Multiple sequence alignment - TraesCS1D01G303900

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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 TraesCS1D01G303900 chr1D 100.000 6668 0 0 1 6668 401679264 401685931 0.000000e+00 12314.0
1 TraesCS1D01G303900 chr1D 82.105 95 14 3 4846 4940 418308577 418308486 1.990000e-10 78.7
2 TraesCS1D01G303900 chr1B 95.974 6259 207 25 88 6334 539565201 539571426 0.000000e+00 10120.0
3 TraesCS1D01G303900 chr1B 92.963 270 18 1 5 273 539564935 539565204 6.270000e-105 392.0
4 TraesCS1D01G303900 chr1B 84.946 93 13 1 4846 4938 583974448 583974357 7.120000e-15 93.5
5 TraesCS1D01G303900 chr1A 96.307 2735 75 14 2364 5085 497518836 497521557 0.000000e+00 4468.0
6 TraesCS1D01G303900 chr1A 95.298 2318 77 8 5 2319 497516551 497518839 0.000000e+00 3648.0
7 TraesCS1D01G303900 chr1A 93.106 1291 59 10 5295 6579 497521840 497523106 0.000000e+00 1864.0
8 TraesCS1D01G303900 chr1A 92.199 141 8 3 5133 5273 497521555 497521692 5.280000e-46 196.0
9 TraesCS1D01G303900 chr1A 90.179 112 8 1 5070 5178 94643167 94643278 6.970000e-30 143.0
10 TraesCS1D01G303900 chr1A 100.000 31 0 0 5320 5350 332047177 332047207 2.600000e-04 58.4
11 TraesCS1D01G303900 chr1A 100.000 30 0 0 5320 5349 229421442 229421471 1.000000e-03 56.5
12 TraesCS1D01G303900 chrUn 91.071 112 7 1 5070 5178 399313010 399312899 1.500000e-31 148.0
13 TraesCS1D01G303900 chrUn 90.179 112 8 1 5070 5178 182456217 182456106 6.970000e-30 143.0
14 TraesCS1D01G303900 chrUn 90.179 112 8 1 5070 5178 301692282 301692393 6.970000e-30 143.0
15 TraesCS1D01G303900 chrUn 90.179 112 8 1 5070 5178 440143870 440143981 6.970000e-30 143.0
16 TraesCS1D01G303900 chr7B 90.265 113 6 3 5070 5178 54415784 54415895 6.970000e-30 143.0
17 TraesCS1D01G303900 chr7B 87.179 78 10 0 4852 4929 161516543 161516620 9.210000e-14 89.8
18 TraesCS1D01G303900 chr7B 83.784 74 11 1 4849 4922 589707641 589707713 1.200000e-07 69.4
19 TraesCS1D01G303900 chr7B 100.000 31 0 0 5320 5350 394336832 394336862 2.600000e-04 58.4
20 TraesCS1D01G303900 chr4A 90.179 112 8 1 5070 5178 67533397 67533508 6.970000e-30 143.0
21 TraesCS1D01G303900 chr3D 90.179 112 8 1 5070 5178 63497260 63497371 6.970000e-30 143.0
22 TraesCS1D01G303900 chr3D 81.609 87 12 4 2279 2361 236636873 236636787 1.200000e-07 69.4
23 TraesCS1D01G303900 chr3B 86.667 75 10 0 4853 4927 96960023 96959949 4.290000e-12 84.2
24 TraesCS1D01G303900 chr3B 77.049 122 24 4 2279 2396 354008059 354007938 4.320000e-07 67.6
25 TraesCS1D01G303900 chr6D 87.143 70 8 1 4853 4921 187590293 187590362 1.990000e-10 78.7
26 TraesCS1D01G303900 chr6D 100.000 30 0 0 5320 5349 38537816 38537787 1.000000e-03 56.5
27 TraesCS1D01G303900 chr2A 100.000 31 0 0 5320 5350 22582865 22582895 2.600000e-04 58.4
28 TraesCS1D01G303900 chr7A 94.595 37 0 1 5320 5356 239110404 239110370 1.000000e-03 56.5


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 TraesCS1D01G303900 chr1D 401679264 401685931 6667 False 12314 12314 100.0000 1 6668 1 chr1D.!!$F1 6667
1 TraesCS1D01G303900 chr1B 539564935 539571426 6491 False 5256 10120 94.4685 5 6334 2 chr1B.!!$F1 6329
2 TraesCS1D01G303900 chr1A 497516551 497523106 6555 False 2544 4468 94.2275 5 6579 4 chr1A.!!$F4 6574

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
81 82 0.786581 CAGCACACAAGCGTCTACTG 59.213 55.0 0.00 0.0 40.15 2.74 F
263 448 1.061546 GGGGCCCATAAATACGAGGA 58.938 55.0 26.86 0.0 0.00 3.71 F
2315 2501 0.539518 GGCTGGGGTTGTTTTGTTGT 59.460 50.0 0.00 0.0 0.00 3.32 F
3482 3678 0.323999 TCTCGCAAGCTGGGGTAGTA 60.324 55.0 4.89 0.0 37.18 1.82 F
3954 4150 1.044790 AGCCAGCACATATTTGGGGC 61.045 55.0 0.00 0.0 40.18 5.80 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2049 2235 0.037326 CACTTCCAGAGTTGCCGCTA 60.037 55.000 0.00 0.0 36.10 4.26 R
2653 2848 3.214328 CAGTTTAGTTGCTTCCACTGGT 58.786 45.455 0.00 0.0 0.00 4.00 R
3783 3979 0.548510 AAGAAGGTATGGCTGGCCTC 59.451 55.000 13.05 0.0 36.94 4.70 R
5087 5293 2.265904 CGGAGGACGTGGACACAGA 61.266 63.158 0.00 0.0 37.93 3.41 R
5953 6291 1.568504 AGTCCTGCCCAGACGAAATA 58.431 50.000 0.00 0.0 0.00 1.40 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
