Multiple sequence alignment - TraesCS3A01G390200

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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 TraesCS3A01G390200 chr3A 100.000 3412 0 0 1 3412 638335611 638332200 0.000000e+00 6301.0
1 TraesCS3A01G390200 chr3A 82.417 1837 243 31 672 2462 737970089 737968287 0.000000e+00 1530.0
2 TraesCS3A01G390200 chr3A 87.249 996 119 5 1405 2400 654359861 654360848 0.000000e+00 1129.0
3 TraesCS3A01G390200 chr3A 75.325 385 65 26 312 674 737974007 737973631 1.270000e-34 158.0
4 TraesCS3A01G390200 chr3A 94.186 86 5 0 2856 2941 636120110 636120195 7.680000e-27 132.0
5 TraesCS3A01G390200 chr3A 97.561 41 1 0 2507 2547 654360885 654360925 1.700000e-08 71.3
6 TraesCS3A01G390200 chr3A 100.000 30 0 0 2872 2901 638332676 638332647 4.760000e-04 56.5
7 TraesCS3A01G390200 chr3A 100.000 30 0 0 2936 2965 638332740 638332711 4.760000e-04 56.5
8 TraesCS3A01G390200 chr3B 92.334 3183 166 38 1 3142 659082147 659079002 0.000000e+00 4455.0
9 TraesCS3A01G390200 chr3B 83.062 1842 226 41 672 2462 815873078 815871272 0.000000e+00 1594.0
10 TraesCS3A01G390200 chr3B 84.030 1340 172 27 1331 2659 683759975 683761283 0.000000e+00 1251.0
11 TraesCS3A01G390200 chr3B 84.030 1340 170 26 1331 2659 684096977 684098283 0.000000e+00 1249.0
12 TraesCS3A01G390200 chr3B 83.857 1338 176 23 1331 2659 684041623 684042929 0.000000e+00 1238.0
13 TraesCS3A01G390200 chr3B 75.658 304 50 19 391 674 815877010 815876711 2.760000e-26 130.0
14 TraesCS3A01G390200 chr3B 100.000 30 0 0 2872 2901 659079202 659079173 4.760000e-04 56.5
15 TraesCS3A01G390200 chr3B 100.000 30 0 0 2936 2965 659079266 659079237 4.760000e-04 56.5
16 TraesCS3A01G390200 chr3D 93.729 2727 113 24 125 2827 498208459 498205767 0.000000e+00 4036.0
17 TraesCS3A01G390200 chr3D 82.798 1837 236 32 672 2462 606299461 606301263 0.000000e+00 1568.0
18 TraesCS3A01G390200 chr3D 83.869 1339 173 28 1331 2659 519354386 519355691 0.000000e+00 1236.0
19 TraesCS3A01G390200 chr3D 86.622 1054 133 5 1347 2400 519335502 519336547 0.000000e+00 1158.0
20 TraesCS3A01G390200 chr3D 85.887 248 22 5 2213 2458 519375945 519376181 5.650000e-63 252.0
21 TraesCS3A01G390200 chr3D 96.694 121 4 0 2976 3096 498204884 498204764 5.770000e-48 202.0
22 TraesCS3A01G390200 chr3D 93.182 132 9 0 1 132 498208612 498208481 9.660000e-46 195.0
23 TraesCS3A01G390200 chr3D 90.909 121 10 1 2825 2945 498205258 498205139 9.800000e-36 161.0
24 TraesCS3A01G390200 chr3D 79.191 173 30 5 282 453 606296289 606296456 7.740000e-22 115.0
25 TraesCS3A01G390200 chr3D 75.543 184 31 7 2507 2683 519336584 519336760 1.020000e-10 78.7
26 TraesCS3A01G390200 chr7D 100.000 52 0 0 3206 3257 635513577 635513526 2.800000e-16 97.1
27 TraesCS3A01G390200 chr7A 100.000 52 0 0 3206 3257 502589463 502589514 2.800000e-16 97.1
28 TraesCS3A01G390200 chr6D 100.000 52 0 0 3206 3257 45511113 45511062 2.800000e-16 97.1
29 TraesCS3A01G390200 chr5D 100.000 52 0 0 3206 3257 6180490 6180439 2.800000e-16 97.1
30 TraesCS3A01G390200 chr5D 100.000 52 0 0 3206 3257 120800325 120800376 2.800000e-16 97.1
31 TraesCS3A01G390200 chr5D 100.000 52 0 0 3206 3257 503287756 503287807 2.800000e-16 97.1
32 TraesCS3A01G390200 chr5D 100.000 52 0 0 3206 3257 512416029 512415978 2.800000e-16 97.1
33 TraesCS3A01G390200 chr2D 100.000 52 0 0 3206 3257 9785600 9785651 2.800000e-16 97.1
34 TraesCS3A01G390200 chr2D 100.000 52 0 0 3206 3257 544491892 544491841 2.800000e-16 97.1


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 TraesCS3A01G390200 chr3A 638332200 638335611 3411 True 2138.000000 6301 100.000000 1 3412 3 chr3A.!!$R1 3411
1 TraesCS3A01G390200 chr3A 737968287 737974007 5720 True 844.000000 1530 78.871000 312 2462 2 chr3A.!!$R2 2150
2 TraesCS3A01G390200 chr3A 654359861 654360925 1064 False 600.150000 1129 92.405000 1405 2547 2 chr3A.!!$F2 1142
3 TraesCS3A01G390200 chr3B 659079002 659082147 3145 True 1522.666667 4455 97.444667 1 3142 3 chr3B.!!$R1 3141
4 TraesCS3A01G390200 chr3B 683759975 683761283 1308 False 1251.000000 1251 84.030000 1331 2659 1 chr3B.!!$F1 1328
5 TraesCS3A01G390200 chr3B 684096977 684098283 1306 False 1249.000000 1249 84.030000 1331 2659 1 chr3B.!!$F3 1328
6 TraesCS3A01G390200 chr3B 684041623 684042929 1306 False 1238.000000 1238 83.857000 1331 2659 1 chr3B.!!$F2 1328
7 TraesCS3A01G390200 chr3B 815871272 815877010 5738 True 862.000000 1594 79.360000 391 2462 2 chr3B.!!$R2 2071
8 TraesCS3A01G390200 chr3D 519354386 519355691 1305 False 1236.000000 1236 83.869000 1331 2659 1 chr3D.!!$F1 1328
9 TraesCS3A01G390200 chr3D 498204764 498208612 3848 True 1148.500000 4036 93.628500 1 3096 4 chr3D.!!$R1 3095
10 TraesCS3A01G390200 chr3D 606296289 606301263 4974 False 841.500000 1568 80.994500 282 2462 2 chr3D.!!$F4 2180
11 TraesCS3A01G390200 chr3D 519335502 519336760 1258 False 618.350000 1158 81.082500 1347 2683 2 chr3D.!!$F3 1336

