Multiple sequence alignment - TraesCS6B01G024700

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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 TraesCS6B01G024700 chr6B 100.000 3118 0 0 1 3118 15105093 15108210 0.000000e+00 5758.0
1 TraesCS6B01G024700 chr6B 83.512 1777 240 25 537 2280 5715712 5713956 0.000000e+00 1609.0
2 TraesCS6B01G024700 chr6B 75.075 1003 170 37 504 1476 2122495 2123447 8.100000e-106 394.0
3 TraesCS6B01G024700 chr6D 91.449 2339 152 21 1 2316 8139598 8141911 0.000000e+00 3168.0
4 TraesCS6B01G024700 chr6D 85.090 1784 211 26 536 2280 1540282 1538515 0.000000e+00 1770.0
5 TraesCS6B01G024700 chr6D 89.880 583 43 9 2417 2985 8141966 8142546 0.000000e+00 736.0
6 TraesCS6B01G024700 chr6D 90.683 161 15 0 2096 2256 3618463 3618303 6.770000e-52 215.0
7 TraesCS6B01G024700 chr6A 90.952 2343 165 21 1 2316 8608094 8610416 0.000000e+00 3109.0
8 TraesCS6B01G024700 chr6A 87.460 1579 134 30 237 1775 8387216 8388770 0.000000e+00 1760.0
9 TraesCS6B01G024700 chr6A 90.000 590 43 3 1736 2316 8388763 8389345 0.000000e+00 749.0
10 TraesCS6B01G024700 chr6A 87.650 583 56 10 2417 2985 8610471 8611051 0.000000e+00 664.0
11 TraesCS6B01G024700 chr6A 93.878 245 15 0 1 245 8384209 8384453 1.370000e-98 370.0
12 TraesCS6B01G024700 chr6A 87.732 269 28 2 2417 2685 8389400 8389663 3.020000e-80 309.0
13 TraesCS6B01G024700 chr5A 85.033 1804 214 24 504 2264 129749073 129750863 0.000000e+00 1784.0
14 TraesCS6B01G024700 chr5D 84.800 1829 205 36 504 2264 119658763 119660586 0.000000e+00 1770.0
15 TraesCS6B01G024700 chr5B 84.581 1803 212 35 504 2264 132587779 132589557 0.000000e+00 1729.0
16 TraesCS6B01G024700 chr5B 97.260 73 2 0 3046 3118 347927619 347927547 1.170000e-24 124.0
17 TraesCS6B01G024700 chr5B 93.333 75 4 1 3045 3118 492822915 492822989 3.290000e-20 110.0
18 TraesCS6B01G024700 chr5B 92.105 76 6 0 3043 3118 459493214 459493289 1.180000e-19 108.0
19 TraesCS6B01G024700 chr7D 85.620 1370 146 23 536 1873 558888744 558887394 0.000000e+00 1391.0
20 TraesCS6B01G024700 chr3A 77.745 674 129 15 1549 2207 623942447 623943114 8.100000e-106 394.0
21 TraesCS6B01G024700 chr3A 95.946 74 3 0 3043 3116 100017245 100017318 1.520000e-23 121.0
22 TraesCS6B01G024700 chr2B 86.567 134 17 1 1061 1194 634644084 634644216 2.510000e-31 147.0
23 TraesCS6B01G024700 chr4A 97.260 73 2 0 3046 3118 665181022 665181094 1.170000e-24 124.0
24 TraesCS6B01G024700 chr3B 97.260 73 2 0 3046 3118 816630696 816630624 1.170000e-24 124.0
25 TraesCS6B01G024700 chr7B 93.750 80 4 1 3040 3118 11678553 11678474 5.460000e-23 119.0
26 TraesCS6B01G024700 chr7B 94.521 73 4 0 3046 3118 75588858 75588930 2.540000e-21 113.0
27 TraesCS6B01G024700 chr1B 95.890 73 3 0 3046 3118 17801729 17801657 5.460000e-23 119.0
28 TraesCS6B01G024700 chr3D 82.857 105 13 4 2323 2424 11444746 11444848 4.280000e-14 89.8


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 TraesCS6B01G024700 chr6B 15105093 15108210 3117 False 5758.0 5758 100.0000 1 3118 1 chr6B.!!$F2 3117
1 TraesCS6B01G024700 chr6B 5713956 5715712 1756 True 1609.0 1609 83.5120 537 2280 1 chr6B.!!$R1 1743
2 TraesCS6B01G024700 chr6B 2122495 2123447 952 False 394.0 394 75.0750 504 1476 1 chr6B.!!$F1 972
3 TraesCS6B01G024700 chr6D 8139598 8142546 2948 False 1952.0 3168 90.6645 1 2985 2 chr6D.!!$F1 2984
4 TraesCS6B01G024700 chr6D 1538515 1540282 1767 True 1770.0 1770 85.0900 536 2280 1 chr6D.!!$R1 1744
5 TraesCS6B01G024700 chr6A 8608094 8611051 2957 False 1886.5 3109 89.3010 1 2985 2 chr6A.!!$F2 2984
6 TraesCS6B01G024700 chr6A 8384209 8389663 5454 False 797.0 1760 89.7675 1 2685 4 chr6A.!!$F1 2684
7 TraesCS6B01G024700 chr5A 129749073 129750863 1790 False 1784.0 1784 85.0330 504 2264 1 chr5A.!!$F1 1760
8 TraesCS6B01G024700 chr5D 119658763 119660586 1823 False 1770.0 1770 84.8000 504 2264 1 chr5D.!!$F1 1760
9 TraesCS6B01G024700 chr5B 132587779 132589557 1778 False 1729.0 1729 84.5810 504 2264 1 chr5B.!!$F1 1760
10 TraesCS6B01G024700 chr7D 558887394 558888744 1350 True 1391.0 1391 85.6200 536 1873 1 chr7D.!!$R1 1337
11 TraesCS6B01G024700 chr3A 623942447 623943114 667 False 394.0 394 77.7450 1549 2207 1 chr3A.!!$F2 658

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
667 3453 0.029567 TTTGTTAAAGTGCCACCGCG 59.970 50.0 0.00 0.0 38.08 6.46 F
1575 4420 0.878961 GCCGGCGATACGAAATCCTT 60.879 55.0 12.58 0.0 35.47 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1715 4569 0.163788 GTCTCATGTTTCCGCACGTG 59.836 55.0 12.28 12.28 35.31 4.49 R
