Multiple sequence alignment - TraesCS2B01G399100

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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 TraesCS2B01G399100 chr2B 100.000 5516 0 0 1 5516 566623301 566628816 0.000000e+00 10187.0
1 TraesCS2B01G399100 chr2A 92.212 5367 283 51 147 5461 625024286 625029569 0.000000e+00 7470.0
2 TraesCS2B01G399100 chr2A 92.547 161 10 1 1510 1668 79316165 79316005 4.300000e-56 230.0
3 TraesCS2B01G399100 chr2A 91.720 157 8 3 1 152 625024089 625024245 4.330000e-51 213.0
4 TraesCS2B01G399100 chr2D 93.374 4875 216 34 147 4976 482661114 482665926 0.000000e+00 7114.0
5 TraesCS2B01G399100 chr2D 93.168 161 9 1 1510 1668 79056327 79056167 9.240000e-58 235.0
6 TraesCS2B01G399100 chr2D 85.345 232 19 8 5018 5234 482665939 482666170 5.560000e-55 226.0
7 TraesCS2B01G399100 chr2D 88.824 170 18 1 1507 1676 302250082 302250250 2.010000e-49 207.0
8 TraesCS2B01G399100 chr3D 92.857 154 10 1 1516 1668 288550458 288550611 7.190000e-54 222.0
9 TraesCS2B01G399100 chr3D 92.857 154 9 2 1517 1668 315480578 315480425 7.190000e-54 222.0
10 TraesCS2B01G399100 chr5A 91.250 160 12 1 1509 1668 354544241 354544084 3.350000e-52 217.0
11 TraesCS2B01G399100 chr5A 98.182 55 1 0 5462 5516 67338364 67338418 4.550000e-16 97.1
12 TraesCS2B01G399100 chr3B 90.909 165 9 2 1513 1672 158707496 158707659 3.350000e-52 217.0
13 TraesCS2B01G399100 chr6D 83.333 216 28 6 322 536 298911547 298911339 5.640000e-45 193.0
14 TraesCS2B01G399100 chr7D 87.778 90 8 3 1675 1762 607041448 607041536 9.780000e-18 102.0
15 TraesCS2B01G399100 chr1B 96.364 55 2 0 5462 5516 9748237 9748183 2.120000e-14 91.6
16 TraesCS2B01G399100 chr4B 94.545 55 3 0 5462 5516 28941891 28941945 9.850000e-13 86.1


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 TraesCS2B01G399100 chr2B 566623301 566628816 5515 False 10187.0 10187 100.0000 1 5516 1 chr2B.!!$F1 5515
1 TraesCS2B01G399100 chr2A 625024089 625029569 5480 False 3841.5 7470 91.9660 1 5461 2 chr2A.!!$F1 5460
2 TraesCS2B01G399100 chr2D 482661114 482666170 5056 False 3670.0 7114 89.3595 147 5234 2 chr2D.!!$F2 5087

