 59.786 63.158 0.00 0.00 0.00 4.02
144 172 2.791158 GCGCTCTCTCTCTCTTTCTTCG 60.791 54.545 0.00 0.00 0.00 3.79
167 195 2.938798 TTCCACTCCGGGCCCAAT 60.939 61.111 24.92 0.00 34.36 3.16
169 197 4.820744 CCACTCCGGGCCCAATGG 62.821 72.222 24.92 18.78 0.00 3.16
170 198 3.727258 CACTCCGGGCCCAATGGA 61.727 66.667 24.92 19.56 0.00 3.41
172 200 4.856801 CTCCGGGCCCAATGGACG 62.857 72.222 24.92 10.44 42.67 4.79
175 203 4.856801 CGGGCCCAATGGACGAGG 62.857 72.222 24.92 0.00 42.67 4.63
176 204 3.407967 GGGCCCAATGGACGAGGA 61.408 66.667 19.95 0.00 42.67 3.71
360 393 3.035727 GAGATCCTCGAGGTCGCC 58.964 66.667 30.17 18.22 39.60 5.54
361 394 1.824329 GAGATCCTCGAGGTCGCCA 60.824 63.158 30.17 11.97 39.60 5.69
362 395 2.065906 GAGATCCTCGAGGTCGCCAC 62.066 65.000 30.17 15.47 39.60 5.01
363 396 3.140225 GATCCTCGAGGTCGCCACC 62.140 68.421 30.17 9.49 44.19 4.61
364 397 3.957435 ATCCTCGAGGTCGCCACCA 62.957 63.158 30.17 9.59 46.68 4.17
388 421 1.230650 TCCTCCTCCTCCTCCCTCA 60.231 63.158 0.00 0.00 0.00 3.86
1041 1739 1.064946 CTCCTTCGCGTGCCTAGAG 59.935 63.158 5.77 1.51 0.00 2.43
1047 1745 4.228567 GCGTGCCTAGAGGAGCCC 62.229 72.222 0.00 0.00 37.39 5.19
1074 1772 2.032681 GTCACCAGGGTCAGGCAC 59.967 66.667 0.00 0.00 0.00 5.01
1075 1773 2.447572 TCACCAGGGTCAGGCACA 60.448 61.111 0.00 0.00 0.00 4.57
1090 1788 0.109412 GCACAGCAATGCAGAGGAAC 60.109 55.000 8.35 0.00 45.39 3.62
1096 1794 3.976701 AATGCAGAGGAACCGGCCG 62.977 63.158 21.04 21.04 0.00 6.13
1137 1871 1.522580 GGCATCCGAGAGCAGGAAC 60.523 63.158 0.00 0.00 41.69 3.62
1185 1919 3.787001 GAGGGGCCGAGGTTCAGG 61.787 72.222 0.00 0.00 0.00 3.86
1188 1922 3.787001 GGGCCGAGGTTCAGGGAG 61.787 72.222 0.00 0.00 0.00 4.30
1224 1958 2.111251 GCCGGCCTGGAGATAACC 59.889 66.667 18.11 0.00 42.00 2.85
1228 1962 1.905512 GGCCTGGAGATAACCGTGT 59.094 57.895 0.00 0.00 0.00 4.49
1230 1964 0.535335 GCCTGGAGATAACCGTGTCA 59.465 55.000 0.00 0.00 0.00 3.58
1392 2126 1.133199 AGGTGCAAAAATGGGGAGACA 60.133 47.619 0.00 0.00 0.00 3.41
1419 2153 4.165779 ACATCGAAAATGGCGAAATTCAC 58.834 39.130 0.00 0.00 41.52 3.18
1446 2180 3.239253 AACGGGTCGGCACTTCCT 61.239 61.111 0.00 0.00 0.00 3.36
1465 2199 2.359602 GCAGAGCAAGCCAGAGCA 60.360 61.111 0.00 0.00 43.56 4.26
1479 2213 2.614734 CCAGAGCACAAGCAGAAGATCA 60.615 50.000 0.00 0.00 45.49 2.92
1486 2220 3.072944 ACAAGCAGAAGATCACAAGCTC 58.927 45.455 0.00 0.00 0.00 4.09
1487 2221 3.072211 CAAGCAGAAGATCACAAGCTCA 58.928 45.455 0.00 0.00 0.00 4.26
1489 2223 2.038164 AGCAGAAGATCACAAGCTCACA 59.962 45.455 0.00 0.00 0.00 3.58
1497 2231 1.001974 TCACAAGCTCACACGGCTAAT 59.998 47.619 0.00 0.00 39.30 1.73
1503 2237 0.179073 CTCACACGGCTAATGGGGAG 60.179 60.000 0.00 0.00 0.00 4.30
1532 2266 3.197790 CCGCACGGATTGGCTCAG 61.198 66.667 2.01 0.00 37.50 3.35
1552 2286 2.309755 AGGAACAAGGAATGCAGGATCA 59.690 45.455 0.00 0.00 0.00 2.92
1593 2327 4.618920 TTACACTTCTCCTGGGAACTTC 57.381 45.455 0.00 0.00 0.00 3.01
1716 2450 1.264288 GGTTTCGTTTGAGTGGCTCAG 59.736 52.381 0.00 0.00 41.75 3.35
1718 2452 0.468226 TTCGTTTGAGTGGCTCAGGT 59.532 50.000 0.00 0.00 41.75 4.00
1793 2540 9.712305 TTCAGAATCTACTTGGTTTCTTAGAAG 57.288 33.333 0.00 0.00 0.00 2.85
1877 2624 6.859112 ACTTAGAGTCAGGAAGATTTAGCA 57.141 37.500 6.49 0.00 0.00 3.49
1915 2662 4.612486 GCTGCTGCTCTGTTCTTTTAAGAC 60.612 45.833 8.53 0.00 33.56 3.01
2050 2811 8.276252 ACTGTTCTAAACTTGTAACATGTTGT 57.724 30.769 21.42 7.40 33.19 3.32
2096 2860 3.657634 CCTATCCATGGACAAGATCACG 58.342 50.000 18.99 0.96 0.00 4.35
2111 2875 2.154854 TCACGAGCCAGAGAACTTTG 57.845 50.000 0.00 0.00 0.00 2.77
2125 2889 1.876322 ACTTTGAGCTGCTGTGTCTC 58.124 50.000 7.01 0.00 0.00 3.36
