Multiple sequence alignment - TraesCS3D01G308200

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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 TraesCS3D01G308200 chr3D 100.000 3316 0 0 1 3316 422063283 422059968 0.000000e+00 6124
1 TraesCS3D01G308200 chr3D 91.018 167 15 0 3131 3297 87926162 87925996 3.330000e-55 226
2 TraesCS3D01G308200 chr3D 91.925 161 13 0 1 161 422096253 422096093 3.330000e-55 226
3 TraesCS3D01G308200 chr3B 93.600 2453 114 19 1 2448 549794160 549791746 0.000000e+00 3620
4 TraesCS3D01G308200 chr3B 88.889 495 36 11 2646 3134 549767799 549767318 2.850000e-165 592
5 TraesCS3D01G308200 chr3B 91.925 161 13 0 1 161 126026065 126025905 3.330000e-55 226
6 TraesCS3D01G308200 chr3A 95.280 2288 87 9 162 2448 529105515 529107782 0.000000e+00 3607
7 TraesCS3D01G308200 chr3A 87.692 455 47 7 2648 3101 529109656 529110102 3.790000e-144 521
8 TraesCS3D01G308200 chr3A 93.125 160 11 0 2 161 361396357 361396198 5.530000e-58 235
9 TraesCS3D01G308200 chr3A 88.824 170 19 0 3132 3301 93902622 93902791 3.350000e-50 209
10 TraesCS3D01G308200 chr7D 94.194 155 7 2 8 161 557381113 557380960 5.530000e-58 235
11 TraesCS3D01G308200 chr2D 93.548 155 10 0 8 162 337218606 337218452 7.150000e-57 231
12 TraesCS3D01G308200 chr2D 90.244 164 16 0 3132 3295 81004918 81004755 7.200000e-52 215
13 TraesCS3D01G308200 chr6D 91.975 162 13 0 1 162 70199912 70200073 9.250000e-56 228
14 TraesCS3D01G308200 chr4D 93.506 154 9 1 8 161 224352593 224352441 9.250000e-56 228
15 TraesCS3D01G308200 chr4D 89.881 168 17 0 3132 3299 117421352 117421185 2.000000e-52 217
16 TraesCS3D01G308200 chr4B 91.925 161 12 1 8 168 471671076 471670917 1.200000e-54 224
17 TraesCS3D01G308200 chr4B 88.571 175 18 2 3132 3305 795545 795718 9.320000e-51 211
18 TraesCS3D01G308200 chr4B 88.202 178 19 2 3129 3304 653312524 653312701 9.320000e-51 211
19 TraesCS3D01G308200 chrUn 89.759 166 16 1 3132 3297 141680746 141680910 9.320000e-51 211
20 TraesCS3D01G308200 chr7B 90.123 162 16 0 3132 3293 460995606 460995767 9.320000e-51 211
21 TraesCS3D01G308200 chr2A 87.778 180 17 4 3121 3296 275929222 275929400 4.340000e-49 206
22 TraesCS3D01G308200 chr2A 73.754 301 63 14 1272 1564 444797378 444797086 1.630000e-18 104


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 TraesCS3D01G308200 chr3D 422059968 422063283 3315 True 6124 6124 100.000 1 3316 1 chr3D.!!$R2 3315
1 TraesCS3D01G308200 chr3B 549791746 549794160 2414 True 3620 3620 93.600 1 2448 1 chr3B.!!$R3 2447
2 TraesCS3D01G308200 chr3A 529105515 529110102 4587 False 2064 3607 91.486 162 3101 2 chr3A.!!$F2 2939

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
70 71 0.099791 CTCTTCGAGAGAGCCCGAAC 59.900 60.0 10.36 0.0 45.07 3.95 F
123 124 0.973632 TCCAAGACGCCTTGCTTAGA 59.026 50.0 5.87 0.0 46.42 2.10 F
1117 1122 1.047801 GAGCTCCTTCCTCAGGGATC 58.952 60.0 0.87 0.0 44.12 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1739 1745 0.463474 GCAGGAGATTCTGGTCCAGC 60.463 60.000 14.64 0.13 38.08 4.85 R
1845 1851 2.187163 GAAGGCCCGGCTCAGTAC 59.813 66.667 9.86 0.00 0.00 2.73 R
2353 2359 0.100682 CAGCGAGCCACGTGTACTAT 59.899 55.000 15.65 0.00 44.60 2.12 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 7.830697 CCCATATCAATACAATCAATAGCAGGA 59.169 37.037 0.00 0.00 0.00 3.86
38 39 8.671921 CCATATCAATACAATCAATAGCAGGAC 58.328 37.037 0.00 0.00 0.00 3.85
39 40 6.791887 ATCAATACAATCAATAGCAGGACG 57.208 37.500 0.00 0.00 0.00 4.79
40 41 5.670485 TCAATACAATCAATAGCAGGACGT 58.330 37.500 0.00 0.00 0.00 4.34
41 42 6.811954 TCAATACAATCAATAGCAGGACGTA 58.188 36.000 0.00 0.00 0.00 3.57
42 43 6.923508 TCAATACAATCAATAGCAGGACGTAG 59.076 38.462 0.00 0.00 0.00 3.51
43 44 4.060038 ACAATCAATAGCAGGACGTAGG 57.940 45.455 0.00 0.00 0.00 3.18
44 45 3.181465 ACAATCAATAGCAGGACGTAGGG 60.181 47.826 0.00 0.00 0.00 3.53
70 71 0.099791 CTCTTCGAGAGAGCCCGAAC 59.900 60.000 10.36 0.00 45.07 3.95
83 84 2.500392 CCCGAACCTGGGTAAAATCA 57.500 50.000 0.00 0.00 44.76 2.57
85 86 2.687935 CCCGAACCTGGGTAAAATCATG 59.312 50.000 0.00 0.00 44.76 3.07
90 91 4.657814 ACCTGGGTAAAATCATGTGTCT 57.342 40.909 0.00 0.00 0.00 3.41
105 106 1.993370 GTGTCTGTGTTACCATCGCTC 59.007 52.381 0.00 0.00 0.00 5.03
118 119 3.793144 CGCTCCAAGACGCCTTGC 61.793 66.667 5.87 0.00 46.42 4.01
123 124 0.973632 TCCAAGACGCCTTGCTTAGA 59.026 50.000 5.87 0.00 46.42 2.10
