Multiple sequence alignment - TraesCS4B01G391500

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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 TraesCS4B01G391500 chr4B 100.000 4277 0 0 1 4277 667342535 667346811 0.000000e+00 7899.0
1 TraesCS4B01G391500 chr4B 90.390 1925 94 22 1 1856 639450970 639452872 0.000000e+00 2446.0
2 TraesCS4B01G391500 chr4B 88.917 794 50 17 2837 3611 639452865 639453639 0.000000e+00 944.0
3 TraesCS4B01G391500 chr4B 81.437 668 84 24 1222 1856 489294396 489293736 1.060000e-140 510.0
4 TraesCS4B01G391500 chr4B 79.608 765 90 33 1128 1856 626068872 626068138 4.970000e-134 488.0
5 TraesCS4B01G391500 chr4B 84.755 387 23 13 3614 3967 639453802 639454185 5.260000e-94 355.0
6 TraesCS4B01G391500 chr4B 79.137 417 46 18 2885 3299 489293689 489293312 2.550000e-62 250.0
7 TraesCS4B01G391500 chr4B 81.789 313 34 16 140 440 626071448 626071147 1.540000e-59 241.0
8 TraesCS4B01G391500 chr4B 78.756 386 63 16 2891 3267 667264020 667264395 1.540000e-59 241.0
9 TraesCS4B01G391500 chr4B 91.045 134 10 2 4045 4176 639454201 639454334 3.400000e-41 180.0
10 TraesCS4B01G391500 chr4B 87.302 126 15 1 1494 1618 639294594 639294719 4.460000e-30 143.0
11 TraesCS4B01G391500 chr4B 86.131 137 13 4 3131 3266 639323657 639323788 4.460000e-30 143.0
12 TraesCS4B01G391500 chr4B 86.614 127 13 4 1494 1618 639269018 639269142 2.070000e-28 137.0
13 TraesCS4B01G391500 chr4B 93.333 75 5 0 3377 3451 489293303 489293229 1.260000e-20 111.0
14 TraesCS4B01G391500 chr4B 95.745 47 2 0 1297 1343 667263180 667263226 4.590000e-10 76.8
15 TraesCS4B01G391500 chr4B 93.617 47 3 0 1297 1343 667277802 667277848 2.130000e-08 71.3
16 TraesCS4B01G391500 chr5A 91.732 1899 92 25 1 1856 706679676 706677800 0.000000e+00 2577.0
17 TraesCS4B01G391500 chr5A 88.466 789 56 15 2837 3609 706677807 706677038 0.000000e+00 920.0
18 TraesCS4B01G391500 chr5A 79.826 461 45 21 133 585 670427494 670427074 4.180000e-75 292.0
19 TraesCS4B01G391500 chrUn 89.595 1384 61 19 1 1338 30127790 30126444 0.000000e+00 1681.0
20 TraesCS4B01G391500 chrUn 94.713 435 5 1 1975 2409 477089693 477089277 0.000000e+00 660.0
21 TraesCS4B01G391500 chrUn 90.652 460 42 1 1397 1856 30126437 30125979 1.020000e-170 610.0
22 TraesCS4B01G391500 chrUn 93.103 290 14 2 2837 3120 30125986 30125697 1.840000e-113 420.0
23 TraesCS4B01G391500 chrUn 85.470 351 20 11 3614 3936 30125564 30125217 1.910000e-88 337.0
24 TraesCS4B01G391500 chrUn 84.874 238 27 6 2342 2574 356260324 356260091 9.250000e-57 231.0
25 TraesCS4B01G391500 chr7B 97.041 980 11 1 1857 2836 701644972 701645933 0.000000e+00 1633.0
26 TraesCS4B01G391500 chr7B 87.283 173 22 0 2665 2837 4650801 4650973 9.380000e-47 198.0
27 TraesCS4B01G391500 chr7B 100.000 28 0 0 2198 2225 679425553 679425526 8.000000e-03 52.8
28 TraesCS4B01G391500 chr3A 96.837 980 13 1 1857 2836 86602899 86603860 0.000000e+00 1622.0
29 TraesCS4B01G391500 chr3A 91.423 478 14 3 1856 2333 743537219 743537669 7.800000e-177 630.0
30 TraesCS4B01G391500 chr3A 79.771 262 39 8 1860 2108 749721141 749720881 1.220000e-40 178.0
31 TraesCS4B01G391500 chr4A 95.010 982 17 4 1855 2836 725462641 725463590 0.000000e+00 1513.0
32 TraesCS4B01G391500 chr4A 81.001 679 83 20 1218 1856 54405840 54405168 8.260000e-137 497.0
33 TraesCS4B01G391500 chr4A 78.897 417 48 18 2885 3299 54405121 54404743 3.300000e-61 246.0
34 TraesCS4B01G391500 chr4A 93.333 75 5 0 3377 3451 54404734 54404660 1.260000e-20 111.0
35 TraesCS4B01G391500 chr2A 94.238 833 21 9 1950 2782 605566476 605567281 0.000000e+00 1247.0
36 TraesCS4B01G391500 chr3B 95.329 578 11 2 2259 2836 812312343 812311782 0.000000e+00 904.0
37 TraesCS4B01G391500 chr3B 94.627 335 5 2 1857 2191 812312668 812312347 1.370000e-139 507.0
38 TraesCS4B01G391500 chr3B 84.454 238 28 6 2342 2574 825153968 825154201 4.300000e-55 226.0
39 TraesCS4B01G391500 chr5B 94.133 392 7 2 2259 2650 606926324 606925949 2.220000e-162 582.0
40 TraesCS4B01G391500 chr5B 92.636 258 6 2 1934 2191 606926572 606926328 4.070000e-95 359.0
41 TraesCS4B01G391500 chr5B 96.316 190 7 0 2643 2832 606924782 606924593 3.210000e-81 313.0
42 TraesCS4B01G391500 chr4D 81.506 757 84 20 1128 1856 488666097 488665369 4.800000e-159 571.0
43 TraesCS4B01G391500 chr4D 81.511 741 87 27 1154 1856 397158318 397157590 8.030000e-157 564.0
44 TraesCS4B01G391500 chr4D 80.744 457 51 21 140 585 488667322 488666892 5.340000e-84 322.0
45 TraesCS4B01G391500 chr4D 78.398 412 47 20 2885 3294 397157543 397157172 3.330000e-56 230.0
