Multiple sequence alignment - TraesCS2A01G024800

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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 TraesCS2A01G024800 chr2A 100.000 3149 0 0 1 3149 11916162 11913014 0.000000e+00 5816.0
1 TraesCS2A01G024800 chr2A 74.922 961 169 45 42 975 11638255 11639170 1.070000e-99 374.0
2 TraesCS2A01G024800 chr2A 88.261 230 18 3 1956 2176 11913383 11913612 1.860000e-67 267.0
3 TraesCS2A01G024800 chr2A 76.271 472 84 20 211 661 11743996 11744460 3.160000e-55 226.0
4 TraesCS2A01G024800 chr2A 72.710 513 99 30 493 987 11621194 11621683 1.970000e-27 134.0
5 TraesCS2A01G024800 chr2A 80.117 171 25 9 495 661 11745683 11745848 5.520000e-23 119.0
6 TraesCS2A01G024800 chrUn 89.069 1665 141 20 42 1675 12181723 12183377 0.000000e+00 2028.0
7 TraesCS2A01G024800 chrUn 78.538 1081 147 35 721 1751 12636121 12635076 1.590000e-177 632.0
8 TraesCS2A01G024800 chrUn 86.160 513 60 9 179 682 12636743 12636233 7.680000e-151 544.0
9 TraesCS2A01G024800 chrUn 93.571 140 8 1 1680 1819 12183622 12183760 1.140000e-49 207.0
10 TraesCS2A01G024800 chr2B 97.203 1001 28 0 49 1049 17369596 17368596 0.000000e+00 1694.0
11 TraesCS2A01G024800 chr2B 80.249 1767 252 56 38 1743 17431926 17433656 0.000000e+00 1240.0
12 TraesCS2A01G024800 chr2B 90.253 831 55 10 1956 2785 9745456 9744651 0.000000e+00 1062.0
13 TraesCS2A01G024800 chr2B 86.873 678 51 17 1155 1826 17368522 17367877 0.000000e+00 725.0
14 TraesCS2A01G024800 chr2B 85.313 463 65 2 1176 1638 16990970 16991429 2.840000e-130 475.0
15 TraesCS2A01G024800 chr2B 77.170 841 140 29 784 1607 16827490 16828295 2.880000e-120 442.0
16 TraesCS2A01G024800 chr2B 82.159 454 64 8 1155 1607 16857173 16857610 1.070000e-99 374.0
17 TraesCS2A01G024800 chr2B 89.474 114 9 2 1843 1956 16849979 16850089 1.180000e-29 141.0
18 TraesCS2A01G024800 chr2B 81.905 105 18 1 493 597 16769747 16769850 1.560000e-13 87.9
19 TraesCS2A01G024800 chr2D 98.148 756 11 3 1 756 11038836 11039588 0.000000e+00 1315.0
20 TraesCS2A01G024800 chr2D 91.791 804 37 14 1155 1949 11040115 11040898 0.000000e+00 1092.0
21 TraesCS2A01G024800 chr2D 97.222 288 8 0 762 1049 11039754 11040041 3.650000e-134 488.0
22 TraesCS2A01G024800 chr2D 75.837 956 166 42 42 975 10975747 10976659 2.900000e-115 425.0
23 TraesCS2A01G024800 chr2D 91.429 105 6 3 2782 2883 11040901 11041005 1.180000e-29 141.0
24 TraesCS2A01G024800 chr3A 91.809 818 66 1 1959 2775 38118497 38117680 0.000000e+00 1138.0
25 TraesCS2A01G024800 chr1D 90.534 824 55 3 1955 2778 402152194 402152994 0.000000e+00 1068.0
26 TraesCS2A01G024800 chr1D 87.554 233 29 0 2548 2780 392721161 392721393 1.440000e-68 270.0
27 TraesCS2A01G024800 chr4A 93.287 581 34 1 1956 2536 616112885 616113460 0.000000e+00 852.0
28 TraesCS2A01G024800 chr4A 90.456 241 23 0 2540 2780 616114081 616114321 5.070000e-83 318.0
29 TraesCS2A01G024800 chr4A 87.983 233 19 4 1953 2176 616114324 616114092 1.860000e-67 267.0
30 TraesCS2A01G024800 chr3B 90.559 519 32 3 1953 2470 566638470 566638972 0.000000e+00 671.0
31 TraesCS2A01G024800 chr3B 91.633 251 19 2 2532 2781 566639219 566639468 2.320000e-91 346.0
32 TraesCS2A01G024800 chr3B 86.441 236 32 0 2545 2780 575259811 575259576 3.120000e-65 259.0
33 TraesCS2A01G024800 chr3B 87.215 219 26 1 1956 2172 47196976 47197194 6.740000e-62 248.0
34 TraesCS2A01G024800 chr7B 94.737 342 16 1 2197 2536 151652761 151653102 5.980000e-147 531.0
35 TraesCS2A01G024800 chr7D 93.769 337 17 3 2201 2534 183231512 183231847 1.300000e-138 503.0
36 TraesCS2A01G024800 chr7A 93.675 332 18 2 2206 2535 188036210 188035880 7.850000e-136 494.0
37 TraesCS2A01G024800 chr6D 85.992 257 27 2 1951 2198 45675917 45676173 1.860000e-67 267.0
38 TraesCS2A01G024800 chr6D 86.864 236 31 0 2545 2780 45676157 45675922 6.700000e-67 265.0
39 TraesCS2A01G024800 chr6B 86.017 236 33 0 2545 2780 130318706 130318471 1.450000e-63 254.0
40 TraesCS2A01G024800 chr6B 82.105 95 13 4 499 591 2887524 2887616 9.360000e-11 78.7
