Multiple sequence alignment - TraesCS7D01G327700

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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 TraesCS7D01G327700 chr7D 100.000 2885 0 0 1 2885 418960367 418963251 0.000000e+00 5328
1 TraesCS7D01G327700 chr7D 91.358 162 13 1 2724 2885 518044275 518044115 1.350000e-53 220
2 TraesCS7D01G327700 chr7D 90.506 158 14 1 2728 2885 49161680 49161836 1.050000e-49 207
3 TraesCS7D01G327700 chr7B 94.573 1382 42 15 3 1371 434836650 434838011 0.000000e+00 2106
4 TraesCS7D01G327700 chr7B 93.216 1253 42 10 1499 2724 434838009 434839245 0.000000e+00 1803
5 TraesCS7D01G327700 chr7A 93.902 410 21 3 1682 2088 514671436 514671028 1.470000e-172 616
6 TraesCS7D01G327700 chr7A 90.793 391 29 6 887 1273 514672295 514671908 1.530000e-142 516
7 TraesCS7D01G327700 chr7A 82.735 446 35 19 1272 1695 514671878 514671453 2.730000e-95 359
8 TraesCS7D01G327700 chr7A 84.817 191 23 1 2540 2724 514670647 514670457 1.360000e-43 187
9 TraesCS7D01G327700 chr1D 90.533 169 14 2 2717 2885 478918096 478917930 3.740000e-54 222
10 TraesCS7D01G327700 chr6B 90.741 162 14 1 2724 2885 142498631 142498471 6.260000e-52 215
11 TraesCS7D01G327700 chr6B 88.387 155 16 2 2725 2879 504564770 504564922 4.910000e-43 185
12 TraesCS7D01G327700 chr3D 90.062 161 15 1 2725 2885 373510629 373510788 1.050000e-49 207
13 TraesCS7D01G327700 chr4B 89.937 159 15 1 2728 2885 665956115 665955957 1.360000e-48 204
14 TraesCS7D01G327700 chr4B 90.323 155 14 1 2732 2885 46922675 46922521 4.870000e-48 202
15 TraesCS7D01G327700 chr1A 88.272 162 17 2 2724 2885 392381871 392382030 2.930000e-45 193


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 TraesCS7D01G327700 chr7D 418960367 418963251 2884 False 5328.0 5328 100.00000 1 2885 1 chr7D.!!$F2 2884
1 TraesCS7D01G327700 chr7B 434836650 434839245 2595 False 1954.5 2106 93.89450 3 2724 2 chr7B.!!$F1 2721
2 TraesCS7D01G327700 chr7A 514670457 514672295 1838 True 419.5 616 88.06175 887 2724 4 chr7A.!!$R1 1837

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
167 168 1.077501 ACGCAGCCCAATATGCAGT 60.078 52.632 0.00 0.00 42.68 4.40 F
844 857 1.115467 AAAACACGTCAAATGGGCCA 58.885 45.000 9.61 9.61 0.00 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1143 1158 0.908198 ATGTGAGAGGAGCCAAGACC 59.092 55.0 0.0 0.0 0.0 3.85 R
2815 2949 0.037326 ACCATGTACACGTCTGCCTG 60.037 55.0 0.0 0.0 0.0 4.85 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
139 140 5.069251 GGTGAATACTGAGGCTACACATACT 59.931 44.000 0.00 0.00 0.00 2.12
140 141 6.264744 GGTGAATACTGAGGCTACACATACTA 59.735 42.308 0.00 0.00 0.00 1.82
141 142 7.039644 GGTGAATACTGAGGCTACACATACTAT 60.040 40.741 0.00 0.00 0.00 2.12
142 143 7.810282 GTGAATACTGAGGCTACACATACTATG 59.190 40.741 0.00 0.00 0.00 2.23
143 144 6.842437 ATACTGAGGCTACACATACTATGG 57.158 41.667 1.11 0.00 33.60 2.74
144 145 3.322254 ACTGAGGCTACACATACTATGGC 59.678 47.826 1.11 0.00 33.60 4.40
145 146 3.304829 TGAGGCTACACATACTATGGCA 58.695 45.455 0.00 0.00 33.60 4.92
146 147 3.903714 TGAGGCTACACATACTATGGCAT 59.096 43.478 4.88 4.88 33.60 4.40
147 148 4.248859 GAGGCTACACATACTATGGCATG 58.751 47.826 10.98 2.76 33.60 4.06
148 149 3.008375 AGGCTACACATACTATGGCATGG 59.992 47.826 10.98 10.21 33.60 3.66
149 150 3.007940 GGCTACACATACTATGGCATGGA 59.992 47.826 18.36 0.88 33.60 3.41
150 151 3.997021 GCTACACATACTATGGCATGGAC 59.003 47.826 18.36 0.00 33.60 4.02
151 152 3.111853 ACACATACTATGGCATGGACG 57.888 47.619 18.36 7.50 33.60 4.79
152 153 1.800586 CACATACTATGGCATGGACGC 59.199 52.381 18.36 0.00 33.60 5.19
153 154 1.416030 ACATACTATGGCATGGACGCA 59.584 47.619 18.36 0.14 33.60 5.24
167 168 1.077501 ACGCAGCCCAATATGCAGT 60.078 52.632 0.00 0.00 42.68 4.40
252 254 6.645003 GCAGGTTTACTTACTTTGAATTTGGG 59.355 38.462 0.00 0.00 0.00 4.12
253 255 7.151976 CAGGTTTACTTACTTTGAATTTGGGG 58.848 38.462 0.00 0.00 0.00 4.96
410 412 8.476925 GAACTTTTCGTTTTGGATACACAAATC 58.523 33.333 0.00 0.00 41.22 2.17
591 600 8.185506 TGTGAACAGTTCTACCAAACTCTATA 57.814 34.615 14.51 0.00 37.38 1.31
696 707 8.915654 GTTTTGAATCATGTTGATGTCTTTACC 58.084 33.333 0.00 0.00 37.15 2.85
697 708 6.757897 TGAATCATGTTGATGTCTTTACCC 57.242 37.500 0.00 0.00 37.15 3.69
844 857 1.115467 AAAACACGTCAAATGGGCCA 58.885 45.000 9.61 9.61 0.00 5.36