26 27 2.125106 GGCGGCGTCAAGGAGATT 60.125 61.111 6.63 0.00 0.00 2.40
81 82 0.786581 CAGCACACAAGCGTCTACTG 59.213 55.000 0.00 0.00 40.15 2.74
102 103 1.620822 GGGGTGAGTTGCATGACTTT 58.379 50.000 0.00 0.00 0.00 2.66
103 104 2.554344 GGGGGTGAGTTGCATGACTTTA 60.554 50.000 0.00 0.00 0.00 1.85
127 311 1.473278 GCTAGTTGAGTCACCGTAGCT 59.527 52.381 15.65 0.00 32.00 3.32
128 312 2.681848 GCTAGTTGAGTCACCGTAGCTA 59.318 50.000 15.65 0.00 32.00 3.32
144 328 4.201832 CGTAGCTAGACTTCGTCACTGATT 60.202 45.833 0.00 0.00 34.76 2.57
242 426 5.181245 ACGGTGTTTTCATGTCTAGATTTGG 59.819 40.000 0.00 0.00 0.00 3.28
263 448 1.061546 GGGGCCCATAAATACGAGGA 58.938 55.000 26.86 0.00 0.00 3.71
328 513 2.297698 TCCGGAGTGTTTGTCCTAGA 57.702 50.000 0.00 0.00 31.14 2.43
338 523 5.129815 AGTGTTTGTCCTAGACTTTGGTGTA 59.870 40.000 0.00 0.00 33.15 2.90
402 587 6.423905 TCTTCCATTCAGTACTTTCTTTGTCG 59.576 38.462 0.00 0.00 0.00 4.35
505 690 8.703743 TGGAAATAATGATGGTTTATCCTTTGG 58.296 33.333 0.00 0.00 34.77 3.28
622 807 6.716628 ACAGCCTCATTTGTTTTCTAGATTGA 59.283 34.615 0.00 0.00 0.00 2.57
781 966 8.818141 TGACTAGTTAGTGTTTTGATCTTGAG 57.182 34.615 0.00 0.00 36.50 3.02
1178 1364 6.199393 GTCTGTTTTTAGACATGGTGTTGTC 58.801 40.000 0.00 0.00 45.03 3.18
1247 1433 6.407202 AGTGGACAGAATAGCTTTAATCGTT 58.593 36.000 0.00 0.00 0.00 3.85
1496 1682 9.517609 TTCGAAAGTATCTCATAAAGCTAACTC 57.482 33.333 0.00 0.00 0.00 3.01
1639 1825 1.061546 TTTCTGGTAGCCGGTTTCCT 58.938 50.000 14.86 0.00 0.00 3.36
1687 1873 5.590663 GTCTCAGGTTTGTTCTCCTCTTTTT 59.409 40.000 0.00 0.00 30.91 1.94
1750 1936 7.882179 TCACTTAACTAATTTTCTTGCCCTTC 58.118 34.615 0.00 0.00 0.00 3.46
2032 2218 3.052642 AGGAATGTCCATGCCTGGTATTT 60.053 43.478 5.98 0.52 45.31 1.40
2049 2235 6.837312 TGGTATTTCATCCCGTATCAATTCT 58.163 36.000 0.00 0.00 0.00 2.40
2190 2376 7.872993 TCTTCGGCGAATATCTATTCTCATTTT 59.127 33.333 23.96 0.00 39.85 1.82
2315 2501 0.539518 GGCTGGGGTTGTTTTGTTGT 59.460 50.000 0.00 0.00 0.00 3.32
2328 2514 2.949451 TTGTTGTGTCGGTTGCAATT 57.051 40.000 0.59 0.00 0.00 2.32
2352 2538 3.489355 TGTCTTGCATTGATTGTGGTCT 58.511 40.909 0.00 0.00 0.00 3.85
2564 2757 2.372504 TGGAAATTGACACGGGGAACTA 59.627 45.455 0.00 0.00 0.00 2.24
2651 2846 7.533426 CCCACACTAGATTATACGTATACCAC 58.467 42.308 14.81 9.18 0.00 4.16
2652 2847 7.392673 CCCACACTAGATTATACGTATACCACT 59.607 40.741 14.81 14.94 0.00 4.00
2653 2848 9.440773 CCACACTAGATTATACGTATACCACTA 57.559 37.037 14.81 15.21 0.00 2.74
2655 2850 9.442047 ACACTAGATTATACGTATACCACTACC 57.558 37.037 14.81 0.00 0.00 3.18
2656 2851 9.440773 CACTAGATTATACGTATACCACTACCA 57.559 37.037 14.81 0.00 0.00 3.25
2925 3121 5.181748 AGTTCTTCTGGAATGCTACATGAC 58.818 41.667 0.00 0.00 36.24 3.06
3482 3678 0.323999 TCTCGCAAGCTGGGGTAGTA 60.324 55.000 4.89 0.00 37.18 1.82
3501 3697 8.669243 GGGTAGTAAACTTTCATCAGAGATTTG 58.331 37.037 0.00 0.00 0.00 2.32
3613 3809 2.420022 CTGATTACTTCTGGGCAAACCG 59.580 50.000 0.00 0.00 44.64 4.44
3783 3979 7.250445 TCATGTTGTTCTATCATTTCATCCG 57.750 36.000 0.00 0.00 0.00 4.18
3787 3983 4.380531 TGTTCTATCATTTCATCCGAGGC 58.619 43.478 0.00 0.00 0.00 4.70
3792 3988 1.152881 ATTTCATCCGAGGCCAGCC 60.153 57.895 5.01 0.00 0.00 4.85
3954 4150 1.044790 AGCCAGCACATATTTGGGGC 61.045 55.000 0.00 0.00 40.18 5.80
3958 4154 1.767759 AGCACATATTTGGGGCTGAC 58.232 50.000 4.30 0.00 36.58 3.51
4017 4214 4.074970 ACCCTTTTCATGTGTCTGCTAAG 58.925 43.478 0.00 0.00 0.00 2.18
4044 4241 9.268268 CTTTTGACTGTGGATTGTTAACTACTA 57.732 33.333 7.22 0.00 0.00 1.82
4126 4323 4.770531 TCTCCAAGTCCGTCTTCTAATTCA 59.229 41.667 0.00 0.00 33.63 2.57
4165 4362 3.053768 TCATCCAGCAATACCATCAACCA 60.054 43.478 0.00 0.00 0.00 3.67
4211 4408 3.423154 CGTCTTCGGGCCAACAGC 61.423 66.667 4.39 0.00 42.60 4.40
4417 4614 2.041485 TGGCTCTCCATGGTCAAATGAA 59.959 45.455 12.58 0.00 37.47 2.57
4660 4858 5.247564 TGTGTCTGGTTTTACTAGCCTATGT 59.752 40.000 0.00 0.00 0.00 2.29
4808 5006 1.067364 CATTTGCCTGCTGTTCACACA 59.933 47.619 0.00 0.00 0.00 3.72
4873 5073 8.761689 TGTAGTACTCCCTCCGTTTTTATTTAT 58.238 33.333 0.00 0.00 0.00 1.40