41 TraesCS2A01G024800 chr5D 77.376 221 36 5 1346 1565 24798895 24798688 5.520000e-23 119.0


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 TraesCS2A01G024800 chr2A 11913014 11916162 3148 True 5816.0 5816 100.0000 1 3149 1 chr2A.!!$R1 3148
1 TraesCS2A01G024800 chr2A 11638255 11639170 915 False 374.0 374 74.9220 42 975 1 chr2A.!!$F2 933
2 TraesCS2A01G024800 chrUn 12181723 12183760 2037 False 1117.5 2028 91.3200 42 1819 2 chrUn.!!$F1 1777
3 TraesCS2A01G024800 chrUn 12635076 12636743 1667 True 588.0 632 82.3490 179 1751 2 chrUn.!!$R1 1572
4 TraesCS2A01G024800 chr2B 17431926 17433656 1730 False 1240.0 1240 80.2490 38 1743 1 chr2B.!!$F6 1705
5 TraesCS2A01G024800 chr2B 17367877 17369596 1719 True 1209.5 1694 92.0380 49 1826 2 chr2B.!!$R2 1777
6 TraesCS2A01G024800 chr2B 9744651 9745456 805 True 1062.0 1062 90.2530 1956 2785 1 chr2B.!!$R1 829
7 TraesCS2A01G024800 chr2B 16827490 16828295 805 False 442.0 442 77.1700 784 1607 1 chr2B.!!$F2 823
8 TraesCS2A01G024800 chr2D 11038836 11041005 2169 False 759.0 1315 94.6475 1 2883 4 chr2D.!!$F2 2882
9 TraesCS2A01G024800 chr2D 10975747 10976659 912 False 425.0 425 75.8370 42 975 1 chr2D.!!$F1 933
10 TraesCS2A01G024800 chr3A 38117680 38118497 817 True 1138.0 1138 91.8090 1959 2775 1 chr3A.!!$R1 816
11 TraesCS2A01G024800 chr1D 402152194 402152994 800 False 1068.0 1068 90.5340 1955 2778 1 chr1D.!!$F2 823
12 TraesCS2A01G024800 chr4A 616112885 616114321 1436 False 585.0 852 91.8715 1956 2780 2 chr4A.!!$F1 824
13 TraesCS2A01G024800 chr3B 566638470 566639468 998 False 508.5 671 91.0960 1953 2781 2 chr3B.!!$F2 828

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
937 1244 1.141053 GTGTGGACAGGGACAGAAACT 59.859 52.381 0.0 0.0 0.0 2.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2348 2975 0.692419 AGGAAGGATGGCTCGGTGAT 60.692 55.0 0.0 0.0 0.0 3.06 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
122 126 4.704540 CACATAGGGTTGACAATTGGCTAA 59.295 41.667 13.62 2.41 0.00 3.09
124 128 5.418840 ACATAGGGTTGACAATTGGCTAAAG 59.581 40.000 13.62 0.00 0.00 1.85
144 161 5.841957 AAGATATCAGTTTGCCCATCAAC 57.158 39.130 5.32 0.00 33.73 3.18
150 167 3.640498 TCAGTTTGCCCATCAACATGAAA 59.360 39.130 0.00 0.00 33.73 2.69
266 283 3.964031 GGACTTGTGAGGGACTAGATCAT 59.036 47.826 0.00 0.00 41.55 2.45
636 668 1.831580 GTTGCTCTGAAATGCCCTCT 58.168 50.000 0.00 0.00 0.00 3.69
756 895 5.500610 CGTTTCTTTCACATTTTTGCACTGG 60.501 40.000 0.00 0.00 0.00 4.00
758 897 4.681744 TCTTTCACATTTTTGCACTGGAC 58.318 39.130 0.00 0.00 0.00 4.02
802 1109 4.201901 GGAATTTAATGCCCCAAATTTGCG 60.202 41.667 12.92 4.15 35.14 4.85
887 1194 5.988561 CACAGGAAATAGACATTCTAGGAGC 59.011 44.000 0.00 0.00 31.67 4.70
937 1244 1.141053 GTGTGGACAGGGACAGAAACT 59.859 52.381 0.00 0.00 0.00 2.66
1020 1327 4.033817 GCAATGTCACTAGCTTCTGATGTC 59.966 45.833 0.00 0.00 0.00 3.06
1037 1347 1.752498 TGTCTCAAATGATGCCATGGC 59.248 47.619 30.54 30.54 42.35 4.40
1049 1359 1.748879 CCATGGCCCAGGTACGTTG 60.749 63.158 0.00 0.00 0.00 4.10
1055 1387 1.295423 CCCAGGTACGTTGGACCAG 59.705 63.158 14.72 0.00 39.65 4.00
1079 1411 8.887717 CAGTCCTCTATTTCTTCAGTATTTTGG 58.112 37.037 0.00 0.00 0.00 3.28
1118 1457 7.296628 ACAGTTTTGACCTGCCAAATTTATA 57.703 32.000 0.00 0.00 36.12 0.98
1149 1490 3.790820 CGATGTTTTTATGATTGGCCACG 59.209 43.478 3.88 0.00 0.00 4.94
1393 1734 5.172934 TCCTGTTGTTATGTTATCGTGACC 58.827 41.667 0.00 0.00 0.00 4.02
1708 2310 5.895636 ATTGTTTCTTGGTCGATTATGCA 57.104 34.783 0.00 0.00 0.00 3.96
1763 2369 8.470805 CCTCTCTAACTGCTGATTACTTTCTAA 58.529 37.037 0.00 0.00 0.00 2.10
1783 2389 8.798975 TTCTAATATGGGAAGTATGGAAGACT 57.201 34.615 0.00 0.00 0.00 3.24
1806 2412 1.522668 TGCGAACAAGCAGCTAATGT 58.477 45.000 0.00 0.00 42.92 2.71
1812 2418 4.437390 CGAACAAGCAGCTAATGTAAAGGG 60.437 45.833 0.00 0.00 0.00 3.95
1846 2452 5.045578 AGGAAGGCTTGAGTATGTGTTACAT 60.046 40.000 3.46 0.00 42.35 2.29
1852 2458 7.069950 AGGCTTGAGTATGTGTTACATGAGATA 59.930 37.037 0.00 0.00 39.53 1.98