857 870 6.009589 TCAAATGGGCCATATATGATTTCGT 58.990 36.000 21.54 0.00 0.00 3.85
858 871 6.493115 TCAAATGGGCCATATATGATTTCGTT 59.507 34.615 21.54 2.37 0.00 3.85
859 872 6.916360 AATGGGCCATATATGATTTCGTTT 57.084 33.333 21.54 0.00 0.00 3.60
863 876 6.016360 TGGGCCATATATGATTTCGTTTGAAG 60.016 38.462 14.54 0.00 35.06 3.02
885 898 5.570320 AGAAAATGGCCTAGCACTAGAAAA 58.430 37.500 3.32 0.00 35.21 2.29
1194 1209 9.158233 CTTGATGGTAAATTAACTCGTCCTTTA 57.842 33.333 0.00 0.00 0.00 1.85
1263 1279 2.262637 TGGACAGTTCGTTAGGGGAAT 58.737 47.619 0.00 0.00 0.00 3.01
1370 1417 7.653311 GCTGAATTTTGCTTAGAAAGAAGGAAA 59.347 33.333 0.00 0.00 42.72 3.13
1372 1419 9.696917 TGAATTTTGCTTAGAAAGAAGGAAATC 57.303 29.630 4.08 1.71 43.51 2.17
1375 1422 6.575162 TTGCTTAGAAAGAAGGAAATCCAC 57.425 37.500 1.67 0.00 34.28 4.02
1380 1427 7.040409 GCTTAGAAAGAAGGAAATCCACTTTGA 60.040 37.037 20.82 11.24 41.31 2.69
1387 1434 4.803452 AGGAAATCCACTTTGAGTTTGGA 58.197 39.130 1.67 0.00 43.60 3.53
1389 1436 5.840693 AGGAAATCCACTTTGAGTTTGGAAT 59.159 36.000 1.67 0.00 42.71 3.01
1404 1467 6.742109 AGTTTGGAATGTTCACAAGAATCAG 58.258 36.000 0.00 0.00 35.92 2.90
1419 1482 4.082125 AGAATCAGCAAAAACCCGAGATT 58.918 39.130 0.00 0.00 0.00 2.40
1430 1493 3.097342 ACCCGAGATTGGTAGTGTAGT 57.903 47.619 0.00 0.00 33.26 2.73
1432 1495 3.836562 ACCCGAGATTGGTAGTGTAGTTT 59.163 43.478 0.00 0.00 33.26 2.66
1433 1496 5.018809 ACCCGAGATTGGTAGTGTAGTTTA 58.981 41.667 0.00 0.00 33.26 2.01
1434 1497 5.126707 ACCCGAGATTGGTAGTGTAGTTTAG 59.873 44.000 0.00 0.00 33.26 1.85
1435 1498 5.126707 CCCGAGATTGGTAGTGTAGTTTAGT 59.873 44.000 0.00 0.00 0.00 2.24
1436 1499 6.350780 CCCGAGATTGGTAGTGTAGTTTAGTT 60.351 42.308 0.00 0.00 0.00 2.24
1437 1500 7.148018 CCCGAGATTGGTAGTGTAGTTTAGTTA 60.148 40.741 0.00 0.00 0.00 2.24
1438 1501 7.914346 CCGAGATTGGTAGTGTAGTTTAGTTAG 59.086 40.741 0.00 0.00 0.00 2.34
1439 1502 8.457261 CGAGATTGGTAGTGTAGTTTAGTTAGT 58.543 37.037 0.00 0.00 0.00 2.24
1440 1503 9.570488 GAGATTGGTAGTGTAGTTTAGTTAGTG 57.430 37.037 0.00 0.00 0.00 2.74
1441 1504 9.086758 AGATTGGTAGTGTAGTTTAGTTAGTGT 57.913 33.333 0.00 0.00 0.00 3.55
1442 1505 9.136952 GATTGGTAGTGTAGTTTAGTTAGTGTG 57.863 37.037 0.00 0.00 0.00 3.82
1443 1506 7.822161 TGGTAGTGTAGTTTAGTTAGTGTGA 57.178 36.000 0.00 0.00 0.00 3.58
1444 1507 7.879070 TGGTAGTGTAGTTTAGTTAGTGTGAG 58.121 38.462 0.00 0.00 0.00 3.51
1445 1508 7.503566 TGGTAGTGTAGTTTAGTTAGTGTGAGT 59.496 37.037 0.00 0.00 0.00 3.41
1446 1509 9.003658 GGTAGTGTAGTTTAGTTAGTGTGAGTA 57.996 37.037 0.00 0.00 0.00 2.59
1448 1511 8.108551 AGTGTAGTTTAGTTAGTGTGAGTAGG 57.891 38.462 0.00 0.00 0.00 3.18
1449 1512 6.805760 GTGTAGTTTAGTTAGTGTGAGTAGGC 59.194 42.308 0.00 0.00 0.00 3.93
1450 1513 6.718454 TGTAGTTTAGTTAGTGTGAGTAGGCT 59.282 38.462 0.00 0.00 0.00 4.58
1458 1521 1.068588 GTGTGAGTAGGCTGTGTGTCA 59.931 52.381 0.00 0.00 0.00 3.58
1461 1524 2.039418 TGAGTAGGCTGTGTGTCAGTT 58.961 47.619 0.00 0.00 45.23 3.16
1466 1529 0.868406 GGCTGTGTGTCAGTTAGCAC 59.132 55.000 0.00 0.00 45.23 4.40
1473 1536 3.194861 TGTGTCAGTTAGCACACAGTTC 58.805 45.455 1.61 0.00 46.26 3.01
1474 1537 3.194861 GTGTCAGTTAGCACACAGTTCA 58.805 45.455 0.00 0.00 42.20 3.18
1478 1541 2.545526 CAGTTAGCACACAGTTCAGTGG 59.454 50.000 0.00 0.00 43.72 4.00
1480 1543 3.071602 AGTTAGCACACAGTTCAGTGGAT 59.928 43.478 0.00 0.00 43.72 3.41
1494 1558 7.172190 CAGTTCAGTGGATATATGTGTGGATTC 59.828 40.741 0.00 0.00 0.00 2.52
1548 1616 9.923143 AAAGAATGATGGCATATGTTGAATATG 57.077 29.630 0.00 1.73 33.44 1.78
1556 1624 5.072741 GCATATGTTGAATATGGGGTGACT 58.927 41.667 4.29 0.00 33.72 3.41
1636 1704 1.066787 GGAAGAGGGGACAGAAAGACG 60.067 57.143 0.00 0.00 0.00 4.18
1679 1747 4.785301 CCACTCATATGGGAATGTGAGTT 58.215 43.478 10.29 0.58 46.29 3.01
1726 1824 6.887368 TGTGTTTGTTGTGATTCTTATCTCG 58.113 36.000 0.00 0.00 0.00 4.04
1830 1928 5.885449 CTAGGAAGGATCAGTTTGAGGAT 57.115 43.478 0.00 0.00 0.00 3.24
1904 2002 7.343057 GGATTAGGATGTCTGAATTTTCCCTTT 59.657 37.037 0.00 0.00 0.00 3.11
1905 2003 9.408648 GATTAGGATGTCTGAATTTTCCCTTTA 57.591 33.333 0.00 0.00 0.00 1.85
1908 2006 8.670521 AGGATGTCTGAATTTTCCCTTTATTT 57.329 30.769 0.00 0.00 0.00 1.40
1909 2007 8.753133 AGGATGTCTGAATTTTCCCTTTATTTC 58.247 33.333 0.00 0.00 0.00 2.17
1910 2008 8.531146 GGATGTCTGAATTTTCCCTTTATTTCA 58.469 33.333 0.00 0.00 0.00 2.69