4876 5076 8.546322 AGTACTCCCTCCGTTTTTATTTATTCT 58.454 33.333 0.00 0.00 0.00 2.40
4924 5124 7.148820 CCGCACTTTATAAAGTTTGACCAAATG 60.149 37.037 24.99 12.70 46.52 2.32
5021 5223 5.780958 ACTAGAAGTCCTTTATGCCCTTT 57.219 39.130 0.00 0.00 0.00 3.11
5033 5236 1.995376 TGCCCTTTTTCCTTCACTCC 58.005 50.000 0.00 0.00 0.00 3.85
5040 5243 4.219288 CCTTTTTCCTTCACTCCATCCTTG 59.781 45.833 0.00 0.00 0.00 3.61
5087 5293 2.021042 TGACCCCCTGGATCTATTCCTT 60.021 50.000 0.00 0.00 45.68 3.36
5090 5296 2.641815 CCCCCTGGATCTATTCCTTCTG 59.358 54.545 0.00 0.00 45.68 3.02
5097 5303 4.162320 TGGATCTATTCCTTCTGTGTCCAC 59.838 45.833 0.00 0.00 45.68 4.02
5104 5310 0.038159 CTTCTGTGTCCACGTCCTCC 60.038 60.000 0.00 0.00 0.00 4.30
5128 5334 1.167155 CCTGCTGGAGCTGCATCATC 61.167 60.000 12.34 1.55 42.66 2.92
5178 5384 8.088981 TCTTCTCACACTATACCAGTTCTTTTC 58.911 37.037 0.00 0.00 34.26 2.29
5206 5412 6.358974 TGTCTAATCTTGACACTCCAATCA 57.641 37.500 0.00 0.00 39.23 2.57
5230 5436 9.100197 TCATGCTTGGACCTATCTTACATATAA 57.900 33.333 0.00 0.00 0.00 0.98
5289 5496 7.438160 CCTTTAGTTGTTTTCTCATTTTCCCAC 59.562 37.037 0.00 0.00 0.00 4.61
5554 5886 1.332195 TATAGCCTGATCGCACAGCT 58.668 50.000 0.00 0.00 36.67 4.24
5576 5908 5.449725 GCTGGGAAAGTAATCTGAGCATTTC 60.450 44.000 0.00 0.00 0.00 2.17
5770 6104 2.436417 GGCTTTTCTGACATGCTACCA 58.564 47.619 0.00 0.00 0.00 3.25
5912 6250 9.645059 TTCTGTAAGTTCATCTGAATACTCTTG 57.355 33.333 0.00 0.00 36.33 3.02
5953 6291 2.888834 ACTTTGTGGCGCTGAATTTT 57.111 40.000 7.64 0.00 0.00 1.82
5954 6292 5.440234 TTACTTTGTGGCGCTGAATTTTA 57.560 34.783 7.64 0.00 0.00 1.52
5958 6296 5.405269 ACTTTGTGGCGCTGAATTTTATTTC 59.595 36.000 7.64 0.00 0.00 2.17
6196 6534 9.683870 TTAATTACCGGTACTTTGGATTTACAT 57.316 29.630 20.76 1.90 0.00 2.29
6197 6535 7.797038 ATTACCGGTACTTTGGATTTACATC 57.203 36.000 15.53 0.00 0.00 3.06
6336 6674 2.482336 GTGCACGTGTACAAATCATCCA 59.518 45.455 28.64 5.98 0.00 3.41
6337 6675 2.482336 TGCACGTGTACAAATCATCCAC 59.518 45.455 18.38 0.00 0.00 4.02
6342 6680 2.482336 GTGTACAAATCATCCACGCACA 59.518 45.455 0.00 0.00 0.00 4.57
6350 6688 1.612442 ATCCACGCACACCTACCCT 60.612 57.895 0.00 0.00 0.00 4.34
6378 6716 2.328099 CGTGCAAAGCCCTCACTCC 61.328 63.158 0.00 0.00 0.00 3.85
6381 6719 1.376466 GCAAAGCCCTCACTCCTGA 59.624 57.895 0.00 0.00 0.00 3.86
6388 6726 1.490574 CCCTCACTCCTGAACCCTAG 58.509 60.000 0.00 0.00 0.00 3.02
6390 6728 1.561643 CTCACTCCTGAACCCTAGCA 58.438 55.000 0.00 0.00 0.00 3.49
6395 6733 1.625818 CTCCTGAACCCTAGCAAGTGT 59.374 52.381 0.00 0.00 0.00 3.55
6428 6766 1.021390 CCGCACTTGATCACCACCTC 61.021 60.000 0.00 0.00 0.00 3.85
6429 6767 1.021390 CGCACTTGATCACCACCTCC 61.021 60.000 0.00 0.00 0.00 4.30
6430 6768 0.036732 GCACTTGATCACCACCTCCA 59.963 55.000 0.00 0.00 0.00 3.86
6432 6770 1.072173 CACTTGATCACCACCTCCACA 59.928 52.381 0.00 0.00 0.00 4.17
6433 6771 1.072331 ACTTGATCACCACCTCCACAC 59.928 52.381 0.00 0.00 0.00 3.82
6434 6772 1.072173 CTTGATCACCACCTCCACACA 59.928 52.381 0.00 0.00 0.00 3.72
6435 6773 1.361204 TGATCACCACCTCCACACAT 58.639 50.000 0.00 0.00 0.00 3.21
6436 6774 1.003464 TGATCACCACCTCCACACATG 59.997 52.381 0.00 0.00 0.00 3.21
6437 6775 1.278985 GATCACCACCTCCACACATGA 59.721 52.381 0.00 0.00 0.00 3.07
6438 6776 1.135960 TCACCACCTCCACACATGAA 58.864 50.000 0.00 0.00 0.00 2.57
6439 6777 1.704628 TCACCACCTCCACACATGAAT 59.295 47.619 0.00 0.00 0.00 2.57
6440 6778 2.909662 TCACCACCTCCACACATGAATA 59.090 45.455 0.00 0.00 0.00 1.75
6441 6779 3.055167 TCACCACCTCCACACATGAATAG 60.055 47.826 0.00 0.00 0.00 1.73
6442 6780 2.912956 ACCACCTCCACACATGAATAGT 59.087 45.455 0.00 0.00 0.00 2.12
6443 6781 3.055094 ACCACCTCCACACATGAATAGTC 60.055 47.826 0.00 0.00 0.00 2.59
6444 6782 3.190079 CACCTCCACACATGAATAGTCG 58.810 50.000 0.00 0.00 0.00 4.18
6445 6783 3.096852 ACCTCCACACATGAATAGTCGA 58.903 45.455 0.00 0.00 0.00 4.20
6446 6784 3.513912 ACCTCCACACATGAATAGTCGAA 59.486 43.478 0.00 0.00 0.00 3.71
6447 6785 3.865745 CCTCCACACATGAATAGTCGAAC 59.134 47.826 0.00 0.00 0.00 3.95
6448 6786 4.494484 CTCCACACATGAATAGTCGAACA 58.506 43.478 0.00 0.00 0.00 3.18
6449 6787 5.084818 TCCACACATGAATAGTCGAACAT 57.915 39.130 0.00 0.00 0.00 2.71