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
549 606 0.464036 CTACGCATTCCTGCCCTGTA 59.536 55.0 0.0 0.0 46.07 2.74 F
1860 5736 0.612174 AGCCTCTCGTGGACTTGCTA 60.612 55.0 0.0 0.0 0.00 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1989 5865 1.123077 TATCGACCATTCCAGCAGCT 58.877 50.0 0.0 0.0 0.00 4.24 R
3099 7770 0.175302 TTGCAACCAAACAGCACCTG 59.825 50.0 0.0 0.0 38.11 4.00 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
77 78 1.001764 TCTGGAGGCAGCCACATTG 60.002 57.895 15.80 1.72 33.52 2.82
78 79 2.036098 TGGAGGCAGCCACATTGG 59.964 61.111 15.80 0.00 41.55 3.16
132 133 7.039434 TCGGAGCTCATCAACAATCTTAGATAT 60.039 37.037 17.19 0.00 0.00 1.63
140 169 9.761504 CATCAACAATCTTAGATATCAGACTGT 57.238 33.333 5.32 3.55 30.89 3.55
151 180 1.004560 CAGACTGTGGACCGTGCAT 60.005 57.895 0.00 0.00 0.00 3.96
182 212 9.965824 TTTAATTGAAAGTTCAGGATTCTTGAC 57.034 29.630 0.00 0.00 38.61 3.18
186 216 4.336889 AAGTTCAGGATTCTTGACGTCA 57.663 40.909 15.76 15.76 0.00 4.35
190 220 5.409826 AGTTCAGGATTCTTGACGTCAATTC 59.590 40.000 29.79 23.78 35.02 2.17
225 257 2.684001 TTTCGGCCATGATCGTTACT 57.316 45.000 2.24 0.00 0.00 2.24
226 258 2.218953 TTCGGCCATGATCGTTACTC 57.781 50.000 2.24 0.00 0.00 2.59
227 259 1.107945 TCGGCCATGATCGTTACTCA 58.892 50.000 2.24 0.00 0.00 3.41
228 260 1.686587 TCGGCCATGATCGTTACTCAT 59.313 47.619 2.24 0.00 33.65 2.90
229 261 2.888414 TCGGCCATGATCGTTACTCATA 59.112 45.455 2.24 0.00 32.18 2.15
230 262 3.057526 TCGGCCATGATCGTTACTCATAG 60.058 47.826 2.24 0.00 32.18 2.23
231 263 3.057526 CGGCCATGATCGTTACTCATAGA 60.058 47.826 2.24 0.00 32.18 1.98
232 264 4.238514 GGCCATGATCGTTACTCATAGAC 58.761 47.826 0.00 0.00 32.18 2.59
238 270 3.646491 TCGTTACTCATAGACGTCGTG 57.354 47.619 10.46 13.30 37.95 4.35
261 301 1.092921 GCCCGCATTCACCGTGATAA 61.093 55.000 1.09 0.00 0.00 1.75
262 302 1.593196 CCCGCATTCACCGTGATAAT 58.407 50.000 1.09 0.00 0.00 1.28
264 304 2.736721 CCCGCATTCACCGTGATAATAG 59.263 50.000 1.09 0.00 0.00 1.73
283 323 9.443283 GATAATAGAAACTGCTGTTATGCTTTG 57.557 33.333 9.58 0.00 33.90 2.77
321 361 9.559732 AATAGGATCATTTCATTCATGTAACGA 57.440 29.630 0.00 0.00 0.00 3.85
335 375 2.507110 TAACGAGTGCTCTGCTGGGC 62.507 60.000 8.78 8.78 0.00 5.36
369 409 6.278172 TCAGATGGTGTAGCTCATATGATC 57.722 41.667 5.72 1.59 36.90 2.92
388 428 4.391830 TGATCACATTCTTAACTGAACCGC 59.608 41.667 0.00 0.00 0.00 5.68
421 461 1.014352 GTTCCCGCGCAATTGAGTAT 58.986 50.000 10.34 0.00 0.00 2.12
469 515 5.627499 TTGTTGCATTGATGTACCTCTTC 57.373 39.130 0.00 0.00 0.00 2.87
471 517 4.937620 TGTTGCATTGATGTACCTCTTCTC 59.062 41.667 0.00 0.00 0.00 2.87
491 542 2.435437 TCTCAATCTTGGGCGATGATCA 59.565 45.455 0.00 0.00 0.00 2.92
493 544 3.143728 TCAATCTTGGGCGATGATCATG 58.856 45.455 14.30 6.84 0.00 3.07
549 606 0.464036 CTACGCATTCCTGCCCTGTA 59.536 55.000 0.00 0.00 46.07 2.74
562 619 4.163458 CCTGCCCTGTAAAGTAGGAACATA 59.837 45.833 0.00 0.00 38.04 2.29
720 4560 3.062042 CCATGCAAACTTTGAGCCTTTC 58.938 45.455 5.65 0.00 0.00 2.62
894 4739 1.152030 TGGTCCCCAGAAGCTGACT 60.152 57.895 0.00 0.00 32.44 3.41
953 4811 3.181490 CCTGAAATCTGATGCACATGTGG 60.181 47.826 26.55 10.13 0.00 4.17
997 4855 5.914033 TCCACCGATCAGTCTTTAATTAGG 58.086 41.667 0.00 0.00 0.00 2.69
1140 5015 5.026462 GCATCTCATTTTGACAGTGATTCG 58.974 41.667 0.00 0.00 0.00 3.34
1168 5043 3.191581 TCTTCTAGTCAGCTCTTCGGTTG 59.808 47.826 0.00 0.00 0.00 3.77
1231 5106 5.824097 TGTGACATTGACAATGGGATGATAG 59.176 40.000 27.46 4.32 43.21 2.08
1387 5262 2.252260 CTGTTCGGCGGCAAACAG 59.748 61.111 25.68 25.68 44.42 3.16
1633 5509 3.760151 TCTTCATTCACCAGATGCCAAAG 59.240 43.478 0.00 0.00 0.00 2.77
1638 5514 1.171308 CACCAGATGCCAAAGTCCAG 58.829 55.000 0.00 0.00 0.00 3.86
1683 5559 7.397221 TCCTCAATTTGTCACTCAGTGATATT 58.603 34.615 11.62 8.63 44.63 1.28
1860 5736 0.612174 AGCCTCTCGTGGACTTGCTA 60.612 55.000 0.00 0.00 0.00 3.49
1980 5856 0.898320 TGAGGCACCTAGTTGAGCTC 59.102 55.000 6.82 6.82 0.00 4.09
1989 5865 1.833630 CTAGTTGAGCTCATGGACCCA 59.166 52.381 19.04 0.00 0.00 4.51
2181 6057 3.676291 ACAAACAGCAACAGGTTTTGT 57.324 38.095 0.00 0.00 43.45 2.83
2223 6099 2.437895 GTGCCCCCTTTAGTCGCC 60.438 66.667 0.00 0.00 0.00 5.54
2286 6162 4.534500 TGCCACTTCCTCACTTCCTATAAA 59.466 41.667 0.00 0.00 0.00 1.40
2422 6313 7.621796 TCAGGAAGGAGATGATAATGATGATG 58.378 38.462 0.00 0.00 0.00 3.07
2433 6324 7.244886 TGATAATGATGATGGTCCTACGATT 57.755 36.000 0.00 0.00 0.00 3.34
2573 6499 4.261447 GGATTAGTTGGTGTGTTTGTGACC 60.261 45.833 0.00 0.00 0.00 4.02
2574 6500 1.091537 AGTTGGTGTGTTTGTGACCG 58.908 50.000 0.00 0.00 31.87 4.79
2575 6501 0.099791 GTTGGTGTGTTTGTGACCGG 59.900 55.000 0.00 0.00 31.87 5.28
2576 6502 0.322636 TTGGTGTGTTTGTGACCGGT 60.323 50.000 6.92 6.92 31.87 5.28
2577 6503 0.745128 TGGTGTGTTTGTGACCGGTC 60.745 55.000 28.17 28.17 31.87 4.79
2607 6534 7.340122 TGTTGTTGAGATGGTGTATTTTTCA 57.660 32.000 0.00 0.00 0.00 2.69