2165 2929 2.574006 ATGGCCCATATGCTACACAG 57.426 50.000 0.00 0.00 0.00 3.66
2185 2949 4.777896 ACAGCTTACACAGAGAAGGGAATA 59.222 41.667 0.00 0.00 0.00 1.75
2186 2950 5.248477 ACAGCTTACACAGAGAAGGGAATAA 59.752 40.000 0.00 0.00 0.00 1.40
2187 2951 6.069963 ACAGCTTACACAGAGAAGGGAATAAT 60.070 38.462 0.00 0.00 0.00 1.28
2270 3034 9.877178 CTGTTTCCTATATTTTGTAGACTGTCT 57.123 33.333 15.57 15.57 0.00 3.41
2304 3068 3.064545 GTCCATGCTGTTCATTGCTCTAC 59.935 47.826 0.00 0.00 31.79 2.59
2340 3775 0.107831 GCACTGGTGTGGTCCTTACA 59.892 55.000 2.64 0.00 43.97 2.41
2341 3776 1.878102 GCACTGGTGTGGTCCTTACAG 60.878 57.143 2.64 0.00 43.97 2.74
2368 3803 2.409948 GAGAGTTCTCAATGGTGGGG 57.590 55.000 4.30 0.00 42.42 4.96
2377 3818 1.228862 AATGGTGGGGTCCTTGTGC 60.229 57.895 0.00 0.00 0.00 4.57
2378 3819 2.730129 AATGGTGGGGTCCTTGTGCC 62.730 60.000 0.00 0.00 0.00 5.01
2395 3836 6.040729 CCTTGTGCCAAATGATTCCATATGTA 59.959 38.462 1.24 0.00 31.59 2.29
2396 3837 7.256048 CCTTGTGCCAAATGATTCCATATGTAT 60.256 37.037 1.24 0.00 31.59 2.29
2400 3841 5.127682 GCCAAATGATTCCATATGTATCCCC 59.872 44.000 1.24 0.00 31.59 4.81
2402 3843 6.725369 CCAAATGATTCCATATGTATCCCCAA 59.275 38.462 1.24 0.00 31.59 4.12
2403 3844 7.309990 CCAAATGATTCCATATGTATCCCCAAC 60.310 40.741 1.24 0.00 31.59 3.77
2405 3846 6.529084 TGATTCCATATGTATCCCCAACTT 57.471 37.500 1.24 0.00 0.00 2.66
2406 3847 6.542821 TGATTCCATATGTATCCCCAACTTC 58.457 40.000 1.24 0.00 0.00 3.01
2407 3848 5.985175 TTCCATATGTATCCCCAACTTCA 57.015 39.130 1.24 0.00 0.00 3.02
2408 3849 5.567037 TCCATATGTATCCCCAACTTCAG 57.433 43.478 1.24 0.00 0.00 3.02
2409 3850 4.975147 TCCATATGTATCCCCAACTTCAGT 59.025 41.667 1.24 0.00 0.00 3.41
2410 3851 5.071788 TCCATATGTATCCCCAACTTCAGTC 59.928 44.000 1.24 0.00 0.00 3.51
2415 3856 1.507140 TCCCCAACTTCAGTCAGTGT 58.493 50.000 0.00 0.00 0.00 3.55
2420 3861 4.504864 CCCCAACTTCAGTCAGTGTATTCA 60.505 45.833 0.00 0.00 0.00 2.57
2436 3877 8.993121 CAGTGTATTCACATCTTTAACTTGTCT 58.007 33.333 5.21 0.00 46.01 3.41
2439 3880 9.653287 TGTATTCACATCTTTAACTTGTCTAGG 57.347 33.333 0.00 0.00 0.00 3.02
2445 3886 8.311836 CACATCTTTAACTTGTCTAGGTAAGGA 58.688 37.037 6.42 6.42 43.67 3.36
2452 3893 9.979897 TTAACTTGTCTAGGTAAGGATACAGTA 57.020 33.333 10.35 0.00 31.02 2.74
2459 3900 8.510505 GTCTAGGTAAGGATACAGTATAAACCG 58.489 40.741 0.00 0.00 41.41 4.44
2460 3901 8.439971 TCTAGGTAAGGATACAGTATAAACCGA 58.560 37.037 0.00 0.00 41.41 4.69
2461 3902 9.240734 CTAGGTAAGGATACAGTATAAACCGAT 57.759 37.037 0.00 0.00 41.41 4.18
2463 3904 8.365647 AGGTAAGGATACAGTATAAACCGATTG 58.634 37.037 0.00 0.00 41.41 2.67
2464 3905 7.601508 GGTAAGGATACAGTATAAACCGATTGG 59.398 40.741 0.00 0.00 40.02 3.16
2465 3906 5.548406 AGGATACAGTATAAACCGATTGGC 58.452 41.667 0.00 0.00 37.86 4.52
2466 3907 5.071250 AGGATACAGTATAAACCGATTGGCA 59.929 40.000 0.00 0.00 37.86 4.92
2467 3908 5.178809 GGATACAGTATAAACCGATTGGCAC 59.821 44.000 0.00 0.00 39.70 5.01
2468 3909 4.216411 ACAGTATAAACCGATTGGCACT 57.784 40.909 0.00 0.00 39.70 4.40
2469 3910 4.189231 ACAGTATAAACCGATTGGCACTC 58.811 43.478 0.00 0.00 39.70 3.51
2470 3911 3.245284 CAGTATAAACCGATTGGCACTCG 59.755 47.826 18.97 18.97 39.70 4.18
2471 3912 2.396590 ATAAACCGATTGGCACTCGT 57.603 45.000 22.96 9.73 39.70 4.18
2472 3913 1.434555 TAAACCGATTGGCACTCGTG 58.565 50.000 22.96 17.00 39.70 4.35
2473 3914 0.534203 AAACCGATTGGCACTCGTGT 60.534 50.000 22.96 17.55 39.70 4.49
2474 3915 0.319083 AACCGATTGGCACTCGTGTA 59.681 50.000 22.96 0.00 39.70 2.90
2475 3916 0.535335 ACCGATTGGCACTCGTGTAT 59.465 50.000 22.96 5.78 39.70 2.29
2479 3920 3.416277 CGATTGGCACTCGTGTATTTTG 58.584 45.455 17.85 0.00 0.00 2.44