1873 2479 9.935241 GAGATAGTCAATTGAATGCCTATAGAA 57.065 33.333 18.22 0.00 0.00 2.10
1883 2489 5.132648 TGAATGCCTATAGAACAGGTCCATT 59.867 40.000 0.00 0.00 35.45 3.16
1884 2490 6.328934 TGAATGCCTATAGAACAGGTCCATTA 59.671 38.462 0.00 0.00 35.45 1.90
1887 2498 8.629821 ATGCCTATAGAACAGGTCCATTATAT 57.370 34.615 0.00 0.00 35.45 0.86
1900 2511 9.784531 CAGGTCCATTATATTGAAGATTACAGT 57.215 33.333 0.00 0.00 0.00 3.55
1935 2546 9.696917 CTCACTAAAAATAAAAAGGAGCAACAT 57.303 29.630 0.00 0.00 0.00 2.71
1949 2560 8.451908 AAGGAGCAACATTCAGTTATATTACC 57.548 34.615 0.00 0.00 38.74 2.85
1951 2562 7.716998 AGGAGCAACATTCAGTTATATTACCAG 59.283 37.037 0.00 0.00 38.74 4.00
1952 2563 7.499232 GGAGCAACATTCAGTTATATTACCAGT 59.501 37.037 0.00 0.00 38.74 4.00
1953 2564 8.807948 AGCAACATTCAGTTATATTACCAGTT 57.192 30.769 0.00 0.00 38.74 3.16
2202 2814 3.982241 GTCGGACCCGGTCACGTT 61.982 66.667 19.43 0.00 40.25 3.99
2259 2871 4.704833 GCTGGTGAGGCTGCCGAA 62.705 66.667 13.96 2.20 0.00 4.30
2260 2872 2.435586 CTGGTGAGGCTGCCGAAG 60.436 66.667 13.96 4.01 0.00 3.79
2269 2881 3.716006 CTGCCGAAGCACGTGGTG 61.716 66.667 22.63 10.18 46.52 4.17
2359 2986 2.710902 CGACCTCATCACCGAGCCA 61.711 63.158 0.00 0.00 0.00 4.75
2370 2997 0.692419 ACCGAGCCATCCTTCCTGAT 60.692 55.000 0.00 0.00 0.00 2.90
2473 3100 3.394836 GGGCTCCAGCTTCGTCCT 61.395 66.667 0.00 0.00 41.70 3.85
2474 3101 2.665603 GGCTCCAGCTTCGTCCTT 59.334 61.111 0.00 0.00 41.70 3.36
2719 4148 5.993748 TCTGGAGTTTTTGGTCAGTTTTT 57.006 34.783 0.00 0.00 0.00 1.94
2728 4157 9.278978 AGTTTTTGGTCAGTTTTTAAAATGTGT 57.721 25.926 0.55 0.00 35.64 3.72
2825 4255 2.389715 AGGTACCTCCATCTGTAGCAC 58.610 52.381 9.21 0.00 37.79 4.40
2840 4270 2.105006 AGCACGAGCAACATTCAGAT 57.895 45.000 7.77 0.00 45.49 2.90
2860 4291 8.877864 TCAGATAACAAACAATTATCCAGGTT 57.122 30.769 0.00 0.00 39.06 3.50
2871 4302 4.666412 TTATCCAGGTTTCCCACAATCA 57.334 40.909 0.00 0.00 0.00 2.57
2872 4303 3.541242 ATCCAGGTTTCCCACAATCAA 57.459 42.857 0.00 0.00 0.00 2.57
2883 4316 8.147704 GGTTTCCCACAATCAAAAGAGAAATAA 58.852 33.333 0.00 0.00 0.00 1.40
2884 4317 9.196552 GTTTCCCACAATCAAAAGAGAAATAAG 57.803 33.333 0.00 0.00 0.00 1.73
2885 4318 7.466746 TCCCACAATCAAAAGAGAAATAAGG 57.533 36.000 0.00 0.00 0.00 2.69
2886 4319 7.237982 TCCCACAATCAAAAGAGAAATAAGGA 58.762 34.615 0.00 0.00 0.00 3.36
2887 4320 7.728083 TCCCACAATCAAAAGAGAAATAAGGAA 59.272 33.333 0.00 0.00 0.00 3.36
2888 4321 8.367156 CCCACAATCAAAAGAGAAATAAGGAAA 58.633 33.333 0.00 0.00 0.00 3.13
2889 4322 9.415544 CCACAATCAAAAGAGAAATAAGGAAAG 57.584 33.333 0.00 0.00 0.00 2.62
2895 4328 9.696917 TCAAAAGAGAAATAAGGAAAGAAATGC 57.303 29.630 0.00 0.00 0.00 3.56
2896 4329 9.480053 CAAAAGAGAAATAAGGAAAGAAATGCA 57.520 29.630 0.00 0.00 0.00 3.96
2900 4333 9.702494 AGAGAAATAAGGAAAGAAATGCAAAAG 57.298 29.630 0.00 0.00 0.00 2.27
2901 4334 8.837788 AGAAATAAGGAAAGAAATGCAAAAGG 57.162 30.769 0.00 0.00 0.00 3.11
2902 4335 7.388776 AGAAATAAGGAAAGAAATGCAAAAGGC 59.611 33.333 0.00 0.00 45.13 4.35
2913 4346 2.292103 GCAAAAGGCAACACAACTCA 57.708 45.000 0.00 0.00 43.97 3.41
2914 4347 2.615869 GCAAAAGGCAACACAACTCAA 58.384 42.857 0.00 0.00 43.97 3.02
2915 4348 3.197265 GCAAAAGGCAACACAACTCAAT 58.803 40.909 0.00 0.00 43.97 2.57
2916 4349 3.001533 GCAAAAGGCAACACAACTCAATG 59.998 43.478 0.00 0.00 43.97 2.82
2917 4350 4.431809 CAAAAGGCAACACAACTCAATGA 58.568 39.130 0.00 0.00 41.41 2.57
2918 4351 4.734398 AAAGGCAACACAACTCAATGAA 57.266 36.364 0.00 0.00 41.41 2.57
2919 4352 4.942761 AAGGCAACACAACTCAATGAAT 57.057 36.364 0.00 0.00 41.41 2.57
2920 4353 4.247267 AGGCAACACAACTCAATGAATG 57.753 40.909 0.00 0.00 41.41 2.67
2921 4354 3.890756 AGGCAACACAACTCAATGAATGA 59.109 39.130 3.17 0.00 41.41 2.57
2922 4355 3.983344 GGCAACACAACTCAATGAATGAC 59.017 43.478 3.17 0.00 33.47 3.06
2923 4356 4.261741 GGCAACACAACTCAATGAATGACT 60.262 41.667 3.17 0.00 33.47 3.41
2924 4357 4.913924 GCAACACAACTCAATGAATGACTC 59.086 41.667 3.17 0.00 33.47 3.36