1912 2010 9.880157 ATGTCTGAATTTTCCCTTTATTTCATG 57.120 29.630 0.00 0.00 0.00 3.07
1913 2011 9.087871 TGTCTGAATTTTCCCTTTATTTCATGA 57.912 29.630 0.00 0.00 0.00 3.07
1927 2025 9.578439 CTTTATTTCATGATTTCCTGTCCTTTC 57.422 33.333 0.00 0.00 0.00 2.62
1944 2042 4.949856 TCCTTTCTGAAATACAATGCCCTC 59.050 41.667 2.88 0.00 0.00 4.30
2029 2127 0.950836 CGGGACAAAACACAGATGCA 59.049 50.000 0.00 0.00 0.00 3.96
2191 2306 9.569122 TTAAGTTTTAGTTATTCCAGCTGAGTT 57.431 29.630 17.39 2.14 0.00 3.01
2278 2402 6.662414 TGGACATCTAAGTTATTTGCTTCG 57.338 37.500 0.00 0.00 0.00 3.79
2352 2476 9.498176 CATATGATGACTGAAGTGGATGATAAA 57.502 33.333 0.00 0.00 0.00 1.40
2370 2494 7.477144 TGATAAAAGTGTCAGTAGTGTTGTG 57.523 36.000 0.00 0.00 0.00 3.33
2373 2497 9.204570 GATAAAAGTGTCAGTAGTGTTGTGTAT 57.795 33.333 0.00 0.00 0.00 2.29
2390 2514 9.416284 TGTTGTGTATCTCTTGTCTATGGTATA 57.584 33.333 0.00 0.00 0.00 1.47
2431 2557 2.384382 CTGCCTGTTTTACAAGTTGCG 58.616 47.619 1.81 0.00 0.00 4.85
2436 2562 3.066203 CCTGTTTTACAAGTTGCGTCCTT 59.934 43.478 1.81 0.00 0.00 3.36
2483 2609 8.287439 TGTGACTCTTTTGAAAGGATTACAAA 57.713 30.769 3.83 0.00 36.67 2.83
2504 2630 4.736126 ATTATTACCTGCCCAAAACTGC 57.264 40.909 0.00 0.00 0.00 4.40
2574 2701 6.073058 TGGAATCAAGATCAAAGTTCTTCACG 60.073 38.462 0.00 0.00 31.11 4.35
2579 2706 6.641314 TCAAGATCAAAGTTCTTCACGTCTAC 59.359 38.462 0.00 0.00 31.11 2.59
2583 2710 6.823678 TCAAAGTTCTTCACGTCTACTTTC 57.176 37.500 0.00 0.00 37.04 2.62
2594 2721 2.744202 CGTCTACTTTCTTGGCAGCATT 59.256 45.455 0.00 0.00 0.00 3.56
2595 2722 3.932710 CGTCTACTTTCTTGGCAGCATTA 59.067 43.478 0.00 0.00 0.00 1.90
2598 2725 5.008118 GTCTACTTTCTTGGCAGCATTATCC 59.992 44.000 0.00 0.00 0.00 2.59
2599 2726 2.684881 ACTTTCTTGGCAGCATTATCCG 59.315 45.455 0.00 0.00 0.00 4.18
2654 2788 9.517868 AAGAGTGAATGATCTGAATCTTCTTTT 57.482 29.630 0.00 0.00 32.75 2.27
2724 2858 3.256631 GGATGCACCTTGAACAATCTGTT 59.743 43.478 0.00 0.00 38.34 3.16
2725 2859 4.262164 GGATGCACCTTGAACAATCTGTTT 60.262 41.667 0.00 0.00 36.84 2.83
2726 2860 4.734398 TGCACCTTGAACAATCTGTTTT 57.266 36.364 0.00 0.00 41.28 2.43
2727 2861 5.083533 TGCACCTTGAACAATCTGTTTTT 57.916 34.783 0.00 0.00 41.28 1.94
2763 2897 3.747193 CAAAGCTTGCGTATCATTTCGT 58.253 40.909 0.00 0.00 0.00 3.85
2764 2898 4.158384 CAAAGCTTGCGTATCATTTCGTT 58.842 39.130 0.00 0.00 0.00 3.85
2765 2899 3.389687 AGCTTGCGTATCATTTCGTTG 57.610 42.857 0.00 0.00 0.00 4.10
2766 2900 3.000041 AGCTTGCGTATCATTTCGTTGA 59.000 40.909 0.00 0.00 0.00 3.18
2767 2901 3.623060 AGCTTGCGTATCATTTCGTTGAT 59.377 39.130 4.27 4.27 39.60 2.57
2768 2902 4.808895 AGCTTGCGTATCATTTCGTTGATA 59.191 37.500 0.00 2.73 37.51 2.15
2769 2903 5.050769 AGCTTGCGTATCATTTCGTTGATAG 60.051 40.000 5.96 3.59 38.83 2.08
2770 2904 5.051039 GCTTGCGTATCATTTCGTTGATAGA 60.051 40.000 5.96 0.00 38.83 1.98
2771 2905 6.509517 GCTTGCGTATCATTTCGTTGATAGAA 60.510 38.462 5.96 0.00 38.83 2.10
2772 2906 6.510746 TGCGTATCATTTCGTTGATAGAAG 57.489 37.500 5.96 3.75 38.83 2.85
2773 2907 6.270064 TGCGTATCATTTCGTTGATAGAAGA 58.730 36.000 5.96 0.00 38.83 2.87
2774 2908 6.754675 TGCGTATCATTTCGTTGATAGAAGAA 59.245 34.615 5.96 0.00 38.83 2.52
2775 2909 7.438160 TGCGTATCATTTCGTTGATAGAAGAAT 59.562 33.333 5.96 0.00 38.83 2.40
2776 2910 8.276325 GCGTATCATTTCGTTGATAGAAGAATT 58.724 33.333 5.96 0.00 38.83 2.17
2793 2927 7.560368 AGAAGAATTAGAATGAGTACACAGGG 58.440 38.462 0.00 0.00 0.00 4.45
2794 2928 7.400339 AGAAGAATTAGAATGAGTACACAGGGA 59.600 37.037 0.00 0.00 0.00 4.20
2795 2929 7.682787 AGAATTAGAATGAGTACACAGGGAT 57.317 36.000 0.00 0.00 0.00 3.85
2796 2930 8.783660 AGAATTAGAATGAGTACACAGGGATA 57.216 34.615 0.00 0.00 0.00 2.59
2797 2931 8.643324 AGAATTAGAATGAGTACACAGGGATAC 58.357 37.037 0.00 0.00 0.00 2.24
2798 2932 7.914427 ATTAGAATGAGTACACAGGGATACA 57.086 36.000 0.00 0.00 39.74 2.29
2799 2933 7.727578 TTAGAATGAGTACACAGGGATACAA 57.272 36.000 0.00 0.00 39.74 2.41
2800 2934 5.978814 AGAATGAGTACACAGGGATACAAC 58.021 41.667 0.00 0.00 39.74 3.32
2801 2935 5.483937 AGAATGAGTACACAGGGATACAACA 59.516 40.000 0.00 0.00 39.74 3.33
2802 2936 5.957771 ATGAGTACACAGGGATACAACAT 57.042 39.130 0.00 0.00 39.74 2.71
2803 2937 7.344612 AGAATGAGTACACAGGGATACAACATA 59.655 37.037 0.00 0.00 39.74 2.29
2804 2938 7.618019 ATGAGTACACAGGGATACAACATAT 57.382 36.000 0.00 0.00 39.74 1.78
2805 2939 6.816136 TGAGTACACAGGGATACAACATATG 58.184 40.000 0.00 0.00 39.74 1.78
