Multiple sequence alignment - TraesCS3D01G347500

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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 TraesCS3D01G347500 chr3D 100.000 2150 0 0 1 2150 459161013 459158864 0.000000e+00 3971.0
1 TraesCS3D01G347500 chr3D 86.685 368 32 12 279 636 459195587 459195227 2.000000e-105 392.0
2 TraesCS3D01G347500 chr3D 82.526 475 28 29 683 1151 459195151 459194726 1.210000e-97 366.0
3 TraesCS3D01G347500 chr3D 100.000 29 0 0 1456 1484 459194347 459194319 1.000000e-03 54.7
4 TraesCS3D01G347500 chr3A 85.276 1107 98 31 86 1153 601381582 601380502 0.000000e+00 1081.0
5 TraesCS3D01G347500 chr3A 89.929 705 48 9 1163 1858 601374334 601373644 0.000000e+00 887.0
6 TraesCS3D01G347500 chr3A 94.737 171 9 0 983 1153 601374568 601374398 1.270000e-67 267.0
7 TraesCS3D01G347500 chr3A 88.739 222 18 4 542 757 601375084 601374864 4.550000e-67 265.0
8 TraesCS3D01G347500 chr3A 83.946 299 17 17 858 1151 601386366 601386094 7.610000e-65 257.0
9 TraesCS3D01G347500 chr3A 91.713 181 8 1 1594 1774 601379764 601379591 5.930000e-61 244.0
10 TraesCS3D01G347500 chr3A 95.455 132 5 1 1872 2003 601379528 601379398 2.160000e-50 209.0
11 TraesCS3D01G347500 chr3A 91.275 149 9 2 1856 2003 601373404 601373259 1.300000e-47 200.0
12 TraesCS3D01G347500 chr3A 89.865 148 12 1 1410 1557 601380298 601380154 1.010000e-43 187.0
13 TraesCS3D01G347500 chr3A 87.037 108 9 2 1265 1367 601380408 601380301 1.350000e-22 117.0
14 TraesCS3D01G347500 chr3A 95.122 41 2 0 52 92 601382043 601382003 4.950000e-07 65.8
15 TraesCS3D01G347500 chr3A 97.222 36 1 0 1556 1591 601380124 601380089 6.410000e-06 62.1
16 TraesCS3D01G347500 chr3A 100.000 29 0 0 1456 1484 601385722 601385694 1.000000e-03 54.7
17 TraesCS3D01G347500 chr3B 84.230 1059 74 33 117 1153 606421767 606420780 0.000000e+00 944.0
18 TraesCS3D01G347500 chr3B 94.476 525 22 3 1163 1680 606420712 606420188 0.000000e+00 802.0
19 TraesCS3D01G347500 chr3B 84.962 532 28 25 637 1151 606559157 606558661 1.920000e-135 492.0
20 TraesCS3D01G347500 chr3B 85.399 363 29 17 279 636 606559531 606559188 2.620000e-94 355.0
21 TraesCS3D01G347500 chr3B 94.382 178 10 0 1740 1917 606419100 606418923 7.560000e-70 274.0
22 TraesCS3D01G347500 chr3B 93.548 93 6 0 1911 2003 606381307 606381215 2.880000e-29 139.0
23 TraesCS3D01G347500 chr2D 93.706 143 3 4 2001 2143 433209427 433209291 2.160000e-50 209.0
24 TraesCS3D01G347500 chrUn 93.617 141 3 4 2003 2143 27167037 27166903 2.800000e-49 206.0
25 TraesCS3D01G347500 chrUn 93.617 141 3 4 2003 2143 27172502 27172368 2.800000e-49 206.0
26 TraesCS3D01G347500 chrUn 93.617 141 3 4 2003 2143 27177967 27177833 2.800000e-49 206.0
27 TraesCS3D01G347500 chrUn 93.617 141 3 4 2003 2143 377305831 377305965 2.800000e-49 206.0
28 TraesCS3D01G347500 chr6D 93.617 141 3 4 2003 2143 58738803 58738669 2.800000e-49 206.0
29 TraesCS3D01G347500 chr6D 93.617 141 3 4 2003 2143 100507449 100507583 2.800000e-49 206.0
30 TraesCS3D01G347500 chr6D 93.617 141 3 4 2003 2143 100513159 100513293 2.800000e-49 206.0
31 TraesCS3D01G347500 chr4D 92.568 148 4 5 1996 2143 46618924 46618784 2.800000e-49 206.0


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 TraesCS3D01G347500 chr3D 459158864 459161013 2149 True 3971.000000 3971 100.000000 1 2150 1 chr3D.!!$R1 2149
1 TraesCS3D01G347500 chr3D 459194319 459195587 1268 True 270.900000 392 89.737000 279 1484 3 chr3D.!!$R2 1205
2 TraesCS3D01G347500 chr3A 601373259 601375084 1825 True 404.750000 887 91.170000 542 2003 4 chr3A.!!$R1 1461
3 TraesCS3D01G347500 chr3A 601379398 601386366 6968 True 253.066667 1081 91.737333 52 2003 9 chr3A.!!$R2 1951
4 TraesCS3D01G347500 chr3B 606418923 606421767 2844 True 673.333333 944 91.029333 117 1917 3 chr3B.!!$R2 1800
5 TraesCS3D01G347500 chr3B 606558661 606559531 870 True 423.500000 492 85.180500 279 1151 2 chr3B.!!$R3 872

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
