Multiple sequence alignment - TraesCS5D01G416400

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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 TraesCS5D01G416400 chr5D 100.000 3955 0 0 1 3955 478703653 478699699 0.000000e+00 7304
1 TraesCS5D01G416400 chr5D 85.909 1909 179 32 132 1971 478742414 478740527 0.000000e+00 1953
2 TraesCS5D01G416400 chr5D 87.761 670 76 5 2612 3275 478739972 478739303 0.000000e+00 778
3 TraesCS5D01G416400 chr5D 86.799 553 47 8 2023 2550 478740526 478739975 9.460000e-166 593
4 TraesCS5D01G416400 chr5B 86.220 2460 223 52 152 2551 586462947 586465350 0.000000e+00 2558
5 TraesCS5D01G416400 chr5B 92.477 1635 66 16 16 1602 586530422 586532047 0.000000e+00 2285
6 TraesCS5D01G416400 chr5B 85.856 1513 150 34 144 1607 586715688 586714191 0.000000e+00 1550
7 TraesCS5D01G416400 chr5B 81.468 1376 141 54 2572 3881 586532316 586533643 0.000000e+00 1024
8 TraesCS5D01G416400 chr5B 85.407 836 82 18 1750 2551 586714111 586713282 0.000000e+00 832
9 TraesCS5D01G416400 chr5B 86.950 682 76 10 2606 3275 586713286 586712606 0.000000e+00 754
10 TraesCS5D01G416400 chr5B 86.478 673 86 5 2606 3275 586465346 586466016 0.000000e+00 734
11 TraesCS5D01G416400 chr5A 92.332 1591 66 8 56 1598 597748471 597746889 0.000000e+00 2211
12 TraesCS5D01G416400 chr5A 86.149 1480 148 20 1113 2551 597754552 597753089 0.000000e+00 1544
13 TraesCS5D01G416400 chr5A 88.358 1194 89 21 2572 3741 597746521 597745354 0.000000e+00 1389
14 TraesCS5D01G416400 chr5A 86.545 825 78 22 132 926 597755369 597754548 0.000000e+00 878
15 TraesCS5D01G416400 chr5A 87.240 674 73 6 2606 3275 597753093 597752429 0.000000e+00 756
16 TraesCS5D01G416400 chr6A 81.800 489 75 7 200 675 21151161 21150674 7.960000e-107 398
17 TraesCS5D01G416400 chr6A 77.033 492 88 19 200 675 20902720 20903202 3.920000e-65 259
18 TraesCS5D01G416400 chr6A 75.210 476 101 16 1118 1583 20903614 20904082 4.000000e-50 209
19 TraesCS5D01G416400 chr6D 79.012 486 82 12 200 669 20792730 20793211 8.250000e-82 315
20 TraesCS5D01G416400 chr6D 75.385 585 120 19 1008 1583 20793529 20794098 1.090000e-65 261
21 TraesCS5D01G416400 chr1B 84.167 240 20 8 3654 3881 464458405 464458638 2.390000e-52 217


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 TraesCS5D01G416400 chr5D 478699699 478703653 3954 True 7304.000000 7304 100.0000 1 3955 1 chr5D.!!$R1 3954
1 TraesCS5D01G416400 chr5D 478739303 478742414 3111 True 1108.000000 1953 86.8230 132 3275 3 chr5D.!!$R2 3143
2 TraesCS5D01G416400 chr5B 586530422 586533643 3221 False 1654.500000 2285 86.9725 16 3881 2 chr5B.!!$F2 3865
3 TraesCS5D01G416400 chr5B 586462947 586466016 3069 False 1646.000000 2558 86.3490 152 3275 2 chr5B.!!$F1 3123
4 TraesCS5D01G416400 chr5B 586712606 586715688 3082 True 1045.333333 1550 86.0710 144 3275 3 chr5B.!!$R1 3131
5 TraesCS5D01G416400 chr5A 597745354 597755369 10015 True 1355.600000 2211 88.1248 56 3741 5 chr5A.!!$R1 3685
6 TraesCS5D01G416400 chr6A 20902720 20904082 1362 False 234.000000 259 76.1215 200 1583 2 chr6A.!!$F1 1383
7 TraesCS5D01G416400 chr6D 20792730 20794098 1368 False 288.000000 315 77.1985 200 1583 2 chr6D.!!$F1 1383

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
128 129 0.243907 TACTCACGCTCACCTTGCTC 59.756 55.0 0.00 0.0 0.00 4.26 F
1320 1394 0.250295 TTGCACAGTGTCTGCTACCC 60.250 55.0 1.61 0.0 34.37 3.69 F
2162 2273 0.241213 GGAAAGGAAAGCGAGGCAAC 59.759 55.0 0.00 0.0 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1816 1927 0.526211 CCTTTTCTTACCCGGCTTGC 59.474 55.0 0.0 0.0 0.00 4.01 R
2904 9681 0.103026 TGCATCTCTAGCGCGACAAT 59.897 50.0 12.1 0.0 33.85 2.71 R
3926 10782 0.035317 TGCGATGAGGAGTGCAAAGT 59.965 50.0 0.0 0.0 33.80 2.66 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
20 21 0.393132 GGAAAGTAGGAGTGCAGCCC 60.393 60.000 1.99 0.00 0.00 5.19
43 44 6.377146 CCCAATTTACTTCCCGGGATTATATG 59.623 42.308 27.48 16.79 35.57 1.78
78 79 7.841729 TCCATTTTATTTTATTACTGCCTCCCA 59.158 33.333 0.00 0.00 0.00 4.37
