Multiple sequence alignment - TraesCS4A01G490700

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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 TraesCS4A01G490700 chr4A 100.000 4046 0 0 1 4046 740605504 740601459 0.000000e+00 7472.0
1 TraesCS4A01G490700 chr4A 85.686 2564 290 42 629 3166 739680356 739682868 0.000000e+00 2630.0
2 TraesCS4A01G490700 chr4A 85.686 2564 290 42 629 3166 742074344 742076856 0.000000e+00 2630.0
3 TraesCS4A01G490700 chr4A 84.381 2228 276 35 1489 3685 740000020 739997834 0.000000e+00 2121.0
4 TraesCS4A01G490700 chr4A 85.324 1976 258 21 887 2853 740156301 740158253 0.000000e+00 2013.0
5 TraesCS4A01G490700 chr4A 84.615 1872 229 32 677 2525 741780959 741779124 0.000000e+00 1807.0
6 TraesCS4A01G490700 chr4A 88.255 1456 136 15 695 2143 741045121 741046548 0.000000e+00 1709.0
7 TraesCS4A01G490700 chr4A 84.495 1019 138 18 2096 3105 740157352 740158359 0.000000e+00 989.0
8 TraesCS4A01G490700 chr4A 76.495 1706 328 47 751 2423 740182434 740184099 0.000000e+00 861.0
9 TraesCS4A01G490700 chr4A 81.801 1033 143 33 2378 3382 741778839 741777824 0.000000e+00 824.0
10 TraesCS4A01G490700 chr4A 79.185 908 179 10 1952 2854 740603409 740602507 4.440000e-174 621.0
11 TraesCS4A01G490700 chr4A 82.561 734 89 22 640 1356 739739855 739740566 9.610000e-171 610.0
12 TraesCS4A01G490700 chr4A 77.146 932 136 45 2717 3589 739741207 739742120 1.700000e-128 470.0
13 TraesCS4A01G490700 chr4A 80.816 490 53 22 154 606 739739240 739739725 2.990000e-91 346.0
14 TraesCS4A01G490700 chr4A 81.114 413 41 16 3289 3685 741046864 741047255 3.060000e-76 296.0
15 TraesCS4A01G490700 chr4A 83.846 260 31 7 683 941 739764896 739765145 1.880000e-58 237.0
16 TraesCS4A01G490700 chr4A 78.249 377 51 16 445 809 740000384 740000027 3.170000e-51 213.0
17 TraesCS4A01G490700 chr4A 87.342 158 16 2 629 786 740156085 740156238 1.160000e-40 178.0
18 TraesCS4A01G490700 chr4A 86.567 134 9 6 3768 3900 741777310 741777185 5.450000e-29 139.0
19 TraesCS4A01G490700 chr4A 84.733 131 8 1 3437 3555 741777739 741777609 1.980000e-23 121.0
20 TraesCS4A01G490700 chr4A 94.667 75 4 0 3972 4046 741048252 741048326 2.560000e-22 117.0
21 TraesCS4A01G490700 chr4A 92.000 75 6 0 3972 4046 741776395 741776321 5.530000e-19 106.0
22 TraesCS4A01G490700 chr4A 83.761 117 5 5 3782 3893 739742224 739742331 9.250000e-17 99.0
23 TraesCS4A01G490700 chr4A 94.444 36 2 0 3940 3975 739997724 739997689 5.650000e-04 56.5
24 TraesCS4A01G490700 chr4A 90.476 42 4 0 3934 3975 741047343 741047384 5.650000e-04 56.5
25 TraesCS4A01G490700 chr4A 94.444 36 2 0 3940 3975 741777110 741777075 5.650000e-04 56.5
26 TraesCS4A01G490700 chr7D 89.635 1370 112 16 905 2262 2885446 2884095 0.000000e+00 1716.0
27 TraesCS4A01G490700 chr7D 86.536 1478 117 35 2243 3685 2883622 2882192 0.000000e+00 1552.0
28 TraesCS4A01G490700 chr7D 80.765 863 160 6 1896 2755 2883681 2882822 0.000000e+00 669.0
29 TraesCS4A01G490700 chr7D 77.850 307 39 19 3632 3920 3214810 3214515 3.240000e-36 163.0
30 TraesCS4A01G490700 chr7D 94.667 75 4 0 3972 4046 2881275 2881201 2.560000e-22 117.0
31 TraesCS4A01G490700 chr7D 85.345 116 10 6 3792 3903 2880754 2880642 3.310000e-21 113.0
32 TraesCS4A01G490700 chr7D 94.444 36 2 0 3940 3975 2882084 2882049 5.650000e-04 56.5
33 TraesCS4A01G490700 chr7A 75.330 2424 506 66 694 3070 2742100 2744478 0.000000e+00 1079.0
34 TraesCS4A01G490700 chr7A 75.921 1927 433 26 1189 3102 2663913 2662005 0.000000e+00 959.0
35 TraesCS4A01G490700 chr7A 80.613 1207 204 20 1912 3110 2662186 2661002 0.000000e+00 905.0
36 TraesCS4A01G490700 chr7A 79.630 1134 204 24 1564 2685 2940057 2941175 0.000000e+00 789.0
37 TraesCS4A01G490700 chr7A 84.020 801 97 25 2384 3168 2940445 2941230 0.000000e+00 741.0
38 TraesCS4A01G490700 chr7A 80.556 1008 146 27 694 1675 2762871 2763854 0.000000e+00 730.0
39 TraesCS4A01G490700 chr7A 76.215 1358 290 30 1690 3030 2662696 2661355 0.000000e+00 688.0