2925 4358 5.506151 GCAACACAACTCAATGAATGACTCA 60.506 40.000 3.17 0.00 38.81 3.41
2927 4360 7.573656 GCAACACAACTCAATGAATGACTCATA 60.574 37.037 3.17 0.00 44.43 2.15
2928 4361 7.606858 ACACAACTCAATGAATGACTCATAG 57.393 36.000 3.17 0.00 44.43 2.23
2929 4362 6.093219 ACACAACTCAATGAATGACTCATAGC 59.907 38.462 3.17 0.00 44.43 2.97
2930 4363 6.315642 CACAACTCAATGAATGACTCATAGCT 59.684 38.462 0.00 0.00 44.43 3.32
2931 4364 6.315642 ACAACTCAATGAATGACTCATAGCTG 59.684 38.462 0.00 0.00 44.43 4.24
2932 4365 6.231258 ACTCAATGAATGACTCATAGCTGA 57.769 37.500 0.00 0.00 44.43 4.26
2944 4377 5.474578 CTCATAGCTGAGTATAGGCCAAA 57.525 43.478 5.01 0.00 43.35 3.28
2945 4378 5.215252 TCATAGCTGAGTATAGGCCAAAC 57.785 43.478 5.01 0.00 0.00 2.93
2946 4379 4.901849 TCATAGCTGAGTATAGGCCAAACT 59.098 41.667 5.01 4.69 0.00 2.66
2947 4380 3.828875 AGCTGAGTATAGGCCAAACTC 57.171 47.619 19.75 19.75 40.05 3.01
2948 4381 3.107601 AGCTGAGTATAGGCCAAACTCA 58.892 45.455 24.74 24.74 45.48 3.41
2949 4382 3.519510 AGCTGAGTATAGGCCAAACTCAA 59.480 43.478 25.68 15.07 46.52 3.02
2950 4383 4.164988 AGCTGAGTATAGGCCAAACTCAAT 59.835 41.667 25.68 18.18 46.52 2.57
2951 4384 4.274459 GCTGAGTATAGGCCAAACTCAATG 59.726 45.833 25.68 19.15 46.52 2.82
2952 4385 4.780815 TGAGTATAGGCCAAACTCAATGG 58.219 43.478 24.42 0.00 44.89 3.16
2953 4386 4.473196 TGAGTATAGGCCAAACTCAATGGA 59.527 41.667 24.42 8.15 44.89 3.41
2954 4387 5.132648 TGAGTATAGGCCAAACTCAATGGAT 59.867 40.000 24.42 0.00 44.89 3.41
2955 4388 5.380043 AGTATAGGCCAAACTCAATGGATG 58.620 41.667 5.01 0.00 40.56 3.51
2956 4389 1.188863 AGGCCAAACTCAATGGATGC 58.811 50.000 5.01 0.00 40.56 3.91
2957 4390 0.176449 GGCCAAACTCAATGGATGCC 59.824 55.000 0.00 0.00 40.56 4.40
2958 4391 0.176449 GCCAAACTCAATGGATGCCC 59.824 55.000 0.00 0.00 40.56 5.36
2959 4392 1.856629 CCAAACTCAATGGATGCCCT 58.143 50.000 0.00 0.00 40.56 5.19
2960 4393 2.181975 CCAAACTCAATGGATGCCCTT 58.818 47.619 0.00 0.00 40.56 3.95
2961 4394 3.364549 CCAAACTCAATGGATGCCCTTA 58.635 45.455 0.00 0.00 40.56 2.69
2962 4395 3.962718 CCAAACTCAATGGATGCCCTTAT 59.037 43.478 0.00 0.00 40.56 1.73
2963 4396 5.139727 CCAAACTCAATGGATGCCCTTATA 58.860 41.667 0.00 0.00 40.56 0.98
2964 4397 5.776716 CCAAACTCAATGGATGCCCTTATAT 59.223 40.000 0.00 0.00 40.56 0.86
2965 4398 6.268387 CCAAACTCAATGGATGCCCTTATATT 59.732 38.462 0.00 0.00 40.56 1.28
2966 4399 7.202029 CCAAACTCAATGGATGCCCTTATATTT 60.202 37.037 0.00 0.00 40.56 1.40
2967 4400 7.919385 AACTCAATGGATGCCCTTATATTTT 57.081 32.000 0.00 0.00 0.00 1.82
2968 4401 9.432982 AAACTCAATGGATGCCCTTATATTTTA 57.567 29.630 0.00 0.00 0.00 1.52
2969 4402 8.409358 ACTCAATGGATGCCCTTATATTTTAC 57.591 34.615 0.00 0.00 0.00 2.01
2970 4403 8.227507 ACTCAATGGATGCCCTTATATTTTACT 58.772 33.333 0.00 0.00 0.00 2.24
2971 4404 9.082313 CTCAATGGATGCCCTTATATTTTACTT 57.918 33.333 0.00 0.00 0.00 2.24
2972 4405 9.077885 TCAATGGATGCCCTTATATTTTACTTC 57.922 33.333 0.00 0.00 0.00 3.01
2973 4406 8.859090 CAATGGATGCCCTTATATTTTACTTCA 58.141 33.333 0.00 0.00 0.00 3.02
2974 4407 9.432982 AATGGATGCCCTTATATTTTACTTCAA 57.567 29.630 0.00 0.00 0.00 2.69
2975 4408 8.830915 TGGATGCCCTTATATTTTACTTCAAA 57.169 30.769 0.00 0.00 0.00 2.69
2976 4409 8.912988 TGGATGCCCTTATATTTTACTTCAAAG 58.087 33.333 0.00 0.00 0.00 2.77
2977 4410 8.914011 GGATGCCCTTATATTTTACTTCAAAGT 58.086 33.333 0.46 0.46 42.91 2.66
2978 4411 9.952188 GATGCCCTTATATTTTACTTCAAAGTC 57.048 33.333 0.00 0.00 40.37 3.01
2979 4412 9.700831 ATGCCCTTATATTTTACTTCAAAGTCT 57.299 29.630 0.00 0.00 40.37 3.24
2980 4413 9.528489 TGCCCTTATATTTTACTTCAAAGTCTT 57.472 29.630 0.00 0.00 40.37 3.01
2992 4425 7.203255 ACTTCAAAGTCTTTAATGTGTAGGC 57.797 36.000 0.00 0.00 32.86 3.93
2993 4426 6.206829 ACTTCAAAGTCTTTAATGTGTAGGCC 59.793 38.462 0.00 0.00 32.86 5.19
2994 4427 5.876357 TCAAAGTCTTTAATGTGTAGGCCT 58.124 37.500 11.78 11.78 0.00 5.19
2995 4428 6.303839 TCAAAGTCTTTAATGTGTAGGCCTT 58.696 36.000 12.58 0.00 0.00 4.35
2996 4429 6.430000 TCAAAGTCTTTAATGTGTAGGCCTTC 59.570 38.462 12.58 6.47 0.00 3.46