2806 2940 6.609616 TGAGTACACAGGGATACAACATATGA 59.390 38.462 10.38 0.00 39.74 2.15
2807 2941 6.817184 AGTACACAGGGATACAACATATGAC 58.183 40.000 10.38 0.00 39.74 3.06
2808 2942 5.692115 ACACAGGGATACAACATATGACA 57.308 39.130 10.38 0.00 39.74 3.58
2809 2943 5.428253 ACACAGGGATACAACATATGACAC 58.572 41.667 10.38 0.00 39.74 3.67
2810 2944 4.507756 CACAGGGATACAACATATGACACG 59.492 45.833 10.38 0.00 39.74 4.49
2811 2945 4.404394 ACAGGGATACAACATATGACACGA 59.596 41.667 10.38 0.00 39.74 4.35
2812 2946 5.105106 ACAGGGATACAACATATGACACGAA 60.105 40.000 10.38 0.00 39.74 3.85
2813 2947 5.234329 CAGGGATACAACATATGACACGAAC 59.766 44.000 10.38 0.00 39.74 3.95
2814 2948 4.208460 GGGATACAACATATGACACGAACG 59.792 45.833 10.38 0.00 39.74 3.95
2815 2949 4.317839 GGATACAACATATGACACGAACGC 60.318 45.833 10.38 0.00 0.00 4.84
2816 2950 2.409012 ACAACATATGACACGAACGCA 58.591 42.857 10.38 0.00 0.00 5.24
2817 2951 2.411748 ACAACATATGACACGAACGCAG 59.588 45.455 10.38 0.00 0.00 5.18
2818 2952 1.640428 ACATATGACACGAACGCAGG 58.360 50.000 10.38 0.00 0.00 4.85
2819 2953 0.301687 CATATGACACGAACGCAGGC 59.698 55.000 0.00 0.00 0.00 4.85
2820 2954 0.108377 ATATGACACGAACGCAGGCA 60.108 50.000 0.00 0.00 0.00 4.75
2821 2955 0.735978 TATGACACGAACGCAGGCAG 60.736 55.000 0.00 0.00 0.00 4.85
2822 2956 2.355837 GACACGAACGCAGGCAGA 60.356 61.111 0.00 0.00 0.00 4.26
2823 2957 2.658707 GACACGAACGCAGGCAGAC 61.659 63.158 0.00 0.00 0.00 3.51
2824 2958 3.767230 CACGAACGCAGGCAGACG 61.767 66.667 0.00 0.00 0.00 4.18
2825 2959 4.280494 ACGAACGCAGGCAGACGT 62.280 61.111 0.00 0.00 46.07 4.34
2826 2960 3.767230 CGAACGCAGGCAGACGTG 61.767 66.667 0.00 0.00 42.68 4.49
2827 2961 2.661866 GAACGCAGGCAGACGTGT 60.662 61.111 0.00 0.00 42.68 4.49
2828 2962 1.372499 GAACGCAGGCAGACGTGTA 60.372 57.895 0.00 0.00 42.68 2.90
2829 2963 1.615107 GAACGCAGGCAGACGTGTAC 61.615 60.000 0.00 0.00 42.68 2.90
2830 2964 2.049526 CGCAGGCAGACGTGTACA 60.050 61.111 0.00 0.00 34.13 2.90
2831 2965 1.446099 CGCAGGCAGACGTGTACAT 60.446 57.895 0.00 0.00 34.13 2.29
2832 2966 1.686566 CGCAGGCAGACGTGTACATG 61.687 60.000 13.64 13.64 34.13 3.21
2833 2967 1.361668 GCAGGCAGACGTGTACATGG 61.362 60.000 19.05 7.61 34.13 3.66
2834 2968 0.037326 CAGGCAGACGTGTACATGGT 60.037 55.000 19.05 10.81 0.00 3.55
2835 2969 0.037326 AGGCAGACGTGTACATGGTG 60.037 55.000 19.05 15.65 0.00 4.17
2836 2970 1.019278 GGCAGACGTGTACATGGTGG 61.019 60.000 19.05 8.56 0.00 4.61
2837 2971 1.635663 GCAGACGTGTACATGGTGGC 61.636 60.000 19.05 14.07 0.00 5.01
2838 2972 1.019278 CAGACGTGTACATGGTGGCC 61.019 60.000 19.05 0.00 0.00 5.36
2839 2973 2.047655 ACGTGTACATGGTGGCCG 60.048 61.111 19.05 8.93 0.00 6.13
2840 2974 2.817834 CGTGTACATGGTGGCCGG 60.818 66.667 7.22 0.00 0.00 6.13
2841 2975 2.666207 GTGTACATGGTGGCCGGA 59.334 61.111 5.05 0.00 0.00 5.14
2842 2976 1.449601 GTGTACATGGTGGCCGGAG 60.450 63.158 5.05 0.00 0.00 4.63
2843 2977 2.513897 GTACATGGTGGCCGGAGC 60.514 66.667 5.05 0.00 38.76 4.70
2844 2978 3.006133 TACATGGTGGCCGGAGCA 61.006 61.111 5.05 0.07 42.56 4.26
2845 2979 3.030168 TACATGGTGGCCGGAGCAG 62.030 63.158 5.05 0.00 42.56 4.24
2846 2980 4.100084 CATGGTGGCCGGAGCAGA 62.100 66.667 5.05 0.00 42.56 4.26
2847 2981 3.790437 ATGGTGGCCGGAGCAGAG 61.790 66.667 5.05 0.00 42.56 3.35
2849 2983 4.154347 GGTGGCCGGAGCAGAGAG 62.154 72.222 5.05 0.00 42.56 3.20
2850 2984 3.071206 GTGGCCGGAGCAGAGAGA 61.071 66.667 5.05 0.00 42.56 3.10
2851 2985 3.071206 TGGCCGGAGCAGAGAGAC 61.071 66.667 5.05 0.00 42.56 3.36
2852 2986 3.071206 GGCCGGAGCAGAGAGACA 61.071 66.667 5.05 0.00 42.56 3.41
2853 2987 2.650116 GGCCGGAGCAGAGAGACAA 61.650 63.158 5.05 0.00 42.56 3.18
2854 2988 1.153667 GCCGGAGCAGAGAGACAAG 60.154 63.158 5.05 0.00 39.53 3.16
2855 2989 1.515020 CCGGAGCAGAGAGACAAGG 59.485 63.158 0.00 0.00 0.00 3.61
2856 2990 1.515020 CGGAGCAGAGAGACAAGGG 59.485 63.158 0.00 0.00 0.00 3.95
2857 2991 0.967887 CGGAGCAGAGAGACAAGGGA 60.968 60.000 0.00 0.00 0.00 4.20
2858 2992 1.494960 GGAGCAGAGAGACAAGGGAT 58.505 55.000 0.00 0.00 0.00 3.85
2859 2993 1.138661 GGAGCAGAGAGACAAGGGATG 59.861 57.143 0.00 0.00 0.00 3.51
2860 2994 1.138661 GAGCAGAGAGACAAGGGATGG 59.861 57.143 0.00 0.00 0.00 3.51
2861 2995 0.908198 GCAGAGAGACAAGGGATGGT 59.092 55.000 0.00 0.00 0.00 3.55