126 127 2.417719 CAAGACGCCTTGCTTAGAACT 58.582 47.619 0.00 0.00 42.72 3.01
131 132 2.094130 ACGCCTTGCTTAGAACTCCTAC 60.094 50.000 0.00 0.00 0.00 3.18
135 136 4.159879 GCCTTGCTTAGAACTCCTACTACA 59.840 45.833 0.00 0.00 0.00 2.74
152 153 8.057011 TCCTACTACAAGATATGCCGGATATAA 58.943 37.037 5.05 0.00 0.00 0.98
155 156 8.773404 ACTACAAGATATGCCGGATATAAAAC 57.227 34.615 5.05 0.10 0.00 2.43
156 157 7.822822 ACTACAAGATATGCCGGATATAAAACC 59.177 37.037 5.05 0.00 0.00 3.27
234 235 3.876914 TCGCCATCTCGAAATTAGCATTT 59.123 39.130 0.00 0.00 35.31 2.32
235 236 3.970610 CGCCATCTCGAAATTAGCATTTG 59.029 43.478 0.00 0.00 32.35 2.32
299 300 1.667212 CCTAAACCCACGCCGTATTTC 59.333 52.381 0.00 0.00 0.00 2.17
314 315 5.294060 GCCGTATTTCCCGTTAACTATTTGA 59.706 40.000 3.71 0.00 0.00 2.69
316 317 7.626028 GCCGTATTTCCCGTTAACTATTTGAAA 60.626 37.037 3.71 5.85 0.00 2.69
387 389 6.599437 ACTGAACGGTAGAAATCGAATTTTG 58.401 36.000 0.00 0.00 31.47 2.44
404 406 7.551974 TCGAATTTTGGGTTTATACGGAATGTA 59.448 33.333 0.00 0.00 37.49 2.29
436 438 1.446099 TAAGCGCTGCCACTTCTCG 60.446 57.895 12.58 0.00 0.00 4.04
471 473 1.265905 CCAAAGTAGTTTCGGTGCACC 59.734 52.381 26.78 26.78 0.00 5.01
541 543 1.831106 AGACGTTGACATGCCTATCCA 59.169 47.619 0.00 0.00 0.00 3.41
706 709 8.463930 TTTCCATACCATATGATCCTCAAAAC 57.536 34.615 3.65 0.00 0.00 2.43
707 710 7.392766 TCCATACCATATGATCCTCAAAACT 57.607 36.000 3.65 0.00 0.00 2.66
991 996 1.652012 GCGAGAGGGTCTGATCGAG 59.348 63.158 2.10 0.00 37.35 4.04
1117 1122 1.047801 GAGCTCCTTCCTCAGGGATC 58.952 60.000 0.87 0.00 44.12 3.36
1377 1382 2.693762 CGGCTACGTCAGGTCGGAA 61.694 63.158 0.00 0.00 34.81 4.30
1575 1580 2.743752 CGGTGAGCTGCAATCCGTG 61.744 63.158 16.74 0.00 36.99 4.94
1845 1851 0.321653 CAAAGGTTCTCCCTGGACGG 60.322 60.000 0.00 0.00 45.47 4.79
2159 2165 4.749310 CTGCTCAGGCGACCGCTT 62.749 66.667 14.25 3.49 42.25 4.68
2397 2403 8.296000 TGTACGCTAACACAAATACAGTAGTAA 58.704 33.333 0.00 0.00 33.13 2.24
2399 2405 8.592105 ACGCTAACACAAATACAGTAGTAAAA 57.408 30.769 0.00 0.00 33.13 1.52
2416 2422 0.832626 AAAAGTTGCTTTGCAGGCCT 59.167 45.000 0.00 0.00 40.61 5.19
2448 2454 1.665679 GCAATGGTCCGACATGTGTAG 59.334 52.381 1.15 0.00 0.00 2.74
2449 2455 2.279741 CAATGGTCCGACATGTGTAGG 58.720 52.381 1.15 3.97 41.43 3.18
2450 2456 1.860641 ATGGTCCGACATGTGTAGGA 58.139 50.000 1.15 10.43 45.52 2.94
2458 4130 2.263077 GACATGTGTAGGAGTTCGCTG 58.737 52.381 1.15 0.00 0.00 5.18
2465 4137 1.135053 GTAGGAGTTCGCTGGGAGTTC 60.135 57.143 0.00 0.00 0.00 3.01
2469 4141 0.321996 AGTTCGCTGGGAGTTCCTTC 59.678 55.000 0.00 0.00 36.20 3.46
2471 4143 0.608640 TTCGCTGGGAGTTCCTTCTC 59.391 55.000 0.00 0.00 36.20 2.87
2480 4152 2.354203 GGAGTTCCTTCTCAGCGAATGT 60.354 50.000 0.00 0.00 36.30 2.71
2483 4155 3.067106 GTTCCTTCTCAGCGAATGTTCA 58.933 45.455 0.00 0.00 0.00 3.18
2499 4181 7.148540 GCGAATGTTCACCAGTTATGTTTACTA 60.149 37.037 0.00 0.00 0.00 1.82
2598 4280 5.509716 TTGTTCGATCTGGTGTATCGTAT 57.490 39.130 5.50 0.00 45.01 3.06
2604 4286 8.975439 GTTCGATCTGGTGTATCGTATAAAAAT 58.025 33.333 5.50 0.00 45.01 1.82
2606 4288 7.536281 TCGATCTGGTGTATCGTATAAAAATCG 59.464 37.037 5.50 0.00 45.01 3.34
2610 4292 7.587392 TCTGGTGTATCGTATAAAAATCGTACG 59.413 37.037 9.53 9.53 41.71 3.67
2611 4293 6.142161 TGGTGTATCGTATAAAAATCGTACGC 59.858 38.462 11.24 0.00 40.55 4.42
2641 4323 4.319766 CGCATAGCACAACTCTTCTTGTTT 60.320 41.667 0.00 0.00 31.73 2.83
2642 4324 5.107104 CGCATAGCACAACTCTTCTTGTTTA 60.107 40.000 0.00 0.00 31.73 2.01
2643 4325 6.310197 GCATAGCACAACTCTTCTTGTTTAG 58.690 40.000 0.00 0.00 31.73 1.85
2644 4326 6.073003 GCATAGCACAACTCTTCTTGTTTAGT 60.073 38.462 0.00 0.00 31.73 2.24
2645 4327 7.117812 GCATAGCACAACTCTTCTTGTTTAGTA 59.882 37.037 0.00 0.00 31.73 1.82
2646 4328 6.846325 AGCACAACTCTTCTTGTTTAGTAC 57.154 37.500 0.00 0.00 31.73 2.73
2652 4360 9.614792 ACAACTCTTCTTGTTTAGTACTTTGAT 57.385 29.630 0.00 0.00 29.66 2.57
2687 4395 9.270640 TGTGCTTAAATTGTTGCAATATTTTCT 57.729 25.926 20.55 6.52 37.17 2.52
2690 4398 8.934825 GCTTAAATTGTTGCAATATTTTCTCCA 58.065 29.630 20.55 2.89 0.00 3.86
2695 4403 7.531857 TTGTTGCAATATTTTCTCCAAGGTA 57.468 32.000 0.59 0.00 0.00 3.08
2699 4407 7.333528 TGCAATATTTTCTCCAAGGTATGAC 57.666 36.000 0.00 0.00 0.00 3.06
2700 4408 6.889177 TGCAATATTTTCTCCAAGGTATGACA 59.111 34.615 0.00 0.00 0.00 3.58
2765 4473 6.677781 TCAACACAAAGCTATATAGGCAAC 57.322 37.500 11.72 0.00 0.00 4.17