40 TraesCS4A01G490700 chr7A 76.571 1225 270 16 1888 3104 2662930 2661715 0.000000e+00 656.0
41 TraesCS4A01G490700 chr7A 77.281 1096 233 15 1912 2998 2662330 2661242 7.380000e-177 630.0
42 TraesCS4A01G490700 chr7A 76.978 1112 232 22 1669 2767 2663295 2662195 7.430000e-172 614.0
43 TraesCS4A01G490700 chr7A 74.686 1434 335 26 1690 3109 2662985 2661566 2.670000e-171 612.0
44 TraesCS4A01G490700 chr7A 85.487 565 52 10 49 605 2606485 2605943 2.730000e-156 562.0
45 TraesCS4A01G490700 chr7A 82.529 601 61 17 49 631 2665037 2664463 4.700000e-134 488.0
46 TraesCS4A01G490700 chr7A 81.550 542 82 10 820 1356 2939537 2940065 8.030000e-117 431.0
47 TraesCS4A01G490700 chr7A 86.879 282 24 7 913 1194 2664255 2663987 1.830000e-78 303.0
48 TraesCS4A01G490700 chr7A 89.781 137 10 4 629 765 2664426 2664294 5.380000e-39 172.0
49 TraesCS4A01G490700 chr7A 91.453 117 4 2 663 774 2939425 2939540 5.410000e-34 156.0
50 TraesCS4A01G490700 chr7A 86.047 129 12 2 3418 3546 2765428 2765550 2.540000e-27 134.0
51 TraesCS4A01G490700 chr7A 83.333 114 12 3 3634 3747 3031618 3031724 9.250000e-17 99.0
52 TraesCS4A01G490700 chr7A 98.039 51 1 0 3996 4046 2950484 2950534 5.570000e-14 89.8
53 TraesCS4A01G490700 chr7A 95.745 47 2 0 3719 3765 2658979 2658933 4.340000e-10 76.8
54 TraesCS4A01G490700 chr7A 95.238 42 2 0 3934 3975 2658655 2658614 2.610000e-07 67.6
55 TraesCS4A01G490700 chr7A 95.238 42 2 0 3934 3975 2947189 2947230 2.610000e-07 67.6
56 TraesCS4A01G490700 chr1A 81.703 317 47 10 2859 3168 578092709 578092397 1.870000e-63 254.0


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 TraesCS4A01G490700 chr4A 740601459 740605504 4045 True 4046.500000 7472 89.592500 1 4046 2 chr4A.!!$R2 4045
1 TraesCS4A01G490700 chr4A 739680356 739682868 2512 False 2630.000000 2630 85.686000 629 3166 1 chr4A.!!$F1 2537
2 TraesCS4A01G490700 chr4A 742074344 742076856 2512 False 2630.000000 2630 85.686000 629 3166 1 chr4A.!!$F4 2537
3 TraesCS4A01G490700 chr4A 740156085 740158359 2274 False 1060.000000 2013 85.720333 629 3105 3 chr4A.!!$F6 2476
4 TraesCS4A01G490700 chr4A 740182434 740184099 1665 False 861.000000 861 76.495000 751 2423 1 chr4A.!!$F3 1672
5 TraesCS4A01G490700 chr4A 739997689 740000384 2695 True 796.833333 2121 85.691333 445 3975 3 chr4A.!!$R1 3530
6 TraesCS4A01G490700 chr4A 741045121 741048326 3205 False 544.625000 1709 88.628000 695 4046 4 chr4A.!!$F7 3351
7 TraesCS4A01G490700 chr4A 741776321 741780959 4638 True 508.916667 1807 87.360000 677 4046 6 chr4A.!!$R3 3369
8 TraesCS4A01G490700 chr4A 739739240 739742331 3091 False 381.250000 610 81.071000 154 3893 4 chr4A.!!$F5 3739
9 TraesCS4A01G490700 chr7D 2880642 2885446 4804 True 703.916667 1716 88.565333 905 4046 6 chr7D.!!$R2 3141
10 TraesCS4A01G490700 chr7A 2742100 2744478 2378 False 1079.000000 1079 75.330000 694 3070 1 chr7A.!!$F1 2376
11 TraesCS4A01G490700 chr7A 2605943 2606485 542 True 562.000000 562 85.487000 49 605 1 chr7A.!!$R1 556
12 TraesCS4A01G490700 chr7A 2939425 2941230 1805 False 529.250000 789 84.163250 663 3168 4 chr7A.!!$F4 2505
13 TraesCS4A01G490700 chr7A 2658614 2665037 6423 True 514.283333 959 82.369750 49 3975 12 chr7A.!!$R2 3926
14 TraesCS4A01G490700 chr7A 2762871 2765550 2679 False 432.000000 730 83.301500 694 3546 2 chr7A.!!$F3 2852

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
439 487 0.243907 CACAGCTAGCACAGGTACGT 59.756 55.0 18.83 0.0 32.37 3.57 F
1172 1420 0.032540 GACAACCAAAGCCAGCAAGG 59.967 55.0 0.00 0.0 41.84 3.61 F
2809 6034 0.463833 GGGGCTTAGCTACAACGCAT 60.464 55.0 3.59 0.0 0.00 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1248 1575 1.750399 GATCACCGGCCAATGCTGT 60.750 57.895 0.00 0.0 42.66 4.40 R
2881 6107 1.519751 CGTGGAATGTGGCCGGAAAA 61.520 55.000 5.05 0.0 0.00 2.29 R
3702 7308 0.606401 TTAGCACAGAAGCAGTGGGC 60.606 55.000 0.00 0.0 45.28 5.36 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
22 23 5.280328 CAAGTTCTGCAGACTCTCATTTC 57.720 43.478 18.03 0.00 0.00 2.17