2480 3921 3.120338 CGATTGGCACTCGTGTATTTTGT 60.120 43.478 17.85 0.00 0.00 2.83
2484 3925 5.752892 TGGCACTCGTGTATTTTGTTTTA 57.247 34.783 0.00 0.00 0.00 1.52
2485 3926 5.753744 TGGCACTCGTGTATTTTGTTTTAG 58.246 37.500 0.00 0.00 0.00 1.85
2486 3927 5.297278 TGGCACTCGTGTATTTTGTTTTAGT 59.703 36.000 0.00 0.00 0.00 2.24
2487 3928 5.849604 GGCACTCGTGTATTTTGTTTTAGTC 59.150 40.000 0.00 0.00 0.00 2.59
2499 3940 6.628919 TTTGTTTTAGTCTAGGAAACAGGC 57.371 37.500 8.96 0.00 42.25 4.85
2504 3945 6.817765 TTTAGTCTAGGAAACAGGCATTTG 57.182 37.500 0.00 0.00 0.00 2.32
2507 3948 5.006386 AGTCTAGGAAACAGGCATTTGAAG 58.994 41.667 0.00 0.00 0.00 3.02
2509 3950 2.962859 AGGAAACAGGCATTTGAAGGT 58.037 42.857 0.00 0.00 0.00 3.50
2515 3961 3.820595 GGCATTTGAAGGTCTTGCC 57.179 52.632 0.00 0.00 45.31 4.52
2532 3978 5.355350 GTCTTGCCTGTATATGTTTGCTCTT 59.645 40.000 0.00 0.00 0.00 2.85
2539 3985 6.933521 CCTGTATATGTTTGCTCTTGCTAGAT 59.066 38.462 0.00 0.00 40.48 1.98
2557 4003 3.096092 AGATCAGCTAGCTATGTAGGGC 58.904 50.000 18.86 1.43 0.00 5.19
2558 4004 1.633774 TCAGCTAGCTATGTAGGGCC 58.366 55.000 18.86 0.00 0.00 5.80
2559 4005 1.133167 TCAGCTAGCTATGTAGGGCCA 60.133 52.381 18.86 0.00 0.00 5.36
2560 4006 1.001406 CAGCTAGCTATGTAGGGCCAC 59.999 57.143 18.86 2.35 0.00 5.01
2561 4007 1.133009 AGCTAGCTATGTAGGGCCACT 60.133 52.381 17.69 1.30 0.00 4.00
2562 4008 1.694696 GCTAGCTATGTAGGGCCACTT 59.305 52.381 7.70 3.10 0.00 3.16
2563 4009 2.104963 GCTAGCTATGTAGGGCCACTTT 59.895 50.000 7.70 0.00 0.00 2.66
2566 4012 3.356290 AGCTATGTAGGGCCACTTTTTG 58.644 45.455 6.18 0.00 0.00 2.44
2567 4013 3.010138 AGCTATGTAGGGCCACTTTTTGA 59.990 43.478 6.18 0.00 0.00 2.69
2568 4014 3.378427 GCTATGTAGGGCCACTTTTTGAG 59.622 47.826 6.18 0.00 0.00 3.02
2570 4016 1.777878 TGTAGGGCCACTTTTTGAGGA 59.222 47.619 6.18 0.00 0.00 3.71
2571 4017 2.160205 GTAGGGCCACTTTTTGAGGAC 58.840 52.381 6.18 0.00 33.27 3.85
2572 4018 0.555769 AGGGCCACTTTTTGAGGACA 59.444 50.000 6.18 0.00 36.01 4.02
2573 4019 1.147817 AGGGCCACTTTTTGAGGACAT 59.852 47.619 6.18 0.00 36.01 3.06
2575 4021 2.368548 GGGCCACTTTTTGAGGACATTT 59.631 45.455 4.39 0.00 36.01 2.32
2576 4022 3.576550 GGGCCACTTTTTGAGGACATTTA 59.423 43.478 4.39 0.00 36.01 1.40
2578 4024 5.410924 GGCCACTTTTTGAGGACATTTATC 58.589 41.667 0.00 0.00 34.30 1.75
2579 4025 5.185828 GGCCACTTTTTGAGGACATTTATCT 59.814 40.000 0.00 0.00 34.30 1.98
2580 4026 6.095377 GCCACTTTTTGAGGACATTTATCTG 58.905 40.000 0.00 0.00 0.00 2.90
2581 4027 6.294731 GCCACTTTTTGAGGACATTTATCTGT 60.295 38.462 0.00 0.00 0.00 3.41
2583 4029 7.809806 CCACTTTTTGAGGACATTTATCTGTTC 59.190 37.037 0.00 0.00 0.00 3.18
2584 4030 8.571336 CACTTTTTGAGGACATTTATCTGTTCT 58.429 33.333 0.00 0.00 37.70 3.01
2585 4031 9.136323 ACTTTTTGAGGACATTTATCTGTTCTT 57.864 29.630 0.00 0.00 35.03 2.52
2586 4032 9.403110 CTTTTTGAGGACATTTATCTGTTCTTG 57.597 33.333 0.00 0.00 35.03 3.02
2588 4034 8.463930 TTTGAGGACATTTATCTGTTCTTGTT 57.536 30.769 0.00 0.00 35.03 2.83
2591 4037 8.567948 TGAGGACATTTATCTGTTCTTGTTTTC 58.432 33.333 0.00 0.00 35.03 2.29
2592 4038 8.697507 AGGACATTTATCTGTTCTTGTTTTCT 57.302 30.769 0.00 0.00 30.42 2.52
2593 4039 9.136323 AGGACATTTATCTGTTCTTGTTTTCTT 57.864 29.630 0.00 0.00 30.42 2.52
2597 4043 7.678194 TTTATCTGTTCTTGTTTTCTTTGCG 57.322 32.000 0.00 0.00 0.00 4.85
2598 4044 3.434637 TCTGTTCTTGTTTTCTTTGCGC 58.565 40.909 0.00 0.00 0.00 6.09
2599 4045 3.119673 TCTGTTCTTGTTTTCTTTGCGCA 60.120 39.130 5.66 5.66 0.00 6.09
2600 4046 3.579709 TGTTCTTGTTTTCTTTGCGCAA 58.420 36.364 21.02 21.02 0.00 4.85
2601 4047 3.366422 TGTTCTTGTTTTCTTTGCGCAAC 59.634 39.130 24.99 11.89 0.00 4.17