2771 4479 6.202762 CACAAAGCTATATAGGCAACGAATCA 59.797 38.462 11.72 0.00 46.39 2.57
2775 4483 8.709386 AAGCTATATAGGCAACGAATCATAAG 57.291 34.615 11.72 0.00 46.39 1.73
2785 4493 7.120579 AGGCAACGAATCATAAGATTTACAACA 59.879 33.333 0.00 0.00 44.30 3.33
2786 4494 7.915397 GGCAACGAATCATAAGATTTACAACAT 59.085 33.333 0.00 0.00 44.30 2.71
2844 4552 2.062519 ACGCAACAACACAAAAACACC 58.937 42.857 0.00 0.00 0.00 4.16
2850 4558 1.581602 CAACACAAAAACACCTTCGCG 59.418 47.619 0.00 0.00 0.00 5.87
2857 4565 1.588674 AAACACCTTCGCGTCATGAA 58.411 45.000 5.77 0.00 0.00 2.57
2870 4578 8.766493 TTCGCGTCATGAATCAAAATATTTAG 57.234 30.769 5.77 0.00 0.00 1.85
2874 4582 6.578545 CGTCATGAATCAAAATATTTAGCGGG 59.421 38.462 0.00 0.00 0.00 6.13
2888 4596 2.029844 GCGGGCGCCTAGAATCATC 61.030 63.158 28.56 4.75 34.56 2.92
2919 4627 3.242712 GCACTTGTGTGTATGCAACAAAC 59.757 43.478 12.65 12.65 45.34 2.93
2921 4629 4.500117 CACTTGTGTGTATGCAACAAACTG 59.500 41.667 17.55 13.87 45.35 3.16
2940 4648 0.317938 GTATACGAGCTCGCCACAGG 60.318 60.000 34.83 8.55 44.43 4.00
2960 4668 2.359900 GTCGAAAGAGCCCATGACATT 58.640 47.619 0.00 0.00 43.49 2.71
2963 4671 2.749076 CGAAAGAGCCCATGACATTTCA 59.251 45.455 0.00 0.00 35.73 2.69
2964 4672 3.191162 CGAAAGAGCCCATGACATTTCAA 59.809 43.478 0.00 0.00 34.61 2.69
2966 4674 4.730949 AAGAGCCCATGACATTTCAATG 57.269 40.909 0.00 0.00 42.10 2.82
2989 4697 9.826574 AATGGAAAAATCATTGAATGAGTATGG 57.173 29.630 13.79 0.00 43.53 2.74
2999 4707 4.460263 TGAATGAGTATGGGTATGCCAAC 58.540 43.478 1.04 0.00 36.17 3.77
3001 4709 1.140052 TGAGTATGGGTATGCCAACCG 59.860 52.381 1.04 0.00 40.73 4.44
3007 4715 1.271982 TGGGTATGCCAACCGCTAAAA 60.272 47.619 1.04 0.00 40.73 1.52
3043 4751 7.875316 ATCGCTACACTATTACATTGATCAC 57.125 36.000 0.00 0.00 0.00 3.06
3049 4757 6.582636 ACACTATTACATTGATCACCACGAT 58.417 36.000 0.00 0.00 36.91 3.73
3063 4771 1.136252 CCACGATCAGCACAAACTTCG 60.136 52.381 0.00 0.00 0.00 3.79
3073 4781 3.565482 AGCACAAACTTCGTCATGACAAT 59.435 39.130 24.93 4.60 0.00 2.71
3082 4790 7.121974 ACTTCGTCATGACAATAGAAAACAG 57.878 36.000 24.93 10.46 0.00 3.16
3094 4802 2.091541 AGAAAACAGTGGTGTGGTGTG 58.908 47.619 0.00 0.00 36.84 3.82
3096 4804 0.039035 AAACAGTGGTGTGGTGTGGT 59.961 50.000 0.00 0.00 36.84 4.16
3097 4805 0.679640 AACAGTGGTGTGGTGTGGTG 60.680 55.000 0.00 0.00 36.84 4.17
3101 4809 1.379176 TGGTGTGGTGTGGTGTTGG 60.379 57.895 0.00 0.00 0.00 3.77
3102 4810 1.379309 GGTGTGGTGTGGTGTTGGT 60.379 57.895 0.00 0.00 0.00 3.67
3103 4811 0.968393 GGTGTGGTGTGGTGTTGGTT 60.968 55.000 0.00 0.00 0.00 3.67
3104 4812 0.892063 GTGTGGTGTGGTGTTGGTTT 59.108 50.000 0.00 0.00 0.00 3.27
3105 4813 2.093106 GTGTGGTGTGGTGTTGGTTTA 58.907 47.619 0.00 0.00 0.00 2.01
3106 4814 2.093106 TGTGGTGTGGTGTTGGTTTAC 58.907 47.619 0.00 0.00 0.00 2.01
3107 4815 1.406180 GTGGTGTGGTGTTGGTTTACC 59.594 52.381 0.00 0.00 37.48 2.85
3108 4816 1.285373 TGGTGTGGTGTTGGTTTACCT 59.715 47.619 0.00 0.00 37.84 3.08
3109 4817 2.291670 TGGTGTGGTGTTGGTTTACCTT 60.292 45.455 0.00 0.00 37.84 3.50
3110 4818 2.761767 GGTGTGGTGTTGGTTTACCTTT 59.238 45.455 0.00 0.00 37.84 3.11
3111 4819 3.952967 GGTGTGGTGTTGGTTTACCTTTA 59.047 43.478 0.00 0.00 37.84 1.85
3112 4820 4.202040 GGTGTGGTGTTGGTTTACCTTTAC 60.202 45.833 0.00 0.00 37.84 2.01
3113 4821 4.398673 GTGTGGTGTTGGTTTACCTTTACA 59.601 41.667 0.00 0.10 37.84 2.41
3114 4822 5.068067 GTGTGGTGTTGGTTTACCTTTACAT 59.932 40.000 0.00 0.00 37.84 2.29
3115 4823 5.657302 TGTGGTGTTGGTTTACCTTTACATT 59.343 36.000 0.00 0.00 37.84 2.71
3116 4824 6.183360 TGTGGTGTTGGTTTACCTTTACATTC 60.183 38.462 0.00 1.53 37.84 2.67
3117 4825 6.040054 GTGGTGTTGGTTTACCTTTACATTCT 59.960 38.462 0.00 0.00 37.84 2.40
3118 4826 6.263617 TGGTGTTGGTTTACCTTTACATTCTC 59.736 38.462 0.00 0.00 37.84 2.87
3119 4827 6.294342 GGTGTTGGTTTACCTTTACATTCTCC 60.294 42.308 0.00 0.00 36.82 3.71
3120 4828 6.263617 GTGTTGGTTTACCTTTACATTCTCCA 59.736 38.462 0.00 0.00 36.82 3.86
3121 4829 6.263617 TGTTGGTTTACCTTTACATTCTCCAC 59.736 38.462 0.00 0.00 36.82 4.02
3122 4830 5.942961 TGGTTTACCTTTACATTCTCCACA 58.057 37.500 0.00 0.00 36.82 4.17
3123 4831 6.366340 TGGTTTACCTTTACATTCTCCACAA 58.634 36.000 0.00 0.00 36.82 3.33
3124 4832 7.007723 TGGTTTACCTTTACATTCTCCACAAT 58.992 34.615 0.00 0.00 36.82 2.71
3125 4833 8.164733 TGGTTTACCTTTACATTCTCCACAATA 58.835 33.333 0.00 0.00 36.82 1.90