3016 5934 0.033208 CCCTCTCAGCCTCTCTCAGT 60.033 60.0 0.00 0.00 0.00 3.41 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
283 3055 4.265856 AGAGACTGGGATGTACCATGTA 57.734 45.455 0.00 0.00 40.36 2.29
309 3081 6.210584 TGGTCCTTTTGGTGGATCTTTAATTC 59.789 38.462 0.00 0.00 41.38 2.17
333 3112 2.844122 ATTTATTCCAAGCGAACGGC 57.156 45.000 0.00 0.00 44.05 5.68
413 3192 4.622313 GCATTGTTGCGATGATTTTTCTCA 59.378 37.500 0.85 0.00 39.49 3.27
430 3209 4.327982 TCTCATCAATACTAGCTGGCAC 57.672 45.455 0.00 0.00 0.00 5.01
553 3333 2.833943 CCACCATGATAGATCGGGATCA 59.166 50.000 11.00 9.51 40.22 2.92
565 3345 2.496291 GGGATCAATGGCTGGCTGC 61.496 63.158 7.96 7.96 41.94 5.25
613 3394 2.238898 ACGGGAGAGATAAAGGGGTTTG 59.761 50.000 0.00 0.00 0.00 2.93
667 3453 0.029567 TTTGTTAAAGTGCCACCGCG 59.970 50.000 0.00 0.00 38.08 6.46
883 3674 3.574237 CCTAGCCCAGCCCATCCC 61.574 72.222 0.00 0.00 0.00 3.85
884 3675 2.449322 CTAGCCCAGCCCATCCCT 60.449 66.667 0.00 0.00 0.00 4.20
916 3707 2.111384 TCTCCCATCTTTTCCTCTCCG 58.889 52.381 0.00 0.00 0.00 4.63
983 3781 3.948719 GTCCGCCACCACCTCCAA 61.949 66.667 0.00 0.00 0.00 3.53
1009 3807 2.821366 CAGCAGTGATGGCGACCC 60.821 66.667 0.00 0.00 36.08 4.46
1010 3808 4.457496 AGCAGTGATGGCGACCCG 62.457 66.667 0.00 0.00 36.08 5.28
1045 3846 5.117584 AGAAGATGATCATGCTCAAGTCAC 58.882 41.667 14.30 0.00 0.00 3.67
1133 3957 3.188786 GGATGACTGCGCCGACAC 61.189 66.667 4.18 0.31 0.00 3.67
1141 3965 3.737172 GCGCCGACACAGCCATTT 61.737 61.111 0.00 0.00 0.00 2.32
1203 4027 4.623002 TCGAGTACTGCAACAAACATGTA 58.377 39.130 0.00 0.00 0.00 2.29
1278 4120 2.035632 CTAGCCGAGGACCTCAAGATT 58.964 52.381 21.49 6.73 0.00 2.40
1305 4147 5.068723 GGATGCAGAATTCATCAAGGTCAAT 59.931 40.000 8.44 0.00 40.66 2.57
1512 4356 6.900189 TCGATTCGATTGGACTAGATTAGAC 58.100 40.000 4.29 0.00 0.00 2.59
1562 4407 2.047151 GACATACACATTGGCCGGCG 62.047 60.000 22.54 9.21 0.00 6.46
1575 4420 0.878961 GCCGGCGATACGAAATCCTT 60.879 55.000 12.58 0.00 35.47 3.36
1706 4560 1.798283 TCAATGTGCCAGCAAATTGC 58.202 45.000 24.59 10.41 46.09 3.56
1807 4694 0.385751 ATCTCGCATGGTAGGTCACG 59.614 55.000 0.00 0.00 0.00 4.35
1891 4778 8.928448 TCTAATTATCCATGGTCTATAGCCATC 58.072 37.037 19.69 0.00 44.25 3.51
1923 4810 3.582647 TGCTTCTCTTTGACACCCTATGA 59.417 43.478 0.00 0.00 0.00 2.15
1934 4821 8.934023 TTTGACACCCTATGATTCTTTTTACT 57.066 30.769 0.00 0.00 0.00 2.24
1986 4875 1.061546 GGGGTTGTTGGACCTGACTA 58.938 55.000 0.00 0.00 39.71 2.59
1991 4880 1.429930 TGTTGGACCTGACTAGCCAA 58.570 50.000 0.00 0.00 38.02 4.52
1994 4883 0.320374 TGGACCTGACTAGCCAAACG 59.680 55.000 0.00 0.00 0.00 3.60
1999 4891 3.097614 ACCTGACTAGCCAAACGACTAT 58.902 45.455 0.00 0.00 0.00 2.12
2079 4981 0.463620 CTACTTGCCTGAGGAGGAGC 59.536 60.000 0.65 0.00 42.93 4.70
2183 5085 2.226674 GTGAACCTTTTAGCTGCACTCC 59.773 50.000 1.02 0.00 0.00 3.85
2226 5128 9.802039 TTTAATTGTACTGGAGTTTATGAGGTT 57.198 29.630 0.00 0.00 0.00 3.50
2271 5173 9.104965 AGTGTTTAAGCTTGCGTGAATATATTA 57.895 29.630 9.86 0.00 0.00 0.98
2272 5174 9.878599 GTGTTTAAGCTTGCGTGAATATATTAT 57.121 29.630 9.86 0.00 0.00 1.28
2295 5197 4.910195 TCATTGTCTTTACATGAGGCTGT 58.090 39.130 0.00 0.00 34.97 4.40
2298 5200 3.861840 TGTCTTTACATGAGGCTGTAGC 58.138 45.455 0.00 0.00 41.14 3.58
2316 5218 3.376078 GGGCGGTGTAGTCCACGA 61.376 66.667 0.00 0.00 45.52 4.35
2317 5219 2.718073 GGGCGGTGTAGTCCACGAT 61.718 63.158 0.00 0.00 45.52 3.73
2319 5221 0.030369 GGCGGTGTAGTCCACGATAG 59.970 60.000 0.00 0.00 45.52 2.08
2341 5243 2.517875 GTAGCTAGGGCCGACCGA 60.518 66.667 0.00 0.00 46.96 4.69
2361 5263 4.659172 CCCGGGCCAACAGCTGAA 62.659 66.667 23.35 0.00 43.05 3.02
2362 5264 3.058160 CCGGGCCAACAGCTGAAG 61.058 66.667 23.35 11.95 43.05 3.02
2363 5265 3.741476 CGGGCCAACAGCTGAAGC 61.741 66.667 23.35 18.70 43.05 3.86
2378 5280 5.004922 GCTGAAGCTACAGTAGAATCAGT 57.995 43.478 27.32 5.40 39.84 3.41
2379 5281 6.137794 GCTGAAGCTACAGTAGAATCAGTA 57.862 41.667 27.32 7.59 39.84 2.74
2380 5282 5.974751 GCTGAAGCTACAGTAGAATCAGTAC 59.025 44.000 27.32 16.91 39.84 2.73
2381 5283 6.452494 TGAAGCTACAGTAGAATCAGTACC 57.548 41.667 12.15 0.00 0.00 3.34
2382 5284 6.188407 TGAAGCTACAGTAGAATCAGTACCT 58.812 40.000 12.15 0.00 0.00 3.08
2383 5285 7.344134 TGAAGCTACAGTAGAATCAGTACCTA 58.656 38.462 12.15 0.00 0.00 3.08
2384 5286 7.282675 TGAAGCTACAGTAGAATCAGTACCTAC 59.717 40.741 12.15 0.00 34.52 3.18
2385 5287 6.660800 AGCTACAGTAGAATCAGTACCTACA 58.339 40.000 12.15 0.00 36.22 2.74
2386 5288 7.117397 AGCTACAGTAGAATCAGTACCTACAA 58.883 38.462 12.15 0.00 36.22 2.41