81 82 3.375647 TTTTATTACTGCCTCCCACCC 57.624 47.619 0.00 0.00 0.00 4.61
89 90 3.420482 CCTCCCACCCATCCCCAC 61.420 72.222 0.00 0.00 0.00 4.61
116 117 1.404315 GGAGCACTTTCCCTACTCACG 60.404 57.143 0.00 0.00 0.00 4.35
122 123 0.606604 TTTCCCTACTCACGCTCACC 59.393 55.000 0.00 0.00 0.00 4.02
128 129 0.243907 TACTCACGCTCACCTTGCTC 59.756 55.000 0.00 0.00 0.00 4.26
129 130 1.005748 CTCACGCTCACCTTGCTCA 60.006 57.895 0.00 0.00 0.00 4.26
130 131 1.005748 TCACGCTCACCTTGCTCAG 60.006 57.895 0.00 0.00 0.00 3.35
131 132 2.358003 ACGCTCACCTTGCTCAGC 60.358 61.111 0.00 0.00 0.00 4.26
132 133 2.047465 CGCTCACCTTGCTCAGCT 60.047 61.111 0.00 0.00 0.00 4.24
133 134 2.099431 CGCTCACCTTGCTCAGCTC 61.099 63.158 0.00 0.00 0.00 4.09
134 135 1.744741 GCTCACCTTGCTCAGCTCC 60.745 63.158 0.00 0.00 0.00 4.70
135 136 1.447489 CTCACCTTGCTCAGCTCCG 60.447 63.158 0.00 0.00 0.00 4.63
236 244 4.175489 CACCGCGATCGTCTCCGT 62.175 66.667 17.81 3.08 35.01 4.69
1000 1059 2.125552 CCAGCGATCAGGCGTTCA 60.126 61.111 0.00 0.00 38.18 3.18
1146 1208 3.006110 CCAAGTGGCACAATGTCAGAAAT 59.994 43.478 21.41 0.00 44.16 2.17
1320 1394 0.250295 TTGCACAGTGTCTGCTACCC 60.250 55.000 1.61 0.00 34.37 3.69
1404 1478 1.874019 CTTCGATCAGGACGTGCCG 60.874 63.158 2.38 0.00 43.43 5.69
1592 1666 1.340889 TGCTGCAAGGATGAAACAACC 59.659 47.619 0.00 0.00 0.00 3.77
1682 1780 3.055530 GGGATGACTCCGCAAGATGATAT 60.056 47.826 0.00 0.00 43.11 1.63
1755 1866 2.093235 GCAAAGCCAGGATACAGAGACT 60.093 50.000 0.00 0.00 41.41 3.24
1756 1867 3.791245 CAAAGCCAGGATACAGAGACTC 58.209 50.000 0.00 0.00 41.41 3.36
1757 1868 1.686355 AGCCAGGATACAGAGACTCG 58.314 55.000 0.00 0.00 41.41 4.18
1794 1905 3.910767 GCGAGACAAAGCAAAATTCAGAG 59.089 43.478 0.00 0.00 0.00 3.35
1795 1906 4.470462 CGAGACAAAGCAAAATTCAGAGG 58.530 43.478 0.00 0.00 0.00 3.69
1797 1908 3.638160 AGACAAAGCAAAATTCAGAGGCA 59.362 39.130 0.00 0.00 0.00 4.75
1800 1911 4.141869 ACAAAGCAAAATTCAGAGGCAGTT 60.142 37.500 0.00 0.00 0.00 3.16
1801 1912 4.677673 AAGCAAAATTCAGAGGCAGTTT 57.322 36.364 0.00 0.00 0.00 2.66
1802 1913 4.677673 AGCAAAATTCAGAGGCAGTTTT 57.322 36.364 0.00 0.00 0.00 2.43
1804 1915 4.122046 GCAAAATTCAGAGGCAGTTTTGT 58.878 39.130 9.67 0.00 40.21 2.83
1805 1916 4.209911 GCAAAATTCAGAGGCAGTTTTGTC 59.790 41.667 9.67 1.27 40.21 3.18
1806 1917 5.594926 CAAAATTCAGAGGCAGTTTTGTCT 58.405 37.500 0.00 0.00 43.35 3.41
1816 1927 3.383761 GCAGTTTTGTCTGATTTGGTGG 58.616 45.455 0.00 0.00 37.61 4.61
1821 1932 0.961019 TGTCTGATTTGGTGGCAAGC 59.039 50.000 0.00 0.00 0.00 4.01
1822 1933 0.244721 GTCTGATTTGGTGGCAAGCC 59.755 55.000 3.61 3.61 0.00 4.35
1826 1937 3.826265 ATTTGGTGGCAAGCCGGGT 62.826 57.895 0.00 0.00 39.42 5.28
1828 1939 2.642183 TTTGGTGGCAAGCCGGGTAA 62.642 55.000 6.57 0.00 39.42 2.85
1847 1958 4.464244 GGTAAGAAAAGGTAGACGTAGGGT 59.536 45.833 0.00 0.00 0.00 4.34
1851 1962 6.462552 AGAAAAGGTAGACGTAGGGTAATC 57.537 41.667 0.00 0.00 0.00 1.75
1856 1967 4.080129 AGGTAGACGTAGGGTAATCTCACA 60.080 45.833 0.00 0.00 0.00 3.58
1870 1981 1.942657 TCTCACACAAAGTTGCTGAGC 59.057 47.619 0.00 0.00 36.74 4.26
1907 2018 0.312102 GAGGCAGTTTTGGTGAGTGC 59.688 55.000 0.00 0.00 41.59 4.40
1915 2026 3.316308 AGTTTTGGTGAGTGCAGTTGATC 59.684 43.478 0.00 0.00 0.00 2.92
1916 2027 2.636647 TTGGTGAGTGCAGTTGATCA 57.363 45.000 0.00 0.00 0.00 2.92
1917 2028 2.865119 TGGTGAGTGCAGTTGATCAT 57.135 45.000 0.00 0.00 0.00 2.45
1971 2082 3.430895 AGCATTTTGAAAAGCAAGCATCG 59.569 39.130 12.26 0.00 37.87 3.84
1973 2084 1.782044 TTTGAAAAGCAAGCATCGGC 58.218 45.000 0.00 0.00 37.87 5.54
1977 2088 0.610232 AAAAGCAAGCATCGGCCTCT 60.610 50.000 0.00 0.00 42.56 3.69
1981 2092 1.589716 GCAAGCATCGGCCTCTGTTT 61.590 55.000 0.00 0.00 42.56 2.83
2002 2113 7.351981 TGTTTTTACGTGTGATGAGAAGAATG 58.648 34.615 0.00 0.00 0.00 2.67
2036 2147 1.367840 GTGAAGTCGAGGGTGCAGT 59.632 57.895 0.00 0.00 0.00 4.40
2103 2214 5.817816 GGACGTGTATTCAAATCTTCCAGAT 59.182 40.000 0.00 0.00 36.28 2.90