2602 4048 2.181205 TCTTGTTTTCTTTGCGCAACG 58.819 42.857 24.99 22.06 0.00 4.10
2616 4062 2.908634 CGCAACGCCTGAATTATGATC 58.091 47.619 0.00 0.00 0.00 2.92
2617 4063 2.349817 CGCAACGCCTGAATTATGATCC 60.350 50.000 0.00 0.00 0.00 3.36
2618 4064 2.880890 GCAACGCCTGAATTATGATCCT 59.119 45.455 0.00 0.00 0.00 3.24
2619 4065 3.316308 GCAACGCCTGAATTATGATCCTT 59.684 43.478 0.00 0.00 0.00 3.36
2620 4066 4.790766 GCAACGCCTGAATTATGATCCTTG 60.791 45.833 0.00 0.00 0.00 3.61
2624 4070 4.689812 CGCCTGAATTATGATCCTTGAGAG 59.310 45.833 0.00 0.00 0.00 3.20
2633 4079 8.774546 ATTATGATCCTTGAGAGTTCAGACTA 57.225 34.615 0.00 0.00 35.88 2.59
2634 4080 8.774546 TTATGATCCTTGAGAGTTCAGACTAT 57.225 34.615 0.00 0.00 35.88 2.12
2636 4082 7.106439 TGATCCTTGAGAGTTCAGACTATTC 57.894 40.000 0.00 0.00 35.88 1.75
2637 4083 6.665248 TGATCCTTGAGAGTTCAGACTATTCA 59.335 38.462 0.00 0.00 35.88 2.57
2638 4084 6.918067 TCCTTGAGAGTTCAGACTATTCAA 57.082 37.500 0.00 0.00 37.29 2.69
2651 4101 8.268850 TCAGACTATTCAATTCTTAAACAGGC 57.731 34.615 0.00 0.00 0.00 4.85
2654 4104 8.103305 AGACTATTCAATTCTTAAACAGGCTGA 58.897 33.333 23.66 0.00 0.00 4.26
2662 4112 8.598075 CAATTCTTAAACAGGCTGAATATTTGC 58.402 33.333 23.66 6.01 0.00 3.68
2663 4113 5.879237 TCTTAAACAGGCTGAATATTTGCG 58.121 37.500 23.66 6.87 0.00 4.85
2664 4114 5.645929 TCTTAAACAGGCTGAATATTTGCGA 59.354 36.000 23.66 8.92 0.00 5.10
2665 4115 4.989279 AAACAGGCTGAATATTTGCGAT 57.011 36.364 23.66 0.00 0.00 4.58
2667 4117 2.620115 ACAGGCTGAATATTTGCGATGG 59.380 45.455 23.66 0.00 0.00 3.51
2672 4122 4.275936 GGCTGAATATTTGCGATGGTACTT 59.724 41.667 7.85 0.00 0.00 2.24
2675 4125 7.308589 GGCTGAATATTTGCGATGGTACTTTAT 60.309 37.037 7.85 0.00 0.00 1.40
2676 4126 7.746475 GCTGAATATTTGCGATGGTACTTTATC 59.254 37.037 0.00 0.00 0.00 1.75
2677 4127 8.094798 TGAATATTTGCGATGGTACTTTATCC 57.905 34.615 0.00 0.00 0.00 2.59
2678 4128 7.174253 TGAATATTTGCGATGGTACTTTATCCC 59.826 37.037 0.00 0.00 0.00 3.85
2679 4129 4.497291 TTTGCGATGGTACTTTATCCCT 57.503 40.909 0.00 0.00 0.00 4.20
2682 4132 3.322828 TGCGATGGTACTTTATCCCTACC 59.677 47.826 0.00 0.00 0.00 3.18
2683 4133 3.577415 GCGATGGTACTTTATCCCTACCT 59.423 47.826 0.00 0.00 32.50 3.08
2687 4137 6.662234 CGATGGTACTTTATCCCTACCTATCA 59.338 42.308 0.00 0.00 32.50 2.15
2688 4138 7.342284 CGATGGTACTTTATCCCTACCTATCAT 59.658 40.741 0.00 0.00 32.50 2.45
2689 4139 8.611051 ATGGTACTTTATCCCTACCTATCATC 57.389 38.462 0.00 0.00 32.50 2.92
2690 4140 6.662234 TGGTACTTTATCCCTACCTATCATCG 59.338 42.308 0.00 0.00 32.50 3.84
2691 4141 5.662674 ACTTTATCCCTACCTATCATCGC 57.337 43.478 0.00 0.00 0.00 4.58
2693 4143 2.623418 ATCCCTACCTATCATCGCCA 57.377 50.000 0.00 0.00 0.00 5.69
2694 4144 1.924731 TCCCTACCTATCATCGCCAG 58.075 55.000 0.00 0.00 0.00 4.85
2695 4145 1.147191 TCCCTACCTATCATCGCCAGT 59.853 52.381 0.00 0.00 0.00 4.00
2696 4146 1.273606 CCCTACCTATCATCGCCAGTG 59.726 57.143 0.00 0.00 0.00 3.66
2697 4147 2.239400 CCTACCTATCATCGCCAGTGA 58.761 52.381 0.00 0.00 0.00 3.41
2698 4148 2.628178 CCTACCTATCATCGCCAGTGAA 59.372 50.000 0.00 0.00 0.00 3.18
2699 4149 2.898729 ACCTATCATCGCCAGTGAAG 57.101 50.000 0.00 0.00 0.00 3.02
2701 4151 3.296854 ACCTATCATCGCCAGTGAAGTA 58.703 45.455 0.00 0.00 0.00 2.24
2702 4152 3.068307 ACCTATCATCGCCAGTGAAGTAC 59.932 47.826 0.00 0.00 0.00 2.73
2703 4153 3.319405 CCTATCATCGCCAGTGAAGTACT 59.681 47.826 0.00 0.00 41.36 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.229062 GGCCTCCGAAAAGAAAGAAAGG 59.771 50.000 0.00 0.00 0.00 3.11
41 42 2.152699 GCGACGACGACATGGACAG 61.153 63.158 12.29 0.00 42.66 3.51
58 59 4.416738 AGAAGCGCAAGAGGGGGC 62.417 66.667 11.47 0.00 46.06 5.80