23 24 4.613925 AGTTCTGCAGACTCTCATTTCA 57.386 40.909 18.03 0.00 0.00 2.69
24 25 4.314121 AGTTCTGCAGACTCTCATTTCAC 58.686 43.478 18.03 7.85 0.00 3.18
25 26 4.060900 GTTCTGCAGACTCTCATTTCACA 58.939 43.478 18.03 0.00 0.00 3.58
26 27 4.341366 TCTGCAGACTCTCATTTCACAA 57.659 40.909 13.74 0.00 0.00 3.33
27 28 4.707105 TCTGCAGACTCTCATTTCACAAA 58.293 39.130 13.74 0.00 0.00 2.83
28 29 5.125356 TCTGCAGACTCTCATTTCACAAAA 58.875 37.500 13.74 0.00 0.00 2.44
29 30 5.589855 TCTGCAGACTCTCATTTCACAAAAA 59.410 36.000 13.74 0.00 0.00 1.94
73 76 1.103803 TCTGCAGACTCATACGGTCC 58.896 55.000 13.74 0.00 34.56 4.46
81 84 0.589708 CTCATACGGTCCGCATACGA 59.410 55.000 12.28 0.00 43.93 3.43
94 97 4.220163 TCCGCATACGATCTAGACTCTAGA 59.780 45.833 16.60 16.60 43.93 2.43
95 98 4.327898 CCGCATACGATCTAGACTCTAGAC 59.672 50.000 16.61 10.44 43.93 2.59
101 104 2.623878 TCTAGACTCTAGACGGGCAG 57.376 55.000 11.23 0.00 0.00 4.85
115 118 1.903404 GGCAGGGACAAAGGTGTGG 60.903 63.158 0.00 0.00 38.41 4.17
118 121 0.474184 CAGGGACAAAGGTGTGGTCT 59.526 55.000 0.00 0.00 38.41 3.85
166 169 2.277084 GGTTGTGTTCACGACTTCACT 58.723 47.619 18.80 0.00 0.00 3.41
167 170 2.284417 GGTTGTGTTCACGACTTCACTC 59.716 50.000 18.80 2.52 0.00 3.51
170 173 2.425668 TGTGTTCACGACTTCACTCTCA 59.574 45.455 0.00 0.00 0.00 3.27
186 189 1.062258 CTCATTGTGCGCGCAAAAAT 58.938 45.000 37.64 32.28 31.63 1.82
194 200 1.063321 TGCGCGCAAAAATATCGTCAT 59.937 42.857 34.66 0.00 0.00 3.06
219 225 4.900635 ATTATTCCGCTTCATGAACACC 57.099 40.909 3.38 0.00 0.00 4.16
220 226 1.086696 ATTCCGCTTCATGAACACCG 58.913 50.000 3.38 7.63 0.00 4.94
227 233 3.120338 CGCTTCATGAACACCGTTATGTT 60.120 43.478 3.38 0.00 45.52 2.71
346 383 5.821204 AGACGATTTTAGCACATAATTGCC 58.179 37.500 0.00 0.00 44.14 4.52
435 483 2.047844 CGCACAGCTAGCACAGGT 60.048 61.111 18.83 6.51 34.51 4.00
436 484 1.215382 CGCACAGCTAGCACAGGTA 59.785 57.895 18.83 0.00 32.37 3.08
437 485 1.078759 CGCACAGCTAGCACAGGTAC 61.079 60.000 18.83 3.46 32.37 3.34
438 486 1.078759 GCACAGCTAGCACAGGTACG 61.079 60.000 18.83 0.31 32.37 3.67
439 487 0.243907 CACAGCTAGCACAGGTACGT 59.756 55.000 18.83 0.00 32.37 3.57
452 500 2.150837 GTACGTCGTGCTTCTCCGC 61.151 63.158 8.47 0.00 0.00 5.54
454 502 2.523184 TACGTCGTGCTTCTCCGCAG 62.523 60.000 8.47 0.00 41.21 5.18
477 526 1.539827 AGAAAATCGGGAAGGTTTGCG 59.460 47.619 0.00 0.00 33.57 4.85
512 566 9.264719 CATCATATATACTGACTGACTGCAAAA 57.735 33.333 0.00 0.00 0.00 2.44
513 567 9.836864 ATCATATATACTGACTGACTGCAAAAA 57.163 29.630 0.00 0.00 0.00 1.94
612 749 8.612619 CGGCTTTTACAAAATAGTACATGAGAT 58.387 33.333 0.00 0.00 0.00 2.75
643 819 7.041712 GGAGTATTATCTTAAGCAACAAGAGCC 60.042 40.741 0.00 0.00 35.57 4.70
647 823 3.550820 TCTTAAGCAACAAGAGCCACAA 58.449 40.909 0.00 0.00 0.00 3.33
660 836 1.941812 CCACAACACTCGTTCTGCC 59.058 57.895 0.00 0.00 31.13 4.85
668 844 3.883744 CTCGTTCTGCCGCCTGGTT 62.884 63.158 0.00 0.00 37.67 3.67
711 895 6.128282 CGAATGTTTGGAAGCTAGTACAACAT 60.128 38.462 0.00 0.00 0.00 2.71
712 896 7.524717 AATGTTTGGAAGCTAGTACAACATT 57.475 32.000 13.90 13.90 0.00 2.71
834 1035 2.957402 AACTCTCCAACAAGCATGGA 57.043 45.000 0.00 0.00 44.58 3.41
860 1061 1.303561 GCAGACTTCCATGGCCACA 60.304 57.895 8.16 0.00 0.00 4.17
862 1063 0.962356 CAGACTTCCATGGCCACACC 60.962 60.000 8.16 0.00 39.84 4.16
882 1083 4.878397 CACCTGTTCTCTTCTTTGACAAGT 59.122 41.667 0.00 0.00 0.00 3.16
883 1084 6.049149 CACCTGTTCTCTTCTTTGACAAGTA 58.951 40.000 0.00 0.00 0.00 2.24
884 1085 6.018669 CACCTGTTCTCTTCTTTGACAAGTAC 60.019 42.308 0.00 0.00 0.00 2.73
885 1086 6.127026 ACCTGTTCTCTTCTTTGACAAGTACT 60.127 38.462 0.00 0.00 0.00 2.73
886 1087 6.201806 CCTGTTCTCTTCTTTGACAAGTACTG 59.798 42.308 0.00 0.00 0.00 2.74
907 1111 4.175516 TGTATTCCGTTAACATGTCGACC 58.824 43.478 14.12 0.00 0.00 4.79
959 1190 7.781056 TGCCATTACTTCTCAAAAGAAAAACT 58.219 30.769 0.00 0.00 40.95 2.66
987 1220 4.103153 CCAATTCCATCCAACCTAGCTAGA 59.897 45.833 22.70 1.90 0.00 2.43
1056 1304 6.350361 CCTCTCTCATCATGACCATACTGATC 60.350 46.154 0.00 0.00 0.00 2.92