655 5409 0.035056 CCTTCACGGATGCTTCCCTT 60.035 55.0 12.77 0.0 39.01 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2115 8903 0.18135 CTCCTCTTCCATTTCCGGGG 59.819 60.0 0.0 0.0 0.0 5.73 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
37 38 8.519492 AATAATTATGTCCATATTGCGTTTGC 57.481 30.769 0.00 0.00 43.20 3.68
49 50 0.994263 GCGTTTGCATTCCTGATTGC 59.006 50.000 6.99 6.99 42.15 3.56
50 51 1.403249 GCGTTTGCATTCCTGATTGCT 60.403 47.619 13.33 0.00 42.15 3.91
52 53 2.613691 GTTTGCATTCCTGATTGCTGG 58.386 47.619 13.33 0.00 38.22 4.85
53 54 2.219080 TTGCATTCCTGATTGCTGGA 57.781 45.000 13.33 0.00 40.00 3.86
54 55 1.758936 TGCATTCCTGATTGCTGGAG 58.241 50.000 13.33 0.00 42.24 3.86
55 56 0.384669 GCATTCCTGATTGCTGGAGC 59.615 55.000 6.74 0.00 42.24 4.70
83 4356 6.476706 AGCAAGCAAAAGCAGTTTAGTAAAAG 59.523 34.615 0.00 0.00 0.00 2.27
84 4357 6.292328 GCAAGCAAAAGCAGTTTAGTAAAAGG 60.292 38.462 0.00 0.00 0.00 3.11
95 4795 9.833917 GCAGTTTAGTAAAAGGTAATCTATCCT 57.166 33.333 0.00 0.00 35.34 3.24
105 4805 9.780186 AAAAGGTAATCTATCCTAGTACATTGC 57.220 33.333 0.00 0.00 33.27 3.56
108 4808 7.512746 AGGTAATCTATCCTAGTACATTGCCAA 59.487 37.037 0.00 0.00 30.15 4.52
172 4872 4.704540 CCCACATTCATGCCTTTTACACTA 59.295 41.667 0.00 0.00 0.00 2.74
203 4906 7.648908 CGTATATAAAACACACGTATTCCCTCA 59.351 37.037 0.00 0.00 0.00 3.86
215 4918 7.548075 ACACGTATTCCCTCAGTAAACAAATAG 59.452 37.037 0.00 0.00 0.00 1.73
216 4919 7.548075 CACGTATTCCCTCAGTAAACAAATAGT 59.452 37.037 0.00 0.00 0.00 2.12
218 4921 9.760077 CGTATTCCCTCAGTAAACAAATAGTAT 57.240 33.333 0.00 0.00 0.00 2.12
252 4955 7.009540 ACGTACTAATTTACATGTAAGAACCGC 59.990 37.037 17.36 7.05 0.00 5.68
263 4966 4.258543 TGTAAGAACCGCAAATCTTAGGG 58.741 43.478 3.16 0.00 38.46 3.53
268 4972 1.353022 ACCGCAAATCTTAGGGTTCCA 59.647 47.619 0.00 0.00 0.00 3.53
273 4977 3.007635 CAAATCTTAGGGTTCCACGACC 58.992 50.000 0.00 0.00 39.04 4.79
311 5015 0.394938 TACTGCCAACCACGTGACAT 59.605 50.000 19.30 0.00 0.00 3.06
337 5041 3.554960 CGAGGGCGATGAATAATCTGGAA 60.555 47.826 0.00 0.00 40.82 3.53
374 5080 2.600731 TGTTTTGTTTTGTCACCAGCG 58.399 42.857 0.00 0.00 0.00 5.18
393 5099 2.486548 GCGATAAACCCTTGGCTGGATA 60.487 50.000 0.00 0.00 0.00 2.59
418 5132 2.691011 TGTTTGTTCCCACCACTTTAGC 59.309 45.455 0.00 0.00 0.00 3.09
430 5146 2.812011 CCACTTTAGCTGTGTAACCACC 59.188 50.000 0.00 0.00 41.09 4.61
436 5152 0.390735 GCTGTGTAACCACCGGTAGG 60.391 60.000 6.87 14.35 41.09 3.18
465 5181 4.408182 TGCTAGATCTGCTTTAGGTTCC 57.592 45.455 5.18 0.00 0.00 3.62
470 5186 4.100373 AGATCTGCTTTAGGTTCCTCAGT 58.900 43.478 0.00 0.00 0.00 3.41
520 5236 3.996150 ACTCAAAAGCATGTCCACTTG 57.004 42.857 0.00 0.00 0.00 3.16
531 5248 2.294074 TGTCCACTTGGCACTAACAAC 58.706 47.619 0.00 0.00 34.44 3.32
537 5254 4.759693 CCACTTGGCACTAACAACAGATTA 59.240 41.667 0.00 0.00 0.00 1.75
623 5343 9.209175 GTCTAATCTAATTGCCACGAGATTAAT 57.791 33.333 7.27 0.00 39.31 1.40
632 5352 2.398498 CACGAGATTAATCGCTCCCTG 58.602 52.381 15.87 4.06 46.60 4.45
655 5409 0.035056 CCTTCACGGATGCTTCCCTT 60.035 55.000 12.77 0.00 39.01 3.95
723 5495 1.000060 CACCCACAACAGGAGCAAATG 60.000 52.381 0.00 0.00 0.00 2.32
795 5721 2.517650 GCAGATGCAGGGAGTACTAC 57.482 55.000 0.00 0.00 41.59 2.73
796 5722 1.757118 GCAGATGCAGGGAGTACTACA 59.243 52.381 7.57 0.00 41.59 2.74
797 5723 2.482142 GCAGATGCAGGGAGTACTACAC 60.482 54.545 7.57 0.00 41.59 2.90
798 5724 3.027412 CAGATGCAGGGAGTACTACACT 58.973 50.000 7.57 0.00 41.47 3.55
799 5725 4.207955 CAGATGCAGGGAGTACTACACTA 58.792 47.826 7.57 0.00 37.72 2.74
809 5735 8.362639 CAGGGAGTACTACACTAGTAAACAAAA 58.637 37.037 7.57 0.00 42.45 2.44
833 5759 0.039256 ACGCGCAACCTAACTAACGA 60.039 50.000 5.73 0.00 0.00 3.85
902 5828 0.038166 TCCATCCACAAACCAGCTCC 59.962 55.000 0.00 0.00 0.00 4.70
921 5852 2.192861 CGCCTTCCCTGCAACACAA 61.193 57.895 0.00 0.00 0.00 3.33
922 5853 1.662044 GCCTTCCCTGCAACACAAG 59.338 57.895 0.00 0.00 0.00 3.16
923 5854 1.662044 CCTTCCCTGCAACACAAGC 59.338 57.895 0.00 0.00 0.00 4.01
924 5855 0.825010 CCTTCCCTGCAACACAAGCT 60.825 55.000 0.00 0.00 0.00 3.74