3126 4834 9.185680 GGTTTACCTTTACATTCTCCACAATAT 57.814 33.333 0.00 0.00 0.00 1.28
3128 4836 9.967451 TTTACCTTTACATTCTCCACAATATCA 57.033 29.630 0.00 0.00 0.00 2.15
3129 4837 9.613428 TTACCTTTACATTCTCCACAATATCAG 57.387 33.333 0.00 0.00 0.00 2.90
3130 4838 7.633789 ACCTTTACATTCTCCACAATATCAGT 58.366 34.615 0.00 0.00 0.00 3.41
3131 4839 8.109634 ACCTTTACATTCTCCACAATATCAGTT 58.890 33.333 0.00 0.00 0.00 3.16
3132 4840 9.613428 CCTTTACATTCTCCACAATATCAGTTA 57.387 33.333 0.00 0.00 0.00 2.24
3135 4843 9.817809 TTACATTCTCCACAATATCAGTTACTC 57.182 33.333 0.00 0.00 0.00 2.59
3136 4844 7.275920 ACATTCTCCACAATATCAGTTACTCC 58.724 38.462 0.00 0.00 0.00 3.85
3137 4845 5.871396 TCTCCACAATATCAGTTACTCCC 57.129 43.478 0.00 0.00 0.00 4.30
3138 4846 5.529289 TCTCCACAATATCAGTTACTCCCT 58.471 41.667 0.00 0.00 0.00 4.20
3139 4847 5.964477 TCTCCACAATATCAGTTACTCCCTT 59.036 40.000 0.00 0.00 0.00 3.95
3140 4848 6.098409 TCTCCACAATATCAGTTACTCCCTTC 59.902 42.308 0.00 0.00 0.00 3.46
3141 4849 5.050490 CCACAATATCAGTTACTCCCTTCG 58.950 45.833 0.00 0.00 0.00 3.79
3142 4850 5.395324 CCACAATATCAGTTACTCCCTTCGT 60.395 44.000 0.00 0.00 0.00 3.85
3143 4851 6.106673 CACAATATCAGTTACTCCCTTCGTT 58.893 40.000 0.00 0.00 0.00 3.85
3144 4852 6.255887 CACAATATCAGTTACTCCCTTCGTTC 59.744 42.308 0.00 0.00 0.00 3.95
3145 4853 3.889520 ATCAGTTACTCCCTTCGTTCC 57.110 47.619 0.00 0.00 0.00 3.62
3146 4854 2.885616 TCAGTTACTCCCTTCGTTCCT 58.114 47.619 0.00 0.00 0.00 3.36
3147 4855 4.038271 TCAGTTACTCCCTTCGTTCCTA 57.962 45.455 0.00 0.00 0.00 2.94
3148 4856 4.410099 TCAGTTACTCCCTTCGTTCCTAA 58.590 43.478 0.00 0.00 0.00 2.69
3149 4857 4.834496 TCAGTTACTCCCTTCGTTCCTAAA 59.166 41.667 0.00 0.00 0.00 1.85
3150 4858 5.482878 TCAGTTACTCCCTTCGTTCCTAAAT 59.517 40.000 0.00 0.00 0.00 1.40
3151 4859 6.664816 TCAGTTACTCCCTTCGTTCCTAAATA 59.335 38.462 0.00 0.00 0.00 1.40
3152 4860 7.343833 TCAGTTACTCCCTTCGTTCCTAAATAT 59.656 37.037 0.00 0.00 0.00 1.28
3153 4861 8.636213 CAGTTACTCCCTTCGTTCCTAAATATA 58.364 37.037 0.00 0.00 0.00 0.86
3154 4862 9.377238 AGTTACTCCCTTCGTTCCTAAATATAT 57.623 33.333 0.00 0.00 0.00 0.86
3155 4863 9.420551 GTTACTCCCTTCGTTCCTAAATATATG 57.579 37.037 0.00 0.00 0.00 1.78
3156 4864 7.613551 ACTCCCTTCGTTCCTAAATATATGT 57.386 36.000 0.00 0.00 0.00 2.29
3157 4865 7.668492 ACTCCCTTCGTTCCTAAATATATGTC 58.332 38.462 0.00 0.00 0.00 3.06
3158 4866 7.509659 ACTCCCTTCGTTCCTAAATATATGTCT 59.490 37.037 0.00 0.00 0.00 3.41
3159 4867 8.258850 TCCCTTCGTTCCTAAATATATGTCTT 57.741 34.615 0.00 0.00 0.00 3.01
3160 4868 8.711170 TCCCTTCGTTCCTAAATATATGTCTTT 58.289 33.333 0.00 0.00 0.00 2.52
3161 4869 9.338622 CCCTTCGTTCCTAAATATATGTCTTTT 57.661 33.333 0.00 0.00 0.00 2.27
3203 4911 6.866010 TTACATACGGATGTGTATAGACGT 57.134 37.500 23.85 0.00 46.11 4.34
3204 4912 7.961325 TTACATACGGATGTGTATAGACGTA 57.039 36.000 23.85 0.00 46.11 3.57
3205 4913 6.233430 ACATACGGATGTGTATAGACGTAC 57.767 41.667 13.83 0.00 44.90 3.67
3206 4914 5.994054 ACATACGGATGTGTATAGACGTACT 59.006 40.000 13.83 0.00 44.90 2.73
3207 4915 6.484643 ACATACGGATGTGTATAGACGTACTT 59.515 38.462 13.83 0.00 44.90 2.24
3208 4916 5.824904 ACGGATGTGTATAGACGTACTTT 57.175 39.130 3.16 0.00 32.30 2.66
3209 4917 6.925610 ACGGATGTGTATAGACGTACTTTA 57.074 37.500 3.16 0.00 32.30 1.85
3210 4918 7.502120 ACGGATGTGTATAGACGTACTTTAT 57.498 36.000 3.16 0.00 32.30 1.40
3211 4919 8.607441 ACGGATGTGTATAGACGTACTTTATA 57.393 34.615 3.16 0.00 32.30 0.98
3212 4920 8.715998 ACGGATGTGTATAGACGTACTTTATAG 58.284 37.037 3.16 0.00 32.30 1.31
3213 4921 8.715998 CGGATGTGTATAGACGTACTTTATAGT 58.284 37.037 3.16 0.00 38.44 2.12
3214 4922 9.823098 GGATGTGTATAGACGTACTTTATAGTG 57.177 37.037 0.00 0.00 35.78 2.74
3225 4933 9.649024 GACGTACTTTATAGTGTAGATTCACTC 57.351 37.037 2.59 0.00 45.79 3.51
3226 4934 9.170734 ACGTACTTTATAGTGTAGATTCACTCA 57.829 33.333 2.59 0.00 45.79 3.41
3233 4941 9.890629 TTATAGTGTAGATTCACTCATTTTGCT 57.109 29.630 2.59 0.00 45.79 3.91
3234 4942 6.734104 AGTGTAGATTCACTCATTTTGCTC 57.266 37.500 0.00 0.00 44.07 4.26
3235 4943 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
3236 4944 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
3237 4945 2.421424 AGATTCACTCATTTTGCTCCGC 59.579 45.455 0.00 0.00 0.00 5.54
3238 4946 1.603456 TTCACTCATTTTGCTCCGCA 58.397 45.000 0.00 0.00 36.47 5.69
3239 4947 1.825090 TCACTCATTTTGCTCCGCAT 58.175 45.000 0.00 0.00 38.76 4.73