2997 4430 4.504858 AGTCTTTAATGTGTAGGCCTTCG 58.495 43.478 12.58 0.00 0.00 3.79
2998 4431 3.621715 GTCTTTAATGTGTAGGCCTTCGG 59.378 47.826 12.58 0.00 0.00 4.30
2999 4432 3.516300 TCTTTAATGTGTAGGCCTTCGGA 59.484 43.478 12.58 0.00 0.00 4.55
3000 4433 4.163458 TCTTTAATGTGTAGGCCTTCGGAT 59.837 41.667 12.58 0.00 0.00 4.18
3001 4434 4.497291 TTAATGTGTAGGCCTTCGGATT 57.503 40.909 12.58 10.58 0.00 3.01
3002 4435 3.366052 AATGTGTAGGCCTTCGGATTT 57.634 42.857 12.58 0.00 0.00 2.17
3003 4436 2.871096 TGTGTAGGCCTTCGGATTTT 57.129 45.000 12.58 0.00 0.00 1.82
3004 4437 3.149005 TGTGTAGGCCTTCGGATTTTT 57.851 42.857 12.58 0.00 0.00 1.94
3005 4438 3.078837 TGTGTAGGCCTTCGGATTTTTC 58.921 45.455 12.58 0.00 0.00 2.29
3006 4439 3.078837 GTGTAGGCCTTCGGATTTTTCA 58.921 45.455 12.58 0.00 0.00 2.69
3007 4440 3.504520 GTGTAGGCCTTCGGATTTTTCAA 59.495 43.478 12.58 0.00 0.00 2.69
3008 4441 3.504520 TGTAGGCCTTCGGATTTTTCAAC 59.495 43.478 12.58 0.00 0.00 3.18
3009 4442 2.593026 AGGCCTTCGGATTTTTCAACA 58.407 42.857 0.00 0.00 0.00 3.33
3010 4443 3.165071 AGGCCTTCGGATTTTTCAACAT 58.835 40.909 0.00 0.00 0.00 2.71
3011 4444 3.578282 AGGCCTTCGGATTTTTCAACATT 59.422 39.130 0.00 0.00 0.00 2.71
3012 4445 4.040339 AGGCCTTCGGATTTTTCAACATTT 59.960 37.500 0.00 0.00 0.00 2.32
3013 4446 5.245075 AGGCCTTCGGATTTTTCAACATTTA 59.755 36.000 0.00 0.00 0.00 1.40
3014 4447 5.576774 GGCCTTCGGATTTTTCAACATTTAG 59.423 40.000 0.00 0.00 0.00 1.85
3015 4448 6.386654 GCCTTCGGATTTTTCAACATTTAGA 58.613 36.000 0.00 0.00 0.00 2.10
3016 4449 6.866248 GCCTTCGGATTTTTCAACATTTAGAA 59.134 34.615 0.00 0.00 0.00 2.10
3017 4450 7.383843 GCCTTCGGATTTTTCAACATTTAGAAA 59.616 33.333 0.00 0.00 32.34 2.52
3018 4451 8.915654 CCTTCGGATTTTTCAACATTTAGAAAG 58.084 33.333 0.00 0.00 35.41 2.62
3019 4452 9.677567 CTTCGGATTTTTCAACATTTAGAAAGA 57.322 29.630 0.00 0.00 35.41 2.52
3021 4454 9.458374 TCGGATTTTTCAACATTTAGAAAGAAC 57.542 29.630 0.00 0.00 35.41 3.01
3022 4455 8.417176 CGGATTTTTCAACATTTAGAAAGAACG 58.583 33.333 0.00 0.00 35.41 3.95
3023 4456 9.458374 GGATTTTTCAACATTTAGAAAGAACGA 57.542 29.630 0.00 0.00 35.41 3.85
3026 4459 9.849166 TTTTTCAACATTTAGAAAGAACGAAGT 57.151 25.926 0.00 0.00 37.42 3.01
3030 4463 9.483916 TCAACATTTAGAAAGAACGAAGTATGA 57.516 29.630 0.00 0.00 45.00 2.15
3041 4474 9.924650 AAAGAACGAAGTATGAAACATAGTAGT 57.075 29.630 0.00 0.00 45.00 2.73
3044 4477 9.778993 GAACGAAGTATGAAACATAGTAGTACA 57.221 33.333 2.52 0.00 45.00 2.90
3054 4487 9.990360 TGAAACATAGTAGTACAAACTCAATGA 57.010 29.630 13.76 0.00 37.15 2.57
3057 4490 9.772973 AACATAGTAGTACAAACTCAATGAACA 57.227 29.630 13.76 0.00 37.15 3.18
3058 4491 9.772973 ACATAGTAGTACAAACTCAATGAACAA 57.227 29.630 13.76 0.00 37.15 2.83
3061 4494 8.732746 AGTAGTACAAACTCAATGAACAAAGT 57.267 30.769 2.52 0.00 37.15 2.66
3062 4495 9.174166 AGTAGTACAAACTCAATGAACAAAGTT 57.826 29.630 2.52 0.00 37.15 2.66
3063 4496 9.783256 GTAGTACAAACTCAATGAACAAAGTTT 57.217 29.630 0.00 0.00 41.36 2.66
3069 4502 6.966534 ACTCAATGAACAAAGTTTGATCCT 57.033 33.333 22.23 9.93 32.12 3.24
3070 4503 6.742109 ACTCAATGAACAAAGTTTGATCCTG 58.258 36.000 22.23 17.29 32.12 3.86
3071 4504 6.322201 ACTCAATGAACAAAGTTTGATCCTGT 59.678 34.615 22.23 10.35 32.12 4.00
3072 4505 7.111247 TCAATGAACAAAGTTTGATCCTGTT 57.889 32.000 22.23 11.26 32.12 3.16
3073 4506 7.555087 TCAATGAACAAAGTTTGATCCTGTTT 58.445 30.769 22.23 3.93 32.12 2.83
3074 4507 8.690884 TCAATGAACAAAGTTTGATCCTGTTTA 58.309 29.630 22.23 2.92 32.12 2.01
3075 4508 9.311916 CAATGAACAAAGTTTGATCCTGTTTAA 57.688 29.630 22.23 2.80 32.12 1.52
3076 4509 9.883142 AATGAACAAAGTTTGATCCTGTTTAAA 57.117 25.926 22.23 2.11 32.12 1.52
3077 4510 8.696410 TGAACAAAGTTTGATCCTGTTTAAAC 57.304 30.769 22.23 11.54 32.12 2.01
3078 4511 7.762159 TGAACAAAGTTTGATCCTGTTTAAACC 59.238 33.333 22.23 0.54 34.46 3.27
3079 4512 7.176589 ACAAAGTTTGATCCTGTTTAAACCA 57.823 32.000 22.23 3.22 34.46 3.67
3080 4513 7.616313 ACAAAGTTTGATCCTGTTTAAACCAA 58.384 30.769 22.23 9.00 34.46 3.67
3081 4514 8.264347 ACAAAGTTTGATCCTGTTTAAACCAAT 58.736 29.630 22.23 6.42 34.46 3.16