2862 2996 1.134551 GCAGAGAGACAAGGGATGGTC 60.135 57.143 0.00 0.00 0.00 4.02
2863 2997 2.182827 CAGAGAGACAAGGGATGGTCA 58.817 52.381 0.00 0.00 36.50 4.02
2864 2998 2.568956 CAGAGAGACAAGGGATGGTCAA 59.431 50.000 0.00 0.00 36.50 3.18
2865 2999 2.569404 AGAGAGACAAGGGATGGTCAAC 59.431 50.000 0.00 0.00 36.50 3.18
2866 3000 1.630878 AGAGACAAGGGATGGTCAACC 59.369 52.381 0.00 0.00 36.50 3.77
2867 3001 0.698818 AGACAAGGGATGGTCAACCC 59.301 55.000 8.09 8.09 45.88 4.11
2871 3005 4.948257 GGGATGGTCAACCCGTAC 57.052 61.111 0.45 0.00 36.56 3.67
2872 3006 1.984817 GGGATGGTCAACCCGTACA 59.015 57.895 0.45 0.00 34.25 2.90
2873 3007 0.107848 GGGATGGTCAACCCGTACAG 60.108 60.000 0.45 0.00 34.25 2.74
2874 3008 0.899720 GGATGGTCAACCCGTACAGA 59.100 55.000 0.00 0.00 32.59 3.41
2875 3009 1.134788 GGATGGTCAACCCGTACAGAG 60.135 57.143 0.00 0.00 32.59 3.35
2876 3010 0.902531 ATGGTCAACCCGTACAGAGG 59.097 55.000 0.00 0.00 35.15 3.69
2877 3011 0.178955 TGGTCAACCCGTACAGAGGA 60.179 55.000 0.00 0.00 35.15 3.71
2878 3012 1.192428 GGTCAACCCGTACAGAGGAT 58.808 55.000 0.81 0.00 0.00 3.24
2879 3013 1.553704 GGTCAACCCGTACAGAGGATT 59.446 52.381 0.81 0.00 0.00 3.01
2880 3014 2.418334 GGTCAACCCGTACAGAGGATTC 60.418 54.545 0.81 0.00 0.00 2.52
2881 3015 2.232941 GTCAACCCGTACAGAGGATTCA 59.767 50.000 0.81 0.00 0.00 2.57
2882 3016 2.901192 TCAACCCGTACAGAGGATTCAA 59.099 45.455 0.81 0.00 0.00 2.69
2883 3017 3.000727 CAACCCGTACAGAGGATTCAAC 58.999 50.000 0.81 0.00 0.00 3.18
2884 3018 2.253610 ACCCGTACAGAGGATTCAACA 58.746 47.619 0.81 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.129823 ACCGATACAATAGTTCGCGG 57.870 50.000 6.13 0.00 39.10 6.46
1 2 3.061403 GTGAACCGATACAATAGTTCGCG 60.061 47.826 0.00 0.00 41.17 5.87
17 18 9.801873 ATATAAGCAACAAATGTATTGTGAACC 57.198 29.630 0.00 0.00 32.22 3.62
139 140 2.203195 GGCTGCGTCCATGCCATA 60.203 61.111 0.00 0.00 45.46 2.74
143 144 1.174712 ATATTGGGCTGCGTCCATGC 61.175 55.000 2.79 0.00 37.08 4.06
144 145 0.594602 CATATTGGGCTGCGTCCATG 59.405 55.000 2.79 0.00 37.08 3.66
145 146 1.174712 GCATATTGGGCTGCGTCCAT 61.175 55.000 2.79 0.00 37.08 3.41
146 147 1.823470 GCATATTGGGCTGCGTCCA 60.823 57.895 0.00 0.00 34.47 4.02
147 148 1.789078 CTGCATATTGGGCTGCGTCC 61.789 60.000 0.00 0.00 41.32 4.79
148 149 1.097547 ACTGCATATTGGGCTGCGTC 61.098 55.000 0.00 0.00 41.32 5.19
149 150 0.180171 TACTGCATATTGGGCTGCGT 59.820 50.000 0.00 0.00 41.32 5.24
150 151 1.527034 ATACTGCATATTGGGCTGCG 58.473 50.000 0.00 0.00 41.32 5.18
151 152 2.229784 GGAATACTGCATATTGGGCTGC 59.770 50.000 6.24 0.00 33.37 5.25
152 153 2.821969 GGGAATACTGCATATTGGGCTG 59.178 50.000 6.24 0.00 33.37 4.85
153 154 2.718609 AGGGAATACTGCATATTGGGCT 59.281 45.455 6.24 0.00 33.37 5.19
240 242 8.783093 GGAAAATAGAAAACCCCAAATTCAAAG 58.217 33.333 0.00 0.00 0.00 2.77
675 686 8.506168 TTAGGGTAAAGACATCAACATGATTC 57.494 34.615 0.00 0.00 34.28 2.52
832 845 6.071952 ACGAAATCATATATGGCCCATTTGAC 60.072 38.462 12.78 1.12 0.00 3.18
857 870 4.151883 AGTGCTAGGCCATTTTCTTCAAA 58.848 39.130 5.01 0.00 0.00 2.69
858 871 3.766545 AGTGCTAGGCCATTTTCTTCAA 58.233 40.909 5.01 0.00 0.00 2.69
859 872 3.439857 AGTGCTAGGCCATTTTCTTCA 57.560 42.857 5.01 0.00 0.00 3.02
863 876 5.163612 CCTTTTCTAGTGCTAGGCCATTTTC 60.164 44.000 5.01 0.00 34.06 2.29
1143 1158 0.908198 ATGTGAGAGGAGCCAAGACC 59.092 55.000 0.00 0.00 0.00 3.85
1148 1163 1.552337 GAACTGATGTGAGAGGAGCCA 59.448 52.381 0.00 0.00 0.00 4.75
1194 1209 3.899726 TCAGCCTCCGTAAGTAAGAGAT 58.100 45.455 0.00 0.00 0.00 2.75
1241 1257 2.262637 TCCCCTAACGAACTGTCCAAT 58.737 47.619 0.00 0.00 0.00 3.16
1263 1279 1.618837 CTTGGTCAGTCGGGAGAAGAA 59.381 52.381 0.00 0.00 42.89 2.52
1337 1384 1.844687 AGCAAAATTCAGCTCCCTCC 58.155 50.000 0.00 0.00 36.00 4.30
1370 1417 5.598005 TGAACATTCCAAACTCAAAGTGGAT 59.402 36.000 0.00 0.00 41.05 3.41
1372 1419 5.043248 GTGAACATTCCAAACTCAAAGTGG 58.957 41.667 0.00 0.00 0.00 4.00
1375 1422 6.563422 TCTTGTGAACATTCCAAACTCAAAG 58.437 36.000 0.00 0.00 0.00 2.77
1380 1427 6.713762 TGATTCTTGTGAACATTCCAAACT 57.286 33.333 0.00 0.00 34.71 2.66
1387 1434 6.258507 GGTTTTTGCTGATTCTTGTGAACATT 59.741 34.615 0.00 0.00 34.71 2.71
1389 1436 5.108517 GGTTTTTGCTGATTCTTGTGAACA 58.891 37.500 0.00 0.00 34.71 3.18
1404 1467 2.817844 ACTACCAATCTCGGGTTTTTGC 59.182 45.455 0.00 0.00 39.85 3.68
1419 1482 7.503566 ACTCACACTAACTAAACTACACTACCA 59.496 37.037 0.00 0.00 0.00 3.25