1172 1420 0.032540 GACAACCAAAGCCAGCAAGG 59.967 55.000 0.00 0.00 41.84 3.61
1248 1575 2.616960 GATATCAGTGTGCACCGACAA 58.383 47.619 15.69 0.00 0.00 3.18
1517 1862 9.635520 CTTAATGCTTCATGAAAATGAACTCTT 57.364 29.630 9.88 0.00 35.80 2.85
1991 2849 6.438425 AGCATAGGAAATTTGACCAAACTCAT 59.562 34.615 0.00 0.00 32.51 2.90
2065 2923 8.002984 ACTAGGTTATCTTGAGAAGTTAGAGC 57.997 38.462 0.00 0.00 0.00 4.09
2066 2924 5.897050 AGGTTATCTTGAGAAGTTAGAGCG 58.103 41.667 0.00 0.00 0.00 5.03
2089 3235 4.324267 GTTGTATCTTGGCACTAACACCT 58.676 43.478 0.00 0.00 0.00 4.00
2093 3239 6.717289 TGTATCTTGGCACTAACACCTTAAT 58.283 36.000 0.00 0.00 0.00 1.40
2106 3252 2.687935 CACCTTAATTGGTTCCATCCCG 59.312 50.000 0.00 0.00 38.45 5.14
2144 3290 3.426615 TGACCAAACTCACAACCTTGTT 58.573 40.909 0.00 0.00 39.91 2.83
2203 3841 5.888982 AGAACTAGGTTTCCTTGAGAACA 57.111 39.130 4.48 0.00 34.61 3.18
2210 3848 6.293004 AGGTTTCCTTGAGAACATAGAGAG 57.707 41.667 0.00 0.00 32.95 3.20
2215 3853 5.333581 TCCTTGAGAACATAGAGAGGTTGA 58.666 41.667 0.00 0.00 27.45 3.18
2216 3854 5.186021 TCCTTGAGAACATAGAGAGGTTGAC 59.814 44.000 0.00 0.00 27.45 3.18
2224 3862 1.257743 AGAGAGGTTGACGCTTAGCA 58.742 50.000 4.70 0.00 0.00 3.49
2225 3863 1.203523 AGAGAGGTTGACGCTTAGCAG 59.796 52.381 4.70 0.00 0.00 4.24
2278 3916 6.852664 AGCATAGGAAATTTAACCAAACTCG 58.147 36.000 0.00 0.00 0.00 4.18
2281 3919 5.722021 AGGAAATTTAACCAAACTCGCAT 57.278 34.783 0.00 0.00 0.00 4.73
2309 4235 7.493743 TGGACATTTTCATGAACCAAATTTG 57.506 32.000 7.89 11.40 37.41 2.32
2381 4884 1.557832 TCTTGGCGCTAACACCCTAAT 59.442 47.619 7.64 0.00 0.00 1.73
2391 4894 4.709886 GCTAACACCCTAATTGGTTCCATT 59.290 41.667 0.00 0.00 36.12 3.16
2425 4928 7.605449 CATAGGAAATTTGACCAAACTCACAT 58.395 34.615 0.00 0.00 32.51 3.21
2426 4929 8.739039 CATAGGAAATTTGACCAAACTCACATA 58.261 33.333 0.00 0.00 32.51 2.29
2430 4933 7.926018 GGAAATTTGACCAAACTCACATACTTT 59.074 33.333 0.00 0.00 32.51 2.66
2437 4940 8.908903 TGACCAAACTCACATACTTTTACATTT 58.091 29.630 0.00 0.00 0.00 2.32
2438 4941 9.394477 GACCAAACTCACATACTTTTACATTTC 57.606 33.333 0.00 0.00 0.00 2.17
2441 4944 9.398170 CAAACTCACATACTTTTACATTTCCAG 57.602 33.333 0.00 0.00 0.00 3.86
2456 4959 5.163322 ACATTTCCAGCAACCAAATTTCTGA 60.163 36.000 5.61 0.00 0.00 3.27
2497 5000 2.029290 GGTCGCCTTGTGAACTTAGAGA 60.029 50.000 0.00 0.00 0.00 3.10
2498 5001 3.246619 GTCGCCTTGTGAACTTAGAGAG 58.753 50.000 0.00 0.00 0.00 3.20
2512 5015 4.287067 ACTTAGAGAGTTTGGATCTTGGCA 59.713 41.667 0.00 0.00 33.92 4.92
2513 5016 3.795688 AGAGAGTTTGGATCTTGGCAA 57.204 42.857 0.00 0.00 0.00 4.52
2528 5031 4.042311 TCTTGGCAATAACACCCTAACTGA 59.958 41.667 0.00 0.00 0.00 3.41
2530 5033 4.269183 TGGCAATAACACCCTAACTGATG 58.731 43.478 0.00 0.00 0.00 3.07
2567 5647 6.071728 AGCATAGGAAATTTGACCAAACTCAG 60.072 38.462 0.00 0.00 32.51 3.35
2569 5649 7.533426 CATAGGAAATTTGACCAAACTCAGAG 58.467 38.462 0.00 0.00 32.51 3.35
2570 5650 4.829492 AGGAAATTTGACCAAACTCAGAGG 59.171 41.667 1.53 0.00 32.51 3.69
2584 5807 3.056749 ACTCAGAGGCTTGTACCTTTACG 60.057 47.826 1.53 0.00 41.32 3.18
2600 5823 4.334481 CCTTTACGACAACCAACTTTCTGT 59.666 41.667 0.00 0.00 0.00 3.41
2711 5934 7.103641 AGCATAGGAAATTTGACGAAACTCTA 58.896 34.615 0.00 0.00 0.00 2.43
2712 5935 7.064728 AGCATAGGAAATTTGACGAAACTCTAC 59.935 37.037 0.00 0.00 0.00 2.59
2777 6000 8.311836 TCCACAAGAACTAGGTTATTTAGTCAG 58.688 37.037 0.00 0.00 31.22 3.51
2806 6031 1.338769 ACTTGGGGCTTAGCTACAACG 60.339 52.381 3.59 6.72 0.00 4.10
2809 6034 0.463833 GGGGCTTAGCTACAACGCAT 60.464 55.000 3.59 0.00 0.00 4.73
2881 6107 6.932400 TGTCTTGTACCTCGACAATAACAAAT 59.068 34.615 6.53 0.00 38.60 2.32
2898 6124 1.638529 AATTTTCCGGCCACATTCCA 58.361 45.000 2.24 0.00 0.00 3.53
2908 6134 3.013921 GGCCACATTCCACGAGAATTAA 58.986 45.455 0.00 0.00 42.86 1.40
3030 6256 1.028905 TTGGCCAGAACCAACTTTCG 58.971 50.000 5.11 0.00 44.80 3.46
3031 6257 0.181587 TGGCCAGAACCAACTTTCGA 59.818 50.000 0.00 0.00 36.55 3.71