6450 6788 4.869861 TCCACACATGAATAGTCGAACATG 59.130 41.667 0.00 0.00 43.56 3.21
6451 6789 4.034394 CCACACATGAATAGTCGAACATGG 59.966 45.833 0.00 10.60 42.66 3.66
6452 6790 4.631377 CACACATGAATAGTCGAACATGGT 59.369 41.667 0.00 0.00 42.66 3.55
6453 6791 4.631377 ACACATGAATAGTCGAACATGGTG 59.369 41.667 0.00 14.10 42.66 4.17
6468 6806 3.573967 ACATGGTGACCTTGAAAACATCC 59.426 43.478 22.50 0.00 33.58 3.51
6504 6842 3.194968 TGAAGGTGAAGAAGTACCCGATC 59.805 47.826 0.00 0.00 37.70 3.69
6509 6847 5.482878 AGGTGAAGAAGTACCCGATCTTTAA 59.517 40.000 0.00 0.00 37.70 1.52
6549 6887 0.607489 CGGGCCATCCTTCATCCATC 60.607 60.000 4.39 0.00 0.00 3.51
6559 6897 0.982852 TTCATCCATCGCCACCCTCT 60.983 55.000 0.00 0.00 0.00 3.69
6571 6909 1.352352 CCACCCTCTTGTTGACATCCT 59.648 52.381 0.00 0.00 0.00 3.24
6573 6911 3.369892 CCACCCTCTTGTTGACATCCTAG 60.370 52.174 0.00 0.00 0.00 3.02
6579 6917 3.840666 TCTTGTTGACATCCTAGAGCCTT 59.159 43.478 0.00 0.00 0.00 4.35
6580 6918 3.616956 TGTTGACATCCTAGAGCCTTG 57.383 47.619 0.00 0.00 0.00 3.61
6581 6919 2.906389 TGTTGACATCCTAGAGCCTTGT 59.094 45.455 0.00 0.00 0.00 3.16
6582 6920 3.265791 GTTGACATCCTAGAGCCTTGTG 58.734 50.000 0.00 0.00 0.00 3.33
6583 6921 2.820178 TGACATCCTAGAGCCTTGTGA 58.180 47.619 0.00 0.00 0.00 3.58
6584 6922 3.173151 TGACATCCTAGAGCCTTGTGAA 58.827 45.455 0.00 0.00 0.00 3.18
6585 6923 3.055819 TGACATCCTAGAGCCTTGTGAAC 60.056 47.826 0.00 0.00 0.00 3.18
6586 6924 2.906389 ACATCCTAGAGCCTTGTGAACA 59.094 45.455 0.00 0.00 0.00 3.18
6587 6925 3.521126 ACATCCTAGAGCCTTGTGAACAT 59.479 43.478 0.00 0.00 0.00 2.71
6588 6926 4.018960 ACATCCTAGAGCCTTGTGAACATT 60.019 41.667 0.00 0.00 0.00 2.71
6589 6927 4.640771 TCCTAGAGCCTTGTGAACATTT 57.359 40.909 0.00 0.00 0.00 2.32
6590 6928 4.579869 TCCTAGAGCCTTGTGAACATTTC 58.420 43.478 0.00 0.00 0.00 2.17
6591 6929 4.041567 TCCTAGAGCCTTGTGAACATTTCA 59.958 41.667 0.00 0.00 37.33 2.69
6592 6930 4.946157 CCTAGAGCCTTGTGAACATTTCAT 59.054 41.667 0.00 0.00 42.47 2.57
6593 6931 6.070251 TCCTAGAGCCTTGTGAACATTTCATA 60.070 38.462 0.00 0.00 42.47 2.15
6594 6932 6.259608 CCTAGAGCCTTGTGAACATTTCATAG 59.740 42.308 0.00 0.00 42.47 2.23
6595 6933 4.397417 AGAGCCTTGTGAACATTTCATAGC 59.603 41.667 0.00 0.00 42.47 2.97
6596 6934 3.445096 AGCCTTGTGAACATTTCATAGCC 59.555 43.478 0.00 0.00 42.47 3.93
6597 6935 3.445096 GCCTTGTGAACATTTCATAGCCT 59.555 43.478 0.00 0.00 42.47 4.58
6598 6936 4.439289 GCCTTGTGAACATTTCATAGCCTC 60.439 45.833 0.00 0.00 42.47 4.70
6599 6937 4.201851 CCTTGTGAACATTTCATAGCCTCG 60.202 45.833 0.00 0.00 42.47 4.63
6600 6938 3.937814 TGTGAACATTTCATAGCCTCGT 58.062 40.909 0.00 0.00 42.47 4.18
6601 6939 3.932710 TGTGAACATTTCATAGCCTCGTC 59.067 43.478 0.00 0.00 42.47 4.20
6602 6940 3.932710 GTGAACATTTCATAGCCTCGTCA 59.067 43.478 0.00 0.00 42.47 4.35
6603 6941 4.572389 GTGAACATTTCATAGCCTCGTCAT 59.428 41.667 0.00 0.00 42.47 3.06
6604 6942 4.811024 TGAACATTTCATAGCCTCGTCATC 59.189 41.667 0.00 0.00 34.08 2.92
6605 6943 3.733337 ACATTTCATAGCCTCGTCATCC 58.267 45.455 0.00 0.00 0.00 3.51
6606 6944 3.134623 ACATTTCATAGCCTCGTCATCCA 59.865 43.478 0.00 0.00 0.00 3.41
6607 6945 3.904800 TTTCATAGCCTCGTCATCCAA 57.095 42.857 0.00 0.00 0.00 3.53
6608 6946 3.459232 TTCATAGCCTCGTCATCCAAG 57.541 47.619 0.00 0.00 0.00 3.61
6609 6947 2.666317 TCATAGCCTCGTCATCCAAGA 58.334 47.619 0.00 0.00 0.00 3.02
6610 6948 2.625314 TCATAGCCTCGTCATCCAAGAG 59.375 50.000 0.00 0.00 0.00 2.85
6611 6949 0.747255 TAGCCTCGTCATCCAAGAGC 59.253 55.000 0.00 0.00 0.00 4.09
6612 6950 1.880340 GCCTCGTCATCCAAGAGCG 60.880 63.158 0.00 0.00 0.00 5.03
6613 6951 1.227089 CCTCGTCATCCAAGAGCGG 60.227 63.158 0.00 0.00 0.00 5.52
6614 6952 1.880340 CTCGTCATCCAAGAGCGGC 60.880 63.158 0.00 0.00 0.00 6.53
6615 6953 2.892425 CGTCATCCAAGAGCGGCC 60.892 66.667 0.00 0.00 0.00 6.13
6616 6954 2.268920 GTCATCCAAGAGCGGCCA 59.731 61.111 2.24 0.00 0.00 5.36
6617 6955 1.153086 GTCATCCAAGAGCGGCCAT 60.153 57.895 2.24 0.00 0.00 4.40
6618 6956 0.749454 GTCATCCAAGAGCGGCCATT 60.749 55.000 2.24 0.00 0.00 3.16
6619 6957 0.836606 TCATCCAAGAGCGGCCATTA 59.163 50.000 2.24 0.00 0.00 1.90