3240 4948 1.469703 TCACTCATTTTGCTCCGCATG 59.530 47.619 0.00 0.00 38.76 4.06
3241 4949 1.200716 CACTCATTTTGCTCCGCATGT 59.799 47.619 0.00 0.00 38.76 3.21
3242 4950 2.419673 CACTCATTTTGCTCCGCATGTA 59.580 45.455 0.00 0.00 38.76 2.29
3243 4951 2.679837 ACTCATTTTGCTCCGCATGTAG 59.320 45.455 0.00 0.00 38.76 2.74
3244 4952 2.679837 CTCATTTTGCTCCGCATGTAGT 59.320 45.455 0.00 0.00 38.76 2.73
3245 4953 2.677836 TCATTTTGCTCCGCATGTAGTC 59.322 45.455 0.00 0.00 38.76 2.59
3246 4954 1.448985 TTTTGCTCCGCATGTAGTCC 58.551 50.000 0.00 0.00 38.76 3.85
3247 4955 0.323302 TTTGCTCCGCATGTAGTCCA 59.677 50.000 0.00 0.00 38.76 4.02
3248 4956 0.541392 TTGCTCCGCATGTAGTCCAT 59.459 50.000 0.00 0.00 38.76 3.41
3249 4957 1.408969 TGCTCCGCATGTAGTCCATA 58.591 50.000 0.00 0.00 31.71 2.74
3250 4958 1.970640 TGCTCCGCATGTAGTCCATAT 59.029 47.619 0.00 0.00 31.71 1.78
3251 4959 2.368548 TGCTCCGCATGTAGTCCATATT 59.631 45.455 0.00 0.00 31.71 1.28
3252 4960 2.738846 GCTCCGCATGTAGTCCATATTG 59.261 50.000 0.00 0.00 30.71 1.90
3253 4961 3.554960 GCTCCGCATGTAGTCCATATTGA 60.555 47.826 0.00 0.00 30.71 2.57
3254 4962 4.631131 CTCCGCATGTAGTCCATATTGAA 58.369 43.478 0.00 0.00 30.71 2.69
3255 4963 5.029807 TCCGCATGTAGTCCATATTGAAA 57.970 39.130 0.00 0.00 30.71 2.69
3256 4964 5.620206 TCCGCATGTAGTCCATATTGAAAT 58.380 37.500 0.00 0.00 30.71 2.17
3257 4965 5.700832 TCCGCATGTAGTCCATATTGAAATC 59.299 40.000 0.00 0.00 30.71 2.17
3258 4966 5.702670 CCGCATGTAGTCCATATTGAAATCT 59.297 40.000 0.00 0.00 30.71 2.40
3259 4967 6.128445 CCGCATGTAGTCCATATTGAAATCTC 60.128 42.308 0.00 0.00 30.71 2.75
3260 4968 6.648310 CGCATGTAGTCCATATTGAAATCTCT 59.352 38.462 0.00 0.00 30.71 3.10
3261 4969 7.814587 CGCATGTAGTCCATATTGAAATCTCTA 59.185 37.037 0.00 0.00 30.71 2.43
3262 4970 9.494271 GCATGTAGTCCATATTGAAATCTCTAA 57.506 33.333 0.00 0.00 30.71 2.10
3288 4996 8.959705 AAAGACTTATATTTAGAAACGGAGGG 57.040 34.615 0.00 0.00 0.00 4.30
3289 4997 7.909485 AGACTTATATTTAGAAACGGAGGGA 57.091 36.000 0.00 0.00 0.00 4.20
3290 4998 7.953752 AGACTTATATTTAGAAACGGAGGGAG 58.046 38.462 0.00 0.00 0.00 4.30
3291 4999 7.564292 AGACTTATATTTAGAAACGGAGGGAGT 59.436 37.037 0.00 0.00 0.00 3.85
3292 5000 8.773033 ACTTATATTTAGAAACGGAGGGAGTA 57.227 34.615 0.00 0.00 0.00 2.59
3293 5001 8.637099 ACTTATATTTAGAAACGGAGGGAGTAC 58.363 37.037 0.00 0.00 0.00 2.73
3294 5002 8.537728 TTATATTTAGAAACGGAGGGAGTACA 57.462 34.615 0.00 0.00 0.00 2.90
3295 5003 5.952347 ATTTAGAAACGGAGGGAGTACAT 57.048 39.130 0.00 0.00 0.00 2.29
3296 5004 8.716674 ATATTTAGAAACGGAGGGAGTACATA 57.283 34.615 0.00 0.00 0.00 2.29
3297 5005 5.841957 TTAGAAACGGAGGGAGTACATAC 57.158 43.478 0.00 0.00 0.00 2.39
3298 5006 3.978610 AGAAACGGAGGGAGTACATACT 58.021 45.455 0.00 0.00 39.71 2.12
3299 5007 4.351127 AGAAACGGAGGGAGTACATACTT 58.649 43.478 0.00 0.00 36.50 2.24
3300 5008 5.513233 AGAAACGGAGGGAGTACATACTTA 58.487 41.667 0.00 0.00 36.50 2.24
3301 5009 5.359292 AGAAACGGAGGGAGTACATACTTAC 59.641 44.000 0.00 0.00 36.50 2.34
3302 5010 4.240881 ACGGAGGGAGTACATACTTACA 57.759 45.455 0.00 0.00 36.50 2.41
3303 5011 4.801164 ACGGAGGGAGTACATACTTACAT 58.199 43.478 0.00 0.00 36.50 2.29
3304 5012 5.945310 ACGGAGGGAGTACATACTTACATA 58.055 41.667 0.00 0.00 36.50 2.29
3305 5013 6.550163 ACGGAGGGAGTACATACTTACATAT 58.450 40.000 0.00 0.00 36.50 1.78
3306 5014 6.658391 ACGGAGGGAGTACATACTTACATATC 59.342 42.308 0.00 0.00 36.50 1.63
3307 5015 6.095160 CGGAGGGAGTACATACTTACATATCC 59.905 46.154 0.00 0.00 36.50 2.59
3308 5016 6.095160 GGAGGGAGTACATACTTACATATCCG 59.905 46.154 0.00 0.00 36.50 4.18
3309 5017 5.950549 AGGGAGTACATACTTACATATCCGG 59.049 44.000 0.00 0.00 36.50 5.14
3310 5018 5.713861 GGGAGTACATACTTACATATCCGGT 59.286 44.000 0.00 0.00 36.50 5.28
3311 5019 6.886459 GGGAGTACATACTTACATATCCGGTA 59.114 42.308 0.00 0.00 36.50 4.02
3312 5020 7.148171 GGGAGTACATACTTACATATCCGGTAC 60.148 44.444 0.00 0.00 36.50 3.34
3313 5021 7.391554 GGAGTACATACTTACATATCCGGTACA 59.608 40.741 0.00 0.00 36.50 2.90
3314 5022 8.103948 AGTACATACTTACATATCCGGTACAC 57.896 38.462 0.00 0.00 31.13 2.90
3315 5023 6.336842 ACATACTTACATATCCGGTACACC 57.663 41.667 0.00 0.00 0.00 4.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
30 31 5.013913 AGAGATAATACCCTACGTCCTGCTA 59.986 44.000 0.00 0.00 0.00 3.49
65 66 3.128589 CACATGATTTTACCCAGGTTCGG 59.871 47.826 0.00 0.00 0.00 4.30