931 5862 0.465278 TGCAACACAAGCTAGCCACA 60.465 50.000 12.13 0.00 0.00 4.17
971 5902 0.257616 AGAGGAGGAGGAGGAAGACG 59.742 60.000 0.00 0.00 0.00 4.18
1046 5983 1.874562 GCAGCAGCAACAAGGAGAG 59.125 57.895 0.00 0.00 41.58 3.20
1053 5990 1.078848 CAACAAGGAGAGGAGGCCG 60.079 63.158 0.00 0.00 0.00 6.13
1093 6030 3.694058 AAGCTGCAGATCGCCAGGG 62.694 63.158 20.43 0.00 41.33 4.45
1155 6092 3.196939 AGCTTCAGAAGATGATGGAGC 57.803 47.619 14.86 0.00 38.88 4.70
1161 6159 2.879026 CAGAAGATGATGGAGCATGGTG 59.121 50.000 0.00 0.00 0.00 4.17
1176 6174 0.182299 TGGTGTGGTGCTTGATGTGA 59.818 50.000 0.00 0.00 0.00 3.58
1181 6179 2.221169 GTGGTGCTTGATGTGAACAGA 58.779 47.619 0.00 0.00 0.00 3.41
1194 6197 2.481952 GTGAACAGAGATTGTGCAGGTC 59.518 50.000 0.00 0.00 46.18 3.85
1242 6246 5.008613 TGTGCTTCTAATTTGTGTCCAGTTC 59.991 40.000 0.00 0.00 0.00 3.01
1406 6415 7.552687 CACTGTAGCTTCTAATGGGAATTACAA 59.447 37.037 0.00 0.00 31.40 2.41
1408 6417 8.677148 TGTAGCTTCTAATGGGAATTACAATC 57.323 34.615 0.00 0.00 30.10 2.67
1487 6551 6.219473 TCTGAAGTCTCTGAACTGAATGAAC 58.781 40.000 0.00 0.00 0.00 3.18
1489 6553 6.348498 TGAAGTCTCTGAACTGAATGAACAA 58.652 36.000 0.00 0.00 0.00 2.83
1551 6615 3.649986 AGTTTGCCTGACGCGTGC 61.650 61.111 20.70 15.82 42.08 5.34
1658 7075 2.949451 ACGTTATCCTGAGAGTGCTG 57.051 50.000 0.00 0.00 0.00 4.41
1693 7129 1.802960 CCGGCATGTCTATCTTGCATC 59.197 52.381 0.00 0.00 45.28 3.91
1697 7133 4.582869 GGCATGTCTATCTTGCATCCATA 58.417 43.478 0.00 0.00 45.28 2.74
1698 7134 4.394300 GGCATGTCTATCTTGCATCCATAC 59.606 45.833 0.00 0.00 45.28 2.39
1739 7182 4.640771 TTGATGTTCCTAGGTGCTTCTT 57.359 40.909 9.08 0.00 0.00 2.52
1740 7183 5.755409 TTGATGTTCCTAGGTGCTTCTTA 57.245 39.130 9.08 1.92 0.00 2.10
1741 7184 5.755409 TGATGTTCCTAGGTGCTTCTTAA 57.245 39.130 9.08 0.00 0.00 1.85
1742 7185 6.313519 TGATGTTCCTAGGTGCTTCTTAAT 57.686 37.500 9.08 0.00 0.00 1.40
1743 7186 6.721318 TGATGTTCCTAGGTGCTTCTTAATT 58.279 36.000 9.08 0.00 0.00 1.40
1744 7187 6.823689 TGATGTTCCTAGGTGCTTCTTAATTC 59.176 38.462 9.08 0.00 0.00 2.17
1745 7188 6.374417 TGTTCCTAGGTGCTTCTTAATTCT 57.626 37.500 9.08 0.00 0.00 2.40
1788 8287 0.673644 AGACGATGTTTGAAGGCCGG 60.674 55.000 0.00 0.00 0.00 6.13
1789 8288 0.672401 GACGATGTTTGAAGGCCGGA 60.672 55.000 5.05 0.00 0.00 5.14
1800 8299 1.535896 GAAGGCCGGACAAAGAAAGAC 59.464 52.381 11.69 0.00 0.00 3.01
1919 8707 5.007724 CAGAGGGAACTACAAAACTGTCAAC 59.992 44.000 0.00 0.00 44.43 3.18
1994 8782 0.806868 CAAACTGCGATGCCACAGAT 59.193 50.000 0.00 0.00 37.35 2.90
2003 8791 2.098607 CGATGCCACAGATCAGCATTTT 59.901 45.455 12.06 0.00 46.81 1.82
2004 8792 3.444916 GATGCCACAGATCAGCATTTTG 58.555 45.455 12.06 0.00 46.81 2.44
2005 8793 1.067425 TGCCACAGATCAGCATTTTGC 60.067 47.619 0.00 0.00 45.46 3.68
2020 8808 5.864986 GCATTTTGCTGAAATTTGAGATGG 58.135 37.500 9.00 0.00 40.96 3.51
2021 8809 5.163794 GCATTTTGCTGAAATTTGAGATGGG 60.164 40.000 9.00 0.00 40.96 4.00
2022 8810 3.598019 TTGCTGAAATTTGAGATGGGC 57.402 42.857 9.00 0.00 0.00 5.36
2023 8811 2.811410 TGCTGAAATTTGAGATGGGCT 58.189 42.857 9.00 0.00 0.00 5.19
2024 8812 2.756760 TGCTGAAATTTGAGATGGGCTC 59.243 45.455 9.00 0.00 44.21 4.70
2025 8813 3.022406 GCTGAAATTTGAGATGGGCTCT 58.978 45.455 9.00 0.00 44.27 4.09
2026 8814 4.202441 GCTGAAATTTGAGATGGGCTCTA 58.798 43.478 9.00 0.00 44.27 2.43
2027 8815 4.275443 GCTGAAATTTGAGATGGGCTCTAG 59.725 45.833 9.00 0.00 44.27 2.43
2028 8816 4.785301 TGAAATTTGAGATGGGCTCTAGG 58.215 43.478 0.00 0.00 44.27 3.02
2029 8817 2.947127 ATTTGAGATGGGCTCTAGGC 57.053 50.000 0.00 0.00 44.27 3.93
2041 8829 3.710209 GCTCTAGGCCCATGTATCAAT 57.290 47.619 0.00 0.00 34.27 2.57
2042 8830 4.026356 GCTCTAGGCCCATGTATCAATT 57.974 45.455 0.00 0.00 34.27 2.32
2043 8831 4.401925 GCTCTAGGCCCATGTATCAATTT 58.598 43.478 0.00 0.00 34.27 1.82
2044 8832 4.457257 GCTCTAGGCCCATGTATCAATTTC 59.543 45.833 0.00 0.00 34.27 2.17
2045 8833 5.747248 GCTCTAGGCCCATGTATCAATTTCT 60.747 44.000 0.00 0.00 34.27 2.52