6620 6958 1.421268 TCATCCAAGAGCGGCCATTAT 59.579 47.619 2.24 0.00 0.00 1.28
6621 6959 2.158623 TCATCCAAGAGCGGCCATTATT 60.159 45.455 2.24 0.00 0.00 1.40
6622 6960 2.435372 TCCAAGAGCGGCCATTATTT 57.565 45.000 2.24 0.00 0.00 1.40
6623 6961 2.023673 TCCAAGAGCGGCCATTATTTG 58.976 47.619 2.24 0.04 0.00 2.32
6624 6962 1.750778 CCAAGAGCGGCCATTATTTGT 59.249 47.619 2.24 0.00 0.00 2.83
6625 6963 2.223572 CCAAGAGCGGCCATTATTTGTC 60.224 50.000 2.24 0.00 0.00 3.18
6626 6964 1.680338 AGAGCGGCCATTATTTGTCC 58.320 50.000 2.24 0.00 0.00 4.02
6627 6965 1.212935 AGAGCGGCCATTATTTGTCCT 59.787 47.619 2.24 0.00 0.00 3.85
6628 6966 2.024414 GAGCGGCCATTATTTGTCCTT 58.976 47.619 2.24 0.00 0.00 3.36
6629 6967 1.750778 AGCGGCCATTATTTGTCCTTG 59.249 47.619 2.24 0.00 0.00 3.61
6630 6968 1.202405 GCGGCCATTATTTGTCCTTGG 60.202 52.381 2.24 0.00 0.00 3.61
6631 6969 2.374184 CGGCCATTATTTGTCCTTGGA 58.626 47.619 2.24 0.00 0.00 3.53
6632 6970 2.358898 CGGCCATTATTTGTCCTTGGAG 59.641 50.000 2.24 0.00 0.00 3.86
6633 6971 3.631250 GGCCATTATTTGTCCTTGGAGA 58.369 45.455 0.00 0.00 0.00 3.71
6634 6972 3.633986 GGCCATTATTTGTCCTTGGAGAG 59.366 47.826 0.00 0.00 0.00 3.20
6635 6973 4.526970 GCCATTATTTGTCCTTGGAGAGA 58.473 43.478 0.00 0.00 0.00 3.10
6636 6974 5.136105 GCCATTATTTGTCCTTGGAGAGAT 58.864 41.667 0.00 0.00 0.00 2.75
6637 6975 5.240403 GCCATTATTTGTCCTTGGAGAGATC 59.760 44.000 0.00 0.00 0.00 2.75
6638 6976 6.599445 CCATTATTTGTCCTTGGAGAGATCT 58.401 40.000 0.00 0.00 0.00 2.75
6639 6977 6.709846 CCATTATTTGTCCTTGGAGAGATCTC 59.290 42.308 15.29 15.29 42.14 2.75
6649 6987 2.810439 GAGAGATCTCCGTTGGGATG 57.190 55.000 19.30 0.00 42.83 3.51
6650 6988 1.342819 GAGAGATCTCCGTTGGGATGG 59.657 57.143 19.30 0.00 42.83 3.51
6651 6989 1.123928 GAGATCTCCGTTGGGATGGT 58.876 55.000 12.00 0.00 42.83 3.55
6652 6990 0.833287 AGATCTCCGTTGGGATGGTG 59.167 55.000 0.00 0.00 42.83 4.17
6653 6991 0.815615 GATCTCCGTTGGGATGGTGC 60.816 60.000 0.00 0.00 42.83 5.01
6654 6992 2.270874 ATCTCCGTTGGGATGGTGCC 62.271 60.000 0.00 0.00 42.83 5.01
6655 6993 2.933287 TCCGTTGGGATGGTGCCT 60.933 61.111 0.00 0.00 37.43 4.75
6656 6994 1.613928 TCCGTTGGGATGGTGCCTA 60.614 57.895 0.00 0.00 37.43 3.93
6657 6995 1.153168 CCGTTGGGATGGTGCCTAG 60.153 63.158 0.00 0.00 34.06 3.02
6658 6996 1.153168 CGTTGGGATGGTGCCTAGG 60.153 63.158 3.67 3.67 0.00 3.02
6659 6997 1.910580 CGTTGGGATGGTGCCTAGGT 61.911 60.000 11.31 0.00 0.00 3.08
6660 6998 0.394352 GTTGGGATGGTGCCTAGGTG 60.394 60.000 11.31 0.00 0.00 4.00
6661 6999 2.193248 GGGATGGTGCCTAGGTGC 59.807 66.667 11.31 3.33 0.00 5.01
6662 7000 2.378634 GGGATGGTGCCTAGGTGCT 61.379 63.158 11.31 0.00 0.00 4.40
6663 7001 1.147153 GGATGGTGCCTAGGTGCTC 59.853 63.158 11.31 0.00 0.00 4.26
6664 7002 1.147153 GATGGTGCCTAGGTGCTCC 59.853 63.158 11.31 7.82 43.53 4.70
6666 7004 1.616327 TGGTGCCTAGGTGCTCCAT 60.616 57.895 11.31 0.00 46.73 3.41
6667 7005 1.153086 GGTGCCTAGGTGCTCCATG 60.153 63.158 11.31 0.00 42.92 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 0.895530 AGGTCTTCGGCGAGAAATCA 59.104 50.000 10.46 0.00 38.57 2.57
54 55 1.444119 GCTTGTGTGCTGGTTTCGGA 61.444 55.000 0.00 0.00 0.00 4.55
57 58 0.317020 GACGCTTGTGTGCTGGTTTC 60.317 55.000 0.00 0.00 0.00 2.78
96 97 6.390721 GTGACTCAACTAGCAGATAAAGTCA 58.609 40.000 0.00 0.00 39.48 3.41
102 103 3.353557 ACGGTGACTCAACTAGCAGATA 58.646 45.455 0.00 0.00 0.00 1.98
103 104 2.171840 ACGGTGACTCAACTAGCAGAT 58.828 47.619 0.00 0.00 0.00 2.90
163 347 2.602456 CCGACTAATCACCGATGAGACG 60.602 54.545 6.32 6.32 38.03 4.18
215 399 2.774439 AGACATGAAAACACCGTTGC 57.226 45.000 0.00 0.00 0.00 4.17
242 426 1.003233 CCTCGTATTTATGGGCCCCTC 59.997 57.143 22.27 0.00 0.00 4.30
263 448 0.326264 GTTCCACTGCCTCAGATGGT 59.674 55.000 0.29 0.00 35.62 3.55
328 513 7.107639 ACTAAAACTTGCAATACACCAAAGT 57.892 32.000 0.00 0.00 0.00 2.66
338 523 3.577848 TGGCCATGACTAAAACTTGCAAT 59.422 39.130 0.00 0.00 0.00 3.56
489 674 7.830099 AGATTGATCCAAAGGATAAACCATC 57.170 36.000 0.00 0.00 43.27 3.51
499 684 5.125097 CACAGAAGGAAGATTGATCCAAAGG 59.875 44.000 0.00 0.00 39.55 3.11
505 690 4.699257 ACAAGCACAGAAGGAAGATTGATC 59.301 41.667 0.00 0.00 0.00 2.92