1430 1493 5.303589 ACACAGCCTACTCACACTAACTAAA 59.696 40.000 0.00 0.00 0.00 1.85
1432 1495 4.217767 CACACAGCCTACTCACACTAACTA 59.782 45.833 0.00 0.00 0.00 2.24
1433 1496 3.005897 CACACAGCCTACTCACACTAACT 59.994 47.826 0.00 0.00 0.00 2.24
1434 1497 3.243771 ACACACAGCCTACTCACACTAAC 60.244 47.826 0.00 0.00 0.00 2.34
1435 1498 2.963101 ACACACAGCCTACTCACACTAA 59.037 45.455 0.00 0.00 0.00 2.24
1436 1499 2.557056 GACACACAGCCTACTCACACTA 59.443 50.000 0.00 0.00 0.00 2.74
1437 1500 1.341531 GACACACAGCCTACTCACACT 59.658 52.381 0.00 0.00 0.00 3.55
1438 1501 1.068588 TGACACACAGCCTACTCACAC 59.931 52.381 0.00 0.00 0.00 3.82
1439 1502 1.341209 CTGACACACAGCCTACTCACA 59.659 52.381 0.00 0.00 39.86 3.58
1440 1503 2.071688 CTGACACACAGCCTACTCAC 57.928 55.000 0.00 0.00 39.86 3.51
1458 1521 2.434336 TCCACTGAACTGTGTGCTAACT 59.566 45.455 10.04 0.00 36.30 2.24
1461 1524 6.098266 ACATATATCCACTGAACTGTGTGCTA 59.902 38.462 10.04 1.50 36.30 3.49
1466 1529 5.525012 CCACACATATATCCACTGAACTGTG 59.475 44.000 0.00 0.00 38.86 3.66
1473 1536 6.528321 AGTGAATCCACACATATATCCACTG 58.472 40.000 0.00 0.00 45.54 3.66
1474 1537 6.753913 AGTGAATCCACACATATATCCACT 57.246 37.500 0.00 0.00 45.54 4.00
1524 1589 7.123697 CCCATATTCAACATATGCCATCATTCT 59.876 37.037 1.58 0.00 34.22 2.40
1525 1590 7.262772 CCCATATTCAACATATGCCATCATTC 58.737 38.462 1.58 0.00 34.22 2.67
1528 1596 5.018149 CCCCATATTCAACATATGCCATCA 58.982 41.667 1.58 0.00 32.22 3.07
1548 1616 3.020984 TCAAAGTTCAAACAGTCACCCC 58.979 45.455 0.00 0.00 0.00 4.95
1556 1624 6.367422 GTCACAATTGGTTCAAAGTTCAAACA 59.633 34.615 10.83 0.00 0.00 2.83
1636 1704 2.227626 GCTGAACCTTTTGCCTCTCTTC 59.772 50.000 0.00 0.00 0.00 2.87
1679 1747 5.728637 TCAGTTTGAGATTGTGCTAGAGA 57.271 39.130 0.00 0.00 0.00 3.10
1726 1824 2.540101 GTGCCTAACATGACGATACAGC 59.460 50.000 0.00 0.00 0.00 4.40
1830 1928 1.490069 TCAATTGCGATGATCTCCCCA 59.510 47.619 0.00 0.00 0.00 4.96
1904 2002 8.108999 TCAGAAAGGACAGGAAATCATGAAATA 58.891 33.333 0.00 0.00 0.00 1.40
1905 2003 6.950041 TCAGAAAGGACAGGAAATCATGAAAT 59.050 34.615 0.00 0.00 0.00 2.17
1908 2006 5.503634 TCAGAAAGGACAGGAAATCATGA 57.496 39.130 0.00 0.00 0.00 3.07
1909 2007 6.579666 TTTCAGAAAGGACAGGAAATCATG 57.420 37.500 0.00 0.00 0.00 3.07
1910 2008 7.890127 TGTATTTCAGAAAGGACAGGAAATCAT 59.110 33.333 8.66 0.00 38.63 2.45
1911 2009 7.230747 TGTATTTCAGAAAGGACAGGAAATCA 58.769 34.615 8.66 0.00 38.63 2.57
1912 2010 7.687941 TGTATTTCAGAAAGGACAGGAAATC 57.312 36.000 8.66 0.00 38.63 2.17
1913 2011 8.526147 CATTGTATTTCAGAAAGGACAGGAAAT 58.474 33.333 11.41 0.00 40.27 2.17
1916 2014 5.415701 GCATTGTATTTCAGAAAGGACAGGA 59.584 40.000 11.41 2.26 0.00 3.86
1927 2025 2.874701 CTCCGAGGGCATTGTATTTCAG 59.125 50.000 0.00 0.00 0.00 3.02
1944 2042 8.110860 AGGATAATGGCAAAATAATTACTCCG 57.889 34.615 0.00 0.00 0.00 4.63
2029 2127 4.023707 GCCTAAGCAATCGAAAGCACATAT 60.024 41.667 13.87 0.00 39.53 1.78
2073 2179 5.061853 CGGTAGAGCTAGACAACATAGGTA 58.938 45.833 0.00 0.00 31.37 3.08
2106 2212 4.884164 AGACATATTTTAGAAGCACTGGCC 59.116 41.667 0.00 0.00 42.56 5.36
2107 2213 5.355350 ACAGACATATTTTAGAAGCACTGGC 59.645 40.000 0.00 0.00 41.61 4.85
2259 2379 6.709643 CAGACCGAAGCAAATAACTTAGATG 58.290 40.000 0.00 0.00 0.00 2.90
2295 2419 1.032014 ATGCAGGACAACCACAACAC 58.968 50.000 0.00 0.00 38.94 3.32
2306 2430 1.667151 TTGCTTGGCAATGCAGGAC 59.333 52.632 18.79 0.00 43.99 3.85
2352 2476 6.265649 AGAGATACACAACACTACTGACACTT 59.734 38.462 0.00 0.00 0.00 3.16
2373 2497 9.982651 GCTACAAAATATACCATAGACAAGAGA 57.017 33.333 0.00 0.00 0.00 3.10
2404 2528 2.383855 TGTAAAACAGGCAGGCAAGTT 58.616 42.857 0.00 0.00 0.00 2.66
2444 2570 7.760131 AAAGAGTCACAACATTGTTTGAATG 57.240 32.000 14.68 6.50 39.91 2.67
2459 2585 9.750125 AATTTGTAATCCTTTCAAAAGAGTCAC 57.250 29.630 4.06 0.00 38.28 3.67
2483 2609 3.130340 CGCAGTTTTGGGCAGGTAATAAT 59.870 43.478 0.00 0.00 0.00 1.28
2504 2630 2.616842 CGATTTTGGGGGTCCTATTTCG 59.383 50.000 0.00 0.00 0.00 3.46
2574 2701 5.008118 GGATAATGCTGCCAAGAAAGTAGAC 59.992 44.000 0.00 0.00 0.00 2.59
2579 2706 2.684881 ACGGATAATGCTGCCAAGAAAG 59.315 45.455 0.00 0.00 0.00 2.62
2583 2710 1.331756 GTGACGGATAATGCTGCCAAG 59.668 52.381 0.00 0.00 0.00 3.61
2594 2721 6.231951 TCAACCTATTGTTTTGTGACGGATA 58.768 36.000 0.00 0.00 37.11 2.59