3035 6261 0.512952 CAGAACCAACTTTCGAGGCG 59.487 55.000 0.00 0.00 0.00 5.52
3044 6270 3.536956 ACTTTCGAGGCGAATTCCATA 57.463 42.857 2.92 0.00 45.28 2.74
3113 6380 9.386010 AGTAACAACACACTAACAGATTTAACA 57.614 29.630 0.00 0.00 0.00 2.41
3217 6516 3.535962 CCTCTCCTCTCCCGCAGC 61.536 72.222 0.00 0.00 0.00 5.25
3236 6535 2.359107 CAAGCTCCTCCTGCGCAA 60.359 61.111 13.05 0.00 35.28 4.85
3237 6536 2.046507 AAGCTCCTCCTGCGCAAG 60.047 61.111 13.05 5.31 43.44 4.01
3299 6670 0.108585 TGCAAAAGCTCCTCTTCCGT 59.891 50.000 0.00 0.00 32.88 4.69
3385 6776 0.396556 TAGCGACTAGGCCACCATCA 60.397 55.000 5.01 0.00 0.00 3.07
3386 6777 1.050988 AGCGACTAGGCCACCATCAT 61.051 55.000 5.01 0.00 0.00 2.45
3392 6783 1.471829 TAGGCCACCATCATCGCGAT 61.472 55.000 17.62 17.62 33.27 4.58
3434 6861 4.735132 CCACGCCACCGACGTCAT 62.735 66.667 17.16 0.00 42.96 3.06
3435 6862 2.736995 CACGCCACCGACGTCATT 60.737 61.111 17.16 0.00 42.96 2.57
3436 6863 2.736995 ACGCCACCGACGTCATTG 60.737 61.111 17.16 11.20 40.28 2.82
3439 6866 1.666553 GCCACCGACGTCATTGTCA 60.667 57.895 17.16 0.00 38.84 3.58
3567 7041 3.384532 GGCCACCGTCGTCCCTAA 61.385 66.667 0.00 0.00 0.00 2.69
3589 7063 1.171308 CGGTCTCGTTCTCCAAGGTA 58.829 55.000 0.00 0.00 0.00 3.08
3590 7064 1.132643 CGGTCTCGTTCTCCAAGGTAG 59.867 57.143 0.00 0.00 0.00 3.18
3591 7065 2.169330 GGTCTCGTTCTCCAAGGTAGT 58.831 52.381 0.00 0.00 0.00 2.73
3751 8682 2.441001 AGGGATCGGATCATGCTTCTTT 59.559 45.455 18.99 0.00 0.00 2.52
3765 8696 1.808945 CTTCTTTGCGTGGATTCTGCT 59.191 47.619 0.00 0.00 0.00 4.24
3766 8697 1.442769 TCTTTGCGTGGATTCTGCTC 58.557 50.000 0.00 0.00 0.00 4.26
3783 8753 1.242076 CTCCTGTTGTTTGCTCCCTG 58.758 55.000 0.00 0.00 0.00 4.45
3820 8804 2.285707 ACTGGAGTCCCTACCTACAGA 58.714 52.381 6.74 0.00 0.00 3.41
3830 8814 5.357596 GTCCCTACCTACAGAGTAAAGTGAG 59.642 48.000 0.00 0.00 0.00 3.51
3843 8827 2.745515 AAGTGAGGAAAGCTACGGAC 57.254 50.000 0.00 0.00 0.00 4.79
3849 8833 1.362406 GGAAAGCTACGGACAGCAGC 61.362 60.000 8.38 0.00 44.35 5.25
3850 8834 0.670546 GAAAGCTACGGACAGCAGCA 60.671 55.000 8.38 0.00 44.35 4.41
3851 8835 0.036010 AAAGCTACGGACAGCAGCAT 60.036 50.000 8.38 0.00 44.35 3.79
3896 8880 4.853276 TCCCTAAAGTTCCCAAGGTATGAA 59.147 41.667 0.00 0.00 0.00 2.57
3897 8881 5.494706 TCCCTAAAGTTCCCAAGGTATGAAT 59.505 40.000 0.00 0.00 0.00 2.57
3898 8882 6.011096 TCCCTAAAGTTCCCAAGGTATGAATT 60.011 38.462 0.00 0.00 0.00 2.17
3945 9005 7.224297 AGTAGATTTCAGAAACAAGTAGCCAA 58.776 34.615 0.00 0.00 0.00 4.52
3946 9006 6.566197 AGATTTCAGAAACAAGTAGCCAAG 57.434 37.500 0.00 0.00 0.00 3.61
3975 9035 4.127171 TGTAGTGCCTTTTTCTGTCTGAC 58.873 43.478 0.00 0.00 0.00 3.51
3976 9036 2.576615 AGTGCCTTTTTCTGTCTGACC 58.423 47.619 5.17 0.00 0.00 4.02
4005 9976 1.141053 GAACAGCGATTACCCCCTGAT 59.859 52.381 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.753610 TGAAATGAGAGTCTGCAGAACTTG 59.246 41.667 20.19 0.00 0.00 3.16
1 2 4.754114 GTGAAATGAGAGTCTGCAGAACTT 59.246 41.667 20.19 7.20 0.00 2.66
2 3 4.202295 TGTGAAATGAGAGTCTGCAGAACT 60.202 41.667 20.19 20.08 0.00 3.01
3 4 4.060900 TGTGAAATGAGAGTCTGCAGAAC 58.939 43.478 20.19 15.53 0.00 3.01
4 5 4.341366 TGTGAAATGAGAGTCTGCAGAA 57.659 40.909 20.19 2.01 0.00 3.02
5 6 4.341366 TTGTGAAATGAGAGTCTGCAGA 57.659 40.909 13.74 13.74 0.00 4.26
6 7 5.428496 TTTTGTGAAATGAGAGTCTGCAG 57.572 39.130 7.63 7.63 0.00 4.41
7 8 5.833406 TTTTTGTGAAATGAGAGTCTGCA 57.167 34.783 0.00 0.00 0.00 4.41
33 34 6.818644 GCAGAACCTTCTTTTCCTTTCTTTTT 59.181 34.615 0.00 0.00 34.74 1.94
34 35 6.070824 TGCAGAACCTTCTTTTCCTTTCTTTT 60.071 34.615 0.00 0.00 34.74 2.27
35 36 5.422012 TGCAGAACCTTCTTTTCCTTTCTTT 59.578 36.000 0.00 0.00 34.74 2.52
36 37 4.956075 TGCAGAACCTTCTTTTCCTTTCTT 59.044 37.500 0.00 0.00 34.74 2.52
37 38 4.536765 TGCAGAACCTTCTTTTCCTTTCT 58.463 39.130 0.00 0.00 34.74 2.52
38 39 4.580580 TCTGCAGAACCTTCTTTTCCTTTC 59.419 41.667 15.67 0.00 34.74 2.62
39 40 4.339530 GTCTGCAGAACCTTCTTTTCCTTT 59.660 41.667 20.19 0.00 34.74 3.11