2696 6631 8.668353 TGTTATTAGCTGATTCAAACAGTGATC 58.332 33.333 0.00 0.00 35.70 2.92
2722 6659 2.082231 TGCATGCTTTCTCTTCTCTGC 58.918 47.619 20.33 0.00 0.00 4.26
2755 6692 3.218453 AGATACTAGCGCTCTGATGTGT 58.782 45.455 16.34 4.75 0.00 3.72
2756 6693 2.851805 TACTAGCGCTCTGATGTGTG 57.148 50.000 16.34 0.00 0.00 3.82
2798 6735 0.179145 GGCAGCGTATGTACTGACGT 60.179 55.000 17.48 0.00 41.13 4.34
3054 7725 6.127140 GGTCCTTCTAGTGCCTTAGTAAATCA 60.127 42.308 0.00 0.00 0.00 2.57
3112 7783 2.297701 ACAGTTACAGGTGCTGTTTGG 58.702 47.619 0.00 0.00 42.59 3.28
3135 7806 4.213564 TGCAAATGAAGTTGGTTTGGTT 57.786 36.364 10.09 0.00 34.34 3.67
3138 7809 4.633565 GCAAATGAAGTTGGTTTGGTTTGA 59.366 37.500 10.09 0.00 34.34 2.69
3142 7813 7.936496 AATGAAGTTGGTTTGGTTTGATTTT 57.064 28.000 0.00 0.00 0.00 1.82
3143 7814 7.936496 ATGAAGTTGGTTTGGTTTGATTTTT 57.064 28.000 0.00 0.00 0.00 1.94
3144 7815 7.371126 TGAAGTTGGTTTGGTTTGATTTTTC 57.629 32.000 0.00 0.00 0.00 2.29
3145 7816 7.164803 TGAAGTTGGTTTGGTTTGATTTTTCT 58.835 30.769 0.00 0.00 0.00 2.52
3146 7817 8.314751 TGAAGTTGGTTTGGTTTGATTTTTCTA 58.685 29.630 0.00 0.00 0.00 2.10
3147 7818 8.487313 AAGTTGGTTTGGTTTGATTTTTCTAC 57.513 30.769 0.00 0.00 0.00 2.59
3148 7819 7.616313 AGTTGGTTTGGTTTGATTTTTCTACA 58.384 30.769 0.00 0.00 0.00 2.74
3149 7820 8.264347 AGTTGGTTTGGTTTGATTTTTCTACAT 58.736 29.630 0.00 0.00 0.00 2.29
3150 7821 8.888716 GTTGGTTTGGTTTGATTTTTCTACATT 58.111 29.630 0.00 0.00 0.00 2.71
3151 7822 9.454859 TTGGTTTGGTTTGATTTTTCTACATTT 57.545 25.926 0.00 0.00 0.00 2.32
3152 7823 9.103861 TGGTTTGGTTTGATTTTTCTACATTTC 57.896 29.630 0.00 0.00 0.00 2.17
3153 7824 9.325198 GGTTTGGTTTGATTTTTCTACATTTCT 57.675 29.630 0.00 0.00 0.00 2.52
3156 7827 9.965824 TTGGTTTGATTTTTCTACATTTCTCTC 57.034 29.630 0.00 0.00 0.00 3.20
3157 7828 9.354673 TGGTTTGATTTTTCTACATTTCTCTCT 57.645 29.630 0.00 0.00 0.00 3.10
3161 7832 9.672673 TTGATTTTTCTACATTTCTCTCTAGGG 57.327 33.333 0.00 0.00 0.00 3.53
3162 7833 7.770897 TGATTTTTCTACATTTCTCTCTAGGGC 59.229 37.037 0.00 0.00 0.00 5.19
3163 7834 4.920640 TTCTACATTTCTCTCTAGGGCG 57.079 45.455 0.00 0.00 0.00 6.13
3164 7835 3.899726 TCTACATTTCTCTCTAGGGCGT 58.100 45.455 0.00 0.00 0.00 5.68
3165 7836 2.969628 ACATTTCTCTCTAGGGCGTG 57.030 50.000 0.00 0.00 0.00 5.34
3166 7837 1.482593 ACATTTCTCTCTAGGGCGTGG 59.517 52.381 0.00 0.00 0.00 4.94
3167 7838 0.466124 ATTTCTCTCTAGGGCGTGGC 59.534 55.000 0.00 0.00 0.00 5.01
3168 7839 0.614979 TTTCTCTCTAGGGCGTGGCT 60.615 55.000 0.00 0.00 0.00 4.75
3169 7840 0.257905 TTCTCTCTAGGGCGTGGCTA 59.742 55.000 0.00 0.00 0.00 3.93
3170 7841 0.179015 TCTCTCTAGGGCGTGGCTAG 60.179 60.000 0.00 0.00 0.00 3.42
3171 7842 1.152735 TCTCTAGGGCGTGGCTAGG 60.153 63.158 0.00 0.00 0.00 3.02
3172 7843 1.152735 CTCTAGGGCGTGGCTAGGA 60.153 63.158 0.00 0.00 0.00 2.94
3173 7844 0.755698 CTCTAGGGCGTGGCTAGGAA 60.756 60.000 0.00 0.00 0.00 3.36
3174 7845 0.324923 TCTAGGGCGTGGCTAGGAAA 60.325 55.000 0.00 0.00 0.00 3.13
3175 7846 0.759346 CTAGGGCGTGGCTAGGAAAT 59.241 55.000 0.00 0.00 0.00 2.17
3176 7847 1.141053 CTAGGGCGTGGCTAGGAAATT 59.859 52.381 0.00 0.00 0.00 1.82
3177 7848 0.394352 AGGGCGTGGCTAGGAAATTG 60.394 55.000 0.00 0.00 0.00 2.32
3178 7849 1.384222 GGGCGTGGCTAGGAAATTGG 61.384 60.000 0.00 0.00 0.00 3.16
3179 7850 0.679960 GGCGTGGCTAGGAAATTGGT 60.680 55.000 0.00 0.00 0.00 3.67
3180 7851 1.173913 GCGTGGCTAGGAAATTGGTT 58.826 50.000 0.00 0.00 0.00 3.67
3181 7852 2.361789 GCGTGGCTAGGAAATTGGTTA 58.638 47.619 0.00 0.00 0.00 2.85
3182 7853 2.354821 GCGTGGCTAGGAAATTGGTTAG 59.645 50.000 0.00 0.00 0.00 2.34
3183 7854 3.869065 CGTGGCTAGGAAATTGGTTAGA 58.131 45.455 0.00 0.00 0.00 2.10
3184 7855 4.451900 CGTGGCTAGGAAATTGGTTAGAT 58.548 43.478 0.00 0.00 0.00 1.98
3185 7856 4.881850 CGTGGCTAGGAAATTGGTTAGATT 59.118 41.667 0.00 0.00 0.00 2.40
3186 7857 5.007724 CGTGGCTAGGAAATTGGTTAGATTC 59.992 44.000 0.00 0.00 0.00 2.52
3187 7858 6.122964 GTGGCTAGGAAATTGGTTAGATTCT 58.877 40.000 0.00 0.00 0.00 2.40
3188 7859 6.603599 GTGGCTAGGAAATTGGTTAGATTCTT 59.396 38.462 0.00 0.00 0.00 2.52
3189 7860 6.603201 TGGCTAGGAAATTGGTTAGATTCTTG 59.397 38.462 0.00 0.00 0.00 3.02
3190 7861 6.603599 GGCTAGGAAATTGGTTAGATTCTTGT 59.396 38.462 0.00 0.00 0.00 3.16
3191 7862 7.201741 GGCTAGGAAATTGGTTAGATTCTTGTC 60.202 40.741 0.00 0.00 0.00 3.18
3192 7863 7.201741 GCTAGGAAATTGGTTAGATTCTTGTCC 60.202 40.741 0.00 0.00 0.00 4.02
3193 7864 6.552008 AGGAAATTGGTTAGATTCTTGTCCA 58.448 36.000 0.00 0.00 0.00 4.02
3194 7865 7.184862 AGGAAATTGGTTAGATTCTTGTCCAT 58.815 34.615 0.00 0.00 0.00 3.41
3195 7866 7.123247 AGGAAATTGGTTAGATTCTTGTCCATG 59.877 37.037 0.00 0.00 0.00 3.66
3196 7867 7.122650 GGAAATTGGTTAGATTCTTGTCCATGA 59.877 37.037 0.00 0.00 0.00 3.07
3197 7868 8.421249 AAATTGGTTAGATTCTTGTCCATGAA 57.579 30.769 0.00 0.00 0.00 2.57
3198 7869 7.636150 ATTGGTTAGATTCTTGTCCATGAAG 57.364 36.000 0.00 0.00 0.00 3.02