2595 2722 5.067273 TCAACCTATTGTTTTGTGACGGAT 58.933 37.500 0.00 0.00 37.11 4.18
2598 2725 6.018262 TCTCTTCAACCTATTGTTTTGTGACG 60.018 38.462 0.00 0.00 37.11 4.35
2599 2726 7.259290 TCTCTTCAACCTATTGTTTTGTGAC 57.741 36.000 0.00 0.00 37.11 3.67
2654 2788 1.451504 CCACCTTGTGCAGTCCAGA 59.548 57.895 0.00 0.00 31.34 3.86
2742 2876 3.747193 ACGAAATGATACGCAAGCTTTG 58.253 40.909 0.00 0.00 45.62 2.77
2743 2877 4.083537 TCAACGAAATGATACGCAAGCTTT 60.084 37.500 0.00 0.00 45.62 3.51
2744 2878 3.435327 TCAACGAAATGATACGCAAGCTT 59.565 39.130 0.00 0.00 45.62 3.74
2745 2879 3.000041 TCAACGAAATGATACGCAAGCT 59.000 40.909 0.00 0.00 45.62 3.74
2746 2880 3.383546 TCAACGAAATGATACGCAAGC 57.616 42.857 0.00 0.00 45.62 4.01
2747 2881 6.510746 TCTATCAACGAAATGATACGCAAG 57.489 37.500 0.00 0.00 40.44 4.01
2748 2882 6.754675 TCTTCTATCAACGAAATGATACGCAA 59.245 34.615 0.00 0.00 40.44 4.85
2749 2883 6.270064 TCTTCTATCAACGAAATGATACGCA 58.730 36.000 0.00 0.00 40.44 5.24
2750 2884 6.749216 TCTTCTATCAACGAAATGATACGC 57.251 37.500 0.00 0.00 40.44 4.42
2767 2901 8.696374 CCCTGTGTACTCATTCTAATTCTTCTA 58.304 37.037 0.00 0.00 0.00 2.10
2768 2902 7.400339 TCCCTGTGTACTCATTCTAATTCTTCT 59.600 37.037 0.00 0.00 0.00 2.85
2769 2903 7.556844 TCCCTGTGTACTCATTCTAATTCTTC 58.443 38.462 0.00 0.00 0.00 2.87
2770 2904 7.496346 TCCCTGTGTACTCATTCTAATTCTT 57.504 36.000 0.00 0.00 0.00 2.52
2771 2905 7.682787 ATCCCTGTGTACTCATTCTAATTCT 57.317 36.000 0.00 0.00 0.00 2.40
2772 2906 8.421784 TGTATCCCTGTGTACTCATTCTAATTC 58.578 37.037 0.00 0.00 0.00 2.17
2773 2907 8.319057 TGTATCCCTGTGTACTCATTCTAATT 57.681 34.615 0.00 0.00 0.00 1.40
2774 2908 7.914427 TGTATCCCTGTGTACTCATTCTAAT 57.086 36.000 0.00 0.00 0.00 1.73
2775 2909 7.179516 TGTTGTATCCCTGTGTACTCATTCTAA 59.820 37.037 0.00 0.00 0.00 2.10
2776 2910 6.666113 TGTTGTATCCCTGTGTACTCATTCTA 59.334 38.462 0.00 0.00 0.00 2.10
2777 2911 5.483937 TGTTGTATCCCTGTGTACTCATTCT 59.516 40.000 0.00 0.00 0.00 2.40
2778 2912 5.730550 TGTTGTATCCCTGTGTACTCATTC 58.269 41.667 0.00 0.00 0.00 2.67
2779 2913 5.755409 TGTTGTATCCCTGTGTACTCATT 57.245 39.130 0.00 0.00 0.00 2.57
2780 2914 5.957771 ATGTTGTATCCCTGTGTACTCAT 57.042 39.130 0.00 0.00 0.00 2.90
2781 2915 6.609616 TCATATGTTGTATCCCTGTGTACTCA 59.390 38.462 1.90 0.00 0.00 3.41
2782 2916 6.924060 GTCATATGTTGTATCCCTGTGTACTC 59.076 42.308 1.90 0.00 0.00 2.59
2783 2917 6.382859 TGTCATATGTTGTATCCCTGTGTACT 59.617 38.462 1.90 0.00 0.00 2.73
2784 2918 6.479001 GTGTCATATGTTGTATCCCTGTGTAC 59.521 42.308 1.90 0.00 0.00 2.90
2785 2919 6.578944 GTGTCATATGTTGTATCCCTGTGTA 58.421 40.000 1.90 0.00 0.00 2.90
2786 2920 5.428253 GTGTCATATGTTGTATCCCTGTGT 58.572 41.667 1.90 0.00 0.00 3.72
2787 2921 4.507756 CGTGTCATATGTTGTATCCCTGTG 59.492 45.833 1.90 0.00 0.00 3.66
2788 2922 4.404394 TCGTGTCATATGTTGTATCCCTGT 59.596 41.667 1.90 0.00 0.00 4.00
2789 2923 4.944048 TCGTGTCATATGTTGTATCCCTG 58.056 43.478 1.90 0.00 0.00 4.45
2790 2924 5.357257 GTTCGTGTCATATGTTGTATCCCT 58.643 41.667 1.90 0.00 0.00 4.20
2791 2925 4.208460 CGTTCGTGTCATATGTTGTATCCC 59.792 45.833 1.90 0.00 0.00 3.85
2792 2926 4.317839 GCGTTCGTGTCATATGTTGTATCC 60.318 45.833 1.90 0.00 0.00 2.59
2793 2927 4.266739 TGCGTTCGTGTCATATGTTGTATC 59.733 41.667 1.90 0.00 0.00 2.24
2794 2928 4.177783 TGCGTTCGTGTCATATGTTGTAT 58.822 39.130 1.90 0.00 0.00 2.29
2795 2929 3.576648 TGCGTTCGTGTCATATGTTGTA 58.423 40.909 1.90 0.00 0.00 2.41
2796 2930 2.409012 TGCGTTCGTGTCATATGTTGT 58.591 42.857 1.90 0.00 0.00 3.32
2797 2931 2.222796 CCTGCGTTCGTGTCATATGTTG 60.223 50.000 1.90 0.00 0.00 3.33
2798 2932 1.999735 CCTGCGTTCGTGTCATATGTT 59.000 47.619 1.90 0.00 0.00 2.71
2799 2933 1.640428 CCTGCGTTCGTGTCATATGT 58.360 50.000 1.90 0.00 0.00 2.29
2800 2934 0.301687 GCCTGCGTTCGTGTCATATG 59.698 55.000 0.00 0.00 0.00 1.78
2801 2935 0.108377 TGCCTGCGTTCGTGTCATAT 60.108 50.000 0.00 0.00 0.00 1.78
2802 2936 0.735978 CTGCCTGCGTTCGTGTCATA 60.736 55.000 0.00 0.00 0.00 2.15
2803 2937 2.029288 CTGCCTGCGTTCGTGTCAT 61.029 57.895 0.00 0.00 0.00 3.06
2804 2938 2.661537 CTGCCTGCGTTCGTGTCA 60.662 61.111 0.00 0.00 0.00 3.58
2805 2939 2.355837 TCTGCCTGCGTTCGTGTC 60.356 61.111 0.00 0.00 0.00 3.67
2806 2940 2.661866 GTCTGCCTGCGTTCGTGT 60.662 61.111 0.00 0.00 0.00 4.49
2807 2941 3.767230 CGTCTGCCTGCGTTCGTG 61.767 66.667 0.00 0.00 0.00 4.35
2808 2942 4.280494 ACGTCTGCCTGCGTTCGT 62.280 61.111 0.00 0.00 38.21 3.85