77 78 1.971695 GTGGGGGAACAAGCGGAAG 60.972 63.158 0.00 0.00 0.00 3.46
78 79 2.114411 GTGGGGGAACAAGCGGAA 59.886 61.111 0.00 0.00 0.00 4.30
79 80 3.961414 GGTGGGGGAACAAGCGGA 61.961 66.667 0.00 0.00 0.00 5.54
81 82 3.966543 AGGGTGGGGGAACAAGCG 61.967 66.667 0.00 0.00 0.00 4.68
125 145 2.099098 CCCGAAGAAAGAGAGAGAGAGC 59.901 54.545 0.00 0.00 0.00 4.09
126 146 3.616219 TCCCGAAGAAAGAGAGAGAGAG 58.384 50.000 0.00 0.00 0.00 3.20
127 147 3.616219 CTCCCGAAGAAAGAGAGAGAGA 58.384 50.000 0.00 0.00 0.00 3.10
128 148 2.099098 GCTCCCGAAGAAAGAGAGAGAG 59.901 54.545 0.00 0.00 0.00 3.20
129 149 2.096248 GCTCCCGAAGAAAGAGAGAGA 58.904 52.381 0.00 0.00 0.00 3.10
130 150 2.099405 AGCTCCCGAAGAAAGAGAGAG 58.901 52.381 0.00 0.00 0.00 3.20
131 151 2.223803 AGCTCCCGAAGAAAGAGAGA 57.776 50.000 0.00 0.00 0.00 3.10
159 187 3.406595 CTCCTCGTCCATTGGGCCC 62.407 68.421 17.59 17.59 0.00 5.80
165 193 2.066999 GCCCTCCTCCTCGTCCATT 61.067 63.158 0.00 0.00 0.00 3.16
167 195 4.779733 GGCCCTCCTCCTCGTCCA 62.780 72.222 0.00 0.00 0.00 4.02
360 393 1.687493 GGAGGAGGAGGAGGTGGTG 60.687 68.421 0.00 0.00 0.00 4.17
361 394 1.864559 AGGAGGAGGAGGAGGTGGT 60.865 63.158 0.00 0.00 0.00 4.16
362 395 1.075600 GAGGAGGAGGAGGAGGTGG 60.076 68.421 0.00 0.00 0.00 4.61
363 396 1.075600 GGAGGAGGAGGAGGAGGTG 60.076 68.421 0.00 0.00 0.00 4.00
364 397 1.230819 AGGAGGAGGAGGAGGAGGT 60.231 63.158 0.00 0.00 0.00 3.85
431 464 2.125512 CTTCTTGGTCGCCGGGAG 60.126 66.667 2.18 0.00 0.00 4.30
432 465 2.602267 TCTTCTTGGTCGCCGGGA 60.602 61.111 2.18 0.00 0.00 5.14
1074 1772 1.651240 CCGGTTCCTCTGCATTGCTG 61.651 60.000 10.49 9.74 0.00 4.41
1075 1773 1.377725 CCGGTTCCTCTGCATTGCT 60.378 57.895 10.49 0.00 0.00 3.91
1119 1817 1.522580 GTTCCTGCTCTCGGATGCC 60.523 63.158 1.63 0.00 0.00 4.40
1123 1857 3.068691 CCCGTTCCTGCTCTCGGA 61.069 66.667 4.00 0.00 44.86 4.55
1125 1859 4.148825 CCCCCGTTCCTGCTCTCG 62.149 72.222 0.00 0.00 0.00 4.04
1185 1919 1.685421 ACTGCAGCTCCTCCTCTCC 60.685 63.158 15.27 0.00 0.00 3.71
1187 1921 1.078166 TCACTGCAGCTCCTCCTCT 59.922 57.895 15.27 0.00 0.00 3.69
1188 1922 1.217779 GTCACTGCAGCTCCTCCTC 59.782 63.158 15.27 0.00 0.00 3.71
1214 1948 0.535335 GGCTGACACGGTTATCTCCA 59.465 55.000 0.00 0.00 0.00 3.86
1224 1958 1.373497 GACACCTGAGGCTGACACG 60.373 63.158 0.00 0.00 0.00 4.49
1228 1962 2.997315 CCGGACACCTGAGGCTGA 60.997 66.667 0.00 0.00 0.00 4.26
1369 2103 0.486879 TCCCCATTTTTGCACCTCCT 59.513 50.000 0.00 0.00 0.00 3.69
1377 2111 3.636300 TGTCTGTTGTCTCCCCATTTTTG 59.364 43.478 0.00 0.00 0.00 2.44
1392 2126 2.422597 TCGCCATTTTCGATGTCTGTT 58.577 42.857 0.00 0.00 0.00 3.16
1465 2199 3.072944 GAGCTTGTGATCTTCTGCTTGT 58.927 45.455 0.00 0.00 0.00 3.16
1479 2213 1.442769 CATTAGCCGTGTGAGCTTGT 58.557 50.000 0.00 0.00 41.83 3.16
1486 2220 1.153168 CCTCCCCATTAGCCGTGTG 60.153 63.158 0.00 0.00 0.00 3.82
1487 2221 1.306654 TCCTCCCCATTAGCCGTGT 60.307 57.895 0.00 0.00 0.00 4.49
1489 2223 2.444256 GCTCCTCCCCATTAGCCGT 61.444 63.158 0.00 0.00 0.00 5.68
1497 2231 0.625849 GGAAATTCTGCTCCTCCCCA 59.374 55.000 0.00 0.00 0.00 4.96
1532 2266 2.686915 CTGATCCTGCATTCCTTGTTCC 59.313 50.000 0.00 0.00 0.00 3.62
1552 2286 4.079850 CACGCTCCTGCTCCTGCT 62.080 66.667 0.00 0.00 40.48 4.24
1578 2312 4.141711 CCATTATCGAAGTTCCCAGGAGAA 60.142 45.833 0.00 0.00 0.00 2.87
1593 2327 0.603707 ACCGCAGCATCCCATTATCG 60.604 55.000 0.00 0.00 0.00 2.92
1716 2450 7.771183 TCTTCTAAAATGTATGGCATTCAACC 58.229 34.615 10.92 0.00 46.29 3.77
1718 2452 8.415553 CCATCTTCTAAAATGTATGGCATTCAA 58.584 33.333 10.92 0.00 46.29 2.69
1793 2540 5.054477 TGAACAACTTACAGAGTTAGCCAC 58.946 41.667 0.00 0.00 46.75 5.01