579 764 3.795877 CTGTGTGCAATTTCCAAAACCT 58.204 40.909 0.00 0.00 0.00 3.50
584 769 1.340889 GAGGCTGTGTGCAATTTCCAA 59.659 47.619 0.00 0.00 45.15 3.53
781 966 5.858581 GCAACACATGACCTAAAGTTGAATC 59.141 40.000 0.00 0.00 38.80 2.52
1199 1385 1.768275 TGAGACAGAGGAACTTGGCAA 59.232 47.619 0.00 0.00 41.55 4.52
1247 1433 4.536090 AGAAGTGGACAATGAACCCTGATA 59.464 41.667 0.00 0.00 0.00 2.15
1469 1655 9.522804 AGTTAGCTTTATGAGATACTTTCGAAG 57.477 33.333 0.00 0.00 0.00 3.79
1496 1682 4.861102 AGCCTTCCAAGAAGTTCAAATG 57.139 40.909 5.50 1.27 0.00 2.32
1639 1825 5.055265 TGGACACTGGAAGGTTATTTGAA 57.945 39.130 0.00 0.00 39.30 2.69
1687 1873 8.620416 GCATGATATTAACATGTTGTGGACTTA 58.380 33.333 21.42 0.00 44.52 2.24
1750 1936 5.238868 CAGAATGGCCATGAGAAATCTACAG 59.761 44.000 21.63 1.77 0.00 2.74
2032 2218 3.056821 CCGCTAGAATTGATACGGGATGA 60.057 47.826 0.00 0.00 37.04 2.92
2049 2235 0.037326 CACTTCCAGAGTTGCCGCTA 60.037 55.000 0.00 0.00 36.10 4.26
2150 2336 2.904915 CCGAAGAAGCACGAAAAGTTC 58.095 47.619 0.00 0.00 0.00 3.01
2190 2376 4.942761 ATTCAGCCAGCAAGAAAGAAAA 57.057 36.364 2.38 0.00 0.00 2.29
2315 2501 2.571212 AGACAGAAATTGCAACCGACA 58.429 42.857 0.00 0.00 0.00 4.35
2328 2514 3.890756 ACCACAATCAATGCAAGACAGAA 59.109 39.130 0.00 0.00 0.00 3.02
2352 2538 5.879777 TGAAACATCTGACAACTCAAGACAA 59.120 36.000 0.00 0.00 0.00 3.18
2564 2757 9.643693 CTTTATGAATGCAATAGGTGAAAACTT 57.356 29.630 0.00 0.00 0.00 2.66
2651 2846 4.452455 CAGTTTAGTTGCTTCCACTGGTAG 59.548 45.833 0.00 0.00 0.00 3.18
2652 2847 4.141574 ACAGTTTAGTTGCTTCCACTGGTA 60.142 41.667 0.00 0.00 36.71 3.25
2653 2848 3.214328 CAGTTTAGTTGCTTCCACTGGT 58.786 45.455 0.00 0.00 0.00 4.00
2654 2849 3.214328 ACAGTTTAGTTGCTTCCACTGG 58.786 45.455 0.00 0.00 36.71 4.00
2655 2850 7.849804 ATATACAGTTTAGTTGCTTCCACTG 57.150 36.000 0.00 0.00 38.09 3.66
2656 2851 8.537016 TGTATATACAGTTTAGTTGCTTCCACT 58.463 33.333 11.62 0.00 0.00 4.00
2925 3121 3.403038 AGAATTGTCACCAGAGTTTCCG 58.597 45.455 0.00 0.00 0.00 4.30
3279 3475 6.205658 AGGCTAAAAGCTAACAAGAAACAGAG 59.794 38.462 0.00 0.00 41.99 3.35
3362 3558 6.206243 AGTGAAGGAATTGACAAGACATGAAG 59.794 38.462 0.00 0.00 0.00 3.02
3504 3700 7.980062 ACACATTGCAATACATATAACGTGAA 58.020 30.769 20.85 0.00 0.00 3.18
3613 3809 7.867909 GGTAATATCCAGAAAATAAAAGCAGGC 59.132 37.037 0.00 0.00 0.00 4.85
3783 3979 0.548510 AAGAAGGTATGGCTGGCCTC 59.451 55.000 13.05 0.00 36.94 4.70
3787 3983 8.697507 ATTTAAGAATAAGAAGGTATGGCTGG 57.302 34.615 0.00 0.00 0.00 4.85
3931 4127 3.225104 CCCAAATATGTGCTGGCTACAT 58.775 45.455 12.44 12.44 41.36 2.29
3932 4128 2.653726 CCCAAATATGTGCTGGCTACA 58.346 47.619 0.00 0.00 0.00 2.74
3954 4150 3.322254 ACTTCTAAGAGTGGTGTGGTCAG 59.678 47.826 0.00 0.00 0.00 3.51
3958 4154 4.527038 TCCTAACTTCTAAGAGTGGTGTGG 59.473 45.833 0.00 0.00 0.00 4.17
4017 4214 5.831997 AGTTAACAATCCACAGTCAAAAGC 58.168 37.500 8.61 0.00 0.00 3.51
4044 4241 9.426837 CATTTTGAACCTAATGAACACAATCAT 57.573 29.630 0.00 0.00 41.74 2.45
4165 4362 5.336055 CGACCTAAGTGAATTCTGAGTCTGT 60.336 44.000 7.05 0.00 0.00 3.41
4211 4408 6.648192 ACTTTTGACTCTGATCCTTAGATGG 58.352 40.000 0.00 0.00 30.90 3.51
4417 4614 2.621070 TCAGGTTCTCCTTTAGCTGGT 58.379 47.619 0.00 0.00 43.07 4.00
4660 4858 9.624697 CTGCACAAAGAGCAAAGTTAAATAATA 57.375 29.630 0.00 0.00 42.17 0.98
4668 4866 4.794003 GCATACTGCACAAAGAGCAAAGTT 60.794 41.667 0.00 0.00 44.26 2.66
4808 5006 5.654650 TGAAAACAGTTGACAAATGTAGGGT 59.345 36.000 20.48 7.29 0.00 4.34
4997 5199 6.886178 AAGGGCATAAAGGACTTCTAGTTA 57.114 37.500 0.00 0.00 0.00 2.24
5087 5293 2.265904 CGGAGGACGTGGACACAGA 61.266 63.158 0.00 0.00 37.93 3.41
5090 5296 4.736896 GGCGGAGGACGTGGACAC 62.737 72.222 0.00 0.00 46.52 3.67
5128 5334 7.718753 AGAGGCCTATTCTCAATAATGAACAAG 59.281 37.037 4.42 0.00 34.49 3.16
5178 5384 5.934043 TGGAGTGTCAAGATTAGACAATGTG 59.066 40.000 0.78 0.00 46.50 3.21
5206 5412 8.880244 TGTTATATGTAAGATAGGTCCAAGCAT 58.120 33.333 0.00 0.00 0.00 3.79
5238 5444 8.956426 GGTCAAAAAGTGATGAATAGACCAATA 58.044 33.333 0.00 0.00 41.88 1.90
5289 5496 5.284079 CCAGGCCATTTCGATTCAAAATAG 58.716 41.667 5.01 0.00 0.00 1.73