2046 8834 5.624159 TCTAGGCCCATGTATCAATTTCTG 58.376 41.667 0.00 0.00 0.00 3.02
2047 8835 4.524802 AGGCCCATGTATCAATTTCTGA 57.475 40.909 0.00 0.00 38.81 3.27
2048 8836 4.870636 AGGCCCATGTATCAATTTCTGAA 58.129 39.130 0.00 0.00 37.67 3.02
2049 8837 5.271598 AGGCCCATGTATCAATTTCTGAAA 58.728 37.500 5.15 5.15 37.67 2.69
2050 8838 5.721000 AGGCCCATGTATCAATTTCTGAAAA 59.279 36.000 6.95 0.00 37.67 2.29
2051 8839 6.213195 AGGCCCATGTATCAATTTCTGAAAAA 59.787 34.615 6.95 0.00 37.67 1.94
2052 8840 7.049754 GGCCCATGTATCAATTTCTGAAAAAT 58.950 34.615 6.95 4.46 37.67 1.82
2053 8841 7.225341 GGCCCATGTATCAATTTCTGAAAAATC 59.775 37.037 6.95 0.00 37.67 2.17
2054 8842 7.983484 GCCCATGTATCAATTTCTGAAAAATCT 59.017 33.333 6.95 0.00 37.67 2.40
2055 8843 9.525409 CCCATGTATCAATTTCTGAAAAATCTC 57.475 33.333 6.95 0.00 37.67 2.75
2062 8850 7.830739 TCAATTTCTGAAAAATCTCTAAGGGC 58.169 34.615 6.95 0.00 0.00 5.19
2063 8851 6.782082 ATTTCTGAAAAATCTCTAAGGGCC 57.218 37.500 6.95 0.00 0.00 5.80
2064 8852 4.236527 TCTGAAAAATCTCTAAGGGCCC 57.763 45.455 16.46 16.46 0.00 5.80
2065 8853 3.591527 TCTGAAAAATCTCTAAGGGCCCA 59.408 43.478 27.56 2.12 0.00 5.36
2066 8854 4.230502 TCTGAAAAATCTCTAAGGGCCCAT 59.769 41.667 27.56 16.50 0.00 4.00
2067 8855 4.280819 TGAAAAATCTCTAAGGGCCCATG 58.719 43.478 27.56 13.67 0.00 3.66
2068 8856 4.264352 TGAAAAATCTCTAAGGGCCCATGT 60.264 41.667 27.56 11.59 0.00 3.21
2069 8857 3.303351 AAATCTCTAAGGGCCCATGTG 57.697 47.619 27.56 13.94 0.00 3.21
2070 8858 1.143813 ATCTCTAAGGGCCCATGTGG 58.856 55.000 27.56 11.04 37.09 4.17
2083 8871 3.228188 CCATGTGGGTTATATGGCACT 57.772 47.619 0.00 0.00 40.57 4.40
2084 8872 4.365514 CCATGTGGGTTATATGGCACTA 57.634 45.455 0.00 0.00 40.57 2.74
2085 8873 4.326826 CCATGTGGGTTATATGGCACTAG 58.673 47.826 0.00 0.00 40.57 2.57
2086 8874 4.326826 CATGTGGGTTATATGGCACTAGG 58.673 47.826 0.00 0.00 0.00 3.02
2087 8875 3.389866 TGTGGGTTATATGGCACTAGGT 58.610 45.455 0.00 0.00 0.00 3.08
2088 8876 3.135712 TGTGGGTTATATGGCACTAGGTG 59.864 47.826 0.00 0.00 36.51 4.00
2089 8877 3.135895 GTGGGTTATATGGCACTAGGTGT 59.864 47.826 0.00 0.00 35.75 4.16
2090 8878 4.345837 GTGGGTTATATGGCACTAGGTGTA 59.654 45.833 0.00 0.00 35.75 2.90
2091 8879 4.591498 TGGGTTATATGGCACTAGGTGTAG 59.409 45.833 0.00 0.00 35.75 2.74
2092 8880 4.020485 GGGTTATATGGCACTAGGTGTAGG 60.020 50.000 0.00 0.00 35.75 3.18
2093 8881 4.591924 GGTTATATGGCACTAGGTGTAGGT 59.408 45.833 0.00 0.00 35.75 3.08
2094 8882 5.510861 GGTTATATGGCACTAGGTGTAGGTG 60.511 48.000 0.00 0.00 35.75 4.00
2095 8883 1.952621 ATGGCACTAGGTGTAGGTGT 58.047 50.000 0.00 0.00 35.75 4.16
2096 8884 2.608593 TGGCACTAGGTGTAGGTGTA 57.391 50.000 0.00 0.00 35.75 2.90
2097 8885 2.453521 TGGCACTAGGTGTAGGTGTAG 58.546 52.381 0.00 0.00 35.75 2.74
2098 8886 2.225192 TGGCACTAGGTGTAGGTGTAGT 60.225 50.000 0.00 0.00 35.75 2.73
2099 8887 2.165845 GGCACTAGGTGTAGGTGTAGTG 59.834 54.545 4.35 4.35 43.49 2.74
2100 8888 2.165845 GCACTAGGTGTAGGTGTAGTGG 59.834 54.545 9.70 0.00 41.75 4.00
2101 8889 2.758979 CACTAGGTGTAGGTGTAGTGGG 59.241 54.545 0.00 0.00 39.05 4.61
2102 8890 2.381275 ACTAGGTGTAGGTGTAGTGGGT 59.619 50.000 0.00 0.00 0.00 4.51
2103 8891 3.593328 ACTAGGTGTAGGTGTAGTGGGTA 59.407 47.826 0.00 0.00 0.00 3.69
2104 8892 3.097342 AGGTGTAGGTGTAGTGGGTAG 57.903 52.381 0.00 0.00 0.00 3.18
2105 8893 2.381275 AGGTGTAGGTGTAGTGGGTAGT 59.619 50.000 0.00 0.00 0.00 2.73
2106 8894 3.168292 GGTGTAGGTGTAGTGGGTAGTT 58.832 50.000 0.00 0.00 0.00 2.24
2107 8895 3.580022 GGTGTAGGTGTAGTGGGTAGTTT 59.420 47.826 0.00 0.00 0.00 2.66
2108 8896 4.772100 GGTGTAGGTGTAGTGGGTAGTTTA 59.228 45.833 0.00 0.00 0.00 2.01
2109 8897 5.105595 GGTGTAGGTGTAGTGGGTAGTTTAG 60.106 48.000 0.00 0.00 0.00 1.85
2110 8898 5.478332 GTGTAGGTGTAGTGGGTAGTTTAGT 59.522 44.000 0.00 0.00 0.00 2.24
2111 8899 5.711976 TGTAGGTGTAGTGGGTAGTTTAGTC 59.288 44.000 0.00 0.00 0.00 2.59
2112 8900 4.092279 AGGTGTAGTGGGTAGTTTAGTCC 58.908 47.826 0.00 0.00 0.00 3.85
2113 8901 3.196469 GGTGTAGTGGGTAGTTTAGTCCC 59.804 52.174 0.00 0.00 41.41 4.46