3082 4515 9.108284 CAAAGTTTGATCCTGTTTAAACCAATT 57.892 29.630 15.59 2.56 34.46 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 9.401058 AGTAAGCATGTTCTAAGCTGATTAATT 57.599 29.630 0.00 0.00 38.86 1.40
122 126 5.263599 TGTTGATGGGCAAACTGATATCTT 58.736 37.500 3.98 0.00 38.44 2.40
124 128 5.300034 TCATGTTGATGGGCAAACTGATATC 59.700 40.000 0.00 0.00 38.44 1.63
266 283 1.801242 TTCCCTGTGAGGTGTGAAGA 58.199 50.000 0.00 0.00 31.93 2.87
636 668 8.445275 TTCTTACAAGCTCAATAAACTGTTCA 57.555 30.769 0.00 0.00 0.00 3.18
802 1109 4.141688 CCTCCAGATTTCCCTTACCTACAC 60.142 50.000 0.00 0.00 0.00 2.90
887 1194 3.187022 TGCAATCTCAACACATGAAGTCG 59.813 43.478 0.00 0.00 37.67 4.18
937 1244 8.938801 ACAATATCATTGATACATGGCCTTTA 57.061 30.769 18.40 0.00 0.00 1.85
996 1303 3.683365 TCAGAAGCTAGTGACATTGCA 57.317 42.857 0.00 0.00 0.00 4.08
1020 1327 0.391597 GGGCCATGGCATCATTTGAG 59.608 55.000 36.56 0.00 44.11 3.02
1037 1347 1.295423 CTGGTCCAACGTACCTGGG 59.705 63.158 7.47 0.00 37.91 4.45
1055 1387 9.449719 TTCCAAAATACTGAAGAAATAGAGGAC 57.550 33.333 0.00 0.00 0.00 3.85
1062 1394 8.964772 CAGAGGATTCCAAAATACTGAAGAAAT 58.035 33.333 5.29 0.00 36.10 2.17
1118 1457 8.131100 CCAATCATAAAAACATCGTTAGCAGAT 58.869 33.333 0.00 0.00 0.00 2.90
1149 1490 7.710896 AGCAAAATAATCAGAGGTCAATTAGC 58.289 34.615 0.00 0.00 0.00 3.09
1375 1716 4.998033 TGCAAGGTCACGATAACATAACAA 59.002 37.500 0.00 0.00 0.00 2.83
1376 1717 4.570930 TGCAAGGTCACGATAACATAACA 58.429 39.130 0.00 0.00 0.00 2.41
1483 1824 9.117183 TCTTGATAATCAATCTCACCATTTCTG 57.883 33.333 0.00 0.00 35.59 3.02
1519 1860 0.468029 CCTTATCCGCCATGGCCTTT 60.468 55.000 30.79 17.11 37.80 3.11
1708 2310 7.979444 TGTTTGTAGCAGCTAATTAAAGACT 57.021 32.000 2.87 0.00 0.00 3.24
1763 2369 7.885399 GCATTAAGTCTTCCATACTTCCCATAT 59.115 37.037 0.00 0.00 38.18 1.78
1783 2389 4.155826 ACATTAGCTGCTTGTTCGCATTAA 59.844 37.500 7.79 0.00 39.52 1.40
1801 2407 5.044476 TCCTGATTGAAGGCCCTTTACATTA 60.044 40.000 0.00 0.00 37.24 1.90
1806 2412 3.968265 CTTCCTGATTGAAGGCCCTTTA 58.032 45.455 0.00 0.00 38.45 1.85
1846 2452 9.093458 TCTATAGGCATTCAATTGACTATCTCA 57.907 33.333 15.75 0.00 43.07 3.27
1852 2458 6.769822 CCTGTTCTATAGGCATTCAATTGACT 59.230 38.462 7.89 4.58 38.85 3.41
1873 2479 9.784531 CTGTAATCTTCAATATAATGGACCTGT 57.215 33.333 0.00 0.00 0.00 4.00
1887 2498 7.541091 GTGAGTCACGATAACTGTAATCTTCAA 59.459 37.037 7.68 0.00 0.00 2.69
1891 2502 6.761099 AGTGAGTCACGATAACTGTAATCT 57.239 37.500 17.40 0.00 39.64 2.40
1905 2516 8.349983 TGCTCCTTTTTATTTTTAGTGAGTCAC 58.650 33.333 15.78 15.78 34.10 3.67
1944 2555 8.472007 TTTTGTCAAATACTCCAACTGGTAAT 57.528 30.769 0.00 0.00 36.34 1.89
2198 2810 2.893398 GATCTCCTCCCGCAACGT 59.107 61.111 0.00 0.00 0.00 3.99
2202 2814 1.151679 ATCTCGATCTCCTCCCGCA 59.848 57.895 0.00 0.00 0.00 5.69
2261 2873 1.448540 GGATCTCCAGCACCACGTG 60.449 63.158 9.08 9.08 34.58 4.49
2262 2874 1.608717 GAGGATCTCCAGCACCACGT 61.609 60.000 0.00 0.00 38.89 4.49
2263 2875 1.142748 GAGGATCTCCAGCACCACG 59.857 63.158 0.00 0.00 38.89 4.94
2264 2876 1.142748 CGAGGATCTCCAGCACCAC 59.857 63.158 0.00 0.00 38.89 4.16
2265 2877 2.725312 GCGAGGATCTCCAGCACCA 61.725 63.158 10.55 0.00 40.20 4.17
2266 2878 2.107953 GCGAGGATCTCCAGCACC 59.892 66.667 10.55 0.00 40.20 5.01
2267 2879 2.279120 CGCGAGGATCTCCAGCAC 60.279 66.667 0.00 0.00 40.38 4.40
2268 2880 4.212913 GCGCGAGGATCTCCAGCA 62.213 66.667 12.10 0.00 40.38 4.41
2348 2975 0.692419 AGGAAGGATGGCTCGGTGAT 60.692 55.000 0.00 0.00 0.00 3.06
2359 2986 1.147824 CAGCGGCATCAGGAAGGAT 59.852 57.895 1.45 0.00 0.00 3.24
2564 3993 2.266055 GCTAACAGCACTCGCCCT 59.734 61.111 0.00 0.00 41.89 5.19
2565 3994 2.820037 GGCTAACAGCACTCGCCC 60.820 66.667 0.00 0.00 44.75 6.13
2719 4148 8.110271 TCCATCCCACATAAGTAACACATTTTA 58.890 33.333 0.00 0.00 0.00 1.52
2728 4157 5.599242 TCACGTATCCATCCCACATAAGTAA 59.401 40.000 0.00 0.00 0.00 2.24
2734 4163 3.924114 TTTCACGTATCCATCCCACAT 57.076 42.857 0.00 0.00 0.00 3.21