2809 2943 3.767230 CACGTCTGCCTGCGTTCG 61.767 66.667 0.00 0.00 39.48 3.95
2810 2944 1.372499 TACACGTCTGCCTGCGTTC 60.372 57.895 0.00 0.00 39.48 3.95
2811 2945 1.663702 GTACACGTCTGCCTGCGTT 60.664 57.895 0.00 0.00 39.48 4.84
2812 2946 2.049433 GTACACGTCTGCCTGCGT 60.049 61.111 0.00 0.00 42.45 5.24
2813 2947 1.446099 ATGTACACGTCTGCCTGCG 60.446 57.895 0.00 0.00 0.00 5.18
2814 2948 1.361668 CCATGTACACGTCTGCCTGC 61.362 60.000 0.00 0.00 0.00 4.85
2815 2949 0.037326 ACCATGTACACGTCTGCCTG 60.037 55.000 0.00 0.00 0.00 4.85
2816 2950 0.037326 CACCATGTACACGTCTGCCT 60.037 55.000 0.00 0.00 0.00 4.75
2817 2951 1.019278 CCACCATGTACACGTCTGCC 61.019 60.000 0.00 0.00 0.00 4.85
2818 2952 1.635663 GCCACCATGTACACGTCTGC 61.636 60.000 0.00 0.00 0.00 4.26
2819 2953 1.019278 GGCCACCATGTACACGTCTG 61.019 60.000 0.00 0.00 0.00 3.51
2820 2954 1.295423 GGCCACCATGTACACGTCT 59.705 57.895 0.00 0.00 0.00 4.18
2821 2955 2.098233 CGGCCACCATGTACACGTC 61.098 63.158 2.24 0.00 0.00 4.34
2822 2956 2.047655 CGGCCACCATGTACACGT 60.048 61.111 2.24 0.00 0.00 4.49
2823 2957 2.817834 CCGGCCACCATGTACACG 60.818 66.667 2.24 0.00 0.00 4.49
2824 2958 1.449601 CTCCGGCCACCATGTACAC 60.450 63.158 2.24 0.00 0.00 2.90
2825 2959 2.986290 CTCCGGCCACCATGTACA 59.014 61.111 2.24 0.00 0.00 2.90
2826 2960 2.513897 GCTCCGGCCACCATGTAC 60.514 66.667 2.24 0.00 0.00 2.90
2827 2961 3.006133 TGCTCCGGCCACCATGTA 61.006 61.111 2.24 0.00 37.74 2.29
2828 2962 4.415150 CTGCTCCGGCCACCATGT 62.415 66.667 2.24 0.00 37.74 3.21
2829 2963 4.100084 TCTGCTCCGGCCACCATG 62.100 66.667 2.24 0.00 37.74 3.66
2830 2964 3.790437 CTCTGCTCCGGCCACCAT 61.790 66.667 2.24 0.00 37.74 3.55
2832 2966 4.154347 CTCTCTGCTCCGGCCACC 62.154 72.222 2.24 0.00 37.74 4.61
2833 2967 3.071206 TCTCTCTGCTCCGGCCAC 61.071 66.667 2.24 0.00 37.74 5.01
2834 2968 3.071206 GTCTCTCTGCTCCGGCCA 61.071 66.667 2.24 0.00 37.74 5.36
2835 2969 2.570582 CTTGTCTCTCTGCTCCGGCC 62.571 65.000 0.00 0.00 37.74 6.13
2836 2970 1.153667 CTTGTCTCTCTGCTCCGGC 60.154 63.158 0.00 0.00 39.26 6.13
2837 2971 1.515020 CCTTGTCTCTCTGCTCCGG 59.485 63.158 0.00 0.00 0.00 5.14
2838 2972 0.967887 TCCCTTGTCTCTCTGCTCCG 60.968 60.000 0.00 0.00 0.00 4.63
2839 2973 1.138661 CATCCCTTGTCTCTCTGCTCC 59.861 57.143 0.00 0.00 0.00 4.70
2840 2974 1.138661 CCATCCCTTGTCTCTCTGCTC 59.861 57.143 0.00 0.00 0.00 4.26
2841 2975 1.202330 CCATCCCTTGTCTCTCTGCT 58.798 55.000 0.00 0.00 0.00 4.24
2842 2976 0.908198 ACCATCCCTTGTCTCTCTGC 59.092 55.000 0.00 0.00 0.00 4.26
2843 2977 2.182827 TGACCATCCCTTGTCTCTCTG 58.817 52.381 0.00 0.00 32.67 3.35
2844 2978 2.569404 GTTGACCATCCCTTGTCTCTCT 59.431 50.000 0.00 0.00 32.67 3.10
2845 2979 2.355209 GGTTGACCATCCCTTGTCTCTC 60.355 54.545 0.00 0.00 35.64 3.20
2846 2980 1.630878 GGTTGACCATCCCTTGTCTCT 59.369 52.381 0.00 0.00 35.64 3.10
2847 2981 1.340114 GGGTTGACCATCCCTTGTCTC 60.340 57.143 8.54 0.00 40.48 3.36
2848 2982 0.698818 GGGTTGACCATCCCTTGTCT 59.301 55.000 8.54 0.00 40.48 3.41
2849 2983 0.676782 CGGGTTGACCATCCCTTGTC 60.677 60.000 12.80 0.00 41.40 3.18
2850 2984 1.378762 CGGGTTGACCATCCCTTGT 59.621 57.895 12.80 0.00 41.40 3.16
2851 2985 0.616371 TACGGGTTGACCATCCCTTG 59.384 55.000 12.80 3.07 41.40 3.61
2852 2986 0.616891 GTACGGGTTGACCATCCCTT 59.383 55.000 12.80 7.30 41.40 3.95
2853 2987 0.545787 TGTACGGGTTGACCATCCCT 60.546 55.000 12.80 4.69 41.40 4.20
2854 2988 0.107848 CTGTACGGGTTGACCATCCC 60.108 60.000 2.12 6.15 40.22 3.85
2855 2989 0.899720 TCTGTACGGGTTGACCATCC 59.100 55.000 0.85 0.00 40.22 3.51
2856 2990 1.134788 CCTCTGTACGGGTTGACCATC 60.135 57.143 0.85 0.00 40.22 3.51
2857 2991 0.902531 CCTCTGTACGGGTTGACCAT 59.097 55.000 0.85 0.00 40.22 3.55
2858 2992 0.178955 TCCTCTGTACGGGTTGACCA 60.179 55.000 0.85 0.00 40.22 4.02
2859 2993 1.192428 ATCCTCTGTACGGGTTGACC 58.808 55.000 0.85 0.00 0.00 4.02
2860 2994 2.232941 TGAATCCTCTGTACGGGTTGAC 59.767 50.000 0.85 0.00 0.00 3.18
2861 2995 2.531771 TGAATCCTCTGTACGGGTTGA 58.468 47.619 0.85 0.00 0.00 3.18
2862 2996 3.000727 GTTGAATCCTCTGTACGGGTTG 58.999 50.000 0.85 0.00 0.00 3.77
2863 2997 2.635915 TGTTGAATCCTCTGTACGGGTT 59.364 45.455 0.85 0.00 0.00 4.11
2864 2998 2.253610 TGTTGAATCCTCTGTACGGGT 58.746 47.619 0.85 0.00 0.00 5.28


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

AutoCloner maintained by Alex Coulton.