2387 5289 7.780745 AGCTACAGTAGAATCAGTACCTACAAT 59.219 37.037 12.15 0.67 36.22 2.71
2388 5290 9.064706 GCTACAGTAGAATCAGTACCTACAATA 57.935 37.037 12.15 1.54 36.22 1.90
2400 5302 9.953565 TCAGTACCTACAATACTAAAAATTGCT 57.046 29.630 0.00 0.00 37.77 3.91
2418 5320 4.955925 TGCTACAATTAACGAATGGGTG 57.044 40.909 0.00 0.00 0.00 4.61
2437 5339 0.679960 GCACAGGGTGGTGTATTCCC 60.680 60.000 0.00 0.00 40.89 3.97
2447 5349 2.041081 TGGTGTATTCCCCAAGGTTCTG 59.959 50.000 0.00 0.00 0.00 3.02
2448 5350 2.307686 GGTGTATTCCCCAAGGTTCTGA 59.692 50.000 0.00 0.00 0.00 3.27
2455 5357 0.984230 CCCAAGGTTCTGACAGGCTA 59.016 55.000 1.81 0.00 0.00 3.93
2467 5369 1.137282 GACAGGCTAGGTAGTCCAAGC 59.863 57.143 0.00 0.00 35.89 4.01
2475 5381 4.757149 GCTAGGTAGTCCAAGCCATATTTG 59.243 45.833 0.00 0.00 35.89 2.32
2478 5384 4.721776 AGGTAGTCCAAGCCATATTTGAGA 59.278 41.667 0.00 0.00 35.89 3.27
2493 5399 8.620416 CCATATTTGAGATGGTTCGTAAATTCA 58.380 33.333 0.00 0.00 39.29 2.57
2497 5403 6.908870 TGAGATGGTTCGTAAATTCATCAG 57.091 37.500 0.00 0.00 37.33 2.90
2499 5405 5.989477 AGATGGTTCGTAAATTCATCAGGA 58.011 37.500 0.00 0.00 37.33 3.86
2523 5429 2.149973 ATTGGGGAGAGATTGTTGCC 57.850 50.000 0.00 0.00 0.00 4.52
2525 5431 1.002069 TGGGGAGAGATTGTTGCCAT 58.998 50.000 0.00 0.00 0.00 4.40
2551 5457 9.806203 TCAATGAAGCATATCAATTTAACTTGG 57.194 29.630 5.79 0.00 32.06 3.61
2575 5481 2.266554 GGTGCAAGAGAATGAGTCGAG 58.733 52.381 0.00 0.00 0.00 4.04
2592 5498 6.322456 TGAGTCGAGAAAGGATGATCTACAAT 59.678 38.462 0.00 0.00 0.00 2.71
2786 5703 2.870435 GCCGTGTAGGTCATGTTGAGTT 60.870 50.000 0.00 0.00 43.70 3.01
2787 5704 2.993899 CCGTGTAGGTCATGTTGAGTTC 59.006 50.000 0.00 0.00 34.51 3.01
2804 5721 4.643784 TGAGTTCGGTTAGGATTCTACTCC 59.356 45.833 0.00 0.00 35.37 3.85
2809 5726 6.257994 TCGGTTAGGATTCTACTCCTCTTA 57.742 41.667 0.00 0.00 42.12 2.10
2828 5745 6.040166 CCTCTTATACGAGCAGGTTTAGGTAA 59.960 42.308 0.68 0.00 0.00 2.85
2839 5756 3.389002 AGGTTTAGGTAAACGTGTCAGGT 59.611 43.478 6.95 0.00 44.84 4.00
2851 5768 4.631740 TCAGGTCGGTGGCTGGGA 62.632 66.667 0.00 0.00 0.00 4.37
2866 5783 5.760253 GTGGCTGGGATGCATATATACATAC 59.240 44.000 0.00 0.00 34.04 2.39
2867 5784 5.667172 TGGCTGGGATGCATATATACATACT 59.333 40.000 0.00 0.00 34.04 2.12
2868 5785 6.843861 TGGCTGGGATGCATATATACATACTA 59.156 38.462 0.00 1.71 34.04 1.82
2869 5786 7.513781 TGGCTGGGATGCATATATACATACTAT 59.486 37.037 0.00 0.00 34.04 2.12
2870 5787 9.035890 GGCTGGGATGCATATATACATACTATA 57.964 37.037 0.00 0.00 34.04 1.31
2885 5802 6.860080 ACATACTATATGTGTGTATACGGCC 58.140 40.000 0.00 0.00 46.72 6.13
2906 5824 2.096909 CGTGAGTTGTAACTTGGCGAAG 60.097 50.000 6.95 6.95 39.88 3.79
2926 5844 7.094762 GGCGAAGAAGGAGAAAATAAAAAGAGA 60.095 37.037 0.00 0.00 0.00 3.10
2985 5903 2.421775 TGTGCACGTCTGTTTTGTGATT 59.578 40.909 13.13 0.00 35.66 2.57
2986 5904 3.119673 TGTGCACGTCTGTTTTGTGATTT 60.120 39.130 13.13 0.00 35.66 2.17
2987 5905 3.240401 GTGCACGTCTGTTTTGTGATTTG 59.760 43.478 0.00 0.00 35.66 2.32
2988 5906 3.127721 TGCACGTCTGTTTTGTGATTTGA 59.872 39.130 0.00 0.00 35.66 2.69
2989 5907 4.202000 TGCACGTCTGTTTTGTGATTTGAT 60.202 37.500 0.00 0.00 35.66 2.57
2990 5908 4.146961 GCACGTCTGTTTTGTGATTTGATG 59.853 41.667 0.00 0.00 35.66 3.07
2991 5909 4.146961 CACGTCTGTTTTGTGATTTGATGC 59.853 41.667 0.00 0.00 35.66 3.91
2992 5910 4.202000 ACGTCTGTTTTGTGATTTGATGCA 60.202 37.500 0.00 0.00 0.00 3.96
2993 5911 4.919168 CGTCTGTTTTGTGATTTGATGCAT 59.081 37.500 0.00 0.00 0.00 3.96
2994 5912 5.403166 CGTCTGTTTTGTGATTTGATGCATT 59.597 36.000 0.00 0.00 0.00 3.56
2995 5913 6.586751 GTCTGTTTTGTGATTTGATGCATTG 58.413 36.000 0.00 0.00 0.00 2.82
2996 5914 6.201425 GTCTGTTTTGTGATTTGATGCATTGT 59.799 34.615 0.00 0.00 0.00 2.71
2997 5915 6.762187 TCTGTTTTGTGATTTGATGCATTGTT 59.238 30.769 0.00 0.00 0.00 2.83
2998 5916 6.716438 TGTTTTGTGATTTGATGCATTGTTG 58.284 32.000 0.00 0.00 0.00 3.33
3015 5933 2.917701 TTGCATGCCAACTAATGACG 57.082 45.000 16.68 0.00 0.00 4.35
3016 5934 2.106477 TGCATGCCAACTAATGACGA 57.894 45.000 16.68 0.00 0.00 4.20
3017 5935 1.737236 TGCATGCCAACTAATGACGAC 59.263 47.619 16.68 0.00 0.00 4.34
3018 5936 2.009774 GCATGCCAACTAATGACGACT 58.990 47.619 6.36 0.00 0.00 4.18
3019 5937 2.223112 GCATGCCAACTAATGACGACTG 60.223 50.000 6.36 0.00 0.00 3.51
3020 5938 3.261580 CATGCCAACTAATGACGACTGA 58.738 45.455 0.00 0.00 0.00 3.41
3021 5939 2.959516 TGCCAACTAATGACGACTGAG 58.040 47.619 0.00 0.00 0.00 3.35
3022 5940 2.560981 TGCCAACTAATGACGACTGAGA 59.439 45.455 0.00 0.00 0.00 3.27