5385 5717 2.943690 GAGCCACACACGATACTCTCTA 59.056 50.000 0.00 0.00 0.00 2.43
5554 5886 5.819991 AGAAATGCTCAGATTACTTTCCCA 58.180 37.500 0.00 0.00 0.00 4.37
5576 5908 2.146342 AGTTGTCCTGCAATCAACGAG 58.854 47.619 16.78 0.00 43.87 4.18
5777 6111 5.409520 CAGAAGAAGTACAACAGCTGCAATA 59.590 40.000 15.27 0.00 0.00 1.90
5778 6112 4.214971 CAGAAGAAGTACAACAGCTGCAAT 59.785 41.667 15.27 0.98 0.00 3.56
5929 6267 4.519540 ATTCAGCGCCACAAAGTAAATT 57.480 36.364 2.29 0.00 0.00 1.82
5953 6291 1.568504 AGTCCTGCCCAGACGAAATA 58.431 50.000 0.00 0.00 0.00 1.40
5954 6292 0.693049 AAGTCCTGCCCAGACGAAAT 59.307 50.000 0.00 0.00 0.00 2.17
5958 6296 1.669115 CACAAGTCCTGCCCAGACG 60.669 63.158 0.00 0.00 0.00 4.18
6089 6427 5.543507 ACAGCCAACAATACCAAATTGAA 57.456 34.783 4.82 0.00 33.51 2.69
6196 6534 2.188062 ATTAAAAACGAGGGGCACGA 57.812 45.000 0.00 0.00 34.70 4.35
6197 6535 3.004862 ACTATTAAAAACGAGGGGCACG 58.995 45.455 0.00 0.00 0.00 5.34
6336 6674 1.198759 AATCCAGGGTAGGTGTGCGT 61.199 55.000 0.00 0.00 0.00 5.24
6337 6675 0.462047 GAATCCAGGGTAGGTGTGCG 60.462 60.000 0.00 0.00 0.00 5.34
6342 6680 1.273098 ACGTCTGAATCCAGGGTAGGT 60.273 52.381 0.00 0.00 40.76 3.08
6350 6688 0.874390 GCTTTGCACGTCTGAATCCA 59.126 50.000 0.00 0.00 0.00 3.41
6378 6716 2.154462 CCAACACTTGCTAGGGTTCAG 58.846 52.381 13.09 4.29 44.76 3.02
6388 6726 4.645921 GCACGGCCCAACACTTGC 62.646 66.667 0.00 0.00 0.00 4.01
6390 6728 2.906897 CAGCACGGCCCAACACTT 60.907 61.111 0.00 0.00 0.00 3.16
6412 6750 1.072173 TGTGGAGGTGGTGATCAAGTG 59.928 52.381 0.00 0.00 0.00 3.16
6415 6753 1.135960 TGTGTGGAGGTGGTGATCAA 58.864 50.000 0.00 0.00 0.00 2.57
6428 6766 4.034394 CCATGTTCGACTATTCATGTGTGG 59.966 45.833 0.00 0.00 36.81 4.17
6429 6767 4.631377 ACCATGTTCGACTATTCATGTGTG 59.369 41.667 0.00 0.00 36.81 3.82
6430 6768 4.631377 CACCATGTTCGACTATTCATGTGT 59.369 41.667 0.00 0.00 36.81 3.72
6432 6770 4.870426 GTCACCATGTTCGACTATTCATGT 59.130 41.667 0.00 0.00 36.81 3.21
6433 6771 4.271049 GGTCACCATGTTCGACTATTCATG 59.729 45.833 0.00 0.00 37.83 3.07
6434 6772 4.162320 AGGTCACCATGTTCGACTATTCAT 59.838 41.667 0.00 0.00 0.00 2.57
6435 6773 3.513912 AGGTCACCATGTTCGACTATTCA 59.486 43.478 0.00 0.00 0.00 2.57
6436 6774 4.124851 AGGTCACCATGTTCGACTATTC 57.875 45.455 0.00 0.00 0.00 1.75
6437 6775 4.020573 TCAAGGTCACCATGTTCGACTATT 60.021 41.667 0.00 1.25 0.00 1.73
6438 6776 3.513912 TCAAGGTCACCATGTTCGACTAT 59.486 43.478 0.00 0.00 0.00 2.12
6439 6777 2.894765 TCAAGGTCACCATGTTCGACTA 59.105 45.455 0.00 0.00 0.00 2.59
6440 6778 1.691976 TCAAGGTCACCATGTTCGACT 59.308 47.619 0.00 0.00 0.00 4.18
6441 6779 2.163818 TCAAGGTCACCATGTTCGAC 57.836 50.000 0.00 0.00 0.00 4.20
6442 6780 2.920724 TTCAAGGTCACCATGTTCGA 57.079 45.000 0.00 0.00 0.00 3.71
6443 6781 3.066064 TGTTTTCAAGGTCACCATGTTCG 59.934 43.478 0.00 0.00 0.00 3.95
6444 6782 4.647424 TGTTTTCAAGGTCACCATGTTC 57.353 40.909 0.00 0.00 0.00 3.18
6445 6783 4.039124 GGATGTTTTCAAGGTCACCATGTT 59.961 41.667 0.00 0.00 0.00 2.71
6446 6784 3.573967 GGATGTTTTCAAGGTCACCATGT 59.426 43.478 0.00 0.00 0.00 3.21
6447 6785 3.366273 CGGATGTTTTCAAGGTCACCATG 60.366 47.826 0.00 0.00 0.00 3.66
6448 6786 2.819608 CGGATGTTTTCAAGGTCACCAT 59.180 45.455 0.00 0.00 0.00 3.55
6449 6787 2.226330 CGGATGTTTTCAAGGTCACCA 58.774 47.619 0.00 0.00 0.00 4.17
6450 6788 1.539827 CCGGATGTTTTCAAGGTCACC 59.460 52.381 0.00 0.00 0.00 4.02
6451 6789 1.539827 CCCGGATGTTTTCAAGGTCAC 59.460 52.381 0.73 0.00 0.00 3.67
6452 6790 1.546773 CCCCGGATGTTTTCAAGGTCA 60.547 52.381 0.73 0.00 0.00 4.02
6453 6791 1.173913 CCCCGGATGTTTTCAAGGTC 58.826 55.000 0.73 0.00 0.00 3.85
6468 6806 1.675641 CTTCAAGGTCCTTGCCCCG 60.676 63.158 24.66 10.02 40.84 5.73
6491 6829 6.014840 TCACAAGTTAAAGATCGGGTACTTCT 60.015 38.462 0.00 0.00 0.00 2.85
6504 6842 3.932710 TCGCCATAGCTCACAAGTTAAAG 59.067 43.478 0.00 0.00 36.60 1.85
6509 6847 2.009042 GCTTCGCCATAGCTCACAAGT 61.009 52.381 0.00 0.00 35.74 3.16
6529 6867 2.072874 ATGGATGAAGGATGGCCCGG 62.073 60.000 0.00 0.00 40.87 5.73
6549 6887 0.606401 ATGTCAACAAGAGGGTGGCG 60.606 55.000 0.00 0.00 0.00 5.69
6559 6897 3.327757 ACAAGGCTCTAGGATGTCAACAA 59.672 43.478 0.00 0.00 0.00 2.83