2117 8905 1.660242 TGGGTAGTTTAGTCCCACCC 58.340 55.000 1.00 1.00 45.19 4.61
2118 8906 0.914644 GGGTAGTTTAGTCCCACCCC 59.085 60.000 0.00 0.00 42.63 4.95
2119 8907 0.538584 GGTAGTTTAGTCCCACCCCG 59.461 60.000 0.00 0.00 0.00 5.73
2120 8908 0.538584 GTAGTTTAGTCCCACCCCGG 59.461 60.000 0.00 0.00 0.00 5.73
2121 8909 0.413037 TAGTTTAGTCCCACCCCGGA 59.587 55.000 0.73 0.00 36.56 5.14
2122 8910 0.474273 AGTTTAGTCCCACCCCGGAA 60.474 55.000 0.73 0.00 36.56 4.30
2123 8911 0.401356 GTTTAGTCCCACCCCGGAAA 59.599 55.000 0.73 0.00 36.56 3.13
2124 8912 1.005097 GTTTAGTCCCACCCCGGAAAT 59.995 52.381 0.73 0.00 36.56 2.17
2125 8913 0.621609 TTAGTCCCACCCCGGAAATG 59.378 55.000 0.73 0.00 36.56 2.32
2126 8914 1.276140 TAGTCCCACCCCGGAAATGG 61.276 60.000 0.73 7.39 36.56 3.16
2127 8915 2.204167 TCCCACCCCGGAAATGGA 60.204 61.111 17.42 8.99 36.56 3.41
2128 8916 1.853095 TCCCACCCCGGAAATGGAA 60.853 57.895 17.42 0.00 36.56 3.53
2129 8917 1.379843 CCCACCCCGGAAATGGAAG 60.380 63.158 17.42 3.24 36.56 3.46
2130 8918 1.688811 CCACCCCGGAAATGGAAGA 59.311 57.895 0.73 0.00 36.56 2.87
2131 8919 0.394352 CCACCCCGGAAATGGAAGAG 60.394 60.000 0.73 0.00 36.56 2.85
2132 8920 0.394352 CACCCCGGAAATGGAAGAGG 60.394 60.000 0.73 0.00 0.00 3.69
2133 8921 0.549169 ACCCCGGAAATGGAAGAGGA 60.549 55.000 0.73 0.00 0.00 3.71
2134 8922 0.181350 CCCCGGAAATGGAAGAGGAG 59.819 60.000 0.73 0.00 0.00 3.69
2135 8923 0.912486 CCCGGAAATGGAAGAGGAGT 59.088 55.000 0.73 0.00 0.00 3.85
2136 8924 1.282157 CCCGGAAATGGAAGAGGAGTT 59.718 52.381 0.73 0.00 0.00 3.01
2137 8925 2.359900 CCGGAAATGGAAGAGGAGTTG 58.640 52.381 0.00 0.00 0.00 3.16
2138 8926 2.359900 CGGAAATGGAAGAGGAGTTGG 58.640 52.381 0.00 0.00 0.00 3.77
2139 8927 2.027192 CGGAAATGGAAGAGGAGTTGGA 60.027 50.000 0.00 0.00 0.00 3.53
2140 8928 3.348119 GGAAATGGAAGAGGAGTTGGAC 58.652 50.000 0.00 0.00 0.00 4.02
2141 8929 3.348119 GAAATGGAAGAGGAGTTGGACC 58.652 50.000 0.00 0.00 0.00 4.46
2142 8930 2.350863 ATGGAAGAGGAGTTGGACCT 57.649 50.000 0.00 0.00 40.80 3.85
2143 8931 1.352083 TGGAAGAGGAGTTGGACCTG 58.648 55.000 0.00 0.00 37.93 4.00
2144 8932 1.132849 TGGAAGAGGAGTTGGACCTGA 60.133 52.381 0.00 0.00 37.93 3.86
2145 8933 1.978580 GGAAGAGGAGTTGGACCTGAA 59.021 52.381 0.00 0.00 37.93 3.02
2146 8934 2.027653 GGAAGAGGAGTTGGACCTGAAG 60.028 54.545 0.00 0.00 37.93 3.02
2147 8935 0.980423 AGAGGAGTTGGACCTGAAGC 59.020 55.000 0.00 0.00 37.93 3.86
2148 8936 0.980423 GAGGAGTTGGACCTGAAGCT 59.020 55.000 0.00 0.00 37.93 3.74
2149 8937 0.689623 AGGAGTTGGACCTGAAGCTG 59.310 55.000 0.00 0.00 36.30 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 8.977505 GCAAACGCAATATGGACATAATTATTT 58.022 29.630 0.00 0.00 0.00 1.40
12 13 8.140628 TGCAAACGCAATATGGACATAATTATT 58.859 29.630 0.00 0.00 36.16 1.40
13 14 7.656412 TGCAAACGCAATATGGACATAATTAT 58.344 30.769 0.00 0.00 36.16 1.28
14 15 7.032377 TGCAAACGCAATATGGACATAATTA 57.968 32.000 0.00 0.00 36.16 1.40
15 16 5.900425 TGCAAACGCAATATGGACATAATT 58.100 33.333 0.00 0.00 36.16 1.40
16 17 5.512753 TGCAAACGCAATATGGACATAAT 57.487 34.783 0.00 0.00 36.16 1.28
17 18 4.972514 TGCAAACGCAATATGGACATAA 57.027 36.364 0.00 0.00 36.16 1.90
18 19 5.507149 GGAATGCAAACGCAATATGGACATA 60.507 40.000 0.00 0.00 44.09 2.29
19 20 4.362279 GAATGCAAACGCAATATGGACAT 58.638 39.130 0.00 0.00 44.09 3.06
21 22 3.115554 GGAATGCAAACGCAATATGGAC 58.884 45.455 0.00 0.00 44.09 4.02
22 23 3.023119 AGGAATGCAAACGCAATATGGA 58.977 40.909 0.00 0.00 44.09 3.41
24 25 4.031418 TCAGGAATGCAAACGCAATATG 57.969 40.909 0.00 0.00 44.09 1.78
25 26 4.924305 ATCAGGAATGCAAACGCAATAT 57.076 36.364 0.00 0.00 44.09 1.28
26 27 4.422840 CAATCAGGAATGCAAACGCAATA 58.577 39.130 0.00 0.00 44.09 1.90
27 28 3.255725 CAATCAGGAATGCAAACGCAAT 58.744 40.909 0.00 0.00 44.09 3.56
29 30 1.669502 GCAATCAGGAATGCAAACGCA 60.670 47.619 4.52 0.00 45.23 5.24
30 31 0.994263 GCAATCAGGAATGCAAACGC 59.006 50.000 4.52 0.00 42.12 4.84
32 33 2.231964 TCCAGCAATCAGGAATGCAAAC 59.768 45.455 11.53 0.00 44.95 2.93