40 41 3.885901 GTCTGCAGAACCTTCTTTTCCTT 59.114 43.478 20.19 0.00 34.74 3.36
41 42 3.137360 AGTCTGCAGAACCTTCTTTTCCT 59.863 43.478 20.19 3.44 34.74 3.36
42 43 3.481453 AGTCTGCAGAACCTTCTTTTCC 58.519 45.455 20.19 0.78 34.74 3.13
43 44 4.130118 TGAGTCTGCAGAACCTTCTTTTC 58.870 43.478 20.19 1.35 34.74 2.29
44 45 4.156455 TGAGTCTGCAGAACCTTCTTTT 57.844 40.909 20.19 0.00 34.74 2.27
45 46 3.845781 TGAGTCTGCAGAACCTTCTTT 57.154 42.857 20.19 0.00 34.74 2.52
46 47 4.619394 CGTATGAGTCTGCAGAACCTTCTT 60.619 45.833 20.19 13.53 34.74 2.52
47 48 3.119316 CGTATGAGTCTGCAGAACCTTCT 60.119 47.826 20.19 11.02 38.25 2.85
73 76 4.030865 CGTCTAGAGTCTAGATCGTATGCG 59.969 50.000 28.32 21.25 39.92 4.73
81 84 2.224670 CCTGCCCGTCTAGAGTCTAGAT 60.225 54.545 28.32 0.00 0.00 1.98
94 97 3.175710 ACCTTTGTCCCTGCCCGT 61.176 61.111 0.00 0.00 0.00 5.28
95 98 2.672996 CACCTTTGTCCCTGCCCG 60.673 66.667 0.00 0.00 0.00 6.13
101 104 1.697982 AGTAGACCACACCTTTGTCCC 59.302 52.381 0.00 0.00 31.66 4.46
118 121 8.394877 CGCCATCAACAATTTCACTAAATAGTA 58.605 33.333 0.00 0.00 34.12 1.82
166 169 0.029967 TTTTTGCGCGCACAATGAGA 59.970 45.000 36.72 15.99 0.00 3.27
167 170 1.062258 ATTTTTGCGCGCACAATGAG 58.938 45.000 36.72 0.00 0.00 2.90
170 173 1.845568 CGATATTTTTGCGCGCACAAT 59.154 42.857 36.72 32.58 0.00 2.71
186 189 7.149307 TGAAGCGGAATAATACAATGACGATA 58.851 34.615 0.00 0.00 0.00 2.92
194 200 6.183360 GGTGTTCATGAAGCGGAATAATACAA 60.183 38.462 8.80 0.00 0.00 2.41
308 333 9.216087 CTAAAATCGTCTCATAGTATATGCTCG 57.784 37.037 0.00 0.00 0.00 5.03
320 357 7.134815 GCAATTATGTGCTAAAATCGTCTCAT 58.865 34.615 0.00 0.00 41.51 2.90
340 377 9.105844 ACTAATGTATATAGACAGGAGGCAATT 57.894 33.333 6.34 0.00 31.51 2.32
435 483 2.177531 GCGGAGAAGCACGACGTA 59.822 61.111 0.00 0.00 37.05 3.57
436 484 3.898627 CTGCGGAGAAGCACGACGT 62.899 63.158 0.00 0.00 42.92 4.34
437 485 3.175240 CTGCGGAGAAGCACGACG 61.175 66.667 0.00 0.00 42.92 5.12
438 486 2.811317 CCTGCGGAGAAGCACGAC 60.811 66.667 5.10 0.00 42.92 4.34
439 487 4.742201 GCCTGCGGAGAAGCACGA 62.742 66.667 5.10 0.00 42.92 4.35
452 500 1.098050 CCTTCCCGATTTTCTGCCTG 58.902 55.000 0.00 0.00 0.00 4.85
454 502 1.545841 AACCTTCCCGATTTTCTGCC 58.454 50.000 0.00 0.00 0.00 4.85
477 526 7.645735 CAGTCAGTATATATGATGCGGACATAC 59.354 40.741 11.10 0.00 36.35 2.39
558 612 2.351726 GGTCAAGTGTATGATGCGGTTC 59.648 50.000 0.00 0.00 0.00 3.62
612 749 8.777578 TGTTGCTTAAGATAATACTCCCTCTA 57.222 34.615 6.67 0.00 0.00 2.43
647 823 3.616721 AGGCGGCAGAACGAGTGT 61.617 61.111 13.08 0.00 35.47 3.55
660 836 1.821216 ACATAGACCAAAACCAGGCG 58.179 50.000 0.00 0.00 0.00 5.52
711 895 1.155889 CTCACACGGCACAGCAATAA 58.844 50.000 0.00 0.00 0.00 1.40
712 896 0.320050 TCTCACACGGCACAGCAATA 59.680 50.000 0.00 0.00 0.00 1.90
809 997 1.068474 CTTGTTGGAGAGTTACGGCG 58.932 55.000 4.80 4.80 0.00 6.46
834 1035 2.553904 CCATGGAAGTCTGCAGAACCTT 60.554 50.000 20.19 18.31 0.00 3.50
860 1061 5.104259 ACTTGTCAAAGAAGAGAACAGGT 57.896 39.130 0.00 0.00 36.84 4.00
862 1063 6.758886 ACAGTACTTGTCAAAGAAGAGAACAG 59.241 38.462 0.00 0.00 33.87 3.16
882 1083 6.029607 GTCGACATGTTAACGGAATACAGTA 58.970 40.000 11.55 0.00 0.00 2.74
883 1084 4.860907 GTCGACATGTTAACGGAATACAGT 59.139 41.667 11.55 0.00 0.00 3.55
884 1085 4.266976 GGTCGACATGTTAACGGAATACAG 59.733 45.833 18.91 0.00 0.00 2.74
885 1086 4.175516 GGTCGACATGTTAACGGAATACA 58.824 43.478 18.91 0.00 0.00 2.29
886 1087 3.241322 CGGTCGACATGTTAACGGAATAC 59.759 47.826 18.91 0.52 0.00 1.89
907 1111 5.232202 ACATTAAATAGTCGAGCACACATCG 59.768 40.000 0.00 0.00 41.50 3.84
959 1190 2.311542 AGGTTGGATGGAATTGGCTGTA 59.688 45.455 0.00 0.00 0.00 2.74
987 1220 3.514706 CCATCTCCATGACTGCTAGCTAT 59.485 47.826 17.23 3.33 30.57 2.97
991 1224 3.055963 GGATCCATCTCCATGACTGCTAG 60.056 52.174 6.95 0.00 35.24 3.42
992 1225 2.902486 GGATCCATCTCCATGACTGCTA 59.098 50.000 6.95 0.00 35.24 3.49
993 1226 1.698532 GGATCCATCTCCATGACTGCT 59.301 52.381 6.95 0.00 35.24 4.24
994 1227 1.419012 TGGATCCATCTCCATGACTGC 59.581 52.381 11.44 0.00 40.43 4.40