46 TraesCS4B01G391500 chr1B 84.454 238 28 6 2342 2574 554192615 554192382 4.300000e-55 226.0
47 TraesCS4B01G391500 chr1B 83.957 187 28 2 1860 2045 647599403 647599588 1.220000e-40 178.0
48 TraesCS4B01G391500 chr3D 87.766 188 19 4 2645 2830 573891719 573891904 2.590000e-52 217.0
49 TraesCS4B01G391500 chr3D 100.000 28 0 0 2198 2225 579518838 579518811 8.000000e-03 52.8
50 TraesCS4B01G391500 chr1A 86.782 174 23 0 2666 2839 394027679 394027852 1.210000e-45 195.0
51 TraesCS4B01G391500 chr6B 93.023 43 2 1 4236 4277 70692954 70692912 1.280000e-05 62.1


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 TraesCS4B01G391500 chr4B 667342535 667346811 4276 False 7899.000000 7899 100.000000 1 4277 1 chr4B.!!$F5 4276
1 TraesCS4B01G391500 chr4B 639450970 639454334 3364 False 981.250000 2446 88.776750 1 4176 4 chr4B.!!$F6 4175
2 TraesCS4B01G391500 chr4B 626068138 626071448 3310 True 364.500000 488 80.698500 140 1856 2 chr4B.!!$R2 1716
3 TraesCS4B01G391500 chr4B 489293229 489294396 1167 True 290.333333 510 84.635667 1222 3451 3 chr4B.!!$R1 2229
4 TraesCS4B01G391500 chr5A 706677038 706679676 2638 True 1748.500000 2577 90.099000 1 3609 2 chr5A.!!$R2 3608
5 TraesCS4B01G391500 chrUn 30125217 30127790 2573 True 762.000000 1681 89.705000 1 3936 4 chrUn.!!$R3 3935
6 TraesCS4B01G391500 chr7B 701644972 701645933 961 False 1633.000000 1633 97.041000 1857 2836 1 chr7B.!!$F2 979
7 TraesCS4B01G391500 chr3A 86602899 86603860 961 False 1622.000000 1622 96.837000 1857 2836 1 chr3A.!!$F1 979
8 TraesCS4B01G391500 chr4A 725462641 725463590 949 False 1513.000000 1513 95.010000 1855 2836 1 chr4A.!!$F1 981
9 TraesCS4B01G391500 chr4A 54404660 54405840 1180 True 284.666667 497 84.410333 1218 3451 3 chr4A.!!$R1 2233
10 TraesCS4B01G391500 chr2A 605566476 605567281 805 False 1247.000000 1247 94.238000 1950 2782 1 chr2A.!!$F1 832
11 TraesCS4B01G391500 chr3B 812311782 812312668 886 True 705.500000 904 94.978000 1857 2836 2 chr3B.!!$R1 979
12 TraesCS4B01G391500 chr5B 606924593 606926572 1979 True 418.000000 582 94.361667 1934 2832 3 chr5B.!!$R1 898
13 TraesCS4B01G391500 chr4D 488665369 488667322 1953 True 446.500000 571 81.125000 140 1856 2 chr4D.!!$R2 1716
14 TraesCS4B01G391500 chr4D 397157172 397158318 1146 True 397.000000 564 79.954500 1154 3294 2 chr4D.!!$R1 2140

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
863 2640 0.244994 GCAGAGAAGAGAACGCAGGA 59.755 55.0 0.0 0.0 0.00 3.86 F
1462 3336 0.323957 GGCACCCTAAACTTCTCCGT 59.676 55.0 0.0 0.0 0.00 4.69 F
2839 5962 0.179018 GGTATGTCCACCCTGATGCC 60.179 60.0 0.0 0.0 35.97 4.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 3711 0.396695 ATTGCTCATCCAGGGCCTTG 60.397 55.0 8.15 8.15 0.00 3.61 R
2914 6043 0.038251 TACTCAGGAGCGCTGTGTTG 60.038 55.0 18.48 11.88 32.01 3.33 R
4116 7464 0.321564 TGGTGTGGGCTCTTCAATCG 60.322 55.0 0.00 0.00 0.00 3.34 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
40 41 4.881273 CCCAATGGAGTAATTTGTCGATGA 59.119 41.667 0.00 0.00 0.00 2.92
122 123 5.106317 CGAAATGGCCTTTAGAGTAAGCAAA 60.106 40.000 3.32 0.00 0.00 3.68
125 126 5.643379 TGGCCTTTAGAGTAAGCAAATTG 57.357 39.130 3.32 0.00 0.00 2.32
174 175 7.388460 AGAGAAAAATCTTCATCGCAATCTT 57.612 32.000 0.00 0.00 0.00 2.40
175 176 8.498054 AGAGAAAAATCTTCATCGCAATCTTA 57.502 30.769 0.00 0.00 0.00 2.10
176 177 9.118300 AGAGAAAAATCTTCATCGCAATCTTAT 57.882 29.630 0.00 0.00 0.00 1.73
245 259 2.947652 GCACATGCACCTAGATCAATGT 59.052 45.455 0.00 0.00 41.59 2.71
276 290 9.746457 ACATGATGAGTATCTAATCTAGTAGCA 57.254 33.333 0.00 0.00 34.92 3.49
349 380 3.057245 GCATTTGTCCTCTTCAGGTTTCC 60.057 47.826 0.00 0.00 41.28 3.13
360 391 0.961753 CAGGTTTCCACTTTCCAGCC 59.038 55.000 0.00 0.00 0.00 4.85
370 401 2.411765 CTTTCCAGCCGGTTGGTCCT 62.412 60.000 33.29 4.01 39.35 3.85
394 425 3.749088 CCGGCACAGTTGTCTTGTATTTA 59.251 43.478 0.00 0.00 0.00 1.40
792 2268 4.338710 GGCCAACCCACGCCACTA 62.339 66.667 0.00 0.00 45.01 2.74
832 2609 2.737376 GACAGGACGCCGGTCAAC 60.737 66.667 18.74 0.00 45.57 3.18
863 2640 0.244994 GCAGAGAAGAGAACGCAGGA 59.755 55.000 0.00 0.00 0.00 3.86
871 2648 6.881602 AGAGAAGAGAACGCAGGAAAAATAAT 59.118 34.615 0.00 0.00 0.00 1.28
890 2669 7.588497 AATAATGGAATTAGAGGTTTCAGGC 57.412 36.000 0.00 0.00 42.97 4.85
891 2670 4.870021 ATGGAATTAGAGGTTTCAGGCT 57.130 40.909 0.00 0.00 0.00 4.58
892 2671 5.975988 ATGGAATTAGAGGTTTCAGGCTA 57.024 39.130 0.00 0.00 0.00 3.93