3199 7870 6.126863 TGGTTAGATTCTTGTCCATGAAGT 57.873 37.500 0.00 0.00 0.00 3.01
3200 7871 6.542821 TGGTTAGATTCTTGTCCATGAAGTT 58.457 36.000 0.00 0.00 0.00 2.66
3201 7872 6.430925 TGGTTAGATTCTTGTCCATGAAGTTG 59.569 38.462 0.00 0.00 0.00 3.16
3202 7873 6.431234 GGTTAGATTCTTGTCCATGAAGTTGT 59.569 38.462 0.00 0.00 0.00 3.32
3203 7874 5.954296 AGATTCTTGTCCATGAAGTTGTG 57.046 39.130 0.00 0.00 0.00 3.33
3204 7875 5.624159 AGATTCTTGTCCATGAAGTTGTGA 58.376 37.500 0.00 0.00 0.00 3.58
3205 7876 6.064060 AGATTCTTGTCCATGAAGTTGTGAA 58.936 36.000 0.00 0.00 0.00 3.18
3206 7877 6.547141 AGATTCTTGTCCATGAAGTTGTGAAA 59.453 34.615 0.00 0.00 0.00 2.69
3207 7878 6.522625 TTCTTGTCCATGAAGTTGTGAAAA 57.477 33.333 0.00 0.00 0.00 2.29
3208 7879 6.522625 TCTTGTCCATGAAGTTGTGAAAAA 57.477 33.333 0.00 0.00 0.00 1.94
3209 7880 7.111247 TCTTGTCCATGAAGTTGTGAAAAAT 57.889 32.000 0.00 0.00 0.00 1.82
3210 7881 7.555087 TCTTGTCCATGAAGTTGTGAAAAATT 58.445 30.769 0.00 0.00 0.00 1.82
3211 7882 8.040132 TCTTGTCCATGAAGTTGTGAAAAATTT 58.960 29.630 0.00 0.00 0.00 1.82
3212 7883 9.311916 CTTGTCCATGAAGTTGTGAAAAATTTA 57.688 29.630 0.00 0.00 0.00 1.40
3213 7884 9.658799 TTGTCCATGAAGTTGTGAAAAATTTAA 57.341 25.926 0.00 0.00 0.00 1.52
3214 7885 9.658799 TGTCCATGAAGTTGTGAAAAATTTAAA 57.341 25.926 0.00 0.00 0.00 1.52
3237 7908 7.573968 AATTCTTCTACATTGAATGGGTAGC 57.426 36.000 10.27 0.00 35.58 3.58
3238 7909 5.957771 TCTTCTACATTGAATGGGTAGCT 57.042 39.130 10.27 0.00 35.58 3.32
3239 7910 7.432148 TTCTTCTACATTGAATGGGTAGCTA 57.568 36.000 10.27 0.00 35.58 3.32
3240 7911 6.817184 TCTTCTACATTGAATGGGTAGCTAC 58.183 40.000 15.88 15.88 35.58 3.58
3241 7912 6.382859 TCTTCTACATTGAATGGGTAGCTACA 59.617 38.462 24.75 6.36 35.58 2.74
3242 7913 6.161855 TCTACATTGAATGGGTAGCTACAG 57.838 41.667 24.75 9.29 35.58 2.74
3243 7914 3.545703 ACATTGAATGGGTAGCTACAGC 58.454 45.455 24.75 8.79 36.44 4.40
3244 7915 3.054434 ACATTGAATGGGTAGCTACAGCA 60.054 43.478 24.75 11.72 37.88 4.41
3245 7916 3.712016 TTGAATGGGTAGCTACAGCAA 57.288 42.857 24.75 16.25 45.16 3.91
3246 7917 3.931907 TGAATGGGTAGCTACAGCAAT 57.068 42.857 24.75 9.63 45.16 3.56
3247 7918 5.366482 TTGAATGGGTAGCTACAGCAATA 57.634 39.130 24.75 4.77 45.16 1.90
3248 7919 5.366482 TGAATGGGTAGCTACAGCAATAA 57.634 39.130 24.75 2.53 45.16 1.40
3249 7920 5.750524 TGAATGGGTAGCTACAGCAATAAA 58.249 37.500 24.75 1.21 45.16 1.40
3250 7921 6.364701 TGAATGGGTAGCTACAGCAATAAAT 58.635 36.000 24.75 4.08 45.16 1.40
3251 7922 6.833416 TGAATGGGTAGCTACAGCAATAAATT 59.167 34.615 24.75 11.38 45.16 1.82
3252 7923 7.341769 TGAATGGGTAGCTACAGCAATAAATTT 59.658 33.333 24.75 0.00 45.16 1.82
3253 7924 6.449635 TGGGTAGCTACAGCAATAAATTTG 57.550 37.500 24.75 0.00 45.16 2.32
3254 7925 5.359576 TGGGTAGCTACAGCAATAAATTTGG 59.640 40.000 24.75 0.00 45.16 3.28
3255 7926 5.592688 GGGTAGCTACAGCAATAAATTTGGA 59.407 40.000 24.75 0.00 45.16 3.53
3256 7927 6.265422 GGGTAGCTACAGCAATAAATTTGGAT 59.735 38.462 24.75 0.00 45.16 3.41
3257 7928 7.447238 GGGTAGCTACAGCAATAAATTTGGATA 59.553 37.037 24.75 0.00 45.16 2.59
3258 7929 8.846211 GGTAGCTACAGCAATAAATTTGGATAA 58.154 33.333 24.75 0.00 45.16 1.75
3310 7981 9.807649 AAATATGTTCATGATTTTAAGCAGGTC 57.192 29.630 0.00 0.00 0.00 3.85
3311 7982 5.643379 TGTTCATGATTTTAAGCAGGTCC 57.357 39.130 0.00 0.00 0.00 4.46
3312 7983 4.155826 TGTTCATGATTTTAAGCAGGTCCG 59.844 41.667 0.00 0.00 0.00 4.79
3313 7984 3.950397 TCATGATTTTAAGCAGGTCCGT 58.050 40.909 0.00 0.00 0.00 4.69
3314 7985 3.689161 TCATGATTTTAAGCAGGTCCGTG 59.311 43.478 0.00 0.00 0.00 4.94
3315 7986 3.134574 TGATTTTAAGCAGGTCCGTGT 57.865 42.857 0.00 0.00 0.00 4.49
3316 7987 4.274602 TGATTTTAAGCAGGTCCGTGTA 57.725 40.909 0.00 0.00 0.00 2.90
3317 7988 4.839121 TGATTTTAAGCAGGTCCGTGTAT 58.161 39.130 0.00 0.00 0.00 2.29
3318 7989 5.250200 TGATTTTAAGCAGGTCCGTGTATT 58.750 37.500 0.00 0.00 0.00 1.89
3319 7990 5.708230 TGATTTTAAGCAGGTCCGTGTATTT 59.292 36.000 0.00 0.00 0.00 1.40
3320 7991 6.207810 TGATTTTAAGCAGGTCCGTGTATTTT 59.792 34.615 0.00 0.00 0.00 1.82
3321 7992 7.390996 TGATTTTAAGCAGGTCCGTGTATTTTA 59.609 33.333 0.00 0.00 0.00 1.52
3322 7993 7.690952 TTTTAAGCAGGTCCGTGTATTTTAT 57.309 32.000 0.00 0.00 0.00 1.40
3323 7994 6.671614 TTAAGCAGGTCCGTGTATTTTATG 57.328 37.500 0.00 0.00 0.00 1.90
3324 7995 3.541632 AGCAGGTCCGTGTATTTTATGG 58.458 45.455 0.00 0.00 0.00 2.74
3325 7996 3.199071 AGCAGGTCCGTGTATTTTATGGA 59.801 43.478 0.00 0.00 0.00 3.41
3326 7997 3.942748 GCAGGTCCGTGTATTTTATGGAA 59.057 43.478 0.00 0.00 35.13 3.53
3327 7998 4.201881 GCAGGTCCGTGTATTTTATGGAAC 60.202 45.833 0.00 0.00 40.52 3.62
3328 7999 4.334481 CAGGTCCGTGTATTTTATGGAACC 59.666 45.833 0.00 0.00 41.01 3.62
3329 8000 4.019141 AGGTCCGTGTATTTTATGGAACCA 60.019 41.667 0.00 0.00 41.01 3.67
3330 8001 4.885325 GGTCCGTGTATTTTATGGAACCAT 59.115 41.667 11.20 11.20 35.34 3.55
3331 8002 5.220970 GGTCCGTGTATTTTATGGAACCATG 60.221 44.000 15.59 0.00 35.34 3.66