2107 2218 7.657761 ACGTGTATTCAAATCTTCCAGATATCC 59.342 37.037 0.00 0.00 32.89 2.59
2120 2231 2.560105 CAGATATCCTGGCGATCAGTGA 59.440 50.000 0.00 0.00 41.83 3.41
2143 2254 9.817365 GTGATAATGAGTTGGATGAAATATTCG 57.183 33.333 0.00 0.00 0.00 3.34
2151 2262 6.889722 AGTTGGATGAAATATTCGGAAAGGAA 59.110 34.615 0.00 0.00 0.00 3.36
2160 2271 1.671054 CGGAAAGGAAAGCGAGGCA 60.671 57.895 0.00 0.00 0.00 4.75
2162 2273 0.241213 GGAAAGGAAAGCGAGGCAAC 59.759 55.000 0.00 0.00 0.00 4.17
2181 2292 6.105333 GGCAACTGCAATTTGTATGGAATTA 58.895 36.000 3.76 0.00 44.36 1.40
2184 2295 7.492020 GCAACTGCAATTTGTATGGAATTATCA 59.508 33.333 8.98 0.00 41.59 2.15
2327 2477 2.497675 GTGATAGCACCCTCAGACAAGA 59.502 50.000 0.00 0.00 39.14 3.02
2333 2483 1.694150 CACCCTCAGACAAGAACCAGA 59.306 52.381 0.00 0.00 0.00 3.86
2409 2566 0.443478 TTGATGAATGCAGACACGCG 59.557 50.000 3.53 3.53 33.35 6.01
2460 2617 3.760580 AGGTGGACAGAGAAAACTCAG 57.239 47.619 0.00 0.00 0.00 3.35
2486 2652 7.814587 GCTGTTTTCAAAGGTAATGAAATAGCT 59.185 33.333 19.95 0.00 43.94 3.32
2517 2683 9.558396 AAAATTTCTCAGCCTCATATCTAGAAG 57.442 33.333 0.00 0.00 0.00 2.85
2519 2685 6.892658 TTCTCAGCCTCATATCTAGAAGTC 57.107 41.667 0.00 0.00 0.00 3.01
2533 2699 2.597520 AGAAGTCGAGTCGCTTAAAGC 58.402 47.619 17.98 9.04 38.02 3.51
2550 2716 7.855904 CGCTTAAAGCCTGTATAAAGGTTAATG 59.144 37.037 10.81 4.73 38.18 1.90
2551 2717 8.899771 GCTTAAAGCCTGTATAAAGGTTAATGA 58.100 33.333 10.81 0.00 39.75 2.57
2555 2721 8.738645 AAGCCTGTATAAAGGTTAATGAAGAG 57.261 34.615 10.81 0.00 39.75 2.85
2556 2722 8.090788 AGCCTGTATAAAGGTTAATGAAGAGA 57.909 34.615 10.81 0.00 39.75 3.10
2557 2723 8.207545 AGCCTGTATAAAGGTTAATGAAGAGAG 58.792 37.037 10.81 0.00 39.75 3.20
2558 2724 8.204836 GCCTGTATAAAGGTTAATGAAGAGAGA 58.795 37.037 10.81 0.00 39.75 3.10
2569 2735 9.855021 GGTTAATGAAGAGAGATCTTCTATAGC 57.145 37.037 16.53 11.60 44.63 2.97
2593 2759 7.609146 AGCTAAGAATTGATGAATCTGTCACAA 59.391 33.333 0.00 0.00 39.72 3.33
2656 2826 6.939132 AGGAAACAATGATGCATCTTCTAG 57.061 37.500 26.32 15.51 0.00 2.43
2735 2905 7.227116 ACACTCTACTATCTTAGACCATTCGAC 59.773 40.741 0.00 0.00 0.00 4.20
2736 2906 7.442969 CACTCTACTATCTTAGACCATTCGACT 59.557 40.741 0.00 0.00 0.00 4.18
2820 2990 2.260743 GACGGGAAGTCGGGACAC 59.739 66.667 1.17 0.00 40.43 3.67
2928 9705 0.526310 CGCGCTAGAGATGCAGTTGA 60.526 55.000 5.56 0.00 0.00 3.18
2942 9719 0.393077 AGTTGAGGGACAGGACAACG 59.607 55.000 0.00 0.00 44.55 4.10
3044 9837 1.879575 TATGGTGGGCTAGTCTTGCT 58.120 50.000 6.24 0.00 0.00 3.91
3055 9848 4.568760 GGCTAGTCTTGCTAGTGAAATGAC 59.431 45.833 6.24 0.00 46.81 3.06
3076 9877 5.586243 TGACCTTCATTAGCTAATTGTGAGC 59.414 40.000 16.46 6.26 40.42 4.26
3094 9895 1.493311 CGAAGAAACTGCGGCACTC 59.507 57.895 0.00 0.00 0.00 3.51
3170 9987 6.605594 TGTGAAATTCAGGGGAATACATAACC 59.394 38.462 0.00 0.00 42.87 2.85
3174 9991 2.930826 AGGGGAATACATAACCGCTG 57.069 50.000 0.00 0.00 43.48 5.18
3184 10001 2.952978 ACATAACCGCTGGTTTGTTTGA 59.047 40.909 16.22 0.72 44.33 2.69
3195 10015 8.443160 CCGCTGGTTTGTTTGATAGTATATATG 58.557 37.037 0.00 0.00 0.00 1.78
3213 10033 9.035607 GTATATATGAACCCTATGCAATCTTCG 57.964 37.037 0.00 0.00 0.00 3.79
3228 10048 5.622856 GCAATCTTCGCATTAAGCTATCAAC 59.377 40.000 0.00 0.00 42.61 3.18
3315 10138 7.013083 CGTTTCTACCTATACTCTTTCCAGCTA 59.987 40.741 0.00 0.00 0.00 3.32
3323 10146 8.736244 CCTATACTCTTTCCAGCTAAGATAGAC 58.264 40.741 0.00 0.00 31.66 2.59
3341 10164 4.734398 AGACTCAGAAACTCTGGCATAG 57.266 45.455 3.92 0.00 44.39 2.23
3394 10228 1.394618 ACTAGGCTGCTAGAGGTTCG 58.605 55.000 0.00 0.00 0.00 3.95
3429 10264 6.434302 ACATAAACTCATTGGATGAATGGGA 58.566 36.000 1.29 0.00 44.47 4.37
3434 10269 4.079970 CTCATTGGATGAATGGGATCAGG 58.920 47.826 0.00 0.00 44.47 3.86
3444 10279 4.202567 TGAATGGGATCAGGTAATAAGGGC 60.203 45.833 0.00 0.00 0.00 5.19
3449 10284 4.390264 GGATCAGGTAATAAGGGCTCAAC 58.610 47.826 0.00 0.00 0.00 3.18
3450 10285 4.141482 GGATCAGGTAATAAGGGCTCAACA 60.141 45.833 0.00 0.00 0.00 3.33