893 2672 5.975988 TGGAATTAGAGGTTTCAGGCTAT 57.024 39.130 0.00 0.00 0.00 2.97
894 2673 5.930135 TGGAATTAGAGGTTTCAGGCTATC 58.070 41.667 0.00 0.00 0.00 2.08
895 2674 5.428457 TGGAATTAGAGGTTTCAGGCTATCA 59.572 40.000 0.00 0.00 0.00 2.15
896 2675 5.994668 GGAATTAGAGGTTTCAGGCTATCAG 59.005 44.000 0.00 0.00 0.00 2.90
897 2676 5.559148 ATTAGAGGTTTCAGGCTATCAGG 57.441 43.478 0.00 0.00 0.00 3.86
899 2678 3.995636 AGAGGTTTCAGGCTATCAGGTA 58.004 45.455 0.00 0.00 0.00 3.08
900 2679 4.561752 AGAGGTTTCAGGCTATCAGGTAT 58.438 43.478 0.00 0.00 0.00 2.73
901 2680 5.716979 AGAGGTTTCAGGCTATCAGGTATA 58.283 41.667 0.00 0.00 0.00 1.47
902 2681 6.326970 AGAGGTTTCAGGCTATCAGGTATAT 58.673 40.000 0.00 0.00 0.00 0.86
903 2682 6.789959 AGAGGTTTCAGGCTATCAGGTATATT 59.210 38.462 0.00 0.00 0.00 1.28
904 2683 7.010339 AGGTTTCAGGCTATCAGGTATATTC 57.990 40.000 0.00 0.00 0.00 1.75
963 2747 2.093181 TGGGTCTGCGCTTGTATATGTT 60.093 45.455 9.73 0.00 0.00 2.71
965 2749 4.124238 GGGTCTGCGCTTGTATATGTTTA 58.876 43.478 9.73 0.00 0.00 2.01
973 2757 7.847487 TGCGCTTGTATATGTTTATTAGTGAC 58.153 34.615 9.73 0.00 0.00 3.67
1026 2815 0.835941 AACCAAACCAATGGCTTGCA 59.164 45.000 9.78 0.00 44.75 4.08
1031 2820 1.636148 AACCAATGGCTTGCACAGAT 58.364 45.000 0.00 0.00 0.00 2.90
1076 2914 9.883142 TTTGAAATTTGAAAGTTTAGATGGTGT 57.117 25.926 0.00 0.00 0.00 4.16
1430 3293 1.079127 CCGCCATCGTCCAACTTCT 60.079 57.895 0.00 0.00 0.00 2.85
1432 3295 1.404986 CCGCCATCGTCCAACTTCTTA 60.405 52.381 0.00 0.00 0.00 2.10
1437 3300 4.122776 CCATCGTCCAACTTCTTATCCTG 58.877 47.826 0.00 0.00 0.00 3.86
1462 3336 0.323957 GGCACCCTAAACTTCTCCGT 59.676 55.000 0.00 0.00 0.00 4.69
1511 3391 0.613260 AAGGGACGATGCAACAGCTA 59.387 50.000 0.00 0.00 0.00 3.32
1595 3484 4.845580 CGGCGGGAGAAGCTGCAT 62.846 66.667 1.02 0.00 33.94 3.96
1597 3486 2.188994 GCGGGAGAAGCTGCATCT 59.811 61.111 7.16 7.16 0.00 2.90
1618 3507 0.606401 CAGTTCGTGTCCTTGGCCAT 60.606 55.000 6.09 0.00 0.00 4.40
1619 3508 0.606401 AGTTCGTGTCCTTGGCCATG 60.606 55.000 6.09 9.47 0.00 3.66
1773 3711 1.220477 GCAGCTGGAGGAGAAGGTC 59.780 63.158 17.12 0.00 0.00 3.85
1792 3733 0.396695 CAAGGCCCTGGATGAGCAAT 60.397 55.000 0.00 0.00 0.00 3.56
2178 4127 4.699637 TCCAACTGACGAAACTGTATTGT 58.300 39.130 0.00 0.00 0.00 2.71
2179 4128 4.748102 TCCAACTGACGAAACTGTATTGTC 59.252 41.667 0.00 0.84 0.00 3.18
2180 4129 4.750098 CCAACTGACGAAACTGTATTGTCT 59.250 41.667 0.00 0.00 0.00 3.41
2181 4130 5.333339 CCAACTGACGAAACTGTATTGTCTG 60.333 44.000 0.00 9.76 35.46 3.51
2182 4131 5.196341 ACTGACGAAACTGTATTGTCTGA 57.804 39.130 15.02 0.00 34.08 3.27
2183 4132 4.982916 ACTGACGAAACTGTATTGTCTGAC 59.017 41.667 15.02 0.00 34.08 3.51
2184 4133 3.978855 TGACGAAACTGTATTGTCTGACG 59.021 43.478 2.98 0.00 0.00 4.35
2185 4134 4.224433 GACGAAACTGTATTGTCTGACGA 58.776 43.478 0.00 0.00 0.00 4.20
2186 4135 4.613944 ACGAAACTGTATTGTCTGACGAA 58.386 39.130 1.10 0.00 0.00 3.85
2187 4136 5.045215 ACGAAACTGTATTGTCTGACGAAA 58.955 37.500 1.10 0.00 0.00 3.46
2188 4137 5.051240 ACGAAACTGTATTGTCTGACGAAAC 60.051 40.000 1.10 0.94 0.00 2.78
2189 4138 5.175126 CGAAACTGTATTGTCTGACGAAACT 59.825 40.000 1.10 0.00 0.00 2.66
2190 4139 5.907197 AACTGTATTGTCTGACGAAACTG 57.093 39.130 1.10 6.68 0.00 3.16
2191 4140 4.945246 ACTGTATTGTCTGACGAAACTGT 58.055 39.130 1.10 7.24 0.00 3.55
2192 4141 6.080648 ACTGTATTGTCTGACGAAACTGTA 57.919 37.500 1.10 0.00 0.00 2.74
2193 4142 6.688578 ACTGTATTGTCTGACGAAACTGTAT 58.311 36.000 1.10 0.00 0.00 2.29
2194 4143 7.152645 ACTGTATTGTCTGACGAAACTGTATT 58.847 34.615 1.10 0.00 0.00 1.89
2195 4144 7.116376 ACTGTATTGTCTGACGAAACTGTATTG 59.884 37.037 1.10 0.00 0.00 1.90
2318 4267 1.313812 GCTGCAGCTGCTCCTTCATT 61.314 55.000 36.61 0.00 42.66 2.57
2555 4504 2.040278 CTCCCTCCCTCCTGCAGT 59.960 66.667 13.81 0.00 0.00 4.40
2734 5857 3.377172 CGTTTTCTCGGGCCTAATTTGAT 59.623 43.478 0.84 0.00 0.00 2.57
2824 5947 1.029947 CCAAAAAGCCCGCTCGGTAT 61.030 55.000 7.59 0.00 0.00 2.73
2836 5959 1.414158 CTCGGTATGTCCACCCTGAT 58.586 55.000 0.00 0.00 34.90 2.90
2837 5960 1.069204 CTCGGTATGTCCACCCTGATG 59.931 57.143 0.00 0.00 34.90 3.07
2838 5961 0.532862 CGGTATGTCCACCCTGATGC 60.533 60.000 0.00 0.00 34.90 3.91
2839 5962 0.179018 GGTATGTCCACCCTGATGCC 60.179 60.000 0.00 0.00 35.97 4.40
2840 5963 0.532862 GTATGTCCACCCTGATGCCG 60.533 60.000 0.00 0.00 0.00 5.69
2841 5964 0.689412 TATGTCCACCCTGATGCCGA 60.689 55.000 0.00 0.00 0.00 5.54
2842 5965 2.125106 GTCCACCCTGATGCCGAC 60.125 66.667 0.00 0.00 0.00 4.79
2843 5966 2.606213 TCCACCCTGATGCCGACA 60.606 61.111 0.00 0.00 0.00 4.35