1898 2645 6.006759 AGCAATGTCTTAAAAGAACAGAGC 57.993 37.500 0.00 4.56 36.68 4.09
1915 2662 7.119407 CAGTCCTGATTCCATCTATAAGCAATG 59.881 40.741 0.00 0.00 0.00 2.82
2041 2800 3.055530 TGTTTTGGAGGCAACAACATGTT 60.056 39.130 4.92 4.92 42.08 2.71
2050 2811 2.533916 TGGCATATGTTTTGGAGGCAA 58.466 42.857 4.29 0.00 0.00 4.52
2096 2860 2.075338 CAGCTCAAAGTTCTCTGGCTC 58.925 52.381 0.00 0.00 0.00 4.70
2111 2875 5.595885 TCTAATAATGAGACACAGCAGCTC 58.404 41.667 0.00 0.00 0.00 4.09
2165 2929 9.998106 TTATATTATTCCCTTCTCTGTGTAAGC 57.002 33.333 0.00 0.00 0.00 3.09
2185 2949 9.113838 CAGGAAAGTTCATACACAGCTTATATT 57.886 33.333 0.00 0.00 0.00 1.28
2186 2950 7.227512 GCAGGAAAGTTCATACACAGCTTATAT 59.772 37.037 0.00 0.00 0.00 0.86
2187 2951 6.538742 GCAGGAAAGTTCATACACAGCTTATA 59.461 38.462 0.00 0.00 0.00 0.98
2268 3032 2.552155 GCATGGACCAGTGGTTAACAGA 60.552 50.000 17.93 0.00 35.25 3.41
2270 3034 1.423541 AGCATGGACCAGTGGTTAACA 59.576 47.619 17.93 16.12 35.25 2.41
2304 3068 2.230508 AGTGCAGCCTCAATGTCATTTG 59.769 45.455 0.00 0.00 0.00 2.32
2368 3803 4.402155 TATGGAATCATTTGGCACAAGGAC 59.598 41.667 0.00 0.00 38.01 3.85
2377 3818 6.255287 TGGGGATACATATGGAATCATTTGG 58.745 40.000 17.29 0.00 36.88 3.28
2378 3819 7.452501 AGTTGGGGATACATATGGAATCATTTG 59.547 37.037 17.29 0.00 38.00 2.32
2395 3836 2.057922 ACACTGACTGAAGTTGGGGAT 58.942 47.619 0.00 0.00 0.00 3.85
2396 3837 1.507140 ACACTGACTGAAGTTGGGGA 58.493 50.000 0.00 0.00 0.00 4.81
2400 3841 6.648310 AGATGTGAATACACTGACTGAAGTTG 59.352 38.462 0.00 0.00 46.07 3.16
2402 3843 6.352016 AGATGTGAATACACTGACTGAAGT 57.648 37.500 0.00 0.00 46.07 3.01
2403 3844 7.664082 AAAGATGTGAATACACTGACTGAAG 57.336 36.000 0.00 0.00 46.07 3.02
2405 3846 8.367911 AGTTAAAGATGTGAATACACTGACTGA 58.632 33.333 0.00 0.00 46.07 3.41
2406 3847 8.539770 AGTTAAAGATGTGAATACACTGACTG 57.460 34.615 0.00 0.00 46.07 3.51
2407 3848 8.993121 CAAGTTAAAGATGTGAATACACTGACT 58.007 33.333 0.00 0.00 46.07 3.41
2408 3849 8.774586 ACAAGTTAAAGATGTGAATACACTGAC 58.225 33.333 0.00 0.00 46.07 3.51
2409 3850 8.902540 ACAAGTTAAAGATGTGAATACACTGA 57.097 30.769 0.00 0.00 46.07 3.41
2410 3851 8.993121 AGACAAGTTAAAGATGTGAATACACTG 58.007 33.333 0.00 0.00 46.07 3.66
2420 3861 8.431910 TCCTTACCTAGACAAGTTAAAGATGT 57.568 34.615 0.00 0.00 0.00 3.06
2436 3877 9.592196 AATCGGTTTATACTGTATCCTTACCTA 57.408 33.333 3.09 1.51 32.23 3.08
2439 3880 7.117379 GCCAATCGGTTTATACTGTATCCTTAC 59.883 40.741 3.09 0.00 33.28 2.34
2445 3886 5.925509 AGTGCCAATCGGTTTATACTGTAT 58.074 37.500 5.53 5.53 33.28 2.29
2448 3889 3.245284 CGAGTGCCAATCGGTTTATACTG 59.755 47.826 6.66 0.00 36.54 2.74
2452 3893 2.006888 CACGAGTGCCAATCGGTTTAT 58.993 47.619 19.29 0.00 44.36 1.40
2454 3895 0.534203 ACACGAGTGCCAATCGGTTT 60.534 50.000 19.29 0.00 44.36 3.27
2459 3900 4.419522 ACAAAATACACGAGTGCCAATC 57.580 40.909 2.76 0.00 0.00 2.67
2460 3901 4.846779 AACAAAATACACGAGTGCCAAT 57.153 36.364 2.76 0.00 0.00 3.16
2461 3902 4.640789 AAACAAAATACACGAGTGCCAA 57.359 36.364 2.76 0.00 0.00 4.52
2463 3904 5.754778 ACTAAAACAAAATACACGAGTGCC 58.245 37.500 2.76 0.00 0.00 5.01
2464 3905 6.656003 AGACTAAAACAAAATACACGAGTGC 58.344 36.000 2.76 0.00 0.00 4.40
2465 3906 8.433126 CCTAGACTAAAACAAAATACACGAGTG 58.567 37.037 1.13 1.13 0.00 3.51
2466 3907 8.362639 TCCTAGACTAAAACAAAATACACGAGT 58.637 33.333 0.00 0.00 0.00 4.18
2467 3908 8.752766 TCCTAGACTAAAACAAAATACACGAG 57.247 34.615 0.00 0.00 0.00 4.18
2468 3909 9.545105 TTTCCTAGACTAAAACAAAATACACGA 57.455 29.630 0.00 0.00 0.00 4.35
2469 3910 9.590088 GTTTCCTAGACTAAAACAAAATACACG 57.410 33.333 5.33 0.00 33.97 4.49