66 67 3.756434 ACACATGATTTTACCCAGGTTCG 59.244 43.478 0.00 0.00 0.00 3.95
70 71 4.156556 CACAGACACATGATTTTACCCAGG 59.843 45.833 0.00 0.00 0.00 4.45
118 119 8.301002 GGCATATCTTGTAGTAGGAGTTCTAAG 58.699 40.741 0.00 0.00 0.00 2.18
123 124 4.281182 CCGGCATATCTTGTAGTAGGAGTT 59.719 45.833 0.00 0.00 0.00 3.01
126 127 4.108501 TCCGGCATATCTTGTAGTAGGA 57.891 45.455 0.00 0.00 0.00 2.94
131 132 7.010183 CGGTTTTATATCCGGCATATCTTGTAG 59.990 40.741 0.00 0.00 42.61 2.74
135 136 6.045072 TCGGTTTTATATCCGGCATATCTT 57.955 37.500 0.00 0.00 45.79 2.40
152 153 1.227853 GTGACCCTGCTGTCGGTTT 60.228 57.895 0.00 0.00 38.11 3.27
155 156 2.047844 CAGTGACCCTGCTGTCGG 60.048 66.667 0.00 0.00 38.11 4.79
156 157 2.047844 CCAGTGACCCTGCTGTCG 60.048 66.667 0.00 0.00 40.06 4.35
234 235 2.122324 TCGACTCCCAAACCCCCA 60.122 61.111 0.00 0.00 0.00 4.96
235 236 2.350134 GTCGACTCCCAAACCCCC 59.650 66.667 8.70 0.00 0.00 5.40
404 406 0.102481 CGCTTACGTGCTCAGGGTAT 59.898 55.000 0.00 0.00 33.53 2.73
527 529 1.477377 GCATGGTGGATAGGCATGTCA 60.477 52.381 0.00 0.00 0.00 3.58
541 543 4.094830 TCATTGATAGCTGATGCATGGT 57.905 40.909 2.46 0.00 42.74 3.55
736 739 7.880160 TCCCTTGGTTTCATGTTCTATATTG 57.120 36.000 0.00 0.00 0.00 1.90
810 815 8.245195 AGGTGCCGATAAATAATAAAAATGGT 57.755 30.769 0.00 0.00 0.00 3.55
1356 1361 3.450115 GACCTGACGTAGCCGGCT 61.450 66.667 34.85 34.85 44.61 5.52
1377 1382 1.881602 GTACTCGAGGAACGGCTGT 59.118 57.895 18.41 0.00 42.82 4.40
1595 1600 5.678583 ACATGAAGAATCATCAATCGGAGT 58.321 37.500 0.00 0.00 44.53 3.85
1647 1653 4.386245 GTAGAGAAGGTCTGCGCG 57.614 61.111 0.00 0.00 36.64 6.86
1739 1745 0.463474 GCAGGAGATTCTGGTCCAGC 60.463 60.000 14.64 0.13 38.08 4.85
1845 1851 2.187163 GAAGGCCCGGCTCAGTAC 59.813 66.667 9.86 0.00 0.00 2.73
1905 1911 2.674852 CGTTGCTGAAGTACATGAGCAT 59.325 45.455 12.90 0.00 29.73 3.79
2231 2237 1.129809 GACAACGTCAATGTCGCCG 59.870 57.895 3.28 0.00 37.98 6.46
2343 2349 7.358105 CGAGCCACGTGTACTATAATATTTGTG 60.358 40.741 15.65 0.00 37.22 3.33
2344 2350 6.639686 CGAGCCACGTGTACTATAATATTTGT 59.360 38.462 15.65 0.00 37.22 2.83
2345 2351 6.399669 GCGAGCCACGTGTACTATAATATTTG 60.400 42.308 15.65 0.00 44.60 2.32
2346 2352 5.632347 GCGAGCCACGTGTACTATAATATTT 59.368 40.000 15.65 0.00 44.60 1.40
2347 2353 5.048224 AGCGAGCCACGTGTACTATAATATT 60.048 40.000 15.65 0.00 44.60 1.28
2348 2354 4.458295 AGCGAGCCACGTGTACTATAATAT 59.542 41.667 15.65 0.00 44.60 1.28
2349 2355 3.817084 AGCGAGCCACGTGTACTATAATA 59.183 43.478 15.65 0.00 44.60 0.98
2350 2356 2.621998 AGCGAGCCACGTGTACTATAAT 59.378 45.455 15.65 0.00 44.60 1.28
2351 2357 2.019249 AGCGAGCCACGTGTACTATAA 58.981 47.619 15.65 0.00 44.60 0.98
2352 2358 1.332686 CAGCGAGCCACGTGTACTATA 59.667 52.381 15.65 0.00 44.60 1.31
2353 2359 0.100682 CAGCGAGCCACGTGTACTAT 59.899 55.000 15.65 0.00 44.60 2.12
2354 2360 1.239296 ACAGCGAGCCACGTGTACTA 61.239 55.000 15.65 0.00 44.60 1.82
2355 2361 1.239296 TACAGCGAGCCACGTGTACT 61.239 55.000 15.65 11.52 44.60 2.73
2397 2403 0.832626 AGGCCTGCAAAGCAACTTTT 59.167 45.000 3.11 0.00 38.41 2.27
2399 2405 1.744014 CAGGCCTGCAAAGCAACTT 59.256 52.632 22.33 0.00 38.41 2.66
2416 2422 2.628696 CCATTGCGACTTGGCAGCA 61.629 57.895 0.00 0.00 44.94 4.41
2448 2454 1.079057 GGAACTCCCAGCGAACTCC 60.079 63.158 0.00 0.00 34.14 3.85
2449 2455 0.321996 AAGGAACTCCCAGCGAACTC 59.678 55.000 0.00 0.00 38.49 3.01
2450 2456 0.321996 GAAGGAACTCCCAGCGAACT 59.678 55.000 0.00 0.00 38.49 3.01
2454 4126 0.108424 CTGAGAAGGAACTCCCAGCG 60.108 60.000 0.00 0.00 38.49 5.18
2458 4130 0.608640 TTCGCTGAGAAGGAACTCCC 59.391 55.000 0.00 0.00 38.49 4.30
2465 4137 1.734465 GGTGAACATTCGCTGAGAAGG 59.266 52.381 4.29 4.29 45.32 3.46
2469 4141 1.800805 ACTGGTGAACATTCGCTGAG 58.199 50.000 5.24 4.69 37.80 3.35
2471 4143 3.436704 ACATAACTGGTGAACATTCGCTG 59.563 43.478 5.24 2.22 37.80 5.18
2565 4247 9.832445 ACACCAGATCGAACAATTAGTAAATAT 57.168 29.630 0.00 0.00 0.00 1.28
2567 4249 9.832445 ATACACCAGATCGAACAATTAGTAAAT 57.168 29.630 0.00 0.00 0.00 1.40
2617 4299 1.363744 AGAAGAGTTGTGCTATGCGC 58.636 50.000 0.00 0.00 39.75 6.09
2618 4300 2.738846 ACAAGAAGAGTTGTGCTATGCG 59.261 45.455 0.00 0.00 39.25 4.73
2619 4301 4.756084 AACAAGAAGAGTTGTGCTATGC 57.244 40.909 0.00 0.00 39.82 3.14
2662 4370 9.745323 GAGAAAATATTGCAACAATTTAAGCAC 57.255 29.630 17.44 8.77 36.62 4.40
2672 4380 7.395772 TCATACCTTGGAGAAAATATTGCAACA 59.604 33.333 0.00 0.00 0.00 3.33