33 34 2.494471 CTCCAGCAATCAGGAATGCAAA 59.506 45.455 11.53 0.00 44.95 3.68
35 36 1.758936 CTCCAGCAATCAGGAATGCA 58.241 50.000 11.53 0.00 44.95 3.96
36 37 0.384669 GCTCCAGCAATCAGGAATGC 59.615 55.000 1.09 1.09 42.87 3.56
48 49 0.249573 TTTGCTTGCTTTGCTCCAGC 60.250 50.000 0.00 0.00 42.50 4.85
49 50 2.132762 CTTTTGCTTGCTTTGCTCCAG 58.867 47.619 0.00 0.00 0.00 3.86
50 51 1.807377 GCTTTTGCTTGCTTTGCTCCA 60.807 47.619 0.00 0.00 43.35 3.86
83 4356 7.241042 TGGCAATGTACTAGGATAGATTACC 57.759 40.000 0.00 0.00 42.77 2.85
84 4357 9.555727 TTTTGGCAATGTACTAGGATAGATTAC 57.444 33.333 0.00 0.00 42.77 1.89
95 4795 8.682710 GTTCCTGATTATTTTGGCAATGTACTA 58.317 33.333 0.00 0.00 0.00 1.82
98 4798 7.363705 CCTGTTCCTGATTATTTTGGCAATGTA 60.364 37.037 0.00 0.00 0.00 2.29
105 4805 5.358160 GGTCTCCTGTTCCTGATTATTTTGG 59.642 44.000 0.00 0.00 0.00 3.28
108 4808 4.469945 TCGGTCTCCTGTTCCTGATTATTT 59.530 41.667 0.00 0.00 0.00 1.40
113 4813 1.006043 TCTCGGTCTCCTGTTCCTGAT 59.994 52.381 0.00 0.00 0.00 2.90
252 4955 3.007635 GGTCGTGGAACCCTAAGATTTG 58.992 50.000 0.00 0.00 32.82 2.32
263 4966 2.668550 GGCAGTGGGTCGTGGAAC 60.669 66.667 0.00 0.00 0.00 3.62
268 4972 0.535102 CTCTTTTGGCAGTGGGTCGT 60.535 55.000 0.00 0.00 0.00 4.34
296 5000 2.953821 CCATGTCACGTGGTTGGC 59.046 61.111 17.00 2.13 31.96 4.52
337 5041 7.360113 ACAAAACATGTAAGGGAAACAGAAT 57.640 32.000 0.00 0.00 41.63 2.40
374 5080 3.139077 CGTATCCAGCCAAGGGTTTATC 58.861 50.000 0.00 0.00 0.00 1.75
393 5099 0.812549 GTGGTGGGAACAAACAACGT 59.187 50.000 0.00 0.00 46.06 3.99
430 5146 6.096036 CAGATCTAGCATTATTGTCCTACCG 58.904 44.000 0.00 0.00 0.00 4.02
436 5152 7.659390 ACCTAAAGCAGATCTAGCATTATTGTC 59.341 37.037 16.20 0.00 0.00 3.18
465 5181 0.320374 TGCCGTTAGGTGGAACTGAG 59.680 55.000 0.00 0.00 40.50 3.35
470 5186 0.470766 AACTGTGCCGTTAGGTGGAA 59.529 50.000 0.00 0.00 40.50 3.53
520 5236 4.092968 CGGACTTAATCTGTTGTTAGTGCC 59.907 45.833 0.00 0.00 0.00 5.01
531 5248 3.548268 GCGTCTTTCTCGGACTTAATCTG 59.452 47.826 0.00 0.00 34.63 2.90
537 5254 1.733399 GCGCGTCTTTCTCGGACTT 60.733 57.895 8.43 0.00 0.00 3.01
623 5343 1.001631 TGAAGGGATCAGGGAGCGA 59.998 57.895 0.00 0.00 33.04 4.93
632 5352 1.587547 GAAGCATCCGTGAAGGGATC 58.412 55.000 1.53 0.00 45.03 3.36
655 5409 1.149148 CTCACTGACACTCGTCGAGA 58.851 55.000 28.33 5.22 45.80 4.04
723 5495 0.393820 TTGGAGTCGTGTGGGGTAAC 59.606 55.000 0.00 0.00 0.00 2.50
809 5735 1.164041 AGTTAGGTTGCGCGTGCTTT 61.164 50.000 23.16 7.36 43.34 3.51
822 5748 2.680577 AGGCACGTTTCGTTAGTTAGG 58.319 47.619 0.00 0.00 38.32 2.69
902 5828 3.365265 GTGTTGCAGGGAAGGCGG 61.365 66.667 0.00 0.00 0.00 6.13
931 5862 1.808945 CCGTGCTTTCAGATTCAAGCT 59.191 47.619 6.83 0.00 44.90 3.74
971 5902 1.137513 CTTTGCTTGCTTGCTTGCTC 58.862 50.000 10.35 0.00 0.00 4.26
1053 5990 4.087892 TGGCCTCTCTTGAGCGGC 62.088 66.667 19.90 19.90 38.93 6.53
1154 6091 0.108992 CATCAAGCACCACACCATGC 60.109 55.000 0.00 0.00 42.39 4.06
1155 6092 1.068125 CACATCAAGCACCACACCATG 60.068 52.381 0.00 0.00 0.00 3.66
1161 6159 2.221169 TCTGTTCACATCAAGCACCAC 58.779 47.619 0.00 0.00 0.00 4.16
1176 6174 1.344438 TCGACCTGCACAATCTCTGTT 59.656 47.619 0.00 0.00 35.47 3.16
1181 6179 2.300152 TCTTCTTCGACCTGCACAATCT 59.700 45.455 0.00 0.00 0.00 2.40
1194 6197 7.224167 ACACCTAACTAAAACAACTCTTCTTCG 59.776 37.037 0.00 0.00 0.00 3.79
1406 6415 4.202336 ACGCATCAATCTCAGAATCAGGAT 60.202 41.667 0.00 0.00 0.00 3.24
1408 6417 3.464907 ACGCATCAATCTCAGAATCAGG 58.535 45.455 0.00 0.00 0.00 3.86
1487 6551 1.181786 ACACCCATTATGCCGGTTTG 58.818 50.000 1.90 0.00 0.00 2.93
1489 6553 1.562475 AGTACACCCATTATGCCGGTT 59.438 47.619 1.90 0.00 0.00 4.44
1551 6615 2.167861 GCGCGAGGCTGGTAAGAAG 61.168 63.158 12.10 0.00 39.11 2.85
1658 7075 2.818274 CGGCCGGTCTTACCTTGC 60.818 66.667 20.10 0.00 35.66 4.01
1693 7129 2.038426 TGCTCCCCGTGATAATGTATGG 59.962 50.000 0.00 0.00 0.00 2.74
1697 7133 1.496060 TCTGCTCCCCGTGATAATGT 58.504 50.000 0.00 0.00 0.00 2.71
1698 7134 2.847327 ATCTGCTCCCCGTGATAATG 57.153 50.000 0.00 0.00 0.00 1.90