3332 8003 4.884744 TCCGTGTATTTTATGGAACCATGG 59.115 41.667 11.19 11.19 37.82 3.66
3333 8004 4.642885 CCGTGTATTTTATGGAACCATGGT 59.357 41.667 13.00 13.00 37.82 3.55
3334 8005 5.126384 CCGTGTATTTTATGGAACCATGGTT 59.874 40.000 30.23 30.23 41.54 3.67
3335 8006 6.033341 CGTGTATTTTATGGAACCATGGTTG 58.967 40.000 34.47 10.89 38.60 3.77
3336 8007 6.127869 CGTGTATTTTATGGAACCATGGTTGA 60.128 38.462 34.47 20.29 38.60 3.18
3337 8008 7.575909 CGTGTATTTTATGGAACCATGGTTGAA 60.576 37.037 34.47 21.42 38.60 2.69
3338 8009 8.091449 GTGTATTTTATGGAACCATGGTTGAAA 58.909 33.333 34.47 22.59 38.60 2.69
3339 8010 8.651389 TGTATTTTATGGAACCATGGTTGAAAA 58.349 29.630 34.47 27.95 38.60 2.29
3340 8011 9.150348 GTATTTTATGGAACCATGGTTGAAAAG 57.850 33.333 34.47 0.00 38.60 2.27
3341 8012 5.736951 TTATGGAACCATGGTTGAAAAGG 57.263 39.130 34.47 0.00 38.60 3.11
3342 8013 3.039252 TGGAACCATGGTTGAAAAGGT 57.961 42.857 34.47 8.16 38.60 3.50
3343 8014 4.186077 TGGAACCATGGTTGAAAAGGTA 57.814 40.909 34.47 8.47 38.60 3.08
3344 8015 4.148838 TGGAACCATGGTTGAAAAGGTAG 58.851 43.478 34.47 0.00 38.60 3.18
3345 8016 3.509967 GGAACCATGGTTGAAAAGGTAGG 59.490 47.826 34.47 0.00 38.60 3.18
3346 8017 2.525368 ACCATGGTTGAAAAGGTAGGC 58.475 47.619 13.00 0.00 0.00 3.93
3347 8018 1.824852 CCATGGTTGAAAAGGTAGGCC 59.175 52.381 2.57 0.00 0.00 5.19
3348 8019 1.824852 CATGGTTGAAAAGGTAGGCCC 59.175 52.381 0.00 0.00 34.57 5.80
3349 8020 0.854218 TGGTTGAAAAGGTAGGCCCA 59.146 50.000 0.00 0.00 34.66 5.36
3350 8021 1.431243 TGGTTGAAAAGGTAGGCCCAT 59.569 47.619 0.00 0.00 34.66 4.00
3351 8022 2.158234 TGGTTGAAAAGGTAGGCCCATT 60.158 45.455 0.00 0.00 34.66 3.16
3352 8023 2.496070 GGTTGAAAAGGTAGGCCCATTC 59.504 50.000 0.00 0.00 34.66 2.67
3353 8024 3.161866 GTTGAAAAGGTAGGCCCATTCA 58.838 45.455 0.00 0.00 37.78 2.57
3354 8025 2.802719 TGAAAAGGTAGGCCCATTCAC 58.197 47.619 0.00 0.00 35.94 3.18
3355 8026 2.109128 TGAAAAGGTAGGCCCATTCACA 59.891 45.455 0.00 0.00 35.94 3.58
3356 8027 3.245586 TGAAAAGGTAGGCCCATTCACAT 60.246 43.478 0.00 0.00 35.94 3.21
3357 8028 4.017958 TGAAAAGGTAGGCCCATTCACATA 60.018 41.667 0.00 0.00 35.94 2.29
3358 8029 4.814224 AAAGGTAGGCCCATTCACATAT 57.186 40.909 0.00 0.00 34.66 1.78
3359 8030 3.795688 AGGTAGGCCCATTCACATATG 57.204 47.619 0.00 0.00 34.66 1.78
3360 8031 2.376518 AGGTAGGCCCATTCACATATGG 59.623 50.000 7.80 0.00 43.90 2.74
3361 8032 2.375174 GGTAGGCCCATTCACATATGGA 59.625 50.000 7.80 0.00 46.63 3.41
3362 8033 3.010584 GGTAGGCCCATTCACATATGGAT 59.989 47.826 7.80 0.00 46.63 3.41
3363 8034 4.227300 GGTAGGCCCATTCACATATGGATA 59.773 45.833 7.80 0.00 46.63 2.59
3364 8035 5.103940 GGTAGGCCCATTCACATATGGATAT 60.104 44.000 7.80 0.00 46.63 1.63
3365 8036 6.101150 GGTAGGCCCATTCACATATGGATATA 59.899 42.308 7.80 0.00 46.63 0.86
3366 8037 6.853669 AGGCCCATTCACATATGGATATAT 57.146 37.500 7.80 0.00 46.63 0.86
3367 8038 7.952847 AGGCCCATTCACATATGGATATATA 57.047 36.000 7.80 0.00 46.63 0.86
3368 8039 8.529952 AGGCCCATTCACATATGGATATATAT 57.470 34.615 7.80 0.00 46.63 0.86
3369 8040 8.963277 AGGCCCATTCACATATGGATATATATT 58.037 33.333 7.80 0.00 46.63 1.28
3370 8041 9.236006 GGCCCATTCACATATGGATATATATTC 57.764 37.037 7.80 0.00 46.63 1.75
3371 8042 9.797642 GCCCATTCACATATGGATATATATTCA 57.202 33.333 6.16 6.16 46.63 2.57
3395 8066 9.202273 TCATACATAAACTTTTGAACAAATGGC 57.798 29.630 14.41 0.00 31.92 4.40
3396 8067 8.986847 CATACATAAACTTTTGAACAAATGGCA 58.013 29.630 14.41 0.00 31.92 4.92
3397 8068 7.245419 ACATAAACTTTTGAACAAATGGCAC 57.755 32.000 14.41 0.00 31.92 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 87 1.139498 TCATGGAAGGAGGTTGCCCA 61.139 55.000 0.00 0.00 0.00 5.36
97 98 2.036862 TGATGAGCTCCGATCATGGAAG 59.963 50.000 12.15 0.00 37.52 3.46
132 133 1.471829 ATGCACGGTCCACAGTCTGA 61.472 55.000 6.91 0.00 0.00 3.27
140 169 0.250945 TAAAAGGCATGCACGGTCCA 60.251 50.000 21.36 0.00 0.00 4.02
151 180 6.723298 TCCTGAACTTTCAATTAAAAGGCA 57.277 33.333 6.05 3.05 39.96 4.75
261 301 5.711976 ACCAAAGCATAACAGCAGTTTCTAT 59.288 36.000 0.00 0.00 39.15 1.98
262 302 5.048782 CACCAAAGCATAACAGCAGTTTCTA 60.049 40.000 0.00 0.00 39.15 2.10
264 304 3.983344 CACCAAAGCATAACAGCAGTTTC 59.017 43.478 0.00 0.00 39.15 2.78
283 323 0.814010 ATCCTATTTCACGGCGCACC 60.814 55.000 10.83 0.00 0.00 5.01
321 361 3.336568 ATGGCCCAGCAGAGCACT 61.337 61.111 0.00 0.00 0.00 4.40
335 375 2.494471 ACACCATCTGATGCAAACATGG 59.506 45.455 12.17 13.19 40.05 3.66
369 409 2.724839 GCGCGGTTCAGTTAAGAATGTG 60.725 50.000 8.83 0.00 0.00 3.21
421 461 1.381872 GCAGGGAGCTGGAGGTAGA 60.382 63.158 0.00 0.00 41.15 2.59
469 515 2.609427 TCATCGCCCAAGATTGAGAG 57.391 50.000 0.00 0.00 0.00 3.20
471 517 2.842457 TGATCATCGCCCAAGATTGAG 58.158 47.619 0.00 0.00 0.00 3.02
491 542 4.081420 GTCCATGGTGTCTAGAACTGTCAT 60.081 45.833 12.58 0.00 0.00 3.06
493 544 3.673594 CGTCCATGGTGTCTAGAACTGTC 60.674 52.174 12.58 0.00 0.00 3.51
549 606 6.706270 CGCCTTACATGATATGTTCCTACTTT 59.294 38.462 0.00 0.00 41.63 2.66