3451 10286 4.487714 TCAGGTAATAAGGGCTCAACAG 57.512 45.455 0.00 0.00 0.00 3.16
3452 10287 3.844211 TCAGGTAATAAGGGCTCAACAGT 59.156 43.478 0.00 0.00 0.00 3.55
3453 10288 5.027460 TCAGGTAATAAGGGCTCAACAGTA 58.973 41.667 0.00 0.00 0.00 2.74
3454 10289 5.128827 TCAGGTAATAAGGGCTCAACAGTAG 59.871 44.000 0.00 0.00 0.00 2.57
3455 10290 4.409247 AGGTAATAAGGGCTCAACAGTAGG 59.591 45.833 0.00 0.00 0.00 3.18
3456 10291 4.163649 GGTAATAAGGGCTCAACAGTAGGT 59.836 45.833 0.00 0.00 0.00 3.08
3466 10301 4.810790 CTCAACAGTAGGTCAGTAACAGG 58.189 47.826 0.00 0.00 0.00 4.00
3540 10378 5.104109 CCATCTAAAGGTTCCCCAGATACAA 60.104 44.000 0.00 0.00 0.00 2.41
3543 10381 6.423182 TCTAAAGGTTCCCCAGATACAAATG 58.577 40.000 0.00 0.00 0.00 2.32
3664 10512 8.948631 TTGCTTATCCTGATTTACTACTCAAG 57.051 34.615 0.00 0.00 0.00 3.02
3701 10549 6.030228 GCAAAAGGTATTTCACTATGCAGAC 58.970 40.000 0.00 0.00 32.87 3.51
3708 10556 8.213679 AGGTATTTCACTATGCAGACAATACAT 58.786 33.333 0.00 0.00 0.00 2.29
3710 10558 9.655769 GTATTTCACTATGCAGACAATACATTG 57.344 33.333 0.00 0.37 43.26 2.82
3713 10561 5.525012 TCACTATGCAGACAATACATTGAGC 59.475 40.000 8.89 9.51 40.14 4.26
3740 10588 5.248640 CCAATGACTATGGACACAGAAGTT 58.751 41.667 0.00 0.00 40.56 2.66
3744 10592 4.832823 TGACTATGGACACAGAAGTTCAGA 59.167 41.667 5.50 0.00 28.77 3.27
3758 10606 6.258727 CAGAAGTTCAGAACTGCTCAAAGTTA 59.741 38.462 19.90 0.00 44.30 2.24
3779 10627 8.248904 AGTTATTTATGCAGAGAGACAGATCT 57.751 34.615 0.00 0.00 38.15 2.75
3812 10667 6.913170 TGCTTACCTTCTTTTTCATTGCTAG 58.087 36.000 0.00 0.00 0.00 3.42
3813 10668 6.071952 TGCTTACCTTCTTTTTCATTGCTAGG 60.072 38.462 0.00 0.00 0.00 3.02
3814 10669 4.790765 ACCTTCTTTTTCATTGCTAGGC 57.209 40.909 0.00 0.00 0.00 3.93
3815 10670 4.411013 ACCTTCTTTTTCATTGCTAGGCT 58.589 39.130 0.00 0.00 0.00 4.58
3816 10671 5.570320 ACCTTCTTTTTCATTGCTAGGCTA 58.430 37.500 0.00 0.00 0.00 3.93
3817 10672 5.649831 ACCTTCTTTTTCATTGCTAGGCTAG 59.350 40.000 17.33 17.33 0.00 3.42
3819 10674 6.545298 CCTTCTTTTTCATTGCTAGGCTAGAT 59.455 38.462 25.37 7.80 0.00 1.98
3827 10682 7.262990 TCATTGCTAGGCTAGATTCCATAAT 57.737 36.000 25.37 9.51 0.00 1.28
3838 10693 8.619546 GGCTAGATTCCATAATCAAAGATATGC 58.380 37.037 0.00 0.00 43.44 3.14
3843 10698 7.425577 TTCCATAATCAAAGATATGCAGTCG 57.574 36.000 0.00 0.00 0.00 4.18
3844 10699 5.934043 TCCATAATCAAAGATATGCAGTCGG 59.066 40.000 0.00 0.00 0.00 4.79
3845 10700 5.702670 CCATAATCAAAGATATGCAGTCGGT 59.297 40.000 0.00 0.00 0.00 4.69
3846 10701 6.873605 CCATAATCAAAGATATGCAGTCGGTA 59.126 38.462 0.00 0.00 0.00 4.02
3905 10761 3.996614 GCGGGTGCACCTTAATGT 58.003 55.556 33.91 0.00 42.15 2.71
3906 10762 1.506262 GCGGGTGCACCTTAATGTG 59.494 57.895 33.91 16.05 42.15 3.21
3907 10763 0.958382 GCGGGTGCACCTTAATGTGA 60.958 55.000 33.91 0.00 42.15 3.58
3908 10764 1.750193 CGGGTGCACCTTAATGTGAT 58.250 50.000 33.91 0.00 38.55 3.06
3909 10765 2.091541 CGGGTGCACCTTAATGTGATT 58.908 47.619 33.91 0.00 38.55 2.57
3910 10766 2.097466 CGGGTGCACCTTAATGTGATTC 59.903 50.000 33.91 12.61 38.55 2.52
3911 10767 3.356290 GGGTGCACCTTAATGTGATTCT 58.644 45.455 33.91 0.00 38.55 2.40
3912 10768 3.763897 GGGTGCACCTTAATGTGATTCTT 59.236 43.478 33.91 0.00 38.55 2.52
3913 10769 4.380867 GGGTGCACCTTAATGTGATTCTTG 60.381 45.833 33.91 0.00 38.55 3.02
3914 10770 4.218417 GGTGCACCTTAATGTGATTCTTGT 59.782 41.667 29.12 0.00 38.55 3.16
3915 10771 5.393962 GTGCACCTTAATGTGATTCTTGTC 58.606 41.667 14.26 0.00 38.55 3.18
3916 10772 5.048782 GTGCACCTTAATGTGATTCTTGTCA 60.049 40.000 14.26 0.00 38.55 3.58
3917 10773 5.181811 TGCACCTTAATGTGATTCTTGTCAG 59.818 40.000 14.26 0.00 38.55 3.51
3918 10774 5.182001 GCACCTTAATGTGATTCTTGTCAGT 59.818 40.000 14.26 0.00 38.55 3.41
3919 10775 6.621596 GCACCTTAATGTGATTCTTGTCAGTC 60.622 42.308 14.26 0.00 38.55 3.51
3920 10776 6.652481 CACCTTAATGTGATTCTTGTCAGTCT 59.348 38.462 5.02 0.00 38.55 3.24
3921 10777 7.819415 CACCTTAATGTGATTCTTGTCAGTCTA 59.181 37.037 5.02 0.00 38.55 2.59
3922 10778 8.375506 ACCTTAATGTGATTCTTGTCAGTCTAA 58.624 33.333 0.00 0.00 0.00 2.10