2896 6025 1.623542 GGTACCTGAGCCCGGACATT 61.624 60.000 0.73 0.00 0.00 2.71
2937 6066 1.135915 CACAGCGCTCCTGAGTATCTT 59.864 52.381 7.13 0.00 44.64 2.40
2956 6085 1.734655 TCTGCAGAGGGAGAAAAGGT 58.265 50.000 13.74 0.00 38.67 3.50
3066 6195 2.224843 ACATCACCATCACAGCAAAGGA 60.225 45.455 0.00 0.00 0.00 3.36
3165 6302 5.241064 GGAGAACTCTAATGCATGCATGATT 59.759 40.000 32.79 24.42 36.68 2.57
3270 6407 4.632153 TGGCTCTCAGAAGTTTCAACTAC 58.368 43.478 0.00 0.00 38.57 2.73
3364 6504 5.908916 GAACAGGAGTTCACAACTTCTAC 57.091 43.478 3.66 0.00 45.68 2.59
3389 6539 7.093421 ACCTTTAGTAGTATCTGAGTTTGGTCC 60.093 40.741 0.00 0.00 0.00 4.46
3473 6623 3.297134 TTTCTCTCCAAGCAACAACCT 57.703 42.857 0.00 0.00 0.00 3.50
3475 6625 1.202806 TCTCTCCAAGCAACAACCTGG 60.203 52.381 0.00 0.00 0.00 4.45
3478 6628 0.843309 TCCAAGCAACAACCTGGAGA 59.157 50.000 0.00 0.00 0.00 3.71
3480 6630 2.031120 CCAAGCAACAACCTGGAGAAA 58.969 47.619 0.00 0.00 0.00 2.52
3486 6636 3.858503 GCAACAACCTGGAGAAATGCTTC 60.859 47.826 0.00 0.00 0.00 3.86
3487 6637 3.515602 ACAACCTGGAGAAATGCTTCT 57.484 42.857 0.00 0.00 44.93 2.85
3496 6646 5.835257 TGGAGAAATGCTTCTTTTTCACTG 58.165 37.500 0.00 0.00 42.19 3.66
3544 6699 6.907212 CCATTTATTTGACTGTATTCTGTCGC 59.093 38.462 5.19 0.00 42.70 5.19
3582 6737 7.141363 GCTGCTTTTTCACTGAGAAGAAAATA 58.859 34.615 14.54 8.04 41.67 1.40
3598 6753 8.301002 AGAAGAAAATAGAGAGCCGTATATGAC 58.699 37.037 0.00 0.00 0.00 3.06
3611 6766 8.405418 AGCCGTATATGACTGTTCTAATCTAA 57.595 34.615 0.00 0.00 0.00 2.10
3612 6767 8.516234 AGCCGTATATGACTGTTCTAATCTAAG 58.484 37.037 0.00 0.00 0.00 2.18
3621 6936 8.871125 TGACTGTTCTAATCTAAGAGAAAAGGT 58.129 33.333 6.74 0.00 40.15 3.50
3635 6950 8.785329 AAGAGAAAAGGTAGATGAATGTTCTC 57.215 34.615 0.00 0.00 39.88 2.87
3659 6974 3.631144 ACATTTTTGTCTCGTGCATGTG 58.369 40.909 5.68 3.44 0.00 3.21
3662 6977 0.587768 TTTGTCTCGTGCATGTGCTG 59.412 50.000 5.68 0.00 42.66 4.41
3686 7007 4.389374 AGTACGGGCCTTATTCATGATTG 58.611 43.478 0.84 0.00 0.00 2.67
3687 7008 3.576078 ACGGGCCTTATTCATGATTGA 57.424 42.857 0.84 0.00 0.00 2.57
3708 7029 6.126863 TGATCCTAAATCAACCTGAACTGT 57.873 37.500 0.00 0.00 0.00 3.55
3749 7083 6.653989 AGTTGAAACTATTGGGAGAATCGAT 58.346 36.000 0.00 0.00 37.52 3.59
3768 7102 4.332543 TCGATCATACAAACATTGTCTGCC 59.667 41.667 0.00 0.00 44.12 4.85
3836 7180 5.514279 AGAAACTTGCTTCGAAGATTTGTG 58.486 37.500 28.95 13.03 35.04 3.33
3856 7200 3.740832 GTGCCCAAGTTTGTTTATGAAGC 59.259 43.478 0.00 0.00 0.00 3.86
3862 7206 6.376978 CCAAGTTTGTTTATGAAGCTCAGAG 58.623 40.000 0.00 0.00 0.00 3.35
3863 7207 6.205464 CCAAGTTTGTTTATGAAGCTCAGAGA 59.795 38.462 0.00 0.00 0.00 3.10
3882 7230 6.605194 TCAGAGACAATAACTAGTCAGCAGAT 59.395 38.462 0.00 0.00 37.23 2.90
3937 7285 7.446001 AGCAGAATAGTTGAAGGAAGAAAAG 57.554 36.000 0.00 0.00 0.00 2.27
3940 7288 6.717084 CAGAATAGTTGAAGGAAGAAAAGGGT 59.283 38.462 0.00 0.00 0.00 4.34
3942 7290 6.901081 ATAGTTGAAGGAAGAAAAGGGTTG 57.099 37.500 0.00 0.00 0.00 3.77
3970 7318 3.835478 ATATACCTCAGCTAGCCCAGA 57.165 47.619 12.13 6.53 0.00 3.86
3971 7319 2.008242 ATACCTCAGCTAGCCCAGAG 57.992 55.000 12.13 15.75 0.00 3.35
3972 7320 3.548488 CCTCAGCTAGCCCAGAGG 58.452 66.667 25.17 25.17 41.43 3.69
3974 7322 1.382420 CTCAGCTAGCCCAGAGGGT 60.382 63.158 12.13 0.00 46.51 4.34
3975 7323 1.684386 CTCAGCTAGCCCAGAGGGTG 61.684 65.000 12.13 0.00 46.51 4.61
3976 7324 2.366167 AGCTAGCCCAGAGGGTGG 60.366 66.667 12.13 0.00 46.51 4.61
3990 7338 4.643387 GTGGGGAGGCGCAGTGTT 62.643 66.667 10.83 0.00 0.00 3.32
3991 7339 4.641645 TGGGGAGGCGCAGTGTTG 62.642 66.667 10.83 0.00 0.00 3.33
3993 7341 4.643387 GGGAGGCGCAGTGTTGGT 62.643 66.667 10.83 0.00 0.00 3.67
3994 7342 2.594592 GGAGGCGCAGTGTTGGTT 60.595 61.111 10.83 0.00 0.00 3.67
3995 7343 1.302192 GGAGGCGCAGTGTTGGTTA 60.302 57.895 10.83 0.00 0.00 2.85
3996 7344 0.676782 GGAGGCGCAGTGTTGGTTAT 60.677 55.000 10.83 0.00 0.00 1.89
3997 7345 0.727398 GAGGCGCAGTGTTGGTTATC 59.273 55.000 10.83 0.00 0.00 1.75
3998 7346 1.019278 AGGCGCAGTGTTGGTTATCG 61.019 55.000 10.83 0.00 0.00 2.92
3999 7347 1.226018 GCGCAGTGTTGGTTATCGC 60.226 57.895 0.30 0.00 0.00 4.58
4000 7348 1.058748 CGCAGTGTTGGTTATCGCG 59.941 57.895 0.00 0.00 34.89 5.87
4001 7349 1.423845 GCAGTGTTGGTTATCGCGG 59.576 57.895 6.13 0.00 0.00 6.46
4002 7350 1.296056 GCAGTGTTGGTTATCGCGGT 61.296 55.000 6.13 0.00 0.00 5.68
4003 7351 0.442310 CAGTGTTGGTTATCGCGGTG 59.558 55.000 6.13 0.00 0.00 4.94