2473 3914 8.789762 GCCTGTTTCCTAGACTAAAACAAAATA 58.210 33.333 11.69 0.00 41.04 1.40
2474 3915 7.286775 TGCCTGTTTCCTAGACTAAAACAAAAT 59.713 33.333 11.69 0.00 41.04 1.82
2475 3916 6.603997 TGCCTGTTTCCTAGACTAAAACAAAA 59.396 34.615 11.69 1.67 41.04 2.44
2479 3920 6.819397 AATGCCTGTTTCCTAGACTAAAAC 57.181 37.500 0.00 3.71 34.30 2.43
2480 3921 7.001674 TCAAATGCCTGTTTCCTAGACTAAAA 58.998 34.615 0.00 0.00 0.00 1.52
2484 3925 4.640771 TCAAATGCCTGTTTCCTAGACT 57.359 40.909 0.00 0.00 0.00 3.24
2485 3926 4.156739 CCTTCAAATGCCTGTTTCCTAGAC 59.843 45.833 0.00 0.00 0.00 2.59
2486 3927 4.202567 ACCTTCAAATGCCTGTTTCCTAGA 60.203 41.667 0.00 0.00 0.00 2.43
2487 3928 4.082125 ACCTTCAAATGCCTGTTTCCTAG 58.918 43.478 0.00 0.00 0.00 3.02
2507 3948 3.947834 AGCAAACATATACAGGCAAGACC 59.052 43.478 0.00 0.00 39.61 3.85
2509 3950 5.102953 AGAGCAAACATATACAGGCAAGA 57.897 39.130 0.00 0.00 0.00 3.02
2515 3961 7.654923 TGATCTAGCAAGAGCAAACATATACAG 59.345 37.037 0.00 0.00 44.87 2.74
2517 3963 7.359933 GCTGATCTAGCAAGAGCAAACATATAC 60.360 40.741 10.95 0.00 46.92 1.47
2519 3965 5.469421 GCTGATCTAGCAAGAGCAAACATAT 59.531 40.000 10.95 0.00 46.92 1.78
2521 3967 3.626670 GCTGATCTAGCAAGAGCAAACAT 59.373 43.478 10.95 0.00 46.92 2.71
2522 3968 3.005554 GCTGATCTAGCAAGAGCAAACA 58.994 45.455 10.95 0.00 46.92 2.83
2539 3985 1.133167 TGGCCCTACATAGCTAGCTGA 60.133 52.381 27.68 11.57 0.00 4.26
2546 3992 3.352648 TCAAAAAGTGGCCCTACATAGC 58.647 45.455 0.00 0.00 0.00 2.97
2547 3993 3.947834 CCTCAAAAAGTGGCCCTACATAG 59.052 47.826 0.00 0.00 0.00 2.23
2548 3994 3.589735 TCCTCAAAAAGTGGCCCTACATA 59.410 43.478 0.00 0.00 0.00 2.29
2549 3995 2.378547 TCCTCAAAAAGTGGCCCTACAT 59.621 45.455 0.00 0.00 0.00 2.29
2550 3996 1.777878 TCCTCAAAAAGTGGCCCTACA 59.222 47.619 0.00 0.00 0.00 2.74
2551 3997 2.160205 GTCCTCAAAAAGTGGCCCTAC 58.840 52.381 0.00 0.00 0.00 3.18
2553 3999 0.555769 TGTCCTCAAAAAGTGGCCCT 59.444 50.000 0.00 0.00 0.00 5.19
2554 4000 1.632589 ATGTCCTCAAAAAGTGGCCC 58.367 50.000 0.00 0.00 0.00 5.80
2556 4002 6.095377 CAGATAAATGTCCTCAAAAAGTGGC 58.905 40.000 0.00 0.00 0.00 5.01
2557 4003 7.219484 ACAGATAAATGTCCTCAAAAAGTGG 57.781 36.000 0.00 0.00 0.00 4.00
2558 4004 8.571336 AGAACAGATAAATGTCCTCAAAAAGTG 58.429 33.333 0.00 0.00 31.50 3.16
2559 4005 8.697507 AGAACAGATAAATGTCCTCAAAAAGT 57.302 30.769 0.00 0.00 31.50 2.66
2560 4006 9.403110 CAAGAACAGATAAATGTCCTCAAAAAG 57.597 33.333 0.00 0.00 31.50 2.27
2561 4007 8.912988 ACAAGAACAGATAAATGTCCTCAAAAA 58.087 29.630 0.00 0.00 31.50 1.94
2562 4008 8.463930 ACAAGAACAGATAAATGTCCTCAAAA 57.536 30.769 0.00 0.00 31.50 2.44
2563 4009 8.463930 AACAAGAACAGATAAATGTCCTCAAA 57.536 30.769 0.00 0.00 31.50 2.69
2566 4012 8.787852 AGAAAACAAGAACAGATAAATGTCCTC 58.212 33.333 0.00 0.00 31.50 3.71
2567 4013 8.697507 AGAAAACAAGAACAGATAAATGTCCT 57.302 30.769 0.00 0.00 31.50 3.85
2568 4014 9.750125 AAAGAAAACAAGAACAGATAAATGTCC 57.250 29.630 0.00 0.00 31.50 4.02
2570 4016 9.034544 GCAAAGAAAACAAGAACAGATAAATGT 57.965 29.630 0.00 0.00 33.96 2.71
2571 4017 8.209869 CGCAAAGAAAACAAGAACAGATAAATG 58.790 33.333 0.00 0.00 0.00 2.32
2572 4018 7.096065 GCGCAAAGAAAACAAGAACAGATAAAT 60.096 33.333 0.30 0.00 0.00 1.40
2573 4019 6.198216 GCGCAAAGAAAACAAGAACAGATAAA 59.802 34.615 0.30 0.00 0.00 1.40
2575 4021 5.212194 GCGCAAAGAAAACAAGAACAGATA 58.788 37.500 0.30 0.00 0.00 1.98
2576 4022 4.044426 GCGCAAAGAAAACAAGAACAGAT 58.956 39.130 0.30 0.00 0.00 2.90
2578 4024 3.178267 TGCGCAAAGAAAACAAGAACAG 58.822 40.909 8.16 0.00 0.00 3.16
2579 4025 3.223423 TGCGCAAAGAAAACAAGAACA 57.777 38.095 8.16 0.00 0.00 3.18
2580 4026 3.539401 CGTTGCGCAAAGAAAACAAGAAC 60.539 43.478 28.69 9.95 0.00 3.01