3923 10779 9.219603 CCTTAATGTGATTCTTGTCAGTCTAAA 57.780 33.333 0.00 0.00 0.00 1.85
3926 10782 8.908786 AATGTGATTCTTGTCAGTCTAAAAGA 57.091 30.769 0.00 0.00 0.00 2.52
3927 10783 7.715265 TGTGATTCTTGTCAGTCTAAAAGAC 57.285 36.000 0.00 0.00 45.38 3.01
3939 10795 5.599359 GTCTAAAAGACTTTGCACTCCTC 57.401 43.478 0.06 0.00 41.88 3.71
3940 10796 5.057149 GTCTAAAAGACTTTGCACTCCTCA 58.943 41.667 0.06 0.00 41.88 3.86
3941 10797 5.703130 GTCTAAAAGACTTTGCACTCCTCAT 59.297 40.000 0.06 0.00 41.88 2.90
3942 10798 5.934625 TCTAAAAGACTTTGCACTCCTCATC 59.065 40.000 0.06 0.00 0.00 2.92
3943 10799 2.376808 AGACTTTGCACTCCTCATCG 57.623 50.000 0.00 0.00 0.00 3.84
3944 10800 0.723981 GACTTTGCACTCCTCATCGC 59.276 55.000 0.00 0.00 0.00 4.58
3945 10801 0.035317 ACTTTGCACTCCTCATCGCA 59.965 50.000 0.00 0.00 0.00 5.10
3946 10802 1.339438 ACTTTGCACTCCTCATCGCAT 60.339 47.619 0.00 0.00 33.71 4.73
3947 10803 1.741706 CTTTGCACTCCTCATCGCATT 59.258 47.619 0.00 0.00 33.71 3.56
3948 10804 1.372582 TTGCACTCCTCATCGCATTC 58.627 50.000 0.00 0.00 33.71 2.67
3949 10805 0.462581 TGCACTCCTCATCGCATTCC 60.463 55.000 0.00 0.00 0.00 3.01
3950 10806 0.179062 GCACTCCTCATCGCATTCCT 60.179 55.000 0.00 0.00 0.00 3.36
3951 10807 1.745141 GCACTCCTCATCGCATTCCTT 60.745 52.381 0.00 0.00 0.00 3.36
3952 10808 1.938577 CACTCCTCATCGCATTCCTTG 59.061 52.381 0.00 0.00 0.00 3.61
3953 10809 1.134280 ACTCCTCATCGCATTCCTTGG 60.134 52.381 0.00 0.00 0.00 3.61
3954 10810 0.464373 TCCTCATCGCATTCCTTGGC 60.464 55.000 0.00 0.00 0.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.615850 GGCTGCACTCCTACTTTCCT 59.384 55.000 0.50 0.00 0.00 3.36
1 2 0.393132 GGGCTGCACTCCTACTTTCC 60.393 60.000 0.50 0.00 0.00 3.13
2 3 0.324943 TGGGCTGCACTCCTACTTTC 59.675 55.000 2.50 0.00 0.00 2.62
3 4 0.771127 TTGGGCTGCACTCCTACTTT 59.229 50.000 2.50 0.00 0.00 2.66
5 6 0.995024 AATTGGGCTGCACTCCTACT 59.005 50.000 2.50 0.00 0.00 2.57
6 7 1.839424 AAATTGGGCTGCACTCCTAC 58.161 50.000 2.50 0.00 0.00 3.18
7 8 2.576191 AGTAAATTGGGCTGCACTCCTA 59.424 45.455 2.50 0.00 0.00 2.94
8 9 1.355720 AGTAAATTGGGCTGCACTCCT 59.644 47.619 2.50 0.00 0.00 3.69
9 10 1.839424 AGTAAATTGGGCTGCACTCC 58.161 50.000 2.50 0.00 0.00 3.85
12 13 1.204704 GGGAAGTAAATTGGGCTGCAC 59.795 52.381 0.50 0.00 0.00 4.57
13 14 1.555967 GGGAAGTAAATTGGGCTGCA 58.444 50.000 0.50 0.00 0.00 4.41
14 15 0.455815 CGGGAAGTAAATTGGGCTGC 59.544 55.000 0.00 0.00 0.00 5.25
18 19 2.748209 ATCCCGGGAAGTAAATTGGG 57.252 50.000 30.84 0.00 38.02 4.12
20 21 7.172342 TCCATATAATCCCGGGAAGTAAATTG 58.828 38.462 30.84 18.14 0.00 2.32
67 68 1.692749 GGATGGGTGGGAGGCAGTA 60.693 63.158 0.00 0.00 0.00 2.74
78 79 0.981277 CCGTAGAAGTGGGGATGGGT 60.981 60.000 0.00 0.00 0.00 4.51
81 82 0.105039 GCTCCGTAGAAGTGGGGATG 59.895 60.000 0.00 0.00 0.00 3.51
89 90 1.550976 AGGGAAAGTGCTCCGTAGAAG 59.449 52.381 0.00 0.00 36.21 2.85
116 117 1.744741 GGAGCTGAGCAAGGTGAGC 60.745 63.158 7.39 2.47 36.52 4.26
131 132 2.361230 GGGGTTTTCTGGGCGGAG 60.361 66.667 0.00 0.00 0.00 4.63
132 133 3.179339 TGGGGTTTTCTGGGCGGA 61.179 61.111 0.00 0.00 0.00 5.54
133 134 2.676471 CTGGGGTTTTCTGGGCGG 60.676 66.667 0.00 0.00 0.00 6.13
134 135 3.373565 GCTGGGGTTTTCTGGGCG 61.374 66.667 0.00 0.00 0.00 6.13
135 136 2.997315 GGCTGGGGTTTTCTGGGC 60.997 66.667 0.00 0.00 0.00 5.36
798 857 2.176546 CACATGGCCAGAAACGCG 59.823 61.111 13.05 3.53 0.00 6.01
864 923 3.692406 GCGAGGGGGAACACGTCT 61.692 66.667 0.00 0.00 40.46 4.18
988 1047 1.493950 CTCGCCATGAACGCCTGATC 61.494 60.000 0.00 0.00 0.00 2.92
994 1053 4.505217 CGCACTCGCCATGAACGC 62.505 66.667 0.00 0.00 33.11 4.84
1098 1157 2.674380 GGCATGCCGGGATCATCC 60.674 66.667 23.48 3.92 35.23 3.51
1146 1208 0.616395 TGTACCCAGGATCAAGCGGA 60.616 55.000 0.00 0.00 0.00 5.54
1320 1394 4.862092 ATGCCGACGAGCTCGCAG 62.862 66.667 34.83 26.79 44.43 5.18
1414 1488 1.305219 CGACATGAATTGGCACGGGT 61.305 55.000 0.00 0.00 29.94 5.28
1592 1666 3.614092 AGACCATCACCAGCAACATTAG 58.386 45.455 0.00 0.00 0.00 1.73