6571 6909 5.586243 GCTATGAAATGTTCACAAGGCTCTA 59.414 40.000 0.00 0.00 43.48 2.43
6573 6911 4.439289 GGCTATGAAATGTTCACAAGGCTC 60.439 45.833 15.71 2.79 43.48 4.70
6579 6917 3.932710 GACGAGGCTATGAAATGTTCACA 59.067 43.478 0.00 0.00 43.48 3.58
6580 6918 3.932710 TGACGAGGCTATGAAATGTTCAC 59.067 43.478 0.00 0.00 43.48 3.18
6581 6919 4.200838 TGACGAGGCTATGAAATGTTCA 57.799 40.909 0.00 0.00 45.01 3.18
6582 6920 4.212214 GGATGACGAGGCTATGAAATGTTC 59.788 45.833 0.00 0.00 0.00 3.18
6583 6921 4.130118 GGATGACGAGGCTATGAAATGTT 58.870 43.478 0.00 0.00 0.00 2.71
6584 6922 3.134623 TGGATGACGAGGCTATGAAATGT 59.865 43.478 0.00 0.00 0.00 2.71
6585 6923 3.732212 TGGATGACGAGGCTATGAAATG 58.268 45.455 0.00 0.00 0.00 2.32
6586 6924 4.101585 TCTTGGATGACGAGGCTATGAAAT 59.898 41.667 0.00 0.00 0.00 2.17
6587 6925 3.450817 TCTTGGATGACGAGGCTATGAAA 59.549 43.478 0.00 0.00 0.00 2.69
6588 6926 3.031013 TCTTGGATGACGAGGCTATGAA 58.969 45.455 0.00 0.00 0.00 2.57
6589 6927 2.625314 CTCTTGGATGACGAGGCTATGA 59.375 50.000 0.00 0.00 0.00 2.15
6590 6928 2.865670 GCTCTTGGATGACGAGGCTATG 60.866 54.545 0.00 0.00 0.00 2.23
6591 6929 1.342819 GCTCTTGGATGACGAGGCTAT 59.657 52.381 0.00 0.00 0.00 2.97
6592 6930 0.747255 GCTCTTGGATGACGAGGCTA 59.253 55.000 0.00 0.00 0.00 3.93
6593 6931 1.519719 GCTCTTGGATGACGAGGCT 59.480 57.895 0.00 0.00 0.00 4.58
6594 6932 1.880340 CGCTCTTGGATGACGAGGC 60.880 63.158 0.00 0.00 0.00 4.70
6595 6933 1.227089 CCGCTCTTGGATGACGAGG 60.227 63.158 0.00 0.00 0.00 4.63
6596 6934 1.880340 GCCGCTCTTGGATGACGAG 60.880 63.158 0.00 0.00 0.00 4.18
6597 6935 2.184322 GCCGCTCTTGGATGACGA 59.816 61.111 0.00 0.00 0.00 4.20
6598 6936 2.892425 GGCCGCTCTTGGATGACG 60.892 66.667 0.00 0.00 0.00 4.35
6599 6937 0.749454 AATGGCCGCTCTTGGATGAC 60.749 55.000 0.00 0.00 0.00 3.06
6600 6938 0.836606 TAATGGCCGCTCTTGGATGA 59.163 50.000 0.00 0.00 0.00 2.92
6601 6939 1.901591 ATAATGGCCGCTCTTGGATG 58.098 50.000 0.00 0.00 0.00 3.51
6602 6940 2.624838 CAAATAATGGCCGCTCTTGGAT 59.375 45.455 0.00 0.00 0.00 3.41
6603 6941 2.023673 CAAATAATGGCCGCTCTTGGA 58.976 47.619 0.00 0.00 0.00 3.53
6604 6942 1.750778 ACAAATAATGGCCGCTCTTGG 59.249 47.619 0.00 0.00 0.00 3.61
6605 6943 3.070429 GACAAATAATGGCCGCTCTTG 57.930 47.619 0.00 0.29 0.00 3.02
6613 6951 4.526970 TCTCTCCAAGGACAAATAATGGC 58.473 43.478 0.00 0.00 35.73 4.40
6614 6952 6.599445 AGATCTCTCCAAGGACAAATAATGG 58.401 40.000 0.00 0.00 0.00 3.16
6615 6953 7.727331 GAGATCTCTCCAAGGACAAATAATG 57.273 40.000 15.80 0.00 37.02 1.90
6630 6968 1.342819 CCATCCCAACGGAGATCTCTC 59.657 57.143 21.81 11.26 43.12 3.20
6631 6969 1.343478 ACCATCCCAACGGAGATCTCT 60.343 52.381 21.81 0.23 43.12 3.10
6632 6970 1.123928 ACCATCCCAACGGAGATCTC 58.876 55.000 14.75 14.75 43.12 2.75
6633 6971 0.833287 CACCATCCCAACGGAGATCT 59.167 55.000 0.00 0.00 43.12 2.75
6634 6972 0.815615 GCACCATCCCAACGGAGATC 60.816 60.000 0.00 0.00 43.12 2.75
6635 6973 1.224592 GCACCATCCCAACGGAGAT 59.775 57.895 0.00 0.00 43.12 2.75
6636 6974 2.668632 GCACCATCCCAACGGAGA 59.331 61.111 0.00 0.00 43.12 3.71
6637 6975 1.622607 TAGGCACCATCCCAACGGAG 61.623 60.000 0.00 0.00 43.12 4.63
6638 6976 1.613928 TAGGCACCATCCCAACGGA 60.614 57.895 0.00 0.00 44.33 4.69
6639 6977 1.153168 CTAGGCACCATCCCAACGG 60.153 63.158 0.00 0.00 0.00 4.44
6640 6978 1.153168 CCTAGGCACCATCCCAACG 60.153 63.158 0.00 0.00 0.00 4.10
6641 6979 0.394352 CACCTAGGCACCATCCCAAC 60.394 60.000 9.30 0.00 0.00 3.77
6642 6980 1.998530 CACCTAGGCACCATCCCAA 59.001 57.895 9.30 0.00 0.00 4.12
6643 6981 2.679342 GCACCTAGGCACCATCCCA 61.679 63.158 9.30 0.00 0.00 4.37
6644 6982 2.193248 GCACCTAGGCACCATCCC 59.807 66.667 9.30 0.00 0.00 3.85
6645 6983 1.147153 GAGCACCTAGGCACCATCC 59.853 63.158 9.30 0.00 35.83 3.51
6646 6984 1.147153 GGAGCACCTAGGCACCATC 59.853 63.158 9.30 0.00 43.10 3.51
6647 6985 3.324713 GGAGCACCTAGGCACCAT 58.675 61.111 9.30 0.00 43.10 3.55
6649 6987 1.153086 CATGGAGCACCTAGGCACC 60.153 63.158 9.30 7.88 43.78 5.01
6650 6988 4.547859 CATGGAGCACCTAGGCAC 57.452 61.111 9.30 0.18 37.04 5.01


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

AutoCloner maintained by Alex Coulton.