3023 5941 3.182967 GCCAACTAATGACGACTGAGAG 58.817 50.000 0.00 0.00 0.00 3.20
3024 5942 3.119459 GCCAACTAATGACGACTGAGAGA 60.119 47.826 0.00 0.00 0.00 3.10
3025 5943 4.667262 CCAACTAATGACGACTGAGAGAG 58.333 47.826 0.00 0.00 0.00 3.20
3026 5944 4.439426 CCAACTAATGACGACTGAGAGAGG 60.439 50.000 0.00 0.00 0.00 3.69
3027 5945 2.685897 ACTAATGACGACTGAGAGAGGC 59.314 50.000 0.00 0.00 0.00 4.70
3028 5946 1.846007 AATGACGACTGAGAGAGGCT 58.154 50.000 0.00 0.00 0.00 4.58
3029 5947 1.102154 ATGACGACTGAGAGAGGCTG 58.898 55.000 0.00 0.00 0.00 4.85
3030 5948 0.036875 TGACGACTGAGAGAGGCTGA 59.963 55.000 0.00 0.00 0.00 4.26
3031 5949 0.732571 GACGACTGAGAGAGGCTGAG 59.267 60.000 0.00 0.00 33.63 3.35
3032 5950 0.326595 ACGACTGAGAGAGGCTGAGA 59.673 55.000 0.00 0.00 31.65 3.27
3033 5951 1.016627 CGACTGAGAGAGGCTGAGAG 58.983 60.000 0.00 0.00 31.65 3.20
3034 5952 1.392589 GACTGAGAGAGGCTGAGAGG 58.607 60.000 0.00 0.00 31.65 3.69
3035 5953 0.033208 ACTGAGAGAGGCTGAGAGGG 60.033 60.000 0.00 0.00 31.65 4.30
3036 5954 0.258484 CTGAGAGAGGCTGAGAGGGA 59.742 60.000 0.00 0.00 27.95 4.20
3037 5955 0.258484 TGAGAGAGGCTGAGAGGGAG 59.742 60.000 0.00 0.00 0.00 4.30
3038 5956 0.468029 GAGAGAGGCTGAGAGGGAGG 60.468 65.000 0.00 0.00 0.00 4.30
3039 5957 1.457455 GAGAGGCTGAGAGGGAGGG 60.457 68.421 0.00 0.00 0.00 4.30
3040 5958 2.236959 GAGAGGCTGAGAGGGAGGGT 62.237 65.000 0.00 0.00 0.00 4.34
3041 5959 0.926720 AGAGGCTGAGAGGGAGGGTA 60.927 60.000 0.00 0.00 0.00 3.69
3042 5960 0.189822 GAGGCTGAGAGGGAGGGTAT 59.810 60.000 0.00 0.00 0.00 2.73
3043 5961 1.429687 GAGGCTGAGAGGGAGGGTATA 59.570 57.143 0.00 0.00 0.00 1.47
3044 5962 2.043801 GAGGCTGAGAGGGAGGGTATAT 59.956 54.545 0.00 0.00 0.00 0.86
3045 5963 2.183679 GGCTGAGAGGGAGGGTATATG 58.816 57.143 0.00 0.00 0.00 1.78
3046 5964 2.183679 GCTGAGAGGGAGGGTATATGG 58.816 57.143 0.00 0.00 0.00 2.74
3047 5965 2.826488 CTGAGAGGGAGGGTATATGGG 58.174 57.143 0.00 0.00 0.00 4.00
3048 5966 1.437149 TGAGAGGGAGGGTATATGGGG 59.563 57.143 0.00 0.00 0.00 4.96
3049 5967 0.800239 AGAGGGAGGGTATATGGGGG 59.200 60.000 0.00 0.00 0.00 5.40
3050 5968 0.496841 GAGGGAGGGTATATGGGGGT 59.503 60.000 0.00 0.00 0.00 4.95
3051 5969 0.196118 AGGGAGGGTATATGGGGGTG 59.804 60.000 0.00 0.00 0.00 4.61
3052 5970 0.104090 GGGAGGGTATATGGGGGTGT 60.104 60.000 0.00 0.00 0.00 4.16
3053 5971 1.701238 GGGAGGGTATATGGGGGTGTT 60.701 57.143 0.00 0.00 0.00 3.32
3054 5972 2.141067 GGAGGGTATATGGGGGTGTTT 58.859 52.381 0.00 0.00 0.00 2.83
3055 5973 2.158519 GGAGGGTATATGGGGGTGTTTG 60.159 54.545 0.00 0.00 0.00 2.93
3056 5974 2.512476 GAGGGTATATGGGGGTGTTTGT 59.488 50.000 0.00 0.00 0.00 2.83
3057 5975 2.930405 AGGGTATATGGGGGTGTTTGTT 59.070 45.455 0.00 0.00 0.00 2.83
3058 5976 3.338519 AGGGTATATGGGGGTGTTTGTTT 59.661 43.478 0.00 0.00 0.00 2.83
3059 5977 4.098155 GGGTATATGGGGGTGTTTGTTTT 58.902 43.478 0.00 0.00 0.00 2.43
3060 5978 4.160814 GGGTATATGGGGGTGTTTGTTTTC 59.839 45.833 0.00 0.00 0.00 2.29
3061 5979 4.773149 GGTATATGGGGGTGTTTGTTTTCA 59.227 41.667 0.00 0.00 0.00 2.69
3062 5980 5.105513 GGTATATGGGGGTGTTTGTTTTCAG 60.106 44.000 0.00 0.00 0.00 3.02
3063 5981 1.490574 TGGGGGTGTTTGTTTTCAGG 58.509 50.000 0.00 0.00 0.00 3.86
3064 5982 0.756294 GGGGGTGTTTGTTTTCAGGG 59.244 55.000 0.00 0.00 0.00 4.45
3065 5983 1.689892 GGGGGTGTTTGTTTTCAGGGA 60.690 52.381 0.00 0.00 0.00 4.20
3066 5984 1.411246 GGGGTGTTTGTTTTCAGGGAC 59.589 52.381 0.00 0.00 0.00 4.46
3067 5985 2.384828 GGGTGTTTGTTTTCAGGGACT 58.615 47.619 0.00 0.00 43.88 3.85
3068 5986 2.764010 GGGTGTTTGTTTTCAGGGACTT 59.236 45.455 0.00 0.00 34.60 3.01
3069 5987 3.196901 GGGTGTTTGTTTTCAGGGACTTT 59.803 43.478 0.00 0.00 34.60 2.66
3070 5988 4.323180 GGGTGTTTGTTTTCAGGGACTTTT 60.323 41.667 0.00 0.00 34.60 2.27
3071 5989 5.242434 GGTGTTTGTTTTCAGGGACTTTTT 58.758 37.500 0.00 0.00 34.60 1.94
3072 5990 5.121611 GGTGTTTGTTTTCAGGGACTTTTTG 59.878 40.000 0.00 0.00 34.60 2.44
3073 5991 5.929415 GTGTTTGTTTTCAGGGACTTTTTGA 59.071 36.000 0.00 0.00 34.60 2.69
3074 5992 6.593770 GTGTTTGTTTTCAGGGACTTTTTGAT 59.406 34.615 0.00 0.00 34.60 2.57
3075 5993 6.593382 TGTTTGTTTTCAGGGACTTTTTGATG 59.407 34.615 0.00 0.00 34.60 3.07
3076 5994 5.930837 TGTTTTCAGGGACTTTTTGATGT 57.069 34.783 0.00 0.00 34.60 3.06
3077 5995 7.411486 TTGTTTTCAGGGACTTTTTGATGTA 57.589 32.000 0.00 0.00 34.60 2.29
3078 5996 7.038154 TGTTTTCAGGGACTTTTTGATGTAG 57.962 36.000 0.00 0.00 34.60 2.74
3079 5997 6.040391 TGTTTTCAGGGACTTTTTGATGTAGG 59.960 38.462 0.00 0.00 34.60 3.18
3080 5998 4.301072 TCAGGGACTTTTTGATGTAGGG 57.699 45.455 0.00 0.00 34.60 3.53