1604 1678 2.094286 CCACTGAGACTGAGACCATCAC 60.094 54.545 0.00 0.00 33.22 3.06
1670 1768 4.393371 TCTCGTCCTCTATATCATCTTGCG 59.607 45.833 0.00 0.00 0.00 4.85
1682 1780 1.309950 CAGCGGAATCTCGTCCTCTA 58.690 55.000 0.00 0.00 30.77 2.43
1755 1866 3.118920 TCTCGCCATCTTCCAAAATACGA 60.119 43.478 0.00 0.00 0.00 3.43
1756 1867 3.001330 GTCTCGCCATCTTCCAAAATACG 59.999 47.826 0.00 0.00 0.00 3.06
1757 1868 3.938963 TGTCTCGCCATCTTCCAAAATAC 59.061 43.478 0.00 0.00 0.00 1.89
1794 1905 3.383761 CACCAAATCAGACAAAACTGCC 58.616 45.455 0.00 0.00 37.75 4.85
1795 1906 3.383761 CCACCAAATCAGACAAAACTGC 58.616 45.455 0.00 0.00 37.75 4.40
1797 1908 3.030291 TGCCACCAAATCAGACAAAACT 58.970 40.909 0.00 0.00 0.00 2.66
1800 1911 2.224018 GCTTGCCACCAAATCAGACAAA 60.224 45.455 0.00 0.00 0.00 2.83
1801 1912 1.340889 GCTTGCCACCAAATCAGACAA 59.659 47.619 0.00 0.00 0.00 3.18
1802 1913 0.961019 GCTTGCCACCAAATCAGACA 59.039 50.000 0.00 0.00 0.00 3.41
1804 1915 1.243342 CGGCTTGCCACCAAATCAGA 61.243 55.000 12.45 0.00 0.00 3.27
1805 1916 1.213537 CGGCTTGCCACCAAATCAG 59.786 57.895 12.45 0.00 0.00 2.90
1806 1917 2.274645 CCGGCTTGCCACCAAATCA 61.275 57.895 12.45 0.00 0.00 2.57
1816 1927 0.526211 CCTTTTCTTACCCGGCTTGC 59.474 55.000 0.00 0.00 0.00 4.01
1821 1932 2.232208 ACGTCTACCTTTTCTTACCCGG 59.768 50.000 0.00 0.00 0.00 5.73
1822 1933 3.582714 ACGTCTACCTTTTCTTACCCG 57.417 47.619 0.00 0.00 0.00 5.28
1826 1937 7.836183 AGATTACCCTACGTCTACCTTTTCTTA 59.164 37.037 0.00 0.00 0.00 2.10
1828 1939 6.193504 AGATTACCCTACGTCTACCTTTTCT 58.806 40.000 0.00 0.00 0.00 2.52
1847 1958 4.214119 GCTCAGCAACTTTGTGTGAGATTA 59.786 41.667 19.62 0.00 40.67 1.75
1851 1962 1.672363 TGCTCAGCAACTTTGTGTGAG 59.328 47.619 0.00 14.50 40.92 3.51
1870 1981 2.163815 CCTCTGAATCAGGCAAAGCTTG 59.836 50.000 10.71 0.00 36.97 4.01
1879 1990 2.490903 CCAAAACTGCCTCTGAATCAGG 59.509 50.000 10.71 0.00 32.42 3.86
1885 1996 1.490490 ACTCACCAAAACTGCCTCTGA 59.510 47.619 0.00 0.00 0.00 3.27
1907 2018 6.094719 CCACACAATGGTTTATGATCAACTG 58.905 40.000 0.00 0.00 44.46 3.16
1971 2082 2.215196 TCACACGTAAAAACAGAGGCC 58.785 47.619 0.00 0.00 0.00 5.19
1973 2084 4.988540 TCTCATCACACGTAAAAACAGAGG 59.011 41.667 0.00 0.00 0.00 3.69
1977 2088 6.912203 TTCTTCTCATCACACGTAAAAACA 57.088 33.333 0.00 0.00 0.00 2.83
1981 2092 6.220201 TGACATTCTTCTCATCACACGTAAA 58.780 36.000 0.00 0.00 0.00 2.01
2002 2113 4.130118 ACTTCACCATGTTCTGAACTGAC 58.870 43.478 20.18 0.00 0.00 3.51
2036 2147 1.800586 CTTTGTTGCTTCTAGCGCTCA 59.199 47.619 16.34 1.18 46.26 4.26
2120 2231 9.573166 TTCCGAATATTTCATCCAACTCATTAT 57.427 29.630 0.00 0.00 0.00 1.28
2143 2254 0.241213 GTTGCCTCGCTTTCCTTTCC 59.759 55.000 0.00 0.00 0.00 3.13
2151 2262 0.675633 AAATTGCAGTTGCCTCGCTT 59.324 45.000 0.00 0.00 41.18 4.68
2160 2271 9.941325 TTTGATAATTCCATACAAATTGCAGTT 57.059 25.926 0.00 0.00 0.00 3.16
2162 2273 9.590451 ACTTTGATAATTCCATACAAATTGCAG 57.410 29.630 0.00 0.00 31.69 4.41
2181 2292 6.064846 GATGTTGCCATCGATAACTTTGAT 57.935 37.500 10.13 0.00 38.28 2.57
2409 2566 5.541868 TCTGATCTCCCTCTTCCATTACATC 59.458 44.000 0.00 0.00 0.00 3.06
2460 2617 7.814587 AGCTATTTCATTACCTTTGAAAACAGC 59.185 33.333 18.59 18.59 43.94 4.40
2486 2652 7.997223 AGATATGAGGCTGAGAAATTTTCATGA 59.003 33.333 11.53 0.00 0.00 3.07
2517 2683 0.992802 CAGGCTTTAAGCGACTCGAC 59.007 55.000 11.03 0.00 43.62 4.20
2519 2685 2.273370 TACAGGCTTTAAGCGACTCG 57.727 50.000 11.03 0.00 43.62 4.18
2565 2731 9.270640 GTGACAGATTCATCAATTCTTAGCTAT 57.729 33.333 0.00 0.00 36.32 2.97
2566 2732 8.260114 TGTGACAGATTCATCAATTCTTAGCTA 58.740 33.333 0.00 0.00 36.32 3.32
2567 2733 7.108194 TGTGACAGATTCATCAATTCTTAGCT 58.892 34.615 0.00 0.00 36.32 3.32
2568 2734 7.312657 TGTGACAGATTCATCAATTCTTAGC 57.687 36.000 0.00 0.00 36.32 3.09
2569 2735 8.724229 TGTTGTGACAGATTCATCAATTCTTAG 58.276 33.333 0.00 0.00 36.32 2.18
2570 2736 8.620116 TGTTGTGACAGATTCATCAATTCTTA 57.380 30.769 0.00 0.00 36.32 2.10