562 619 2.104792 ACCATAGCACGCCTTACATGAT 59.895 45.455 0.00 0.00 0.00 2.45
571 628 2.513897 GACCCACCATAGCACGCC 60.514 66.667 0.00 0.00 0.00 5.68
720 4560 6.647212 TGTGACTCGAAGCAGTTAAATATG 57.353 37.500 0.00 0.00 0.00 1.78
894 4739 6.983307 GCTCTGTTCAAGCTTCTCATATAGAA 59.017 38.462 0.00 0.00 42.07 2.10
896 4741 6.279123 TGCTCTGTTCAAGCTTCTCATATAG 58.721 40.000 0.00 0.00 40.50 1.31
997 4855 1.030457 AGCAGAGCCATTTGCATAGC 58.970 50.000 0.00 0.00 44.83 2.97
1097 4963 2.778299 CTTCCTCCGTTGATTGTTCCA 58.222 47.619 0.00 0.00 0.00 3.53
1140 5015 2.495669 AGAGCTGACTAGAAGAACCTGC 59.504 50.000 0.00 0.00 0.00 4.85
1168 5043 4.831710 ACCGGTATTAGGAAGACTACCATC 59.168 45.833 4.49 0.00 34.54 3.51
1231 5106 2.474112 TGTCCTATCACTTGGTACCCC 58.526 52.381 10.07 0.00 0.00 4.95
1351 5226 3.430471 TGGCCCTTCCATGCAGAT 58.570 55.556 0.00 0.00 40.72 2.90
1633 5509 1.197721 CGTCACTGCATTTTCCTGGAC 59.802 52.381 0.00 0.00 0.00 4.02
1638 5514 1.212751 GGCCGTCACTGCATTTTCC 59.787 57.895 0.00 0.00 0.00 3.13
1683 5559 5.530543 TGCATTCACGATGGCAATCTTATTA 59.469 36.000 0.00 0.00 36.21 0.98
1989 5865 1.123077 TATCGACCATTCCAGCAGCT 58.877 50.000 0.00 0.00 0.00 4.24
2160 6036 4.792521 ACAAAACCTGTTGCTGTTTGTA 57.207 36.364 0.00 0.00 32.99 2.41
2181 6057 6.349300 GGCATCCTCTTGAAGAACTATGTTA 58.651 40.000 0.00 0.00 0.00 2.41
2329 6211 5.049543 GCCTGCAACAAATTCAAATGCTTAA 60.050 36.000 0.00 0.00 37.86 1.85
2573 6499 1.661617 TCTCAACAACAACAACGACCG 59.338 47.619 0.00 0.00 0.00 4.79
2574 6500 3.548014 CCATCTCAACAACAACAACGACC 60.548 47.826 0.00 0.00 0.00 4.79
2575 6501 3.064820 ACCATCTCAACAACAACAACGAC 59.935 43.478 0.00 0.00 0.00 4.34
2576 6502 3.064682 CACCATCTCAACAACAACAACGA 59.935 43.478 0.00 0.00 0.00 3.85
2577 6503 3.181501 ACACCATCTCAACAACAACAACG 60.182 43.478 0.00 0.00 0.00 4.10
2607 6534 9.740710 AGACAAGCTGTAGAAAAATATAAACCT 57.259 29.630 0.00 0.00 0.00 3.50
2621 6556 6.810911 ACAGATACCAATAGACAAGCTGTAG 58.189 40.000 0.00 0.00 32.86 2.74
2659 6594 8.718102 AATCAGCTAATAACATGTACGAAACT 57.282 30.769 0.00 0.00 0.00 2.66
2696 6631 4.260170 AGAAGAGAAAGCATGCAGGTTAG 58.740 43.478 21.98 0.00 36.83 2.34
2699 6634 2.305343 AGAGAAGAGAAAGCATGCAGGT 59.695 45.455 21.98 3.66 0.00 4.00
2722 6659 4.153475 GCGCTAGTATCTCTCAAGTCTAGG 59.847 50.000 0.00 0.00 0.00 3.02
2755 6692 2.244695 ACCTACGGTCACAAGATCACA 58.755 47.619 0.00 0.00 0.00 3.58
2756 6693 3.314541 AACCTACGGTCACAAGATCAC 57.685 47.619 0.00 0.00 33.12 3.06
3054 7725 2.552315 CAACCAAACTTGTCGGCTACAT 59.448 45.455 0.00 0.00 38.10 2.29
3096 7767 1.407258 GCAACCAAACAGCACCTGTAA 59.593 47.619 0.00 0.00 44.62 2.41
3097 7768 1.028905 GCAACCAAACAGCACCTGTA 58.971 50.000 0.00 0.00 44.62 2.74
3099 7770 0.175302 TTGCAACCAAACAGCACCTG 59.825 50.000 0.00 0.00 38.11 4.00
3100 7771 0.901124 TTTGCAACCAAACAGCACCT 59.099 45.000 0.00 0.00 38.11 4.00
3112 7783 3.938334 ACCAAACCAACTTCATTTGCAAC 59.062 39.130 0.00 0.00 32.98 4.17
3135 7806 9.672673 CCCTAGAGAGAAATGTAGAAAAATCAA 57.327 33.333 0.00 0.00 0.00 2.57
3138 7809 6.763610 CGCCCTAGAGAGAAATGTAGAAAAAT 59.236 38.462 0.00 0.00 0.00 1.82
3142 7813 4.098044 CACGCCCTAGAGAGAAATGTAGAA 59.902 45.833 0.00 0.00 0.00 2.10
3143 7814 3.632604 CACGCCCTAGAGAGAAATGTAGA 59.367 47.826 0.00 0.00 0.00 2.59
3144 7815 3.243569 CCACGCCCTAGAGAGAAATGTAG 60.244 52.174 0.00 0.00 0.00 2.74
3145 7816 2.693591 CCACGCCCTAGAGAGAAATGTA 59.306 50.000 0.00 0.00 0.00 2.29
3146 7817 1.482593 CCACGCCCTAGAGAGAAATGT 59.517 52.381 0.00 0.00 0.00 2.71
3147 7818 1.808133 GCCACGCCCTAGAGAGAAATG 60.808 57.143 0.00 0.00 0.00 2.32
3148 7819 0.466124 GCCACGCCCTAGAGAGAAAT 59.534 55.000 0.00 0.00 0.00 2.17
3149 7820 0.614979 AGCCACGCCCTAGAGAGAAA 60.615 55.000 0.00 0.00 0.00 2.52
3150 7821 0.257905 TAGCCACGCCCTAGAGAGAA 59.742 55.000 0.00 0.00 0.00 2.87
3151 7822 0.179015 CTAGCCACGCCCTAGAGAGA 60.179 60.000 0.00 0.00 35.41 3.10
3152 7823 1.175983 CCTAGCCACGCCCTAGAGAG 61.176 65.000 0.00 0.00 35.41 3.20
3153 7824 1.152735 CCTAGCCACGCCCTAGAGA 60.153 63.158 0.00 0.00 35.41 3.10
3154 7825 0.755698 TTCCTAGCCACGCCCTAGAG 60.756 60.000 0.00 0.00 35.41 2.43
3155 7826 0.324923 TTTCCTAGCCACGCCCTAGA 60.325 55.000 0.00 0.00 35.41 2.43
3156 7827 0.759346 ATTTCCTAGCCACGCCCTAG 59.241 55.000 0.00 0.00 33.64 3.02
3157 7828 1.134220 CAATTTCCTAGCCACGCCCTA 60.134 52.381 0.00 0.00 0.00 3.53
3158 7829 0.394352 CAATTTCCTAGCCACGCCCT 60.394 55.000 0.00 0.00 0.00 5.19
3159 7830 1.384222 CCAATTTCCTAGCCACGCCC 61.384 60.000 0.00 0.00 0.00 6.13
3160 7831 0.679960 ACCAATTTCCTAGCCACGCC 60.680 55.000 0.00 0.00 0.00 5.68
3161 7832 1.173913 AACCAATTTCCTAGCCACGC 58.826 50.000 0.00 0.00 0.00 5.34
3162 7833 3.869065 TCTAACCAATTTCCTAGCCACG 58.131 45.455 0.00 0.00 0.00 4.94
3163 7834 6.122964 AGAATCTAACCAATTTCCTAGCCAC 58.877 40.000 0.00 0.00 0.00 5.01
3164 7835 6.327386 AGAATCTAACCAATTTCCTAGCCA 57.673 37.500 0.00 0.00 0.00 4.75
3165 7836 6.603599 ACAAGAATCTAACCAATTTCCTAGCC 59.396 38.462 0.00 0.00 0.00 3.93