2581 4027 2.596419 CGTTGCGCAAAGAAAACAAGAA 59.404 40.909 28.69 0.00 0.00 2.52
2583 4029 2.609263 CGTTGCGCAAAGAAAACAAG 57.391 45.000 28.69 1.37 0.00 3.16
2597 4043 2.880890 AGGATCATAATTCAGGCGTTGC 59.119 45.455 0.00 0.00 0.00 4.17
2598 4044 4.576053 TCAAGGATCATAATTCAGGCGTTG 59.424 41.667 0.00 0.00 0.00 4.10
2599 4045 4.780815 TCAAGGATCATAATTCAGGCGTT 58.219 39.130 0.00 0.00 0.00 4.84
2600 4046 4.101585 TCTCAAGGATCATAATTCAGGCGT 59.898 41.667 0.00 0.00 0.00 5.68
2601 4047 4.635223 TCTCAAGGATCATAATTCAGGCG 58.365 43.478 0.00 0.00 0.00 5.52
2602 4048 5.619220 ACTCTCAAGGATCATAATTCAGGC 58.381 41.667 0.00 0.00 0.00 4.85
2603 4049 7.278135 TGAACTCTCAAGGATCATAATTCAGG 58.722 38.462 0.00 0.00 0.00 3.86
2604 4050 8.202811 TCTGAACTCTCAAGGATCATAATTCAG 58.797 37.037 0.00 0.00 40.28 3.02
2605 4051 7.984050 GTCTGAACTCTCAAGGATCATAATTCA 59.016 37.037 0.00 0.00 0.00 2.57
2606 4052 8.203485 AGTCTGAACTCTCAAGGATCATAATTC 58.797 37.037 0.00 0.00 0.00 2.17
2607 4053 8.088463 AGTCTGAACTCTCAAGGATCATAATT 57.912 34.615 0.00 0.00 0.00 1.40
2608 4054 7.673641 AGTCTGAACTCTCAAGGATCATAAT 57.326 36.000 0.00 0.00 0.00 1.28
2609 4055 8.774546 ATAGTCTGAACTCTCAAGGATCATAA 57.225 34.615 0.00 0.00 36.92 1.90
2610 4056 8.774546 AATAGTCTGAACTCTCAAGGATCATA 57.225 34.615 0.00 0.00 36.92 2.15
2611 4057 7.344093 TGAATAGTCTGAACTCTCAAGGATCAT 59.656 37.037 0.00 0.00 36.92 2.45
2612 4058 6.665248 TGAATAGTCTGAACTCTCAAGGATCA 59.335 38.462 0.00 0.00 36.92 2.92
2613 4059 7.106439 TGAATAGTCTGAACTCTCAAGGATC 57.894 40.000 0.00 0.00 36.92 3.36
2614 4060 7.487822 TTGAATAGTCTGAACTCTCAAGGAT 57.512 36.000 0.00 0.00 34.75 3.24
2615 4061 6.918067 TTGAATAGTCTGAACTCTCAAGGA 57.082 37.500 0.00 0.00 34.75 3.36
2616 4062 8.040132 AGAATTGAATAGTCTGAACTCTCAAGG 58.960 37.037 0.00 0.00 39.20 3.61
2617 4063 9.434420 AAGAATTGAATAGTCTGAACTCTCAAG 57.566 33.333 0.00 0.00 39.20 3.02
2636 4082 8.598075 GCAAATATTCAGCCTGTTTAAGAATTG 58.402 33.333 0.00 0.00 31.89 2.32
2637 4083 7.489113 CGCAAATATTCAGCCTGTTTAAGAATT 59.511 33.333 7.12 0.00 31.89 2.17
2638 4084 6.974622 CGCAAATATTCAGCCTGTTTAAGAAT 59.025 34.615 7.12 0.00 33.82 2.40
2651 4101 8.230486 GGATAAAGTACCATCGCAAATATTCAG 58.770 37.037 0.00 0.00 0.00 3.02
2654 4104 7.231467 AGGGATAAAGTACCATCGCAAATATT 58.769 34.615 14.94 0.00 36.77 1.28
2657 4107 5.048846 AGGGATAAAGTACCATCGCAAAT 57.951 39.130 14.94 0.00 36.77 2.32
2658 4108 4.497291 AGGGATAAAGTACCATCGCAAA 57.503 40.909 14.94 0.00 36.77 3.68
2659 4109 4.202284 GGTAGGGATAAAGTACCATCGCAA 60.202 45.833 14.94 0.00 36.89 4.85
2662 4112 6.662234 TGATAGGTAGGGATAAAGTACCATCG 59.338 42.308 0.00 0.00 39.02 3.84
2663 4113 8.611051 ATGATAGGTAGGGATAAAGTACCATC 57.389 38.462 0.00 0.00 39.02 3.51
2664 4114 7.342284 CGATGATAGGTAGGGATAAAGTACCAT 59.658 40.741 0.00 0.00 39.02 3.55
2665 4115 6.662234 CGATGATAGGTAGGGATAAAGTACCA 59.338 42.308 0.00 0.00 39.02 3.25
2667 4117 6.405619 GGCGATGATAGGTAGGGATAAAGTAC 60.406 46.154 0.00 0.00 0.00 2.73
2672 4122 4.023980 CTGGCGATGATAGGTAGGGATAA 58.976 47.826 0.00 0.00 0.00 1.75
2675 4125 1.147191 ACTGGCGATGATAGGTAGGGA 59.853 52.381 0.00 0.00 0.00 4.20
2676 4126 1.273606 CACTGGCGATGATAGGTAGGG 59.726 57.143 0.00 0.00 0.00 3.53
2677 4127 2.239400 TCACTGGCGATGATAGGTAGG 58.761 52.381 0.00 0.00 0.00 3.18
2678 4128 3.319405 ACTTCACTGGCGATGATAGGTAG 59.681 47.826 0.00 0.00 0.00 3.18
2679 4129 3.296854 ACTTCACTGGCGATGATAGGTA 58.703 45.455 0.00 0.00 0.00 3.08
2682 4132 4.576216 AGTACTTCACTGGCGATGATAG 57.424 45.455 0.00 0.00 35.62 2.08


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

AutoCloner maintained by Alex Coulton.