1789 8288 6.284459 CCTAAGAGACACAGTCTTTCTTTGT 58.716 40.000 0.70 0.00 43.53 2.83
1800 8299 4.019858 TCTGTCATCCCTAAGAGACACAG 58.980 47.826 0.00 0.00 36.20 3.66
1809 8308 5.339200 GGATTTGGTCTTCTGTCATCCCTAA 60.339 44.000 0.00 0.00 0.00 2.69
1874 8662 3.141398 GACAACAATGGAGACTGCAGAA 58.859 45.455 23.35 0.22 0.00 3.02
1919 8707 3.850273 GCTTCAGATTTCGAACAATGCAG 59.150 43.478 0.00 0.00 0.00 4.41
2003 8791 2.756760 GAGCCCATCTCAAATTTCAGCA 59.243 45.455 0.00 0.00 41.51 4.41
2004 8792 3.022406 AGAGCCCATCTCAAATTTCAGC 58.978 45.455 0.00 0.00 44.35 4.26
2005 8793 4.820716 CCTAGAGCCCATCTCAAATTTCAG 59.179 45.833 0.00 0.00 44.35 3.02
2006 8794 4.785301 CCTAGAGCCCATCTCAAATTTCA 58.215 43.478 0.00 0.00 44.35 2.69
2007 8795 3.567585 GCCTAGAGCCCATCTCAAATTTC 59.432 47.826 0.00 0.00 44.35 2.17
2008 8796 3.560105 GCCTAGAGCCCATCTCAAATTT 58.440 45.455 0.00 0.00 44.35 1.82
2009 8797 3.220674 GCCTAGAGCCCATCTCAAATT 57.779 47.619 0.00 0.00 44.35 1.82
2010 8798 2.947127 GCCTAGAGCCCATCTCAAAT 57.053 50.000 0.00 0.00 44.35 2.32
2021 8809 3.710209 ATTGATACATGGGCCTAGAGC 57.290 47.619 4.53 0.00 42.60 4.09
2022 8810 5.704515 CAGAAATTGATACATGGGCCTAGAG 59.295 44.000 4.53 0.00 0.00 2.43
2023 8811 5.369404 TCAGAAATTGATACATGGGCCTAGA 59.631 40.000 4.53 0.00 0.00 2.43
2024 8812 5.624159 TCAGAAATTGATACATGGGCCTAG 58.376 41.667 4.53 0.00 0.00 3.02
2025 8813 5.645056 TCAGAAATTGATACATGGGCCTA 57.355 39.130 4.53 0.00 0.00 3.93
2026 8814 4.524802 TCAGAAATTGATACATGGGCCT 57.475 40.909 4.53 0.00 0.00 5.19
2027 8815 5.596836 TTTCAGAAATTGATACATGGGCC 57.403 39.130 0.00 0.00 35.27 5.80
2028 8816 7.983484 AGATTTTTCAGAAATTGATACATGGGC 59.017 33.333 0.00 0.00 35.27 5.36
2029 8817 9.525409 GAGATTTTTCAGAAATTGATACATGGG 57.475 33.333 0.00 0.00 35.27 4.00
2036 8824 8.473219 GCCCTTAGAGATTTTTCAGAAATTGAT 58.527 33.333 0.00 0.00 35.27 2.57
2037 8825 7.093771 GGCCCTTAGAGATTTTTCAGAAATTGA 60.094 37.037 0.00 0.00 0.00 2.57
2038 8826 7.038048 GGCCCTTAGAGATTTTTCAGAAATTG 58.962 38.462 0.00 0.00 0.00 2.32
2039 8827 6.155221 GGGCCCTTAGAGATTTTTCAGAAATT 59.845 38.462 17.04 0.00 0.00 1.82
2040 8828 5.658634 GGGCCCTTAGAGATTTTTCAGAAAT 59.341 40.000 17.04 0.00 0.00 2.17
2041 8829 5.016831 GGGCCCTTAGAGATTTTTCAGAAA 58.983 41.667 17.04 0.00 0.00 2.52
2042 8830 4.044065 TGGGCCCTTAGAGATTTTTCAGAA 59.956 41.667 25.70 0.00 0.00 3.02
2043 8831 3.591527 TGGGCCCTTAGAGATTTTTCAGA 59.408 43.478 25.70 0.00 0.00 3.27
2044 8832 3.968265 TGGGCCCTTAGAGATTTTTCAG 58.032 45.455 25.70 0.00 0.00 3.02
2045 8833 4.264352 ACATGGGCCCTTAGAGATTTTTCA 60.264 41.667 25.70 0.00 0.00 2.69
2046 8834 4.098501 CACATGGGCCCTTAGAGATTTTTC 59.901 45.833 25.70 0.00 0.00 2.29
2047 8835 4.026052 CACATGGGCCCTTAGAGATTTTT 58.974 43.478 25.70 0.00 0.00 1.94
2048 8836 3.628257 CCACATGGGCCCTTAGAGATTTT 60.628 47.826 25.70 0.00 0.00 1.82
2049 8837 2.091665 CCACATGGGCCCTTAGAGATTT 60.092 50.000 25.70 0.00 0.00 2.17
2050 8838 1.496429 CCACATGGGCCCTTAGAGATT 59.504 52.381 25.70 0.00 0.00 2.40
2051 8839 1.143813 CCACATGGGCCCTTAGAGAT 58.856 55.000 25.70 3.22 0.00 2.75
2052 8840 2.620234 CCACATGGGCCCTTAGAGA 58.380 57.895 25.70 0.07 0.00 3.10
2063 8851 3.228188 AGTGCCATATAACCCACATGG 57.772 47.619 0.00 0.00 41.85 3.66
2064 8852 4.202461 ACCTAGTGCCATATAACCCACATG 60.202 45.833 0.00 0.00 0.00 3.21
2065 8853 3.980698 ACCTAGTGCCATATAACCCACAT 59.019 43.478 0.00 0.00 0.00 3.21
2066 8854 3.135712 CACCTAGTGCCATATAACCCACA 59.864 47.826 0.00 0.00 0.00 4.17
2067 8855 3.135895 ACACCTAGTGCCATATAACCCAC 59.864 47.826 0.00 0.00 36.98 4.61
2068 8856 3.389866 ACACCTAGTGCCATATAACCCA 58.610 45.455 0.00 0.00 36.98 4.51
2069 8857 4.020485 CCTACACCTAGTGCCATATAACCC 60.020 50.000 0.00 0.00 36.98 4.11
2070 8858 4.591924 ACCTACACCTAGTGCCATATAACC 59.408 45.833 0.00 0.00 36.98 2.85
2071 8859 5.070047 ACACCTACACCTAGTGCCATATAAC 59.930 44.000 0.00 0.00 36.98 1.89
2072 8860 5.213519 ACACCTACACCTAGTGCCATATAA 58.786 41.667 0.00 0.00 36.98 0.98
2073 8861 4.811498 ACACCTACACCTAGTGCCATATA 58.189 43.478 0.00 0.00 36.98 0.86