3166 7837 7.201741 GGACAAGAATCTAACCAATTTCCTAGC 60.202 40.741 0.00 0.00 0.00 3.42
3167 7838 7.829211 TGGACAAGAATCTAACCAATTTCCTAG 59.171 37.037 0.00 0.00 0.00 3.02
3168 7839 7.695055 TGGACAAGAATCTAACCAATTTCCTA 58.305 34.615 0.00 0.00 0.00 2.94
3169 7840 6.552008 TGGACAAGAATCTAACCAATTTCCT 58.448 36.000 0.00 0.00 0.00 3.36
3170 7841 6.834168 TGGACAAGAATCTAACCAATTTCC 57.166 37.500 0.00 0.00 0.00 3.13
3171 7842 8.055279 TCATGGACAAGAATCTAACCAATTTC 57.945 34.615 6.97 0.00 0.00 2.17
3172 7843 8.421249 TTCATGGACAAGAATCTAACCAATTT 57.579 30.769 6.97 0.00 0.00 1.82
3173 7844 7.671398 ACTTCATGGACAAGAATCTAACCAATT 59.329 33.333 6.97 0.00 0.00 2.32
3174 7845 7.177878 ACTTCATGGACAAGAATCTAACCAAT 58.822 34.615 6.97 0.00 0.00 3.16
3175 7846 6.542821 ACTTCATGGACAAGAATCTAACCAA 58.457 36.000 6.97 0.00 0.00 3.67
3176 7847 6.126863 ACTTCATGGACAAGAATCTAACCA 57.873 37.500 5.71 5.71 0.00 3.67
3177 7848 6.431234 ACAACTTCATGGACAAGAATCTAACC 59.569 38.462 0.00 0.00 0.00 2.85
3178 7849 7.173218 TCACAACTTCATGGACAAGAATCTAAC 59.827 37.037 0.00 0.00 0.00 2.34
3179 7850 7.223584 TCACAACTTCATGGACAAGAATCTAA 58.776 34.615 0.00 0.00 0.00 2.10
3180 7851 6.768483 TCACAACTTCATGGACAAGAATCTA 58.232 36.000 0.00 0.00 0.00 1.98
3181 7852 5.624159 TCACAACTTCATGGACAAGAATCT 58.376 37.500 0.00 0.00 0.00 2.40
3182 7853 5.947228 TCACAACTTCATGGACAAGAATC 57.053 39.130 0.00 0.00 0.00 2.52
3183 7854 6.713762 TTTCACAACTTCATGGACAAGAAT 57.286 33.333 0.00 0.00 0.00 2.40
3184 7855 6.522625 TTTTCACAACTTCATGGACAAGAA 57.477 33.333 0.00 0.00 0.00 2.52
3185 7856 6.522625 TTTTTCACAACTTCATGGACAAGA 57.477 33.333 0.00 0.00 0.00 3.02
3186 7857 7.775397 AATTTTTCACAACTTCATGGACAAG 57.225 32.000 0.00 0.00 0.00 3.16
3187 7858 9.658799 TTAAATTTTTCACAACTTCATGGACAA 57.341 25.926 0.00 0.00 0.00 3.18
3188 7859 9.658799 TTTAAATTTTTCACAACTTCATGGACA 57.341 25.926 0.00 0.00 0.00 4.02
3211 7882 9.120538 GCTACCCATTCAATGTAGAAGAATTTA 57.879 33.333 0.00 0.00 35.13 1.40
3212 7883 7.836183 AGCTACCCATTCAATGTAGAAGAATTT 59.164 33.333 0.00 0.00 35.13 1.82
3213 7884 7.349598 AGCTACCCATTCAATGTAGAAGAATT 58.650 34.615 0.00 0.00 35.13 2.17
3214 7885 6.904626 AGCTACCCATTCAATGTAGAAGAAT 58.095 36.000 0.00 0.00 35.13 2.40
3215 7886 6.313519 AGCTACCCATTCAATGTAGAAGAA 57.686 37.500 0.00 0.00 35.13 2.52
3216 7887 5.957771 AGCTACCCATTCAATGTAGAAGA 57.042 39.130 0.00 0.00 35.13 2.87
3217 7888 6.582636 TGTAGCTACCCATTCAATGTAGAAG 58.417 40.000 21.01 0.00 35.13 2.85
3218 7889 6.553953 TGTAGCTACCCATTCAATGTAGAA 57.446 37.500 21.01 0.00 35.13 2.10
3219 7890 5.453339 GCTGTAGCTACCCATTCAATGTAGA 60.453 44.000 21.01 0.00 35.13 2.59
3220 7891 4.752101 GCTGTAGCTACCCATTCAATGTAG 59.248 45.833 21.01 8.07 38.21 2.74
3221 7892 4.163268 TGCTGTAGCTACCCATTCAATGTA 59.837 41.667 21.01 0.00 42.66 2.29
3222 7893 3.054434 TGCTGTAGCTACCCATTCAATGT 60.054 43.478 21.01 0.00 42.66 2.71
3223 7894 3.544684 TGCTGTAGCTACCCATTCAATG 58.455 45.455 21.01 0.00 42.66 2.82
3224 7895 3.931907 TGCTGTAGCTACCCATTCAAT 57.068 42.857 21.01 0.00 42.66 2.57
3225 7896 3.712016 TTGCTGTAGCTACCCATTCAA 57.288 42.857 21.01 13.47 42.66 2.69
3226 7897 3.931907 ATTGCTGTAGCTACCCATTCA 57.068 42.857 21.01 8.62 42.66 2.57
3227 7898 6.884280 ATTTATTGCTGTAGCTACCCATTC 57.116 37.500 21.01 6.26 42.66 2.67
3228 7899 7.417797 CCAAATTTATTGCTGTAGCTACCCATT 60.418 37.037 21.01 15.14 42.66 3.16
3229 7900 6.040842 CCAAATTTATTGCTGTAGCTACCCAT 59.959 38.462 21.01 9.81 42.66 4.00
3230 7901 5.359576 CCAAATTTATTGCTGTAGCTACCCA 59.640 40.000 21.01 14.71 42.66 4.51
3231 7902 5.592688 TCCAAATTTATTGCTGTAGCTACCC 59.407 40.000 21.01 12.33 42.66 3.69
3232 7903 6.693315 TCCAAATTTATTGCTGTAGCTACC 57.307 37.500 21.01 7.28 42.66 3.18
3284 7955 9.807649 GACCTGCTTAAAATCATGAACATATTT 57.192 29.630 0.00 0.00 0.00 1.40
3285 7956 8.416329 GGACCTGCTTAAAATCATGAACATATT 58.584 33.333 0.00 0.00 0.00 1.28
3286 7957 7.255242 CGGACCTGCTTAAAATCATGAACATAT 60.255 37.037 0.00 0.00 0.00 1.78
3287 7958 6.038161 CGGACCTGCTTAAAATCATGAACATA 59.962 38.462 0.00 0.00 0.00 2.29
3288 7959 5.163622 CGGACCTGCTTAAAATCATGAACAT 60.164 40.000 0.00 0.00 0.00 2.71
3289 7960 4.155826 CGGACCTGCTTAAAATCATGAACA 59.844 41.667 0.00 0.00 0.00 3.18
3290 7961 4.156008 ACGGACCTGCTTAAAATCATGAAC 59.844 41.667 0.00 0.00 0.00 3.18
3291 7962 4.155826 CACGGACCTGCTTAAAATCATGAA 59.844 41.667 0.00 0.00 0.00 2.57
3292 7963 3.689161 CACGGACCTGCTTAAAATCATGA 59.311 43.478 0.00 0.00 0.00 3.07
3293 7964 3.440173 ACACGGACCTGCTTAAAATCATG 59.560 43.478 0.00 0.00 0.00 3.07
3294 7965 3.686016 ACACGGACCTGCTTAAAATCAT 58.314 40.909 0.00 0.00 0.00 2.45
3295 7966 3.134574 ACACGGACCTGCTTAAAATCA 57.865 42.857 0.00 0.00 0.00 2.57
3296 7967 5.813080 AATACACGGACCTGCTTAAAATC 57.187 39.130 0.00 0.00 0.00 2.17
3297 7968 6.584185 AAAATACACGGACCTGCTTAAAAT 57.416 33.333 0.00 0.00 0.00 1.82
3298 7969 7.362229 CCATAAAATACACGGACCTGCTTAAAA 60.362 37.037 0.00 0.00 0.00 1.52