4004 7352 0.672401 AGTGTTGGTTATCGCGGTGG 60.672 55.000 6.13 0.00 0.00 4.61
4005 7353 0.952010 GTGTTGGTTATCGCGGTGGT 60.952 55.000 6.13 0.00 0.00 4.16
4006 7354 0.951525 TGTTGGTTATCGCGGTGGTG 60.952 55.000 6.13 0.00 0.00 4.17
4007 7355 0.671163 GTTGGTTATCGCGGTGGTGA 60.671 55.000 6.13 0.00 37.04 4.02
4008 7356 0.671163 TTGGTTATCGCGGTGGTGAC 60.671 55.000 6.13 0.00 35.08 3.67
4009 7357 1.812507 GGTTATCGCGGTGGTGACC 60.813 63.158 6.13 0.00 39.14 4.02
4054 7402 1.764571 TTGCTAACCACCAGCGGAGT 61.765 55.000 1.50 0.00 42.13 3.85
4092 7440 2.934722 TCCCCAAGGAAGAAAGGAGAT 58.065 47.619 0.00 0.00 40.08 2.75
4098 7446 4.205587 CAAGGAAGAAAGGAGATGATGGG 58.794 47.826 0.00 0.00 0.00 4.00
4102 7450 3.086493 AGAAAGGAGATGATGGGGGAT 57.914 47.619 0.00 0.00 0.00 3.85
4110 7458 2.444766 AGATGATGGGGGATGAGGAAAC 59.555 50.000 0.00 0.00 0.00 2.78
4116 7464 2.225017 TGGGGGATGAGGAAACTGAAAC 60.225 50.000 0.00 0.00 44.43 2.78
4121 7469 4.142600 GGGATGAGGAAACTGAAACGATTG 60.143 45.833 0.00 0.00 44.43 2.67
4130 7478 2.224523 ACTGAAACGATTGAAGAGCCCA 60.225 45.455 0.00 0.00 0.00 5.36
4144 7493 2.428187 CCCACACCAACGCCTACA 59.572 61.111 0.00 0.00 0.00 2.74
4180 7530 4.457496 CGGCGATGGAGGCACAGT 62.457 66.667 0.00 0.00 36.37 3.55
4181 7531 2.512515 GGCGATGGAGGCACAGTC 60.513 66.667 0.00 0.00 36.61 3.51
4182 7532 2.887568 GCGATGGAGGCACAGTCG 60.888 66.667 0.00 4.39 35.56 4.18
4183 7533 2.573869 CGATGGAGGCACAGTCGT 59.426 61.111 0.00 0.00 0.00 4.34
4184 7534 1.807165 CGATGGAGGCACAGTCGTG 60.807 63.158 0.00 0.00 46.56 4.35
4185 7535 1.448540 GATGGAGGCACAGTCGTGG 60.449 63.158 0.00 0.00 43.81 4.94
4192 7542 3.941188 CACAGTCGTGGCCCAGGT 61.941 66.667 0.00 0.00 39.64 4.00
4193 7543 3.626924 ACAGTCGTGGCCCAGGTC 61.627 66.667 0.00 0.00 0.00 3.85
4194 7544 4.742201 CAGTCGTGGCCCAGGTCG 62.742 72.222 0.00 0.00 0.00 4.79
4212 7562 2.281767 TGGCCCAGGCACAGTTTT 59.718 55.556 11.50 0.00 44.11 2.43
4213 7563 1.382420 TGGCCCAGGCACAGTTTTT 60.382 52.632 11.50 0.00 44.11 1.94
4236 7586 7.982371 TTTTTAAAGCGTCAATTAAACGGAA 57.018 28.000 12.74 0.00 40.41 4.30
4237 7587 7.611821 TTTTAAAGCGTCAATTAAACGGAAG 57.388 32.000 12.74 0.00 40.41 3.46
4254 7604 6.535274 ACGGAAGTACAAAGTATGTCAAAC 57.465 37.500 0.00 0.00 46.88 2.93
4255 7605 6.050432 ACGGAAGTACAAAGTATGTCAAACA 58.950 36.000 0.00 0.00 46.88 2.83
4256 7606 6.708949 ACGGAAGTACAAAGTATGTCAAACAT 59.291 34.615 0.00 0.00 46.88 2.71
4257 7607 7.874016 ACGGAAGTACAAAGTATGTCAAACATA 59.126 33.333 0.00 0.00 46.88 2.29
4258 7608 8.714179 CGGAAGTACAAAGTATGTCAAACATAA 58.286 33.333 1.55 0.00 42.15 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 4.516698 GCCATCATCGACAAATTACTCCAT 59.483 41.667 0.00 0.00 0.00 3.41
40 41 2.200081 ACTACTCCACTGGATTGCCAT 58.800 47.619 0.00 0.00 44.91 4.40
88 89 0.532115 GGCCATTTCGGTTCATTGCT 59.468 50.000 0.00 0.00 36.97 3.91
125 126 7.454260 AGATTTAGTTGTGTCTTGGAATTCC 57.546 36.000 18.17 18.17 0.00 3.01
174 175 7.346751 TCGGCTGACATGAGCAATATATATA 57.653 36.000 0.00 0.00 41.08 0.86
175 176 6.225981 TCGGCTGACATGAGCAATATATAT 57.774 37.500 0.00 0.00 41.08 0.86
176 177 5.659440 TCGGCTGACATGAGCAATATATA 57.341 39.130 0.00 0.00 41.08 0.86
177 178 4.541973 TCGGCTGACATGAGCAATATAT 57.458 40.909 0.00 0.00 41.08 0.86
239 253 7.333323 AGATACTCATCATGTTGTCACATTGA 58.667 34.615 3.76 0.00 41.16 2.57
276 290 3.551846 CATCAACGGGTTAGGGCTTTAT 58.448 45.455 0.00 0.00 0.00 1.40
334 362 3.181443 GGAAAGTGGAAACCTGAAGAGGA 60.181 47.826 0.00 0.00 42.93 3.71
349 380 1.515521 GACCAACCGGCTGGAAAGTG 61.516 60.000 30.44 10.25 38.96 3.16
370 401 2.186160 CAAGACAACTGTGCCGGCA 61.186 57.895 29.03 29.03 0.00 5.69
394 425 5.343307 AAGTGGCTTCAAATCAAAAGTGT 57.657 34.783 0.00 0.00 0.00 3.55
541 1944 4.953579 TCCACTAGTGTGCATACAGTCATA 59.046 41.667 21.18 0.00 42.54 2.15
542 1945 3.769300 TCCACTAGTGTGCATACAGTCAT 59.231 43.478 21.18 0.00 42.54 3.06
543 1946 3.161866 TCCACTAGTGTGCATACAGTCA 58.838 45.455 21.18 3.98 42.54 3.41
544 1947 3.193691 ACTCCACTAGTGTGCATACAGTC 59.806 47.826 21.18 0.00 42.54 3.51
545 1948 3.165875 ACTCCACTAGTGTGCATACAGT 58.834 45.455 21.18 13.32 42.54 3.55
546 1949 3.876274 ACTCCACTAGTGTGCATACAG 57.124 47.619 21.18 12.72 42.54 2.74
547 1950 3.576550 TGAACTCCACTAGTGTGCATACA 59.423 43.478 21.18 10.96 42.54 2.29
548 1951 4.188247 TGAACTCCACTAGTGTGCATAC 57.812 45.455 21.18 5.29 42.54 2.39
655 2126 1.069823 AGCCGTCCTGATTGATAGCAG 59.930 52.381 0.00 0.00 37.53 4.24
832 2609 3.136763 TCTTCTCTGCTGCTCTTGTTTG 58.863 45.455 0.00 0.00 0.00 2.93