3081 5999 3.913799 TCAGGGACTTTTTGATGTAGGGA 59.086 43.478 0.00 0.00 34.60 4.20
3082 6000 4.010349 CAGGGACTTTTTGATGTAGGGAC 58.990 47.826 0.00 0.00 34.60 4.46
3083 6001 3.916989 AGGGACTTTTTGATGTAGGGACT 59.083 43.478 0.00 0.00 38.08 3.85
3084 6002 5.045869 CAGGGACTTTTTGATGTAGGGACTA 60.046 44.000 0.00 0.00 36.39 2.59
3085 6003 5.550403 AGGGACTTTTTGATGTAGGGACTAA 59.450 40.000 0.00 0.00 38.25 2.24
3086 6004 6.045106 AGGGACTTTTTGATGTAGGGACTAAA 59.955 38.462 0.00 0.00 38.25 1.85
3087 6005 6.717997 GGGACTTTTTGATGTAGGGACTAAAA 59.282 38.462 0.00 0.00 45.48 1.52
3088 6006 7.231925 GGGACTTTTTGATGTAGGGACTAAAAA 59.768 37.037 0.00 0.00 45.48 1.94
3108 6026 4.665833 AAAAGTCCCTAGCAAACCAAAC 57.334 40.909 0.00 0.00 0.00 2.93
3109 6027 3.306472 AAGTCCCTAGCAAACCAAACA 57.694 42.857 0.00 0.00 0.00 2.83
3110 6028 2.863809 AGTCCCTAGCAAACCAAACAG 58.136 47.619 0.00 0.00 0.00 3.16
3111 6029 1.886542 GTCCCTAGCAAACCAAACAGG 59.113 52.381 0.00 0.00 45.67 4.00
3112 6030 1.777878 TCCCTAGCAAACCAAACAGGA 59.222 47.619 0.00 0.00 41.22 3.86
3113 6031 2.378547 TCCCTAGCAAACCAAACAGGAT 59.621 45.455 0.00 0.00 41.22 3.24
3114 6032 2.493278 CCCTAGCAAACCAAACAGGATG 59.507 50.000 0.00 0.00 46.00 3.51
3115 6033 2.493278 CCTAGCAAACCAAACAGGATGG 59.507 50.000 0.00 0.00 43.62 3.51
3116 6034 1.341080 AGCAAACCAAACAGGATGGG 58.659 50.000 0.00 0.00 43.62 4.00
3117 6035 1.133199 AGCAAACCAAACAGGATGGGA 60.133 47.619 0.00 0.00 43.62 4.37
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
128 129 2.038952 CTGATGACAGACCAAGGAACCA 59.961 50.000 0.00 0.00 46.03 3.67
256 3028 2.334006 ACATCCCAGTCTCTTGAGGT 57.666 50.000 0.00 0.00 0.00 3.85
283 3055 3.833559 AAGATCCACCAAAAGGACCAT 57.166 42.857 0.00 0.00 38.13 3.55
309 3081 5.173131 GCCGTTCGCTTGGAATAAATTATTG 59.827 40.000 2.58 0.00 36.92 1.90
409 3188 3.706086 TGTGCCAGCTAGTATTGATGAGA 59.294 43.478 0.00 0.00 0.00 3.27
413 3192 4.428294 ACATGTGCCAGCTAGTATTGAT 57.572 40.909 0.00 0.00 0.00 2.57
465 3244 3.313526 GGTCTTCATGCGCAGACATAAAT 59.686 43.478 23.67 0.00 41.19 1.40
467 3246 2.279741 GGTCTTCATGCGCAGACATAA 58.720 47.619 23.67 10.15 41.19 1.90
472 3251 0.671472 CACTGGTCTTCATGCGCAGA 60.671 55.000 18.32 10.94 0.00 4.26
553 3333 2.044252 CTCCTGCAGCCAGCCATT 60.044 61.111 8.66 0.00 44.83 3.16
565 3345 0.107312 CATCCCTGCTGAACCTCCTG 60.107 60.000 0.00 0.00 0.00 3.86
667 3453 3.589881 CTAGCGCATGCAAGGCCC 61.590 66.667 19.57 0.00 43.34 5.80
726 3513 7.094631 CAGAATTTGTTTGATGACATCCACAT 58.905 34.615 12.90 1.89 0.00 3.21
883 3674 4.338879 AGATGGGAGATTTGGTTGTTGAG 58.661 43.478 0.00 0.00 0.00 3.02
884 3675 4.387026 AGATGGGAGATTTGGTTGTTGA 57.613 40.909 0.00 0.00 0.00 3.18
983 3781 1.690633 ATCACTGCTGGATCCGGGT 60.691 57.895 22.38 9.61 0.00 5.28
1009 3807 0.177604 ATCTTCTTGCCTGCCTCTCG 59.822 55.000 0.00 0.00 0.00 4.04
1010 3808 1.209019 TCATCTTCTTGCCTGCCTCTC 59.791 52.381 0.00 0.00 0.00 3.20
1045 3846 2.511600 GAACTCCATGCCGTCGGG 60.512 66.667 14.38 0.00 0.00 5.14
1098 3922 5.177511 GTCATCCTCGATCATTTTGCGAATA 59.822 40.000 0.00 0.00 33.26 1.75
1101 3925 2.866156 GTCATCCTCGATCATTTTGCGA 59.134 45.455 0.00 0.00 0.00 5.10
1105 3929 2.868583 CGCAGTCATCCTCGATCATTTT 59.131 45.455 0.00 0.00 0.00 1.82
1133 3957 1.901159 TGTTGGGGATCAAAATGGCTG 59.099 47.619 0.00 0.00 37.08 4.85
1141 3965 2.378208 TGGAGTTGATGTTGGGGATCAA 59.622 45.455 0.00 0.00 37.46 2.57
1203 4027 3.626924 GTGGCTCCAGTGGTCGGT 61.627 66.667 9.54 0.00 0.00 4.69
1278 4120 3.702548 CCTTGATGAATTCTGCATCCCAA 59.297 43.478 7.05 0.58 41.05 4.12
1344 4186 9.846248 CTAGAAAAAGAAAATGGTCGAATTGAT 57.154 29.630 0.00 0.00 0.00 2.57
1464 4308 7.693951 CGAATTGAATCTACCTTGATGTTTGTC 59.306 37.037 0.00 0.00 0.00 3.18
1469 4313 7.042456 CGAATCGAATTGAATCTACCTTGATGT 60.042 37.037 0.00 0.00 0.00 3.06
1546 4390 0.394938 TATCGCCGGCCAATGTGTAT 59.605 50.000 23.46 4.27 0.00 2.29
1562 4407 9.931210 CTAACCAATTTACAAGGATTTCGTATC 57.069 33.333 0.00 0.00 0.00 2.24
1575 4420 5.765510 AGATGATGCCCTAACCAATTTACA 58.234 37.500 0.00 0.00 0.00 2.41
1706 4560 3.063316 TGTTTCCGCACGTGAATCATATG 59.937 43.478 22.23 0.00 0.00 1.78
1715 4569 0.163788 GTCTCATGTTTCCGCACGTG 59.836 55.000 12.28 12.28 35.31 4.49
1879 4766 9.829507 AAGCATTAATCTATGATGGCTATAGAC 57.170 33.333 3.21 0.00 39.28 2.59
1891 4778 8.341173 GGTGTCAAAGAGAAGCATTAATCTATG 58.659 37.037 0.00 0.00 0.00 2.23
1923 4810 4.538089 AGCCTGAGAGGGAGTAAAAAGAAT 59.462 41.667 0.00 0.00 35.37 2.40
1934 4821 1.130054 AACTTGCAGCCTGAGAGGGA 61.130 55.000 0.00 0.00 35.37 4.20