3299 7970 6.094325 CCATAAAATACACGGACCTGCTTAAA 59.906 38.462 0.00 0.00 0.00 1.52
3300 7971 5.587043 CCATAAAATACACGGACCTGCTTAA 59.413 40.000 0.00 0.00 0.00 1.85
3301 7972 5.104859 TCCATAAAATACACGGACCTGCTTA 60.105 40.000 0.00 0.00 0.00 3.09
3302 7973 3.945285 CCATAAAATACACGGACCTGCTT 59.055 43.478 0.00 0.00 0.00 3.91
3303 7974 3.199071 TCCATAAAATACACGGACCTGCT 59.801 43.478 0.00 0.00 0.00 4.24
3304 7975 3.537580 TCCATAAAATACACGGACCTGC 58.462 45.455 0.00 0.00 0.00 4.85
3305 7976 4.334481 GGTTCCATAAAATACACGGACCTG 59.666 45.833 0.00 0.00 0.00 4.00
3306 7977 4.019141 TGGTTCCATAAAATACACGGACCT 60.019 41.667 0.00 0.00 0.00 3.85
3307 7978 4.263435 TGGTTCCATAAAATACACGGACC 58.737 43.478 0.00 0.00 0.00 4.46
3308 7979 5.220970 CCATGGTTCCATAAAATACACGGAC 60.221 44.000 2.57 0.00 0.00 4.79
3309 7980 4.884744 CCATGGTTCCATAAAATACACGGA 59.115 41.667 2.57 0.00 0.00 4.69
3310 7981 4.642885 ACCATGGTTCCATAAAATACACGG 59.357 41.667 13.00 1.50 0.00 4.94
3311 7982 5.828299 ACCATGGTTCCATAAAATACACG 57.172 39.130 13.00 0.00 0.00 4.49
3312 7983 7.164230 TCAACCATGGTTCCATAAAATACAC 57.836 36.000 27.56 0.00 36.00 2.90
3313 7984 7.782897 TTCAACCATGGTTCCATAAAATACA 57.217 32.000 27.56 0.00 36.00 2.29
3314 7985 9.150348 CTTTTCAACCATGGTTCCATAAAATAC 57.850 33.333 27.56 0.00 36.00 1.89
3315 7986 8.317679 CCTTTTCAACCATGGTTCCATAAAATA 58.682 33.333 27.56 10.20 36.00 1.40
3316 7987 7.167535 CCTTTTCAACCATGGTTCCATAAAAT 58.832 34.615 27.56 0.00 36.00 1.82
3317 7988 6.100424 ACCTTTTCAACCATGGTTCCATAAAA 59.900 34.615 27.56 24.34 36.00 1.52
3318 7989 5.604650 ACCTTTTCAACCATGGTTCCATAAA 59.395 36.000 27.56 19.91 36.00 1.40
3319 7990 5.151454 ACCTTTTCAACCATGGTTCCATAA 58.849 37.500 27.56 15.58 36.00 1.90
3320 7991 4.746466 ACCTTTTCAACCATGGTTCCATA 58.254 39.130 27.56 12.21 36.00 2.74
3321 7992 3.586429 ACCTTTTCAACCATGGTTCCAT 58.414 40.909 27.56 3.67 36.00 3.41
3322 7993 3.039252 ACCTTTTCAACCATGGTTCCA 57.961 42.857 27.56 14.15 36.00 3.53
3323 7994 3.509967 CCTACCTTTTCAACCATGGTTCC 59.490 47.826 27.56 0.00 36.00 3.62
3324 7995 3.056821 GCCTACCTTTTCAACCATGGTTC 60.057 47.826 27.56 7.92 36.00 3.62
3325 7996 2.897326 GCCTACCTTTTCAACCATGGTT 59.103 45.455 24.86 24.86 39.13 3.67
3326 7997 2.525368 GCCTACCTTTTCAACCATGGT 58.475 47.619 13.00 13.00 35.05 3.55
3327 7998 1.824852 GGCCTACCTTTTCAACCATGG 59.175 52.381 11.19 11.19 0.00 3.66
3328 7999 1.824852 GGGCCTACCTTTTCAACCATG 59.175 52.381 0.84 0.00 35.85 3.66
3329 8000 1.431243 TGGGCCTACCTTTTCAACCAT 59.569 47.619 4.53 0.00 41.11 3.55
3330 8001 0.854218 TGGGCCTACCTTTTCAACCA 59.146 50.000 4.53 0.00 41.11 3.67
3331 8002 2.231716 ATGGGCCTACCTTTTCAACC 57.768 50.000 4.53 0.00 41.11 3.77
3332 8003 3.056821 GTGAATGGGCCTACCTTTTCAAC 60.057 47.826 4.53 0.00 40.94 3.18
3333 8004 3.161866 GTGAATGGGCCTACCTTTTCAA 58.838 45.455 4.53 0.00 40.94 2.69
3334 8005 2.109128 TGTGAATGGGCCTACCTTTTCA 59.891 45.455 4.53 0.00 38.72 2.69
3335 8006 2.802719 TGTGAATGGGCCTACCTTTTC 58.197 47.619 4.53 0.00 41.11 2.29
3336 8007 2.990740 TGTGAATGGGCCTACCTTTT 57.009 45.000 4.53 0.00 41.11 2.27
3337 8008 4.473444 CATATGTGAATGGGCCTACCTTT 58.527 43.478 4.53 0.00 41.11 3.11
3338 8009 3.181429 CCATATGTGAATGGGCCTACCTT 60.181 47.826 4.53 0.00 42.41 3.50
3339 8010 2.376518 CCATATGTGAATGGGCCTACCT 59.623 50.000 4.53 0.00 42.41 3.08
3340 8011 2.375174 TCCATATGTGAATGGGCCTACC 59.625 50.000 4.53 0.00 45.57 3.18
3341 8012 3.788227 TCCATATGTGAATGGGCCTAC 57.212 47.619 4.53 0.00 45.57 3.18
3342 8013 7.952847 ATATATCCATATGTGAATGGGCCTA 57.047 36.000 4.53 0.00 45.57 3.93
3343 8014 6.853669 ATATATCCATATGTGAATGGGCCT 57.146 37.500 4.53 0.00 45.57 5.19
3344 8015 9.236006 GAATATATATCCATATGTGAATGGGCC 57.764 37.037 0.00 0.00 45.57 5.80
3345 8016 9.797642 TGAATATATATCCATATGTGAATGGGC 57.202 33.333 1.24 0.00 45.57 5.36
3369 8040 9.202273 GCCATTTGTTCAAAAGTTTATGTATGA 57.798 29.630 2.11 0.00 0.00 2.15
3370 8041 8.986847 TGCCATTTGTTCAAAAGTTTATGTATG 58.013 29.630 2.11 0.00 0.00 2.39
3371 8042 8.987890 GTGCCATTTGTTCAAAAGTTTATGTAT 58.012 29.630 2.11 0.00 0.00 2.29
3372 8043 7.981789 TGTGCCATTTGTTCAAAAGTTTATGTA 59.018 29.630 2.11 0.00 0.00 2.29
3373 8044 6.820656 TGTGCCATTTGTTCAAAAGTTTATGT 59.179 30.769 2.11 0.00 0.00 2.29
3374 8045 7.125113 GTGTGCCATTTGTTCAAAAGTTTATG 58.875 34.615 2.11 0.00 0.00 1.90
3375 8046 6.820656 TGTGTGCCATTTGTTCAAAAGTTTAT 59.179 30.769 2.11 0.00 0.00 1.40
3376 8047 6.166279 TGTGTGCCATTTGTTCAAAAGTTTA 58.834 32.000 2.11 0.00 0.00 2.01
3377 8048 4.999950 TGTGTGCCATTTGTTCAAAAGTTT 59.000 33.333 2.11 0.00 0.00 2.66
3378 8049 4.573900 TGTGTGCCATTTGTTCAAAAGTT 58.426 34.783 2.11 0.00 0.00 2.66
3379 8050 4.199432 TGTGTGCCATTTGTTCAAAAGT 57.801 36.364 2.11 0.00 0.00 2.66
3380 8051 5.738118 AATGTGTGCCATTTGTTCAAAAG 57.262 34.783 2.11 0.00 41.01 2.27


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

AutoCloner maintained by Alex Coulton.