871 2648 5.428457 TGATAGCCTGAAACCTCTAATTCCA 59.572 40.000 0.00 0.00 0.00 3.53
892 2671 9.523168 GGAGAAGTAGTAGTGAATATACCTGAT 57.477 37.037 0.00 0.00 0.00 2.90
893 2672 8.500238 TGGAGAAGTAGTAGTGAATATACCTGA 58.500 37.037 0.00 0.00 0.00 3.86
894 2673 8.693120 TGGAGAAGTAGTAGTGAATATACCTG 57.307 38.462 0.00 0.00 0.00 4.00
895 2674 9.303116 CATGGAGAAGTAGTAGTGAATATACCT 57.697 37.037 0.00 0.00 0.00 3.08
896 2675 9.298250 TCATGGAGAAGTAGTAGTGAATATACC 57.702 37.037 0.00 0.00 0.00 2.73
899 2678 7.785028 TGGTCATGGAGAAGTAGTAGTGAATAT 59.215 37.037 0.00 0.00 0.00 1.28
900 2679 7.123383 TGGTCATGGAGAAGTAGTAGTGAATA 58.877 38.462 0.00 0.00 0.00 1.75
901 2680 5.958380 TGGTCATGGAGAAGTAGTAGTGAAT 59.042 40.000 0.00 0.00 0.00 2.57
902 2681 5.330233 TGGTCATGGAGAAGTAGTAGTGAA 58.670 41.667 0.00 0.00 0.00 3.18
903 2682 4.930696 TGGTCATGGAGAAGTAGTAGTGA 58.069 43.478 0.00 0.00 0.00 3.41
904 2683 5.661056 TTGGTCATGGAGAAGTAGTAGTG 57.339 43.478 0.00 0.00 0.00 2.74
1055 2893 8.237811 ACTCACACCATCTAAACTTTCAAATT 57.762 30.769 0.00 0.00 0.00 1.82
1058 2896 8.740123 TTAACTCACACCATCTAAACTTTCAA 57.260 30.769 0.00 0.00 0.00 2.69
1076 2914 7.559533 ACATACCAATGCAATACCATTAACTCA 59.440 33.333 0.00 0.00 36.50 3.41
1126 2964 3.881688 ACATGAGCCATTGCAGTAAGATC 59.118 43.478 0.00 0.00 41.13 2.75
1294 3154 2.526077 CGAGATTGATTGAACGACGGA 58.474 47.619 0.00 0.00 0.00 4.69
1308 3168 2.019984 GGAAATTGGAGCTGCGAGATT 58.980 47.619 0.32 0.00 0.00 2.40
1595 3484 0.249868 CCAAGGACACGAACTGCAGA 60.250 55.000 23.35 0.00 0.00 4.26
1597 3486 1.891919 GCCAAGGACACGAACTGCA 60.892 57.895 0.00 0.00 0.00 4.41
1618 3507 2.054021 TCTTAATGCCGGGGATGATCA 58.946 47.619 2.18 0.00 0.00 2.92
1619 3508 2.859165 TCTTAATGCCGGGGATGATC 57.141 50.000 2.18 0.00 0.00 2.92
1699 3637 7.559533 AGAGAGCTTGTCTGTCTGAATAGAATA 59.440 37.037 0.00 0.00 43.08 1.75
1773 3711 0.396695 ATTGCTCATCCAGGGCCTTG 60.397 55.000 8.15 8.15 0.00 3.61
1801 3742 1.364171 CCATGGACTCCGACGATCC 59.636 63.158 5.56 0.81 0.00 3.36
1932 3876 4.222847 GCCATCTCGGTCCGGTCC 62.223 72.222 12.29 7.79 36.97 4.46
2178 4127 5.220381 GTCAGACAATACAGTTTCGTCAGA 58.780 41.667 0.00 0.00 0.00 3.27
2179 4128 4.088638 CGTCAGACAATACAGTTTCGTCAG 59.911 45.833 0.41 0.00 0.00 3.51
2180 4129 3.978855 CGTCAGACAATACAGTTTCGTCA 59.021 43.478 0.41 0.00 0.00 4.35
2181 4130 4.224433 TCGTCAGACAATACAGTTTCGTC 58.776 43.478 0.41 0.00 0.00 4.20
2182 4131 4.233123 TCGTCAGACAATACAGTTTCGT 57.767 40.909 0.41 0.00 0.00 3.85
2183 4132 5.175126 AGTTTCGTCAGACAATACAGTTTCG 59.825 40.000 0.41 0.00 0.00 3.46
2184 4133 6.200286 TCAGTTTCGTCAGACAATACAGTTTC 59.800 38.462 0.41 0.00 0.00 2.78
2185 4134 6.018994 GTCAGTTTCGTCAGACAATACAGTTT 60.019 38.462 0.41 0.00 0.00 2.66
2186 4135 5.462398 GTCAGTTTCGTCAGACAATACAGTT 59.538 40.000 0.41 0.00 0.00 3.16
2187 4136 4.982916 GTCAGTTTCGTCAGACAATACAGT 59.017 41.667 0.41 0.00 0.00 3.55
2188 4137 4.088638 CGTCAGTTTCGTCAGACAATACAG 59.911 45.833 0.41 0.00 0.00 2.74
2189 4138 3.978855 CGTCAGTTTCGTCAGACAATACA 59.021 43.478 0.41 0.00 0.00 2.29
2190 4139 4.224433 TCGTCAGTTTCGTCAGACAATAC 58.776 43.478 0.41 0.00 0.00 1.89
2191 4140 4.492791 TCGTCAGTTTCGTCAGACAATA 57.507 40.909 0.41 0.00 0.00 1.90
2192 4141 3.364889 TCGTCAGTTTCGTCAGACAAT 57.635 42.857 0.41 0.00 0.00 2.71
2193 4142 2.855660 TCGTCAGTTTCGTCAGACAA 57.144 45.000 0.41 0.00 0.00 3.18
2194 4143 2.855660 TTCGTCAGTTTCGTCAGACA 57.144 45.000 0.41 0.00 0.00 3.41
2195 4144 3.061139 CAGTTTCGTCAGTTTCGTCAGAC 60.061 47.826 0.00 0.00 0.00 3.51
2318 4267 1.216977 CACCGTGGACGCTATGGAA 59.783 57.895 8.11 0.00 38.18 3.53
2335 4284 3.083349 CTGTCGCCATCTCCCCCA 61.083 66.667 0.00 0.00 0.00 4.96
2555 4504 2.045438 CCGCTGCCCACCATACAA 60.045 61.111 0.00 0.00 0.00 2.41
2824 5947 2.606213 TCGGCATCAGGGTGGACA 60.606 61.111 0.00 0.00 0.00 4.02
2836 5959 3.364441 GCTGCACCATTGTCGGCA 61.364 61.111 0.00 0.00 33.68 5.69
2837 5960 3.332493 CTGCTGCACCATTGTCGGC 62.332 63.158 0.00 0.00 33.92 5.54
2838 5961 2.693762 CCTGCTGCACCATTGTCGG 61.694 63.158 0.00 0.00 0.00 4.79
2839 5962 2.872557 CCTGCTGCACCATTGTCG 59.127 61.111 0.00 0.00 0.00 4.35
2840 5963 2.570181 GCCTGCTGCACCATTGTC 59.430 61.111 0.00 0.00 40.77 3.18
2841 5964 2.993264 GGCCTGCTGCACCATTGT 60.993 61.111 0.00 0.00 43.89 2.71
2842 5965 3.766691 GGGCCTGCTGCACCATTG 61.767 66.667 0.84 0.00 43.89 2.82
2869 5992 3.390521 CTCAGGTACCCGCAGCCA 61.391 66.667 8.74 0.00 0.00 4.75
2896 6025 3.414193 CCCAGGATGCTGGCCTCA 61.414 66.667 26.95 1.86 42.94 3.86
2914 6043 0.038251 TACTCAGGAGCGCTGTGTTG 60.038 55.000 18.48 11.88 32.01 3.33