2733 4441 3.189285 AGCTTTGTGTTGAATGTTGTGC 58.811 40.909 0.00 0.00 0.00 4.57
2736 4444 7.645340 GCCTATATAGCTTTGTGTTGAATGTTG 59.355 37.037 4.04 0.00 0.00 3.33
2737 4445 7.339212 TGCCTATATAGCTTTGTGTTGAATGTT 59.661 33.333 4.04 0.00 0.00 2.71
2741 4449 6.183360 CGTTGCCTATATAGCTTTGTGTTGAA 60.183 38.462 4.04 0.00 0.00 2.69
2815 4523 2.159379 TGTGTTGTTGCGTGCAATGTTA 60.159 40.909 10.85 0.00 38.28 2.41
2816 4524 1.276415 GTGTTGTTGCGTGCAATGTT 58.724 45.000 10.85 0.00 38.28 2.71
2817 4525 0.172127 TGTGTTGTTGCGTGCAATGT 59.828 45.000 10.85 0.00 38.28 2.71
2844 4552 7.669438 AAATATTTTGATTCATGACGCGAAG 57.331 32.000 15.93 0.00 0.00 3.79
2850 4558 6.363357 GCCCGCTAAATATTTTGATTCATGAC 59.637 38.462 12.93 0.00 0.00 3.06
2857 4565 2.030274 GGCGCCCGCTAAATATTTTGAT 60.030 45.455 18.11 0.00 41.60 2.57
2870 4578 2.029844 GATGATTCTAGGCGCCCGC 61.030 63.158 26.15 6.84 41.06 6.13
2919 4627 0.380733 TGTGGCGAGCTCGTATACAG 59.619 55.000 34.46 8.06 42.22 2.74
2921 4629 0.317938 CCTGTGGCGAGCTCGTATAC 60.318 60.000 34.46 27.98 42.22 1.47
2940 4648 2.029838 ATGTCATGGGCTCTTTCGAC 57.970 50.000 0.00 0.00 0.00 4.20
2963 4671 9.826574 CCATACTCATTCAATGATTTTTCCATT 57.173 29.630 0.00 0.00 38.85 3.16
2964 4672 8.426489 CCCATACTCATTCAATGATTTTTCCAT 58.574 33.333 0.00 0.00 38.85 3.41
2966 4674 7.785033 ACCCATACTCATTCAATGATTTTTCC 58.215 34.615 0.00 0.00 38.85 3.13
2979 4687 3.747388 CGGTTGGCATACCCATACTCATT 60.747 47.826 11.55 0.00 44.89 2.57
3043 4751 1.136252 CGAAGTTTGTGCTGATCGTGG 60.136 52.381 0.00 0.00 0.00 4.94
3063 4771 6.017109 ACACCACTGTTTTCTATTGTCATGAC 60.017 38.462 19.27 19.27 0.00 3.06
3073 4781 3.275143 CACACCACACCACTGTTTTCTA 58.725 45.455 0.00 0.00 0.00 2.10
3082 4790 1.662438 CCAACACCACACCACACCAC 61.662 60.000 0.00 0.00 0.00 4.16
3094 4802 6.294342 GGAGAATGTAAAGGTAAACCAACACC 60.294 42.308 1.26 0.00 38.89 4.16
3096 4804 6.263617 GTGGAGAATGTAAAGGTAAACCAACA 59.736 38.462 1.26 3.49 38.89 3.33
3097 4805 6.263617 TGTGGAGAATGTAAAGGTAAACCAAC 59.736 38.462 1.26 0.00 38.89 3.77
3102 4810 9.967451 TGATATTGTGGAGAATGTAAAGGTAAA 57.033 29.630 0.00 0.00 0.00 2.01
3103 4811 9.613428 CTGATATTGTGGAGAATGTAAAGGTAA 57.387 33.333 0.00 0.00 0.00 2.85
3104 4812 8.768397 ACTGATATTGTGGAGAATGTAAAGGTA 58.232 33.333 0.00 0.00 0.00 3.08
3105 4813 7.633789 ACTGATATTGTGGAGAATGTAAAGGT 58.366 34.615 0.00 0.00 0.00 3.50
3106 4814 8.511604 AACTGATATTGTGGAGAATGTAAAGG 57.488 34.615 0.00 0.00 0.00 3.11
3109 4817 9.817809 GAGTAACTGATATTGTGGAGAATGTAA 57.182 33.333 0.00 0.00 0.00 2.41
3110 4818 8.421784 GGAGTAACTGATATTGTGGAGAATGTA 58.578 37.037 0.00 0.00 0.00 2.29
3111 4819 7.275920 GGAGTAACTGATATTGTGGAGAATGT 58.724 38.462 0.00 0.00 0.00 2.71
3112 4820 6.708054 GGGAGTAACTGATATTGTGGAGAATG 59.292 42.308 0.00 0.00 0.00 2.67
3113 4821 6.617371 AGGGAGTAACTGATATTGTGGAGAAT 59.383 38.462 0.00 0.00 0.00 2.40
3114 4822 5.964477 AGGGAGTAACTGATATTGTGGAGAA 59.036 40.000 0.00 0.00 0.00 2.87
3115 4823 5.529289 AGGGAGTAACTGATATTGTGGAGA 58.471 41.667 0.00 0.00 0.00 3.71
3116 4824 5.878406 AGGGAGTAACTGATATTGTGGAG 57.122 43.478 0.00 0.00 0.00 3.86
3117 4825 5.163447 CGAAGGGAGTAACTGATATTGTGGA 60.163 44.000 0.00 0.00 0.00 4.02
3118 4826 5.050490 CGAAGGGAGTAACTGATATTGTGG 58.950 45.833 0.00 0.00 0.00 4.17
3119 4827 5.661458 ACGAAGGGAGTAACTGATATTGTG 58.339 41.667 0.00 0.00 0.00 3.33
3120 4828 5.934402 ACGAAGGGAGTAACTGATATTGT 57.066 39.130 0.00 0.00 0.00 2.71
3121 4829 5.753921 GGAACGAAGGGAGTAACTGATATTG 59.246 44.000 0.00 0.00 0.00 1.90
3122 4830 5.661759 AGGAACGAAGGGAGTAACTGATATT 59.338 40.000 0.00 0.00 0.00 1.28
3123 4831 5.209659 AGGAACGAAGGGAGTAACTGATAT 58.790 41.667 0.00 0.00 0.00 1.63
3124 4832 4.607239 AGGAACGAAGGGAGTAACTGATA 58.393 43.478 0.00 0.00 0.00 2.15
3125 4833 3.442076 AGGAACGAAGGGAGTAACTGAT 58.558 45.455 0.00 0.00 0.00 2.90
3126 4834 2.885616 AGGAACGAAGGGAGTAACTGA 58.114 47.619 0.00 0.00 0.00 3.41
3127 4835 4.796038 TTAGGAACGAAGGGAGTAACTG 57.204 45.455 0.00 0.00 0.00 3.16
3128 4836 7.672122 ATATTTAGGAACGAAGGGAGTAACT 57.328 36.000 0.00 0.00 0.00 2.24
3129 4837 9.420551 CATATATTTAGGAACGAAGGGAGTAAC 57.579 37.037 0.00 0.00 0.00 2.50
3130 4838 9.151177 ACATATATTTAGGAACGAAGGGAGTAA 57.849 33.333 0.00 0.00 0.00 2.24
3131 4839 8.716674 ACATATATTTAGGAACGAAGGGAGTA 57.283 34.615 0.00 0.00 0.00 2.59
3132 4840 7.509659 AGACATATATTTAGGAACGAAGGGAGT 59.490 37.037 0.00 0.00 0.00 3.85