2647 2814 9.521841 TTCCATATACTAGACCACTAGAAGATG 57.478 37.037 10.60 9.32 46.34 2.90
2651 2818 9.877222 TCATTTCCATATACTAGACCACTAGAA 57.123 33.333 10.60 0.00 46.34 2.10
2656 2826 9.209175 GTTCATCATTTCCATATACTAGACCAC 57.791 37.037 0.00 0.00 0.00 4.16
2676 2846 7.821846 AGAAATTACTCTCTTGACCAGTTCATC 59.178 37.037 0.00 0.00 32.84 2.92
2816 2986 4.372656 CCTCTCTAATCATTTCCGGTGTC 58.627 47.826 0.00 0.00 0.00 3.67
2820 2990 2.224066 ACGCCTCTCTAATCATTTCCGG 60.224 50.000 0.00 0.00 0.00 5.14
2889 9666 3.498397 GCGACAATTTCTTCCTTGAGACA 59.502 43.478 0.00 0.00 0.00 3.41
2901 9678 2.348032 GCATCTCTAGCGCGACAATTTC 60.348 50.000 12.10 0.00 0.00 2.17
2904 9681 0.103026 TGCATCTCTAGCGCGACAAT 59.897 50.000 12.10 0.00 33.85 2.71
2928 9705 2.005370 TTAGACGTTGTCCTGTCCCT 57.995 50.000 0.00 0.00 35.71 4.20
3044 9837 9.905713 AATTAGCTAATGAAGGTCATTTCACTA 57.094 29.630 19.53 6.15 44.03 2.74
3055 9848 4.811024 TCGCTCACAATTAGCTAATGAAGG 59.189 41.667 19.53 11.77 37.85 3.46
3062 9855 5.348724 CAGTTTCTTCGCTCACAATTAGCTA 59.651 40.000 0.00 0.00 37.85 3.32
3076 9877 1.221466 TGAGTGCCGCAGTTTCTTCG 61.221 55.000 1.33 0.00 0.00 3.79
3094 9895 9.658799 CATATAATTAGAGTCTAATGGGGTGTG 57.341 37.037 23.08 14.22 0.00 3.82
3170 9987 9.203421 TCATATATACTATCAAACAAACCAGCG 57.797 33.333 0.00 0.00 0.00 5.18
3195 10015 2.288666 TGCGAAGATTGCATAGGGTTC 58.711 47.619 0.00 0.00 37.44 3.62
3213 10033 5.718649 TCGTCAAGTTGATAGCTTAATGC 57.281 39.130 9.18 0.00 43.29 3.56
3228 10048 5.567154 CGCATATCTGTATCTCTTCGTCAAG 59.433 44.000 0.00 0.00 0.00 3.02
3279 10101 1.066136 GGTAGAAACGGAACAGTCGC 58.934 55.000 0.00 0.00 0.00 5.19
3280 10102 2.719426 AGGTAGAAACGGAACAGTCG 57.281 50.000 0.00 0.00 0.00 4.18
3281 10103 6.318396 AGAGTATAGGTAGAAACGGAACAGTC 59.682 42.308 0.00 0.00 0.00 3.51
3285 10108 6.977502 GGAAAGAGTATAGGTAGAAACGGAAC 59.022 42.308 0.00 0.00 0.00 3.62
3341 10164 3.012518 AGCAGTCTGTGTCCAAATATGC 58.987 45.455 0.93 0.00 0.00 3.14
3394 10228 8.475639 TCCAATGAGTTTATGTCTAGTAGGTTC 58.524 37.037 0.00 0.00 0.00 3.62
3429 10264 4.475016 ACTGTTGAGCCCTTATTACCTGAT 59.525 41.667 0.00 0.00 0.00 2.90
3434 10269 5.105064 TGACCTACTGTTGAGCCCTTATTAC 60.105 44.000 0.00 0.00 0.00 1.89
3444 10279 4.281182 ACCTGTTACTGACCTACTGTTGAG 59.719 45.833 0.00 0.00 33.04 3.02
3449 10284 4.315803 CCAAACCTGTTACTGACCTACTG 58.684 47.826 0.00 0.00 0.00 2.74
3450 10285 3.326880 CCCAAACCTGTTACTGACCTACT 59.673 47.826 0.00 0.00 0.00 2.57
3451 10286 3.325716 TCCCAAACCTGTTACTGACCTAC 59.674 47.826 0.00 0.00 0.00 3.18
3452 10287 3.589641 TCCCAAACCTGTTACTGACCTA 58.410 45.455 0.00 0.00 0.00 3.08
3453 10288 2.414612 TCCCAAACCTGTTACTGACCT 58.585 47.619 0.00 0.00 0.00 3.85
3454 10289 2.943036 TCCCAAACCTGTTACTGACC 57.057 50.000 0.00 0.00 0.00 4.02
3455 10290 3.502211 CACATCCCAAACCTGTTACTGAC 59.498 47.826 0.00 0.00 0.00 3.51
3456 10291 3.497763 CCACATCCCAAACCTGTTACTGA 60.498 47.826 0.00 0.00 0.00 3.41
3466 10301 5.975693 TTTCAACTATCCACATCCCAAAC 57.024 39.130 0.00 0.00 0.00 2.93
3529 10367 6.072286 GCTGATATGTTCATTTGTATCTGGGG 60.072 42.308 0.00 0.00 32.72 4.96
3540 10378 7.129457 TGAAGTAGAGGCTGATATGTTCATT 57.871 36.000 0.00 0.00 32.72 2.57
3543 10381 6.520272 ACATGAAGTAGAGGCTGATATGTTC 58.480 40.000 0.00 0.00 0.00 3.18
3664 10512 3.487372 ACCTTTTGCTAGTTCCTCAACC 58.513 45.455 0.00 0.00 32.22 3.77
3701 10549 4.743151 GTCATTGGCATGCTCAATGTATTG 59.257 41.667 35.17 23.96 46.73 1.90
3708 10556 2.953648 CCATAGTCATTGGCATGCTCAA 59.046 45.455 18.92 19.25 0.00 3.02
3710 10558 2.551459 GTCCATAGTCATTGGCATGCTC 59.449 50.000 18.92 8.46 34.06 4.26
3713 10561 3.281158 TGTGTCCATAGTCATTGGCATG 58.719 45.455 0.00 0.00 34.06 4.06
3726 10574 4.384056 CAGTTCTGAACTTCTGTGTCCAT 58.616 43.478 19.89 0.00 40.46 3.41
3740 10588 7.174772 TGCATAAATAACTTTGAGCAGTTCTGA 59.825 33.333 3.84 0.00 38.07 3.27
3744 10592 7.391554 TCTCTGCATAAATAACTTTGAGCAGTT 59.608 33.333 17.85 0.00 44.81 3.16
3758 10606 7.069702 TCAGAAGATCTGTCTCTCTGCATAAAT 59.930 37.037 14.14 0.00 44.58 1.40