1986 4875 1.731424 CGTGTCGATAGTCGTTTGGCT 60.731 52.381 0.00 0.00 41.35 4.75
1991 4880 4.330894 TCACTAATCGTGTCGATAGTCGTT 59.669 41.667 5.11 0.00 46.30 3.85
1994 4883 5.152923 TGTCACTAATCGTGTCGATAGTC 57.847 43.478 5.11 1.51 46.30 2.59
1999 4891 5.055642 AGAATTGTCACTAATCGTGTCGA 57.944 39.130 0.00 0.00 44.16 4.20
2079 4981 1.667154 TTCTCCCTGCGGATCGTCTG 61.667 60.000 0.00 0.00 37.60 3.51
2226 5128 3.679502 CACTGAATATGTTCACTGACGCA 59.320 43.478 0.03 0.00 39.36 5.24
2253 5155 8.786898 ACAATGAATAATATATTCACGCAAGCT 58.213 29.630 13.39 0.00 40.37 3.74
2271 5173 5.948162 ACAGCCTCATGTAAAGACAATGAAT 59.052 36.000 0.00 0.00 39.59 2.57
2272 5174 5.316167 ACAGCCTCATGTAAAGACAATGAA 58.684 37.500 0.00 0.00 39.59 2.57
2295 5197 3.142838 GGACTACACCGCCCGCTA 61.143 66.667 0.00 0.00 0.00 4.26
2316 5218 1.836802 GGCCCTAGCTACGCTACTAT 58.163 55.000 7.75 0.00 40.44 2.12
2317 5219 0.604780 CGGCCCTAGCTACGCTACTA 60.605 60.000 0.00 0.00 40.44 1.82
2319 5221 1.895707 TCGGCCCTAGCTACGCTAC 60.896 63.158 0.00 0.00 40.44 3.58
2320 5222 1.895707 GTCGGCCCTAGCTACGCTA 60.896 63.158 0.00 0.00 40.44 4.26
2321 5223 3.217743 GTCGGCCCTAGCTACGCT 61.218 66.667 0.00 0.00 43.41 5.07
2322 5224 4.281947 GGTCGGCCCTAGCTACGC 62.282 72.222 0.00 0.00 39.73 4.42
2323 5225 3.962421 CGGTCGGCCCTAGCTACG 61.962 72.222 0.00 0.00 39.73 3.51
2324 5226 2.517875 TCGGTCGGCCCTAGCTAC 60.518 66.667 0.00 0.00 39.73 3.58
2325 5227 2.517875 GTCGGTCGGCCCTAGCTA 60.518 66.667 0.00 0.00 39.73 3.32
2344 5246 4.659172 TTCAGCTGTTGGCCCGGG 62.659 66.667 19.09 19.09 43.05 5.73
2345 5247 3.058160 CTTCAGCTGTTGGCCCGG 61.058 66.667 14.67 0.00 43.05 5.73
2346 5248 3.741476 GCTTCAGCTGTTGGCCCG 61.741 66.667 14.67 0.00 43.05 6.13
2357 5259 6.320164 AGGTACTGATTCTACTGTAGCTTCAG 59.680 42.308 27.27 27.27 44.29 3.02
2358 5260 6.188407 AGGTACTGATTCTACTGTAGCTTCA 58.812 40.000 9.98 12.83 44.29 3.02
2359 5261 6.702716 AGGTACTGATTCTACTGTAGCTTC 57.297 41.667 9.98 9.31 44.29 3.86
2360 5262 7.117397 TGTAGGTACTGATTCTACTGTAGCTT 58.883 38.462 17.22 0.00 44.29 3.74
2361 5263 6.660800 TGTAGGTACTGATTCTACTGTAGCT 58.339 40.000 9.98 16.59 46.38 3.32
2362 5264 6.939132 TGTAGGTACTGATTCTACTGTAGC 57.061 41.667 9.98 0.00 41.52 3.58
2374 5276 9.953565 AGCAATTTTTAGTATTGTAGGTACTGA 57.046 29.630 0.00 0.00 34.60 3.41
2390 5292 9.360093 CCCATTCGTTAATTGTAGCAATTTTTA 57.640 29.630 11.59 0.00 0.00 1.52
2391 5293 7.875554 ACCCATTCGTTAATTGTAGCAATTTTT 59.124 29.630 11.59 0.00 0.00 1.94
2392 5294 7.330700 CACCCATTCGTTAATTGTAGCAATTTT 59.669 33.333 11.59 0.00 0.00 1.82
2393 5295 6.811170 CACCCATTCGTTAATTGTAGCAATTT 59.189 34.615 11.59 0.00 0.00 1.82
2394 5296 6.329496 CACCCATTCGTTAATTGTAGCAATT 58.671 36.000 11.18 11.18 0.00 2.32
2395 5297 5.678616 GCACCCATTCGTTAATTGTAGCAAT 60.679 40.000 0.00 0.00 0.00 3.56
2396 5298 4.380023 GCACCCATTCGTTAATTGTAGCAA 60.380 41.667 0.00 0.00 0.00 3.91
2397 5299 3.127895 GCACCCATTCGTTAATTGTAGCA 59.872 43.478 0.00 0.00 0.00 3.49
2398 5300 3.127895 TGCACCCATTCGTTAATTGTAGC 59.872 43.478 0.00 0.00 0.00 3.58
2399 5301 4.155099 TGTGCACCCATTCGTTAATTGTAG 59.845 41.667 15.69 0.00 0.00 2.74
2400 5302 4.072839 TGTGCACCCATTCGTTAATTGTA 58.927 39.130 15.69 0.00 0.00 2.41
2401 5303 2.887783 TGTGCACCCATTCGTTAATTGT 59.112 40.909 15.69 0.00 0.00 2.71
2402 5304 3.500982 CTGTGCACCCATTCGTTAATTG 58.499 45.455 15.69 0.00 0.00 2.32
2403 5305 2.491693 CCTGTGCACCCATTCGTTAATT 59.508 45.455 15.69 0.00 0.00 1.40
2404 5306 2.091541 CCTGTGCACCCATTCGTTAAT 58.908 47.619 15.69 0.00 0.00 1.40
2405 5307 1.529226 CCTGTGCACCCATTCGTTAA 58.471 50.000 15.69 0.00 0.00 2.01
2406 5308 0.322098 CCCTGTGCACCCATTCGTTA 60.322 55.000 15.69 0.00 0.00 3.18
2407 5309 1.603455 CCCTGTGCACCCATTCGTT 60.603 57.895 15.69 0.00 0.00 3.85
2408 5310 2.034066 CCCTGTGCACCCATTCGT 59.966 61.111 15.69 0.00 0.00 3.85
2409 5311 2.034066 ACCCTGTGCACCCATTCG 59.966 61.111 15.69 0.00 0.00 3.34
2410 5312 1.978617 CCACCCTGTGCACCCATTC 60.979 63.158 15.69 0.00 31.34 2.67
2411 5313 2.118076 CCACCCTGTGCACCCATT 59.882 61.111 15.69 0.00 31.34 3.16
2412 5314 3.185203 ACCACCCTGTGCACCCAT 61.185 61.111 15.69 0.00 31.34 4.00
2413 5315 4.202574 CACCACCCTGTGCACCCA 62.203 66.667 15.69 0.00 31.34 4.51
2414 5316 2.137177 ATACACCACCCTGTGCACCC 62.137 60.000 15.69 0.00 39.93 4.61
2415 5317 0.251165 AATACACCACCCTGTGCACC 60.251 55.000 15.69 0.00 39.93 5.01
2418 5320 0.679960 GGGAATACACCACCCTGTGC 60.680 60.000 0.00 0.00 39.93 4.57
2437 5339 1.065854 CCTAGCCTGTCAGAACCTTGG 60.066 57.143 0.00 1.89 0.00 3.61