2074 8862 3.654273 ACACCTACACCTAGTGCCATAT 58.346 45.455 0.00 0.00 36.98 1.78
2075 8863 3.110293 ACACCTACACCTAGTGCCATA 57.890 47.619 0.00 0.00 36.98 2.74
2076 8864 1.952621 ACACCTACACCTAGTGCCAT 58.047 50.000 0.00 0.00 36.98 4.40
2077 8865 2.225192 ACTACACCTACACCTAGTGCCA 60.225 50.000 0.00 0.00 36.98 4.92
2078 8866 2.165845 CACTACACCTACACCTAGTGCC 59.834 54.545 0.00 0.00 36.98 5.01
2079 8867 2.165845 CCACTACACCTACACCTAGTGC 59.834 54.545 0.00 0.00 36.35 4.40
2080 8868 2.758979 CCCACTACACCTACACCTAGTG 59.241 54.545 0.00 0.00 39.75 2.74
2081 8869 2.381275 ACCCACTACACCTACACCTAGT 59.619 50.000 0.00 0.00 0.00 2.57
2082 8870 3.097342 ACCCACTACACCTACACCTAG 57.903 52.381 0.00 0.00 0.00 3.02
2083 8871 3.593328 ACTACCCACTACACCTACACCTA 59.407 47.826 0.00 0.00 0.00 3.08
2084 8872 2.381275 ACTACCCACTACACCTACACCT 59.619 50.000 0.00 0.00 0.00 4.00
2085 8873 2.812658 ACTACCCACTACACCTACACC 58.187 52.381 0.00 0.00 0.00 4.16
2086 8874 4.879197 AAACTACCCACTACACCTACAC 57.121 45.455 0.00 0.00 0.00 2.90
2087 8875 5.644188 ACTAAACTACCCACTACACCTACA 58.356 41.667 0.00 0.00 0.00 2.74
2088 8876 5.126222 GGACTAAACTACCCACTACACCTAC 59.874 48.000 0.00 0.00 0.00 3.18
2089 8877 5.264395 GGACTAAACTACCCACTACACCTA 58.736 45.833 0.00 0.00 0.00 3.08
2090 8878 4.092279 GGACTAAACTACCCACTACACCT 58.908 47.826 0.00 0.00 0.00 4.00
2091 8879 3.196469 GGGACTAAACTACCCACTACACC 59.804 52.174 0.00 0.00 42.81 4.16
2092 8880 4.462508 GGGACTAAACTACCCACTACAC 57.537 50.000 0.00 0.00 42.81 2.90
2100 8888 0.538584 CGGGGTGGGACTAAACTACC 59.461 60.000 0.00 0.00 0.00 3.18
2101 8889 0.538584 CCGGGGTGGGACTAAACTAC 59.461 60.000 0.00 0.00 0.00 2.73
2102 8890 0.413037 TCCGGGGTGGGACTAAACTA 59.587 55.000 0.00 0.00 38.76 2.24
2103 8891 0.474273 TTCCGGGGTGGGACTAAACT 60.474 55.000 0.00 0.00 38.76 2.66
2104 8892 0.401356 TTTCCGGGGTGGGACTAAAC 59.599 55.000 0.00 0.00 38.76 2.01
2105 8893 1.004979 CATTTCCGGGGTGGGACTAAA 59.995 52.381 0.00 0.00 38.76 1.85
2106 8894 0.621609 CATTTCCGGGGTGGGACTAA 59.378 55.000 0.00 0.00 38.76 2.24
2107 8895 1.276140 CCATTTCCGGGGTGGGACTA 61.276 60.000 0.00 0.00 38.76 2.59
2108 8896 2.612493 CCATTTCCGGGGTGGGACT 61.612 63.158 0.00 0.00 38.76 3.85
2109 8897 2.044352 CCATTTCCGGGGTGGGAC 60.044 66.667 0.00 0.00 38.76 4.46
2110 8898 1.853095 TTCCATTTCCGGGGTGGGA 60.853 57.895 17.02 10.35 38.76 4.37
2111 8899 1.379843 CTTCCATTTCCGGGGTGGG 60.380 63.158 17.02 8.41 38.76 4.61
2112 8900 0.394352 CTCTTCCATTTCCGGGGTGG 60.394 60.000 0.00 8.03 40.09 4.61
2113 8901 0.394352 CCTCTTCCATTTCCGGGGTG 60.394 60.000 0.00 0.00 0.00 4.61
2114 8902 0.549169 TCCTCTTCCATTTCCGGGGT 60.549 55.000 0.00 0.00 0.00 4.95
2115 8903 0.181350 CTCCTCTTCCATTTCCGGGG 59.819 60.000 0.00 0.00 0.00 5.73
2116 8904 0.912486 ACTCCTCTTCCATTTCCGGG 59.088 55.000 0.00 0.00 0.00 5.73
2117 8905 2.359900 CAACTCCTCTTCCATTTCCGG 58.640 52.381 0.00 0.00 0.00 5.14
2118 8906 2.027192 TCCAACTCCTCTTCCATTTCCG 60.027 50.000 0.00 0.00 0.00 4.30
2119 8907 3.348119 GTCCAACTCCTCTTCCATTTCC 58.652 50.000 0.00 0.00 0.00 3.13
2120 8908 3.009584 AGGTCCAACTCCTCTTCCATTTC 59.990 47.826 0.00 0.00 0.00 2.17
2121 8909 2.989571 AGGTCCAACTCCTCTTCCATTT 59.010 45.455 0.00 0.00 0.00 2.32
2122 8910 2.307098 CAGGTCCAACTCCTCTTCCATT 59.693 50.000 0.00 0.00 32.37 3.16
2123 8911 1.912043 CAGGTCCAACTCCTCTTCCAT 59.088 52.381 0.00 0.00 32.37 3.41
2124 8912 1.132849 TCAGGTCCAACTCCTCTTCCA 60.133 52.381 0.00 0.00 32.37 3.53
2125 8913 1.645710 TCAGGTCCAACTCCTCTTCC 58.354 55.000 0.00 0.00 32.37 3.46
2126 8914 2.614229 GCTTCAGGTCCAACTCCTCTTC 60.614 54.545 0.00 0.00 32.37 2.87
2127 8915 1.349357 GCTTCAGGTCCAACTCCTCTT 59.651 52.381 0.00 0.00 32.37 2.85
2128 8916 0.980423 GCTTCAGGTCCAACTCCTCT 59.020 55.000 0.00 0.00 32.37 3.69
2129 8917 0.980423 AGCTTCAGGTCCAACTCCTC 59.020 55.000 0.00 0.00 32.37 3.71
2130 8918 0.689623 CAGCTTCAGGTCCAACTCCT 59.310 55.000 0.00 0.00 35.45 3.69
2131 8919 3.239861 CAGCTTCAGGTCCAACTCC 57.760 57.895 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.