995 1228 2.704596 AGTGGATCCATCTCCATGACTG 59.295 50.000 19.62 0.00 46.67 3.51
996 1229 3.057626 AGTGGATCCATCTCCATGACT 57.942 47.619 19.62 3.62 46.67 3.41
997 1230 3.007398 GGTAGTGGATCCATCTCCATGAC 59.993 52.174 19.62 10.77 46.67 3.06
1016 1249 2.041620 AGAGAGGCAAGCATTTTGGGTA 59.958 45.455 0.00 0.00 0.00 3.69
1060 1308 3.010144 GGAGGTGGCCATCATGGT 58.990 61.111 20.62 0.00 40.46 3.55
1061 1309 2.203252 CGGAGGTGGCCATCATGG 60.203 66.667 20.62 0.00 41.55 3.66
1062 1310 2.903855 GCGGAGGTGGCCATCATG 60.904 66.667 20.62 8.35 0.00 3.07
1084 1332 3.071459 CTGCATCCGACGACGCAAC 62.071 63.158 0.64 0.00 38.29 4.17
1248 1575 1.750399 GATCACCGGCCAATGCTGT 60.750 57.895 0.00 0.00 42.66 4.40
1426 1766 3.084039 CTCTTATCTGGTTGCCTTGCAA 58.916 45.455 0.00 0.00 46.80 4.08
1517 1862 6.238953 GCCTATCTGACTTAGTATTTCACCGA 60.239 42.308 0.00 0.00 0.00 4.69
1991 2849 4.084433 GGTTGACGAAAATGTACAACGCTA 60.084 41.667 0.00 0.00 40.78 4.26
2065 2923 3.124636 GTGTTAGTGCCAAGATACAACCG 59.875 47.826 0.00 0.00 0.00 4.44
2066 2924 3.439129 GGTGTTAGTGCCAAGATACAACC 59.561 47.826 0.00 0.00 0.00 3.77
2089 3235 6.008696 ACTATTCGGGATGGAACCAATTAA 57.991 37.500 0.00 0.00 0.00 1.40
2093 3239 5.247564 CCTATACTATTCGGGATGGAACCAA 59.752 44.000 0.00 0.00 0.00 3.67
2144 3290 5.126384 CCAGAAAGTTGGTTGTTGTAAAGGA 59.874 40.000 0.00 0.00 33.38 3.36
2203 3841 3.024547 TGCTAAGCGTCAACCTCTCTAT 58.975 45.455 0.00 0.00 0.00 1.98
2210 3848 1.871039 TGTTTCTGCTAAGCGTCAACC 59.129 47.619 0.00 0.00 0.00 3.77
2239 3877 3.009916 CCTATGCTATTTGGGATGGAGCT 59.990 47.826 0.00 0.00 34.19 4.09
2278 3916 4.724074 TCATGAAAATGTCCAAGGATGC 57.276 40.909 0.00 0.00 0.00 3.91
2281 3919 4.478203 TGGTTCATGAAAATGTCCAAGGA 58.522 39.130 10.35 0.00 0.00 3.36
2381 4884 5.598005 CCTATGCTATTTGGAATGGAACCAA 59.402 40.000 0.00 0.00 44.27 3.67
2391 4894 6.894654 TGGTCAAATTTCCTATGCTATTTGGA 59.105 34.615 0.00 0.00 38.12 3.53
2425 4928 6.716934 TTGGTTGCTGGAAATGTAAAAGTA 57.283 33.333 0.00 0.00 0.00 2.24
2426 4929 5.606348 TTGGTTGCTGGAAATGTAAAAGT 57.394 34.783 0.00 0.00 0.00 2.66
2430 4933 6.705381 CAGAAATTTGGTTGCTGGAAATGTAA 59.295 34.615 0.00 0.00 39.48 2.41
2437 4940 3.703556 TGTTCAGAAATTTGGTTGCTGGA 59.296 39.130 0.00 0.00 42.85 3.86
2438 4941 3.803778 GTGTTCAGAAATTTGGTTGCTGG 59.196 43.478 0.00 0.00 42.85 4.85
2441 4944 4.448732 GGATGTGTTCAGAAATTTGGTTGC 59.551 41.667 0.00 0.00 0.00 4.17
2456 4959 2.761208 CCTAGTTCTCGAGGGATGTGTT 59.239 50.000 13.56 0.00 33.68 3.32
2497 5000 4.220602 GGTGTTATTGCCAAGATCCAAACT 59.779 41.667 0.00 0.00 0.00 2.66
2498 5001 4.494484 GGTGTTATTGCCAAGATCCAAAC 58.506 43.478 0.00 0.00 0.00 2.93
2512 5015 4.584638 TGGCATCAGTTAGGGTGTTATT 57.415 40.909 0.00 0.00 0.00 1.40
2513 5016 4.446311 GGATGGCATCAGTTAGGGTGTTAT 60.446 45.833 27.39 0.00 0.00 1.89
2528 5031 3.334581 TCCTATGCTATTTGGGATGGCAT 59.665 43.478 13.15 13.15 45.85 4.40
2530 5033 3.439857 TCCTATGCTATTTGGGATGGC 57.560 47.619 0.00 0.00 0.00 4.40
2567 5647 3.308438 TGTCGTAAAGGTACAAGCCTC 57.692 47.619 0.00 0.00 38.03 4.70
2569 5649 2.481568 GGTTGTCGTAAAGGTACAAGCC 59.518 50.000 0.00 0.00 42.74 4.35
2570 5650 3.132925 TGGTTGTCGTAAAGGTACAAGC 58.867 45.455 9.09 9.09 46.52 4.01
2584 5807 5.277828 GGATGTGTACAGAAAGTTGGTTGTC 60.278 44.000 0.00 0.00 0.00 3.18
2600 5823 3.053842 ACCTAGTTCTCGAGGGATGTGTA 60.054 47.826 13.56 0.00 40.11 2.90
2777 6000 4.040584 AGCTAAGCCCCAAGTAGTATAAGC 59.959 45.833 0.00 0.00 0.00 3.09
2782 6005 3.985127 TGTAGCTAAGCCCCAAGTAGTA 58.015 45.455 0.00 0.00 0.00 1.82
2806 6031 2.658285 TGGGATGGAATCTGTCAATGC 58.342 47.619 0.00 0.00 44.71 3.56
2858 6084 7.972832 AATTTGTTATTGTCGAGGTACAAGA 57.027 32.000 0.00 0.00 42.33 3.02
2881 6107 1.519751 CGTGGAATGTGGCCGGAAAA 61.520 55.000 5.05 0.00 0.00 2.29
2898 6124 6.433093 AGTTGGCCAAATAACTTAATTCTCGT 59.567 34.615 22.47 0.00 33.59 4.18
2908 6134 5.600898 ACCACTTTAAGTTGGCCAAATAACT 59.399 36.000 22.47 11.39 38.70 2.24
3044 6270 6.670695 AATTCAACAACCAAGCTATTCCTT 57.329 33.333 0.00 0.00 0.00 3.36