2791 4221 4.410555 GGAGGTACCTTTCCTGAGATTCAT 59.589 45.833 17.53 0.00 35.20 2.57
2792 4222 3.775316 GGAGGTACCTTTCCTGAGATTCA 59.225 47.826 17.53 0.00 35.20 2.57
2825 4255 5.688823 TGTTTGTTATCTGAATGTTGCTCG 58.311 37.500 0.00 0.00 0.00 5.03
2860 4291 7.728083 TCCTTATTTCTCTTTTGATTGTGGGAA 59.272 33.333 0.00 0.00 0.00 3.97
2894 4327 2.292103 TGAGTTGTGTTGCCTTTTGC 57.708 45.000 0.00 0.00 41.77 3.68
2895 4328 4.431809 TCATTGAGTTGTGTTGCCTTTTG 58.568 39.130 0.00 0.00 0.00 2.44
2896 4329 4.734398 TCATTGAGTTGTGTTGCCTTTT 57.266 36.364 0.00 0.00 0.00 2.27
2897 4330 4.734398 TTCATTGAGTTGTGTTGCCTTT 57.266 36.364 0.00 0.00 0.00 3.11
2898 4331 4.341806 TCATTCATTGAGTTGTGTTGCCTT 59.658 37.500 0.00 0.00 0.00 4.35
2899 4332 3.890756 TCATTCATTGAGTTGTGTTGCCT 59.109 39.130 0.00 0.00 0.00 4.75
2900 4333 3.983344 GTCATTCATTGAGTTGTGTTGCC 59.017 43.478 0.00 0.00 34.17 4.52
2901 4334 4.863491 AGTCATTCATTGAGTTGTGTTGC 58.137 39.130 0.00 0.00 34.14 4.17
2902 4335 6.063640 TGAGTCATTCATTGAGTTGTGTTG 57.936 37.500 0.00 0.00 38.16 3.33
2903 4336 6.889301 ATGAGTCATTCATTGAGTTGTGTT 57.111 33.333 0.00 0.00 44.14 3.32
2904 4337 6.093219 GCTATGAGTCATTCATTGAGTTGTGT 59.907 38.462 11.68 0.00 44.14 3.72
2905 4338 6.315642 AGCTATGAGTCATTCATTGAGTTGTG 59.684 38.462 11.68 0.00 44.14 3.33
2906 4339 6.315642 CAGCTATGAGTCATTCATTGAGTTGT 59.684 38.462 11.68 0.00 44.14 3.32
2907 4340 6.537660 TCAGCTATGAGTCATTCATTGAGTTG 59.462 38.462 11.68 9.53 44.14 3.16
2908 4341 6.647229 TCAGCTATGAGTCATTCATTGAGTT 58.353 36.000 11.68 0.00 44.14 3.01
2909 4342 6.231258 TCAGCTATGAGTCATTCATTGAGT 57.769 37.500 11.68 0.00 44.14 3.41
2910 4343 6.772770 CTCAGCTATGAGTCATTCATTGAG 57.227 41.667 11.68 14.43 44.14 3.02
2923 4356 4.901849 AGTTTGGCCTATACTCAGCTATGA 59.098 41.667 3.32 0.00 0.00 2.15
2924 4357 5.220710 AGTTTGGCCTATACTCAGCTATG 57.779 43.478 3.32 0.00 0.00 2.23
2925 4358 4.901849 TGAGTTTGGCCTATACTCAGCTAT 59.098 41.667 22.79 0.00 42.31 2.97
2926 4359 4.286707 TGAGTTTGGCCTATACTCAGCTA 58.713 43.478 22.79 8.00 42.31 3.32
2927 4360 3.107601 TGAGTTTGGCCTATACTCAGCT 58.892 45.455 22.79 3.21 42.31 4.24
2928 4361 3.543680 TGAGTTTGGCCTATACTCAGC 57.456 47.619 22.79 6.80 42.31 4.26
2929 4362 4.818546 CCATTGAGTTTGGCCTATACTCAG 59.181 45.833 24.22 17.66 46.23 3.35
2930 4363 4.473196 TCCATTGAGTTTGGCCTATACTCA 59.527 41.667 22.79 22.79 44.66 3.41
2931 4364 5.036117 TCCATTGAGTTTGGCCTATACTC 57.964 43.478 19.31 19.31 38.96 2.59
2932 4365 5.380043 CATCCATTGAGTTTGGCCTATACT 58.620 41.667 3.32 4.30 34.06 2.12
2933 4366 4.022849 GCATCCATTGAGTTTGGCCTATAC 60.023 45.833 3.32 0.00 34.06 1.47
2934 4367 4.144297 GCATCCATTGAGTTTGGCCTATA 58.856 43.478 3.32 0.00 34.06 1.31
2935 4368 2.961062 GCATCCATTGAGTTTGGCCTAT 59.039 45.455 3.32 0.00 34.06 2.57
2936 4369 2.378038 GCATCCATTGAGTTTGGCCTA 58.622 47.619 3.32 0.00 34.06 3.93
2937 4370 1.188863 GCATCCATTGAGTTTGGCCT 58.811 50.000 3.32 0.00 34.06 5.19
2938 4371 0.176449 GGCATCCATTGAGTTTGGCC 59.824 55.000 0.00 0.00 34.06 5.36
2939 4372 0.176449 GGGCATCCATTGAGTTTGGC 59.824 55.000 0.00 0.00 34.06 4.52
2940 4373 1.856629 AGGGCATCCATTGAGTTTGG 58.143 50.000 0.00 0.00 34.83 3.28
2941 4374 6.906157 ATATAAGGGCATCCATTGAGTTTG 57.094 37.500 0.00 0.00 34.83 2.93
2942 4375 7.919385 AAATATAAGGGCATCCATTGAGTTT 57.081 32.000 0.00 0.00 34.83 2.66
2943 4376 7.919385 AAAATATAAGGGCATCCATTGAGTT 57.081 32.000 0.00 0.00 34.83 3.01
2944 4377 8.227507 AGTAAAATATAAGGGCATCCATTGAGT 58.772 33.333 0.00 0.00 34.83 3.41
2945 4378 8.641498 AGTAAAATATAAGGGCATCCATTGAG 57.359 34.615 0.00 0.00 34.83 3.02
2946 4379 9.077885 GAAGTAAAATATAAGGGCATCCATTGA 57.922 33.333 0.00 0.00 34.83 2.57
2947 4380 8.859090 TGAAGTAAAATATAAGGGCATCCATTG 58.141 33.333 0.00 0.00 34.83 2.82
2948 4381 9.432982 TTGAAGTAAAATATAAGGGCATCCATT 57.567 29.630 0.00 0.00 34.83 3.16
2949 4382 9.432982 TTTGAAGTAAAATATAAGGGCATCCAT 57.567 29.630 0.00 0.00 34.83 3.41
2950 4383 8.830915 TTTGAAGTAAAATATAAGGGCATCCA 57.169 30.769 0.00 0.00 34.83 3.41