3779 10627 7.502226 TGAAAAAGAAGGTAAGCATTCTCAGAA 59.498 33.333 0.00 0.00 43.88 3.02
3789 10644 6.325596 CCTAGCAATGAAAAAGAAGGTAAGC 58.674 40.000 0.00 0.00 0.00 3.09
3794 10649 5.882557 TCTAGCCTAGCAATGAAAAAGAAGG 59.117 40.000 0.00 0.00 0.00 3.46
3812 10667 8.619546 GCATATCTTTGATTATGGAATCTAGCC 58.380 37.037 0.00 0.00 41.87 3.93
3813 10668 9.170734 TGCATATCTTTGATTATGGAATCTAGC 57.829 33.333 0.00 0.00 41.87 3.42
3816 10671 9.228949 GACTGCATATCTTTGATTATGGAATCT 57.771 33.333 0.00 0.00 41.87 2.40
3817 10672 8.173775 CGACTGCATATCTTTGATTATGGAATC 58.826 37.037 0.00 0.00 41.72 2.52
3819 10674 6.427853 CCGACTGCATATCTTTGATTATGGAA 59.572 38.462 0.00 0.00 0.00 3.53
3827 10682 3.717707 GCTACCGACTGCATATCTTTGA 58.282 45.455 0.00 0.00 0.00 2.69
3838 10693 0.739462 TTGATTGGCGCTACCGACTG 60.739 55.000 7.64 0.00 44.77 3.51
3841 10696 2.831685 ATATTGATTGGCGCTACCGA 57.168 45.000 7.64 0.00 43.94 4.69
3843 10698 5.468746 TGAGTAAATATTGATTGGCGCTACC 59.531 40.000 7.64 0.00 39.84 3.18
3844 10699 6.363473 GTGAGTAAATATTGATTGGCGCTAC 58.637 40.000 7.64 0.00 0.00 3.58
3845 10700 5.468746 GGTGAGTAAATATTGATTGGCGCTA 59.531 40.000 7.64 0.00 0.00 4.26
3846 10701 4.275936 GGTGAGTAAATATTGATTGGCGCT 59.724 41.667 7.64 0.00 0.00 5.92
3888 10744 0.958382 TCACATTAAGGTGCACCCGC 60.958 55.000 32.29 7.97 38.66 6.13
3889 10745 1.750193 ATCACATTAAGGTGCACCCG 58.250 50.000 32.29 17.41 38.66 5.28
3890 10746 3.356290 AGAATCACATTAAGGTGCACCC 58.644 45.455 32.29 14.56 38.66 4.61
3891 10747 4.218417 ACAAGAATCACATTAAGGTGCACC 59.782 41.667 29.22 29.22 38.66 5.01
3892 10748 5.048782 TGACAAGAATCACATTAAGGTGCAC 60.049 40.000 15.24 8.80 38.66 4.57
3893 10749 5.069318 TGACAAGAATCACATTAAGGTGCA 58.931 37.500 15.24 5.27 38.66 4.57
3894 10750 5.182001 ACTGACAAGAATCACATTAAGGTGC 59.818 40.000 15.24 2.03 38.66 5.01
3895 10751 6.652481 AGACTGACAAGAATCACATTAAGGTG 59.348 38.462 13.96 13.96 40.16 4.00
3896 10752 6.773638 AGACTGACAAGAATCACATTAAGGT 58.226 36.000 0.00 0.00 0.00 3.50
3897 10753 8.777865 TTAGACTGACAAGAATCACATTAAGG 57.222 34.615 0.00 0.00 0.00 2.69
3900 10756 9.996554 TCTTTTAGACTGACAAGAATCACATTA 57.003 29.630 0.00 0.00 0.00 1.90
3901 10757 8.778358 GTCTTTTAGACTGACAAGAATCACATT 58.222 33.333 0.00 0.00 41.88 2.71
3902 10758 8.316640 GTCTTTTAGACTGACAAGAATCACAT 57.683 34.615 0.00 0.00 41.88 3.21
3903 10759 7.715265 GTCTTTTAGACTGACAAGAATCACA 57.285 36.000 0.00 0.00 41.88 3.58
3917 10773 5.057149 TGAGGAGTGCAAAGTCTTTTAGAC 58.943 41.667 0.00 0.00 45.38 2.59
3918 10774 5.290493 TGAGGAGTGCAAAGTCTTTTAGA 57.710 39.130 0.00 0.00 0.00 2.10
3919 10775 5.163913 CGATGAGGAGTGCAAAGTCTTTTAG 60.164 44.000 0.00 0.00 0.00 1.85
3920 10776 4.690748 CGATGAGGAGTGCAAAGTCTTTTA 59.309 41.667 0.00 0.00 0.00 1.52
3921 10777 3.499918 CGATGAGGAGTGCAAAGTCTTTT 59.500 43.478 0.00 0.00 0.00 2.27
3922 10778 3.070018 CGATGAGGAGTGCAAAGTCTTT 58.930 45.455 0.00 0.00 0.00 2.52
3923 10779 2.693069 CGATGAGGAGTGCAAAGTCTT 58.307 47.619 0.00 0.00 0.00 3.01
3924 10780 1.674221 GCGATGAGGAGTGCAAAGTCT 60.674 52.381 0.00 0.00 0.00 3.24
3925 10781 0.723981 GCGATGAGGAGTGCAAAGTC 59.276 55.000 0.00 0.00 0.00 3.01
3926 10782 0.035317 TGCGATGAGGAGTGCAAAGT 59.965 50.000 0.00 0.00 33.80 2.66
3927 10783 1.376543 ATGCGATGAGGAGTGCAAAG 58.623 50.000 0.00 0.00 41.22 2.77
3928 10784 1.739466 GAATGCGATGAGGAGTGCAAA 59.261 47.619 0.00 0.00 41.22 3.68
3929 10785 1.372582 GAATGCGATGAGGAGTGCAA 58.627 50.000 0.00 0.00 41.22 4.08
3930 10786 0.462581 GGAATGCGATGAGGAGTGCA 60.463 55.000 0.00 0.00 42.22 4.57
3931 10787 0.179062 AGGAATGCGATGAGGAGTGC 60.179 55.000 0.00 0.00 0.00 4.40
3932 10788 1.938577 CAAGGAATGCGATGAGGAGTG 59.061 52.381 0.00 0.00 0.00 3.51
3933 10789 1.134280 CCAAGGAATGCGATGAGGAGT 60.134 52.381 0.00 0.00 0.00 3.85
3934 10790 1.590932 CCAAGGAATGCGATGAGGAG 58.409 55.000 0.00 0.00 0.00 3.69
3935 10791 0.464373 GCCAAGGAATGCGATGAGGA 60.464 55.000 0.00 0.00 0.00 3.71
3936 10792 2.028130 GCCAAGGAATGCGATGAGG 58.972 57.895 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.