2937 6066 1.349026 CACCTTTTCTCCCTCTGCAGA 59.651 52.381 17.19 17.19 0.00 4.26
2956 6085 0.837691 AGAGGACCATCACCAGCACA 60.838 55.000 0.00 0.00 0.00 4.57
3066 6195 1.307953 GGAGGGTAGAGGGGCCTTT 60.308 63.158 0.84 0.00 0.00 3.11
3138 6275 5.357742 TGCATGCATTAGAGTTCTCCTAA 57.642 39.130 18.46 0.00 0.00 2.69
3165 6302 8.908786 ACTGAACTGAAAATGTCAATCTTCTA 57.091 30.769 0.00 0.00 35.22 2.10
3189 6326 1.734465 CCCTCTTCGATCTGCACAAAC 59.266 52.381 0.00 0.00 0.00 2.93
3364 6504 7.266400 GGACCAAACTCAGATACTACTAAAGG 58.734 42.308 0.00 0.00 0.00 3.11
3389 6539 3.067742 ACACTCGTAGAAATGGATACCGG 59.932 47.826 0.00 0.00 34.09 5.28
3454 6604 2.575532 CAGGTTGTTGCTTGGAGAGAA 58.424 47.619 0.00 0.00 0.00 2.87
3469 6619 5.363580 TGAAAAAGAAGCATTTCTCCAGGTT 59.636 36.000 0.00 0.00 42.80 3.50
3470 6620 4.895297 TGAAAAAGAAGCATTTCTCCAGGT 59.105 37.500 0.00 0.00 42.80 4.00
3471 6621 5.010415 AGTGAAAAAGAAGCATTTCTCCAGG 59.990 40.000 0.00 0.00 42.80 4.45
3473 6623 5.593909 TCAGTGAAAAAGAAGCATTTCTCCA 59.406 36.000 0.00 0.00 42.80 3.86
3475 6625 6.963796 TCTCAGTGAAAAAGAAGCATTTCTC 58.036 36.000 0.00 0.00 42.80 2.87
3523 6673 5.404096 TCGCGACAGAATACAGTCAAATAA 58.596 37.500 3.71 0.00 33.15 1.40
3531 6681 1.585668 CTGCTTCGCGACAGAATACAG 59.414 52.381 18.98 8.22 35.90 2.74
3555 6710 0.588252 TCTCAGTGAAAAAGCAGCGC 59.412 50.000 0.00 0.00 0.00 5.92
3556 6711 2.545526 TCTTCTCAGTGAAAAAGCAGCG 59.454 45.455 9.18 0.00 33.79 5.18
3557 6712 4.558538 TTCTTCTCAGTGAAAAAGCAGC 57.441 40.909 9.18 0.00 33.79 5.25
3560 6715 8.778358 TCTCTATTTTCTTCTCAGTGAAAAAGC 58.222 33.333 10.65 0.00 42.80 3.51
3562 6717 8.778358 GCTCTCTATTTTCTTCTCAGTGAAAAA 58.222 33.333 10.65 3.57 42.80 1.94
3563 6718 7.389053 GGCTCTCTATTTTCTTCTCAGTGAAAA 59.611 37.037 9.54 9.54 43.40 2.29
3564 6719 6.876257 GGCTCTCTATTTTCTTCTCAGTGAAA 59.124 38.462 0.00 0.00 33.79 2.69
3565 6720 6.402222 GGCTCTCTATTTTCTTCTCAGTGAA 58.598 40.000 0.00 0.00 0.00 3.18
3566 6721 5.393569 CGGCTCTCTATTTTCTTCTCAGTGA 60.394 44.000 0.00 0.00 0.00 3.41
3567 6722 4.803088 CGGCTCTCTATTTTCTTCTCAGTG 59.197 45.833 0.00 0.00 0.00 3.66
3571 6726 8.516234 TCATATACGGCTCTCTATTTTCTTCTC 58.484 37.037 0.00 0.00 0.00 2.87
3582 6737 4.465886 AGAACAGTCATATACGGCTCTCT 58.534 43.478 0.00 0.00 0.00 3.10
3611 6766 7.911651 TGAGAACATTCATCTACCTTTTCTCT 58.088 34.615 8.90 0.00 38.89 3.10
3612 6767 8.553459 TTGAGAACATTCATCTACCTTTTCTC 57.447 34.615 0.00 0.00 38.69 2.87
3635 6950 8.861596 GCACATGCACGAGACAAAAATGTTTG 62.862 42.308 6.82 6.82 44.14 2.93
3659 6974 0.468648 AATAAGGCCCGTACTCCAGC 59.531 55.000 0.00 0.00 0.00 4.85
3662 6977 2.367567 TCATGAATAAGGCCCGTACTCC 59.632 50.000 0.00 0.00 0.00 3.85
3686 7007 7.556844 TCTACAGTTCAGGTTGATTTAGGATC 58.443 38.462 0.00 0.00 0.00 3.36
3687 7008 7.496346 TCTACAGTTCAGGTTGATTTAGGAT 57.504 36.000 0.00 0.00 0.00 3.24
3736 7070 5.739959 TGTTTGTATGATCGATTCTCCCAA 58.260 37.500 0.00 0.00 0.00 4.12
3768 7102 4.347000 TCCATAAATAAGGGTCCTTCGGAG 59.653 45.833 5.41 0.00 37.47 4.63
3776 7110 6.012745 AGGCATGAATCCATAAATAAGGGTC 58.987 40.000 0.00 0.00 0.00 4.46
3777 7111 5.969086 AGGCATGAATCCATAAATAAGGGT 58.031 37.500 0.00 0.00 0.00 4.34
3836 7180 4.237724 GAGCTTCATAAACAAACTTGGGC 58.762 43.478 0.00 0.00 0.00 5.36
3856 7200 6.094742 TCTGCTGACTAGTTATTGTCTCTGAG 59.905 42.308 0.00 0.00 34.57 3.35
3862 7206 5.649602 GCATCTGCTGACTAGTTATTGTC 57.350 43.478 0.00 0.00 38.21 3.18
3942 7290 6.183360 GGGCTAGCTGAGGTATATAAATCCTC 60.183 46.154 15.72 9.85 45.46 3.71
3973 7321 4.643387 AACACTGCGCCTCCCCAC 62.643 66.667 4.18 0.00 0.00 4.61
3974 7322 4.641645 CAACACTGCGCCTCCCCA 62.642 66.667 4.18 0.00 0.00 4.96
3976 7324 2.741486 TAACCAACACTGCGCCTCCC 62.741 60.000 4.18 0.00 0.00 4.30
3977 7325 0.676782 ATAACCAACACTGCGCCTCC 60.677 55.000 4.18 0.00 0.00 4.30
3978 7326 0.727398 GATAACCAACACTGCGCCTC 59.273 55.000 4.18 0.00 0.00 4.70
3979 7327 1.019278 CGATAACCAACACTGCGCCT 61.019 55.000 4.18 0.00 0.00 5.52
3981 7329 1.226018 GCGATAACCAACACTGCGC 60.226 57.895 0.00 0.00 36.12 6.09
3982 7330 1.058748 CGCGATAACCAACACTGCG 59.941 57.895 0.00 0.00 38.04 5.18
3983 7331 1.296056 ACCGCGATAACCAACACTGC 61.296 55.000 8.23 0.00 0.00 4.40
3984 7332 0.442310 CACCGCGATAACCAACACTG 59.558 55.000 8.23 0.00 0.00 3.66
3985 7333 0.672401 CCACCGCGATAACCAACACT 60.672 55.000 8.23 0.00 0.00 3.55
3986 7334 0.952010 ACCACCGCGATAACCAACAC 60.952 55.000 8.23 0.00 0.00 3.32
3987 7335 0.951525 CACCACCGCGATAACCAACA 60.952 55.000 8.23 0.00 0.00 3.33