2951 4384 8.914011 ACTTTGAAGTAAAATATAAGGGCATCC 58.086 33.333 0.00 0.00 37.52 3.51
2952 4385 9.952188 GACTTTGAAGTAAAATATAAGGGCATC 57.048 33.333 0.00 0.00 39.88 3.91
2953 4386 9.700831 AGACTTTGAAGTAAAATATAAGGGCAT 57.299 29.630 0.00 0.00 39.88 4.40
2954 4387 9.528489 AAGACTTTGAAGTAAAATATAAGGGCA 57.472 29.630 0.00 0.00 39.88 5.36
2966 4399 8.780249 GCCTACACATTAAAGACTTTGAAGTAA 58.220 33.333 10.80 0.00 39.88 2.24
2967 4400 7.389607 GGCCTACACATTAAAGACTTTGAAGTA 59.610 37.037 10.80 6.74 39.88 2.24
2968 4401 6.206829 GGCCTACACATTAAAGACTTTGAAGT 59.793 38.462 10.80 2.81 43.16 3.01
2969 4402 6.431234 AGGCCTACACATTAAAGACTTTGAAG 59.569 38.462 1.29 2.15 0.00 3.02
2970 4403 6.303839 AGGCCTACACATTAAAGACTTTGAA 58.696 36.000 1.29 2.17 0.00 2.69
2971 4404 5.876357 AGGCCTACACATTAAAGACTTTGA 58.124 37.500 1.29 2.54 0.00 2.69
2972 4405 6.575162 AAGGCCTACACATTAAAGACTTTG 57.425 37.500 5.16 0.00 0.00 2.77
2973 4406 5.411669 CGAAGGCCTACACATTAAAGACTTT 59.588 40.000 5.16 5.62 0.00 2.66
2974 4407 4.935808 CGAAGGCCTACACATTAAAGACTT 59.064 41.667 5.16 0.00 0.00 3.01
2975 4408 4.504858 CGAAGGCCTACACATTAAAGACT 58.495 43.478 5.16 0.00 0.00 3.24
2976 4409 3.621715 CCGAAGGCCTACACATTAAAGAC 59.378 47.826 5.16 0.00 46.14 3.01
2977 4410 3.869065 CCGAAGGCCTACACATTAAAGA 58.131 45.455 5.16 0.00 46.14 2.52
2991 4424 7.383843 TTTCTAAATGTTGAAAAATCCGAAGGC 59.616 33.333 0.00 0.00 37.09 4.35
2992 4425 8.810652 TTTCTAAATGTTGAAAAATCCGAAGG 57.189 30.769 0.00 0.00 37.92 3.46
2993 4426 9.677567 TCTTTCTAAATGTTGAAAAATCCGAAG 57.322 29.630 0.00 0.00 32.69 3.79
2995 4428 9.458374 GTTCTTTCTAAATGTTGAAAAATCCGA 57.542 29.630 0.00 0.00 32.69 4.55
2996 4429 8.417176 CGTTCTTTCTAAATGTTGAAAAATCCG 58.583 33.333 0.00 0.00 32.69 4.18
2997 4430 9.458374 TCGTTCTTTCTAAATGTTGAAAAATCC 57.542 29.630 0.00 0.00 32.69 3.01
3000 4433 9.849166 ACTTCGTTCTTTCTAAATGTTGAAAAA 57.151 25.926 0.00 0.00 32.69 1.94
3004 4437 9.483916 TCATACTTCGTTCTTTCTAAATGTTGA 57.516 29.630 0.00 0.00 0.00 3.18
3015 4448 9.924650 ACTACTATGTTTCATACTTCGTTCTTT 57.075 29.630 0.00 0.00 0.00 2.52
3018 4451 9.778993 TGTACTACTATGTTTCATACTTCGTTC 57.221 33.333 0.00 0.00 0.00 3.95
3028 4461 9.990360 TCATTGAGTTTGTACTACTATGTTTCA 57.010 29.630 0.00 0.00 33.84 2.69
3031 4464 9.772973 TGTTCATTGAGTTTGTACTACTATGTT 57.227 29.630 0.00 0.00 33.84 2.71
3032 4465 9.772973 TTGTTCATTGAGTTTGTACTACTATGT 57.227 29.630 0.00 0.00 33.84 2.29
3035 4468 9.826574 ACTTTGTTCATTGAGTTTGTACTACTA 57.173 29.630 0.00 0.00 33.84 1.82
3036 4469 8.732746 ACTTTGTTCATTGAGTTTGTACTACT 57.267 30.769 0.00 0.00 33.84 2.57
3037 4470 9.783256 AAACTTTGTTCATTGAGTTTGTACTAC 57.217 29.630 0.00 0.00 39.93 2.73
3038 4471 9.781834 CAAACTTTGTTCATTGAGTTTGTACTA 57.218 29.630 15.80 0.00 46.86 1.82
3039 4472 8.687824 CAAACTTTGTTCATTGAGTTTGTACT 57.312 30.769 15.80 0.00 46.86 2.73
3044 4477 7.707893 CAGGATCAAACTTTGTTCATTGAGTTT 59.292 33.333 12.55 0.00 41.55 2.66
3045 4478 7.147846 ACAGGATCAAACTTTGTTCATTGAGTT 60.148 33.333 12.55 0.00 35.47 3.01
3046 4479 6.322201 ACAGGATCAAACTTTGTTCATTGAGT 59.678 34.615 12.55 1.05 35.47 3.41
3047 4480 6.742109 ACAGGATCAAACTTTGTTCATTGAG 58.258 36.000 12.55 0.57 35.47 3.02
3048 4481 6.713762 ACAGGATCAAACTTTGTTCATTGA 57.286 33.333 12.55 0.00 36.35 2.57
3049 4482 7.775397 AAACAGGATCAAACTTTGTTCATTG 57.225 32.000 12.55 11.82 31.30 2.82
3050 4483 9.883142 TTTAAACAGGATCAAACTTTGTTCATT 57.117 25.926 12.55 6.32 31.30 2.57
3051 4484 9.313118 GTTTAAACAGGATCAAACTTTGTTCAT 57.687 29.630 13.51 4.89 31.30 2.57
3052 4485 7.762159 GGTTTAAACAGGATCAAACTTTGTTCA 59.238 33.333 19.57 0.00 31.30 3.18
3053 4486 7.762159 TGGTTTAAACAGGATCAAACTTTGTTC 59.238 33.333 19.57 3.17 31.30 3.18
3054 4487 7.616313 TGGTTTAAACAGGATCAAACTTTGTT 58.384 30.769 19.57 0.00 33.73 2.83
3055 4488 7.176589 TGGTTTAAACAGGATCAAACTTTGT 57.823 32.000 19.57 0.00 32.69 2.83
3056 4489 8.661352 ATTGGTTTAAACAGGATCAAACTTTG 57.339 30.769 19.57 0.00 32.69 2.77


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

AutoCloner maintained by Alex Coulton.