2455 5357 4.721776 TCTCAAATATGGCTTGGACTACCT 59.278 41.667 0.00 0.00 37.04 3.08
2475 5381 6.049149 TCCTGATGAATTTACGAACCATCTC 58.951 40.000 0.00 0.00 35.80 2.75
2478 5384 8.746052 TTTATCCTGATGAATTTACGAACCAT 57.254 30.769 0.00 0.00 0.00 3.55
2493 5399 6.793518 ATCTCTCCCCAATTTTATCCTGAT 57.206 37.500 0.00 0.00 0.00 2.90
2497 5403 6.683861 GCAACAATCTCTCCCCAATTTTATCC 60.684 42.308 0.00 0.00 0.00 2.59
2499 5405 5.129320 GGCAACAATCTCTCCCCAATTTTAT 59.871 40.000 0.00 0.00 0.00 1.40
2525 5431 9.806203 CCAAGTTAAATTGATATGCTTCATTGA 57.194 29.630 16.81 0.00 31.55 2.57
2551 5457 0.445436 CTCATTCTCTTGCACCACGC 59.555 55.000 0.00 0.00 42.89 5.34
2560 5466 5.420421 TCATCCTTTCTCGACTCATTCTCTT 59.580 40.000 0.00 0.00 0.00 2.85
2575 5481 7.984050 TCTTGACTCATTGTAGATCATCCTTTC 59.016 37.037 0.00 0.00 0.00 2.62
2592 5498 3.056607 TGTGCTGATTCGATCTTGACTCA 60.057 43.478 0.00 0.00 0.00 3.41
2656 5562 6.318144 TCACGTAGGACTCTACTAATTCAAGG 59.682 42.308 0.00 0.00 42.71 3.61
2707 5623 5.620738 ACCATACTACTACTCGGACACTA 57.379 43.478 0.00 0.00 0.00 2.74
2708 5624 4.500499 ACCATACTACTACTCGGACACT 57.500 45.455 0.00 0.00 0.00 3.55
2760 5677 2.423898 ATGACCTACACGGCCGGAG 61.424 63.158 31.76 23.68 35.61 4.63
2804 5721 5.517322 ACCTAAACCTGCTCGTATAAGAG 57.483 43.478 10.94 10.94 41.03 2.85
2809 5726 4.082026 ACGTTTACCTAAACCTGCTCGTAT 60.082 41.667 2.96 0.00 41.81 3.06
2828 5745 2.420043 CCACCGACCTGACACGTT 59.580 61.111 0.00 0.00 0.00 3.99
2839 5756 1.418097 ATATGCATCCCAGCCACCGA 61.418 55.000 0.19 0.00 0.00 4.69
2866 5783 4.083164 TCACGGCCGTATACACACATATAG 60.083 45.833 33.70 13.53 0.00 1.31
2867 5784 3.819902 TCACGGCCGTATACACACATATA 59.180 43.478 33.70 0.05 0.00 0.86
2868 5785 2.624364 TCACGGCCGTATACACACATAT 59.376 45.455 33.70 0.00 0.00 1.78
2869 5786 2.022934 TCACGGCCGTATACACACATA 58.977 47.619 33.70 3.27 0.00 2.29
2870 5787 0.818938 TCACGGCCGTATACACACAT 59.181 50.000 33.70 0.00 0.00 3.21
2885 5802 1.493772 TCGCCAAGTTACAACTCACG 58.506 50.000 0.00 0.85 38.57 4.35
2933 5851 3.164268 TGCCAAAGATACATGTGCCTTT 58.836 40.909 9.11 13.99 0.00 3.11
2945 5863 5.182760 TGCACAAAAACTTTTTGCCAAAGAT 59.817 32.000 21.79 3.38 35.40 2.40
2946 5864 4.516698 TGCACAAAAACTTTTTGCCAAAGA 59.483 33.333 21.79 3.41 35.40 2.52
2991 5909 4.327898 GTCATTAGTTGGCATGCAACAATG 59.672 41.667 25.91 25.91 35.26 2.82
2992 5910 4.497300 GTCATTAGTTGGCATGCAACAAT 58.503 39.130 24.86 19.81 35.18 2.71
2993 5911 3.611293 CGTCATTAGTTGGCATGCAACAA 60.611 43.478 24.86 16.95 35.18 2.83
2994 5912 2.095314 CGTCATTAGTTGGCATGCAACA 60.095 45.455 24.86 12.65 35.18 3.33
2995 5913 2.161410 TCGTCATTAGTTGGCATGCAAC 59.839 45.455 21.36 20.00 0.00 4.17
2996 5914 2.161410 GTCGTCATTAGTTGGCATGCAA 59.839 45.455 21.36 4.92 0.00 4.08
2997 5915 1.737236 GTCGTCATTAGTTGGCATGCA 59.263 47.619 21.36 2.54 0.00 3.96
2998 5916 2.009774 AGTCGTCATTAGTTGGCATGC 58.990 47.619 9.90 9.90 0.00 4.06
2999 5917 3.261580 TCAGTCGTCATTAGTTGGCATG 58.738 45.455 0.00 0.00 0.00 4.06
3000 5918 3.195610 TCTCAGTCGTCATTAGTTGGCAT 59.804 43.478 0.00 0.00 0.00 4.40
3001 5919 2.560981 TCTCAGTCGTCATTAGTTGGCA 59.439 45.455 0.00 0.00 0.00 4.92
3002 5920 3.119459 TCTCTCAGTCGTCATTAGTTGGC 60.119 47.826 0.00 0.00 0.00 4.52
3003 5921 4.439426 CCTCTCTCAGTCGTCATTAGTTGG 60.439 50.000 0.00 0.00 0.00 3.77
3004 5922 4.667262 CCTCTCTCAGTCGTCATTAGTTG 58.333 47.826 0.00 0.00 0.00 3.16
3005 5923 3.129638 GCCTCTCTCAGTCGTCATTAGTT 59.870 47.826 0.00 0.00 0.00 2.24
3006 5924 2.685897 GCCTCTCTCAGTCGTCATTAGT 59.314 50.000 0.00 0.00 0.00 2.24
3007 5925 2.948979 AGCCTCTCTCAGTCGTCATTAG 59.051 50.000 0.00 0.00 0.00 1.73
3008 5926 2.685388 CAGCCTCTCTCAGTCGTCATTA 59.315 50.000 0.00 0.00 0.00 1.90
3009 5927 1.476085 CAGCCTCTCTCAGTCGTCATT 59.524 52.381 0.00 0.00 0.00 2.57
3010 5928 1.102154 CAGCCTCTCTCAGTCGTCAT 58.898 55.000 0.00 0.00 0.00 3.06
3011 5929 0.036875 TCAGCCTCTCTCAGTCGTCA 59.963 55.000 0.00 0.00 0.00 4.35
3012 5930 0.732571 CTCAGCCTCTCTCAGTCGTC 59.267 60.000 0.00 0.00 0.00 4.20
3013 5931 0.326595 TCTCAGCCTCTCTCAGTCGT 59.673 55.000 0.00 0.00 0.00 4.34
3014 5932 1.016627 CTCTCAGCCTCTCTCAGTCG 58.983 60.000 0.00 0.00 0.00 4.18
3015 5933 1.392589 CCTCTCAGCCTCTCTCAGTC 58.607 60.000 0.00 0.00 0.00 3.51
3016 5934 0.033208 CCCTCTCAGCCTCTCTCAGT 60.033 60.000 0.00 0.00 0.00 3.41
3017 5935 0.258484 TCCCTCTCAGCCTCTCTCAG 59.742 60.000 0.00 0.00 0.00 3.35
3018 5936 0.258484 CTCCCTCTCAGCCTCTCTCA 59.742 60.000 0.00 0.00 0.00 3.27
3019 5937 0.468029 CCTCCCTCTCAGCCTCTCTC 60.468 65.000 0.00 0.00 0.00 3.20
3020 5938 1.620259 CCTCCCTCTCAGCCTCTCT 59.380 63.158 0.00 0.00 0.00 3.10