3988 7336 0.671163 TCACCACCGCGATAACCAAC 60.671 55.000 8.23 0.00 0.00 3.77
3989 7337 0.671163 GTCACCACCGCGATAACCAA 60.671 55.000 8.23 0.00 0.00 3.67
3990 7338 1.079681 GTCACCACCGCGATAACCA 60.080 57.895 8.23 0.00 0.00 3.67
3991 7339 1.812507 GGTCACCACCGCGATAACC 60.813 63.158 8.23 2.25 31.06 2.85
3992 7340 3.790177 GGTCACCACCGCGATAAC 58.210 61.111 8.23 0.00 31.06 1.89
4029 7377 1.148310 CTGGTGGTTAGCAACGACTG 58.852 55.000 11.62 0.00 39.67 3.51
4030 7378 0.602905 GCTGGTGGTTAGCAACGACT 60.603 55.000 11.62 0.00 39.67 4.18
4031 7379 1.866925 GCTGGTGGTTAGCAACGAC 59.133 57.895 0.00 5.89 40.81 4.34
4032 7380 1.666553 CGCTGGTGGTTAGCAACGA 60.667 57.895 0.00 0.00 44.15 3.85
4033 7381 2.677003 CCGCTGGTGGTTAGCAACG 61.677 63.158 0.00 0.00 41.90 4.10
4034 7382 1.298859 CTCCGCTGGTGGTTAGCAAC 61.299 60.000 0.00 0.00 41.18 4.17
4035 7383 1.003839 CTCCGCTGGTGGTTAGCAA 60.004 57.895 0.00 0.00 41.18 3.91
4036 7384 2.167398 GACTCCGCTGGTGGTTAGCA 62.167 60.000 0.00 0.00 41.18 3.49
4037 7385 1.448013 GACTCCGCTGGTGGTTAGC 60.448 63.158 0.00 0.00 37.80 3.09
4038 7386 0.389948 GTGACTCCGCTGGTGGTTAG 60.390 60.000 0.00 0.00 0.00 2.34
4039 7387 1.669440 GTGACTCCGCTGGTGGTTA 59.331 57.895 0.00 0.00 0.00 2.85
4040 7388 2.426023 GTGACTCCGCTGGTGGTT 59.574 61.111 0.00 0.00 0.00 3.67
4041 7389 3.626924 GGTGACTCCGCTGGTGGT 61.627 66.667 0.00 0.59 0.00 4.16
4042 7390 3.625897 TGGTGACTCCGCTGGTGG 61.626 66.667 0.00 0.00 39.52 4.61
4043 7391 2.357517 GTGGTGACTCCGCTGGTG 60.358 66.667 0.00 0.00 42.91 4.17
4054 7402 1.180029 GAAGGCGGTAGTAGTGGTGA 58.820 55.000 0.00 0.00 0.00 4.02
4092 7440 1.565759 CAGTTTCCTCATCCCCCATCA 59.434 52.381 0.00 0.00 0.00 3.07
4098 7446 3.053831 TCGTTTCAGTTTCCTCATCCC 57.946 47.619 0.00 0.00 0.00 3.85
4102 7450 5.364778 TCTTCAATCGTTTCAGTTTCCTCA 58.635 37.500 0.00 0.00 0.00 3.86
4110 7458 2.160417 GTGGGCTCTTCAATCGTTTCAG 59.840 50.000 0.00 0.00 0.00 3.02
4116 7464 0.321564 TGGTGTGGGCTCTTCAATCG 60.322 55.000 0.00 0.00 0.00 3.34
4121 7469 2.617274 GCGTTGGTGTGGGCTCTTC 61.617 63.158 0.00 0.00 0.00 2.87
4130 7478 1.370064 GAGGTGTAGGCGTTGGTGT 59.630 57.895 0.00 0.00 0.00 4.16
4167 7517 1.448540 CCACGACTGTGCCTCCATC 60.449 63.158 0.00 0.00 45.04 3.51
4176 7526 3.626924 GACCTGGGCCACGACTGT 61.627 66.667 0.00 0.00 0.00 3.55
4177 7527 4.742201 CGACCTGGGCCACGACTG 62.742 72.222 0.00 0.00 0.00 3.51
4193 7543 4.954970 AACTGTGCCTGGGCCACG 62.955 66.667 0.00 0.00 41.09 4.94
4194 7544 1.685355 AAAAACTGTGCCTGGGCCAC 61.685 55.000 0.00 7.96 41.09 5.01
4195 7545 1.382420 AAAAACTGTGCCTGGGCCA 60.382 52.632 5.85 5.85 41.09 5.36
4196 7546 3.549730 AAAAACTGTGCCTGGGCC 58.450 55.556 9.28 0.00 41.09 5.80
4212 7562 7.701501 ACTTCCGTTTAATTGACGCTTTAAAAA 59.298 29.630 9.80 0.00 39.09 1.94
4213 7563 7.194962 ACTTCCGTTTAATTGACGCTTTAAAA 58.805 30.769 9.80 0.00 39.09 1.52
4214 7564 6.727215 ACTTCCGTTTAATTGACGCTTTAAA 58.273 32.000 9.80 0.00 39.09 1.52
4215 7565 6.303021 ACTTCCGTTTAATTGACGCTTTAA 57.697 33.333 9.80 2.83 39.09 1.52
4216 7566 5.927954 ACTTCCGTTTAATTGACGCTTTA 57.072 34.783 9.80 0.00 39.09 1.85
4217 7567 4.823790 ACTTCCGTTTAATTGACGCTTT 57.176 36.364 9.80 0.00 39.09 3.51
4218 7568 4.751098 TGTACTTCCGTTTAATTGACGCTT 59.249 37.500 9.80 0.00 39.09 4.68
4219 7569 4.309099 TGTACTTCCGTTTAATTGACGCT 58.691 39.130 9.80 0.00 39.09 5.07
4220 7570 4.650545 TGTACTTCCGTTTAATTGACGC 57.349 40.909 9.80 0.00 39.09 5.19
4221 7571 6.652245 ACTTTGTACTTCCGTTTAATTGACG 58.348 36.000 8.65 8.65 40.05 4.35
4222 7572 9.537848 CATACTTTGTACTTCCGTTTAATTGAC 57.462 33.333 0.00 0.00 0.00 3.18
4223 7573 9.275398 ACATACTTTGTACTTCCGTTTAATTGA 57.725 29.630 0.00 0.00 36.57 2.57
4224 7574 9.537848 GACATACTTTGTACTTCCGTTTAATTG 57.462 33.333 0.00 0.00 39.18 2.32
4225 7575 9.275398 TGACATACTTTGTACTTCCGTTTAATT 57.725 29.630 0.00 0.00 39.18 1.40
4226 7576 8.836268 TGACATACTTTGTACTTCCGTTTAAT 57.164 30.769 0.00 0.00 39.18 1.40
4227 7577 8.659925 TTGACATACTTTGTACTTCCGTTTAA 57.340 30.769 0.00 0.00 39.18 1.52
4228 7578 8.550376 GTTTGACATACTTTGTACTTCCGTTTA 58.450 33.333 0.00 0.00 39.18 2.01
4229 7579 7.066043 TGTTTGACATACTTTGTACTTCCGTTT 59.934 33.333 0.00 0.00 39.18 3.60
4230 7580 6.539464 TGTTTGACATACTTTGTACTTCCGTT 59.461 34.615 0.00 0.00 39.18 4.44
4231 7581 6.050432 TGTTTGACATACTTTGTACTTCCGT 58.950 36.000 0.00 0.00 39.18 4.69
4232 7582 6.533819 TGTTTGACATACTTTGTACTTCCG 57.466 37.500 0.00 0.00 39.18 4.30


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

AutoCloner maintained by Alex Coulton.