3133 4841 7.897864 AGACATATATTTAGGAACGAAGGGAG 58.102 38.462 0.00 0.00 0.00 4.30
3134 4842 7.850935 AGACATATATTTAGGAACGAAGGGA 57.149 36.000 0.00 0.00 0.00 4.20
3135 4843 8.904099 AAAGACATATATTTAGGAACGAAGGG 57.096 34.615 0.00 0.00 0.00 3.95
3177 4885 9.170734 ACGTCTATACACATCCGTATGTAATAT 57.829 33.333 0.00 0.00 44.70 1.28
3178 4886 8.552083 ACGTCTATACACATCCGTATGTAATA 57.448 34.615 0.00 0.00 44.70 0.98
3179 4887 7.444629 ACGTCTATACACATCCGTATGTAAT 57.555 36.000 0.00 0.00 44.70 1.89
3180 4888 6.866010 ACGTCTATACACATCCGTATGTAA 57.134 37.500 0.00 0.00 44.70 2.41
3181 4889 7.154656 AGTACGTCTATACACATCCGTATGTA 58.845 38.462 0.00 0.00 44.70 2.29
3183 4891 6.477669 AGTACGTCTATACACATCCGTATG 57.522 41.667 0.00 0.00 39.17 2.39
3184 4892 7.502120 AAAGTACGTCTATACACATCCGTAT 57.498 36.000 0.00 0.00 36.13 3.06
3185 4893 6.925610 AAAGTACGTCTATACACATCCGTA 57.074 37.500 0.00 0.00 0.00 4.02
3186 4894 5.824904 AAAGTACGTCTATACACATCCGT 57.175 39.130 0.00 0.00 0.00 4.69
3187 4895 8.715998 ACTATAAAGTACGTCTATACACATCCG 58.284 37.037 0.00 0.00 32.84 4.18
3188 4896 9.823098 CACTATAAAGTACGTCTATACACATCC 57.177 37.037 0.00 0.00 33.48 3.51
3212 4920 5.446473 CGGAGCAAAATGAGTGAATCTACAC 60.446 44.000 0.00 0.00 40.60 2.90
3213 4921 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
3214 4922 5.149054 CGGAGCAAAATGAGTGAATCTAC 57.851 43.478 0.00 0.00 0.00 2.59
3232 4940 4.257267 TCAATATGGACTACATGCGGAG 57.743 45.455 0.00 0.00 40.82 4.63
3233 4941 4.681074 TTCAATATGGACTACATGCGGA 57.319 40.909 0.00 0.00 40.82 5.54
3234 4942 5.702670 AGATTTCAATATGGACTACATGCGG 59.297 40.000 0.00 0.00 40.82 5.69
3235 4943 6.648310 AGAGATTTCAATATGGACTACATGCG 59.352 38.462 0.00 0.00 40.82 4.73
3236 4944 7.976135 AGAGATTTCAATATGGACTACATGC 57.024 36.000 0.00 0.00 40.82 4.06
3262 4970 9.392259 CCCTCCGTTTCTAAATATAAGTCTTTT 57.608 33.333 0.00 0.00 0.00 2.27
3263 4971 8.765517 TCCCTCCGTTTCTAAATATAAGTCTTT 58.234 33.333 0.00 0.00 0.00 2.52
3264 4972 8.315220 TCCCTCCGTTTCTAAATATAAGTCTT 57.685 34.615 0.00 0.00 0.00 3.01
3265 4973 7.564292 ACTCCCTCCGTTTCTAAATATAAGTCT 59.436 37.037 0.00 0.00 0.00 3.24
3266 4974 7.724287 ACTCCCTCCGTTTCTAAATATAAGTC 58.276 38.462 0.00 0.00 0.00 3.01
3267 4975 7.672122 ACTCCCTCCGTTTCTAAATATAAGT 57.328 36.000 0.00 0.00 0.00 2.24
3268 4976 8.636213 TGTACTCCCTCCGTTTCTAAATATAAG 58.364 37.037 0.00 0.00 0.00 1.73
3269 4977 8.537728 TGTACTCCCTCCGTTTCTAAATATAA 57.462 34.615 0.00 0.00 0.00 0.98
3270 4978 8.716674 ATGTACTCCCTCCGTTTCTAAATATA 57.283 34.615 0.00 0.00 0.00 0.86
3271 4979 7.613551 ATGTACTCCCTCCGTTTCTAAATAT 57.386 36.000 0.00 0.00 0.00 1.28
3272 4980 7.781693 AGTATGTACTCCCTCCGTTTCTAAATA 59.218 37.037 0.00 0.00 0.00 1.40
3273 4981 5.952347 ATGTACTCCCTCCGTTTCTAAAT 57.048 39.130 0.00 0.00 0.00 1.40
3274 4982 5.954150 AGTATGTACTCCCTCCGTTTCTAAA 59.046 40.000 0.00 0.00 0.00 1.85
3275 4983 5.513233 AGTATGTACTCCCTCCGTTTCTAA 58.487 41.667 0.00 0.00 0.00 2.10
3276 4984 5.121380 AGTATGTACTCCCTCCGTTTCTA 57.879 43.478 0.00 0.00 0.00 2.10
3277 4985 3.978610 AGTATGTACTCCCTCCGTTTCT 58.021 45.455 0.00 0.00 0.00 2.52
3278 4986 4.732672 AAGTATGTACTCCCTCCGTTTC 57.267 45.455 0.00 0.00 34.99 2.78
3279 4987 5.018809 TGTAAGTATGTACTCCCTCCGTTT 58.981 41.667 0.00 0.00 34.99 3.60
3280 4988 4.603131 TGTAAGTATGTACTCCCTCCGTT 58.397 43.478 0.00 0.00 34.99 4.44
3281 4989 4.240881 TGTAAGTATGTACTCCCTCCGT 57.759 45.455 0.00 0.00 34.99 4.69
3282 4990 6.095160 GGATATGTAAGTATGTACTCCCTCCG 59.905 46.154 0.00 0.00 34.99 4.63
3283 4991 6.095160 CGGATATGTAAGTATGTACTCCCTCC 59.905 46.154 0.00 0.00 34.99 4.30
3284 4992 6.095160 CCGGATATGTAAGTATGTACTCCCTC 59.905 46.154 0.00 0.00 34.99 4.30
3285 4993 5.950549 CCGGATATGTAAGTATGTACTCCCT 59.049 44.000 0.00 0.00 34.99 4.20
3286 4994 5.713861 ACCGGATATGTAAGTATGTACTCCC 59.286 44.000 9.46 0.00 34.99 4.30
3287 4995 6.830873 ACCGGATATGTAAGTATGTACTCC 57.169 41.667 9.46 0.00 34.99 3.85
3288 4996 8.233190 GTGTACCGGATATGTAAGTATGTACTC 58.767 40.741 9.46 0.00 34.99 2.59
3289 4997 7.175641 GGTGTACCGGATATGTAAGTATGTACT 59.824 40.741 9.46 0.00 38.39 2.73
3290 4998 7.308435 GGTGTACCGGATATGTAAGTATGTAC 58.692 42.308 9.46 0.00 0.00 2.90
3291 4999 7.452880 GGTGTACCGGATATGTAAGTATGTA 57.547 40.000 9.46 0.00 0.00 2.29
3292 5000 6.336842 GGTGTACCGGATATGTAAGTATGT 57.663 41.667 9.46 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.