3021 5939 1.457455 CCCTCCCTCTCAGCCTCTC 60.457 68.421 0.00 0.00 0.00 3.20
3022 5940 0.926720 TACCCTCCCTCTCAGCCTCT 60.927 60.000 0.00 0.00 0.00 3.69
3023 5941 0.189822 ATACCCTCCCTCTCAGCCTC 59.810 60.000 0.00 0.00 0.00 4.70
3024 5942 1.547099 TATACCCTCCCTCTCAGCCT 58.453 55.000 0.00 0.00 0.00 4.58
3025 5943 2.183679 CATATACCCTCCCTCTCAGCC 58.816 57.143 0.00 0.00 0.00 4.85
3026 5944 2.183679 CCATATACCCTCCCTCTCAGC 58.816 57.143 0.00 0.00 0.00 4.26
3027 5945 2.560841 CCCCATATACCCTCCCTCTCAG 60.561 59.091 0.00 0.00 0.00 3.35
3028 5946 1.437149 CCCCATATACCCTCCCTCTCA 59.563 57.143 0.00 0.00 0.00 3.27
3029 5947 1.273896 CCCCCATATACCCTCCCTCTC 60.274 61.905 0.00 0.00 0.00 3.20
3030 5948 0.800239 CCCCCATATACCCTCCCTCT 59.200 60.000 0.00 0.00 0.00 3.69
3031 5949 0.496841 ACCCCCATATACCCTCCCTC 59.503 60.000 0.00 0.00 0.00 4.30
3032 5950 0.196118 CACCCCCATATACCCTCCCT 59.804 60.000 0.00 0.00 0.00 4.20
3033 5951 0.104090 ACACCCCCATATACCCTCCC 60.104 60.000 0.00 0.00 0.00 4.30
3034 5952 1.829138 AACACCCCCATATACCCTCC 58.171 55.000 0.00 0.00 0.00 4.30
3035 5953 2.512476 ACAAACACCCCCATATACCCTC 59.488 50.000 0.00 0.00 0.00 4.30
3036 5954 2.580232 ACAAACACCCCCATATACCCT 58.420 47.619 0.00 0.00 0.00 4.34
3037 5955 3.391799 AACAAACACCCCCATATACCC 57.608 47.619 0.00 0.00 0.00 3.69
3038 5956 4.773149 TGAAAACAAACACCCCCATATACC 59.227 41.667 0.00 0.00 0.00 2.73
3039 5957 5.105513 CCTGAAAACAAACACCCCCATATAC 60.106 44.000 0.00 0.00 0.00 1.47
3040 5958 5.020132 CCTGAAAACAAACACCCCCATATA 58.980 41.667 0.00 0.00 0.00 0.86
3041 5959 3.837731 CCTGAAAACAAACACCCCCATAT 59.162 43.478 0.00 0.00 0.00 1.78
3042 5960 3.235200 CCTGAAAACAAACACCCCCATA 58.765 45.455 0.00 0.00 0.00 2.74
3043 5961 2.046292 CCTGAAAACAAACACCCCCAT 58.954 47.619 0.00 0.00 0.00 4.00
3044 5962 1.490574 CCTGAAAACAAACACCCCCA 58.509 50.000 0.00 0.00 0.00 4.96
3045 5963 0.756294 CCCTGAAAACAAACACCCCC 59.244 55.000 0.00 0.00 0.00 5.40
3046 5964 1.411246 GTCCCTGAAAACAAACACCCC 59.589 52.381 0.00 0.00 0.00 4.95
3047 5965 2.384828 AGTCCCTGAAAACAAACACCC 58.615 47.619 0.00 0.00 0.00 4.61
3048 5966 4.465632 AAAGTCCCTGAAAACAAACACC 57.534 40.909 0.00 0.00 0.00 4.16
3049 5967 5.929415 TCAAAAAGTCCCTGAAAACAAACAC 59.071 36.000 0.00 0.00 0.00 3.32
3050 5968 6.102897 TCAAAAAGTCCCTGAAAACAAACA 57.897 33.333 0.00 0.00 0.00 2.83
3051 5969 6.593770 ACATCAAAAAGTCCCTGAAAACAAAC 59.406 34.615 0.00 0.00 0.00 2.93
3052 5970 6.706295 ACATCAAAAAGTCCCTGAAAACAAA 58.294 32.000 0.00 0.00 0.00 2.83
3053 5971 6.293004 ACATCAAAAAGTCCCTGAAAACAA 57.707 33.333 0.00 0.00 0.00 2.83
3054 5972 5.930837 ACATCAAAAAGTCCCTGAAAACA 57.069 34.783 0.00 0.00 0.00 2.83
3055 5973 6.447162 CCTACATCAAAAAGTCCCTGAAAAC 58.553 40.000 0.00 0.00 0.00 2.43
3056 5974 5.538433 CCCTACATCAAAAAGTCCCTGAAAA 59.462 40.000 0.00 0.00 0.00 2.29
3057 5975 5.076873 CCCTACATCAAAAAGTCCCTGAAA 58.923 41.667 0.00 0.00 0.00 2.69
3058 5976 4.352595 TCCCTACATCAAAAAGTCCCTGAA 59.647 41.667 0.00 0.00 0.00 3.02
3059 5977 3.913799 TCCCTACATCAAAAAGTCCCTGA 59.086 43.478 0.00 0.00 0.00 3.86
3060 5978 4.010349 GTCCCTACATCAAAAAGTCCCTG 58.990 47.826 0.00 0.00 0.00 4.45
3061 5979 3.916989 AGTCCCTACATCAAAAAGTCCCT 59.083 43.478 0.00 0.00 0.00 4.20
3062 5980 4.302559 AGTCCCTACATCAAAAAGTCCC 57.697 45.455 0.00 0.00 0.00 4.46
3063 5981 7.754851 TTTTAGTCCCTACATCAAAAAGTCC 57.245 36.000 0.00 0.00 0.00 3.85
3086 6004 4.468153 TGTTTGGTTTGCTAGGGACTTTTT 59.532 37.500 0.00 0.00 41.75 1.94
3087 6005 4.027437 TGTTTGGTTTGCTAGGGACTTTT 58.973 39.130 0.00 0.00 41.75 2.27
3088 6006 3.636764 CTGTTTGGTTTGCTAGGGACTTT 59.363 43.478 0.00 0.00 41.75 2.66
3089 6007 3.222603 CTGTTTGGTTTGCTAGGGACTT 58.777 45.455 0.00 0.00 41.75 3.01
3090 6008 2.489073 CCTGTTTGGTTTGCTAGGGACT 60.489 50.000 0.00 0.00 46.37 3.85
3091 6009 1.886542 CCTGTTTGGTTTGCTAGGGAC 59.113 52.381 0.00 0.00 0.00 4.46
3092 6010 1.777878 TCCTGTTTGGTTTGCTAGGGA 59.222 47.619 0.00 0.00 37.07 4.20
3093 6011 2.286365 TCCTGTTTGGTTTGCTAGGG 57.714 50.000 0.00 0.00 37.07 3.53
3094 6012 2.493278 CCATCCTGTTTGGTTTGCTAGG 59.507 50.000 0.00 0.00 37.07 3.02
3095 6013 2.493278 CCCATCCTGTTTGGTTTGCTAG 59.507 50.000 0.00 0.00 37.07 3.42
3096 6014 2.109128 TCCCATCCTGTTTGGTTTGCTA 59.891 45.455 0.00 0.00 37.07 3.49
3097 6015 1.133199 TCCCATCCTGTTTGGTTTGCT 60.133 47.619 0.00 0.00 37.07 3.91
3098 6016 1.337118 TCCCATCCTGTTTGGTTTGC 58.663 50.000 0.00 0.00 37.07 3.68


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

AutoCloner maintained by Alex Coulton.