3112 6379 4.872691 CAGGATAGTCTAGGCTGTTTGTTG 59.127 45.833 7.24 0.00 0.00 3.33
3113 6380 4.532521 ACAGGATAGTCTAGGCTGTTTGTT 59.467 41.667 7.24 0.00 0.00 2.83
3219 6518 2.359107 TTGCGCAGGAGGAGCTTG 60.359 61.111 11.31 0.00 43.44 4.01
3220 6519 2.046507 CTTGCGCAGGAGGAGCTT 60.047 61.111 15.39 0.00 43.44 3.74
3223 6522 2.511145 GAGCTTGCGCAGGAGGAG 60.511 66.667 25.12 12.97 39.10 3.69
3224 6523 4.087892 GGAGCTTGCGCAGGAGGA 62.088 66.667 25.12 0.00 39.10 3.71
3225 6524 4.093291 AGGAGCTTGCGCAGGAGG 62.093 66.667 25.12 10.32 39.10 4.30
3226 6525 2.511145 GAGGAGCTTGCGCAGGAG 60.511 66.667 25.12 14.62 39.10 3.69
3227 6526 4.087892 GGAGGAGCTTGCGCAGGA 62.088 66.667 25.12 1.81 39.10 3.86
3229 6528 2.818714 CAGGAGGAGCTTGCGCAG 60.819 66.667 11.31 6.32 39.10 5.18
3234 6533 3.393970 TCCGGCAGGAGGAGCTTG 61.394 66.667 0.00 0.00 42.75 4.01
3366 6753 0.396556 TGATGGTGGCCTAGTCGCTA 60.397 55.000 3.32 0.00 0.00 4.26
3419 6846 2.736995 CAATGACGTCGGTGGCGT 60.737 61.111 11.62 0.00 45.86 5.68
3431 6858 1.980951 GAGCGCGGCAATGACAATGA 61.981 55.000 8.83 0.00 0.00 2.57
3432 6859 1.584483 GAGCGCGGCAATGACAATG 60.584 57.895 8.83 0.00 0.00 2.82
3433 6860 1.709147 GAGAGCGCGGCAATGACAAT 61.709 55.000 8.83 0.00 0.00 2.71
3434 6861 2.358615 AGAGCGCGGCAATGACAA 60.359 55.556 8.83 0.00 0.00 3.18
3435 6862 2.815211 GAGAGCGCGGCAATGACA 60.815 61.111 8.83 0.00 0.00 3.58
3436 6863 3.567797 GGAGAGCGCGGCAATGAC 61.568 66.667 8.83 0.00 0.00 3.06
3500 6931 3.462678 GAGGTCGGCCCTGTCCTC 61.463 72.222 0.08 12.29 46.51 3.71
3524 6998 2.090663 GGTTGGAGGACCCTAGTAGGAT 60.091 54.545 18.43 0.00 37.67 3.24
3558 7032 1.751927 GAGACCGCCTTAGGGACGA 60.752 63.158 0.00 0.00 35.33 4.20
3567 7041 1.878656 CTTGGAGAACGAGACCGCCT 61.879 60.000 0.00 0.00 39.95 5.52
3656 7259 0.930310 CATCGAATGCACCTACCGTG 59.070 55.000 0.00 0.00 46.03 4.94
3669 7275 1.971167 GCTGGGGTTGCACATCGAA 60.971 57.895 0.00 0.00 0.00 3.71
3697 7303 3.710722 AGAAGCAGTGGGCCGGAG 61.711 66.667 5.05 0.00 46.50 4.63
3698 7304 4.020617 CAGAAGCAGTGGGCCGGA 62.021 66.667 5.05 0.00 46.50 5.14
3699 7305 4.335647 ACAGAAGCAGTGGGCCGG 62.336 66.667 0.00 0.00 46.50 6.13
3700 7306 3.052082 CACAGAAGCAGTGGGCCG 61.052 66.667 0.00 0.00 46.50 6.13
3701 7307 2.469465 TAGCACAGAAGCAGTGGGCC 62.469 60.000 0.00 0.00 46.17 5.80
3702 7308 0.606401 TTAGCACAGAAGCAGTGGGC 60.606 55.000 0.00 0.00 45.28 5.36
3703 7309 1.741706 CATTAGCACAGAAGCAGTGGG 59.258 52.381 0.00 0.00 37.46 4.61
3704 7310 1.131883 GCATTAGCACAGAAGCAGTGG 59.868 52.381 0.00 0.00 41.58 4.00
3751 8682 1.078918 CAGGAGCAGAATCCACGCA 60.079 57.895 0.00 0.00 42.26 5.24
3765 8696 0.823356 GCAGGGAGCAAACAACAGGA 60.823 55.000 0.00 0.00 44.79 3.86
3766 8697 1.662044 GCAGGGAGCAAACAACAGG 59.338 57.895 0.00 0.00 44.79 4.00
3783 8753 1.537202 CAGTTTAGGACAAGTGCAGGC 59.463 52.381 0.00 0.00 0.00 4.85
3820 8804 3.830755 TCCGTAGCTTTCCTCACTTTACT 59.169 43.478 0.00 0.00 0.00 2.24
3830 8814 1.362406 GCTGCTGTCCGTAGCTTTCC 61.362 60.000 0.00 0.00 46.40 3.13
3843 8827 1.667212 TCGCTAATTCACATGCTGCTG 59.333 47.619 0.00 0.00 0.00 4.41
3849 8833 3.068732 TCTCCTCCTCGCTAATTCACATG 59.931 47.826 0.00 0.00 0.00 3.21
3850 8834 3.300388 TCTCCTCCTCGCTAATTCACAT 58.700 45.455 0.00 0.00 0.00 3.21
3851 8835 2.735151 TCTCCTCCTCGCTAATTCACA 58.265 47.619 0.00 0.00 0.00 3.58
3896 8880 5.237561 TCAACACCGTGCGCAATATAATAAT 59.762 36.000 14.00 0.00 0.00 1.28
3897 8881 4.571176 TCAACACCGTGCGCAATATAATAA 59.429 37.500 14.00 0.00 0.00 1.40
3898 8882 4.120589 TCAACACCGTGCGCAATATAATA 58.879 39.130 14.00 0.00 0.00 0.98
3945 9005 5.754890 CAGAAAAAGGCACTACAAAATTGCT 59.245 36.000 0.00 0.00 38.49 3.91
3946 9006 5.523552 ACAGAAAAAGGCACTACAAAATTGC 59.476 36.000 0.00 0.00 38.49 3.56
3975 9035 1.115467 ATCGCTGTTCAGGGAGTAGG 58.885 55.000 20.56 0.00 34.28 3.18
3976 9036 2.969628 AATCGCTGTTCAGGGAGTAG 57.030 50.000 20.56 0.00 34.28 2.57


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

AutoCloner maintained by Alex Coulton.