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
468 524 0.027716 CGTAGAGCAGCGTGACGTAT 59.972 55.0 6.91 0.0 0.0 3.06 F
1356 1437 0.252197 GACCAGGATTACGCCCAAGT 59.748 55.0 0.00 0.0 0.0 3.16 F
1358 1439 0.463833 CCAGGATTACGCCCAAGTCC 60.464 60.0 0.00 0.0 0.0 3.85 F
2763 2852 0.323999 TAGCTTCTACTGACGGCCCA 60.324 55.0 0.00 0.0 0.0 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2366 2450 1.490490 TGCCATCCTGTTATCCTGGAC 59.510 52.381 0.00 0.0 43.20 4.02 R
2746 2835 0.811616 CATGGGCCGTCAGTAGAAGC 60.812 60.000 0.00 0.0 0.00 3.86 R
3126 3215 0.963962 ACATCAGCTGGCACCAAAAG 59.036 50.000 15.13 0.0 0.00 2.27 R
4643 4747 0.031585 CGACTGACGACAGACCCAAA 59.968 55.000 21.50 0.0 46.03 3.28 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
40 41 4.151867 CCGAAACTACTTTGCAGGTAAGAC 59.848 45.833 3.66 0.00 0.00 3.01
89 90 4.456911 TGTGGCATCTTCTGAAGTGATTTC 59.543 41.667 16.43 6.42 36.29 2.17
92 93 5.771666 TGGCATCTTCTGAAGTGATTTCTTT 59.228 36.000 16.43 0.00 36.71 2.52
115 121 6.935741 TTTTCAGGAATCTTCTGAACGAAA 57.064 33.333 6.08 0.00 46.84 3.46
121 127 4.392138 GGAATCTTCTGAACGAAAACGGAT 59.608 41.667 0.00 0.00 0.00 4.18
231 283 3.507233 GCATCTCCATTTCAACCAGTTGA 59.493 43.478 9.12 9.12 46.72 3.18
255 310 2.644992 CCCAAACAACTCTGCGCC 59.355 61.111 4.18 0.00 0.00 6.53
295 350 2.893637 AGCACACTTAATCTACCGCTG 58.106 47.619 0.00 0.00 0.00 5.18
300 355 5.163754 GCACACTTAATCTACCGCTGAATTT 60.164 40.000 0.00 0.00 0.00 1.82
310 366 1.851021 CGCTGAATTTGTGGGCGTGA 61.851 55.000 0.00 0.00 40.78 4.35
426 482 4.681978 GACTTGCCCAGGACGCGT 62.682 66.667 13.85 13.85 0.00 6.01
468 524 0.027716 CGTAGAGCAGCGTGACGTAT 59.972 55.000 6.91 0.00 0.00 3.06
819 886 1.048601 AGTTCACGGCCTCTTCTGAA 58.951 50.000 0.00 0.00 0.00 3.02
837 904 5.175859 TCTGAAGAAGAAAAACTCACACGT 58.824 37.500 0.00 0.00 29.54 4.49
960 1036 1.302671 CTAACCGACCGGCCCAAAA 60.303 57.895 8.55 0.00 39.32 2.44
964 1040 2.746277 CGACCGGCCCAAAAGGAG 60.746 66.667 0.00 0.00 38.24 3.69
1037 1113 1.639298 GCAGCAACCTTACCTCGCAG 61.639 60.000 0.00 0.00 0.00 5.18
1038 1114 1.376037 AGCAACCTTACCTCGCAGC 60.376 57.895 0.00 0.00 0.00 5.25
1085 1161 2.742372 CGCAGTTCCTCCCGGTTG 60.742 66.667 0.00 0.00 0.00 3.77
1090 1166 2.617021 GCAGTTCCTCCCGGTTGAATTA 60.617 50.000 0.00 0.00 0.00 1.40
1104 1180 6.967199 CCGGTTGAATTATCTCTTAGTTTTGC 59.033 38.462 0.00 0.00 0.00 3.68
1190 1266 4.371417 AGGCCGGAGTCGTGGGTA 62.371 66.667 5.05 0.00 33.95 3.69
1315 1396 1.270785 TGAACTTTCAGGCTCGCATCA 60.271 47.619 0.00 0.00 32.50 3.07
1355 1436 0.810031 CGACCAGGATTACGCCCAAG 60.810 60.000 0.00 0.00 0.00 3.61
1356 1437 0.252197 GACCAGGATTACGCCCAAGT 59.748 55.000 0.00 0.00 0.00 3.16
1358 1439 0.463833 CCAGGATTACGCCCAAGTCC 60.464 60.000 0.00 0.00 0.00 3.85
1359 1440 0.463833 CAGGATTACGCCCAAGTCCC 60.464 60.000 0.00 0.00 0.00 4.46
1360 1441 0.912487 AGGATTACGCCCAAGTCCCA 60.912 55.000 0.00 0.00 0.00 4.37
1362 1443 1.092348 GATTACGCCCAAGTCCCAAC 58.908 55.000 0.00 0.00 0.00 3.77
1486 1567 1.354031 TCTATTGTTGCAAGGGGCTCA 59.646 47.619 0.00 0.00 45.15 4.26
1630 1711 5.406780 GCCTGTATACATCCGATTCAGAAAG 59.593 44.000 5.91 0.00 0.00 2.62
1710 1793 9.934190 GTACCAAAAATAAGACGTTTTTGTAGA 57.066 29.630 16.86 3.99 46.97 2.59
1807 1890 5.934625 GGCGATAGAGACCAACATATCAATT 59.065 40.000 0.00 0.00 39.76 2.32
1851 1934 1.202639 ACAATGTGCCTGTTCGACTCA 60.203 47.619 0.00 0.00 0.00 3.41
1863 1947 5.869344 CCTGTTCGACTCATTGTCATTTCTA 59.131 40.000 0.00 0.00 45.60 2.10
1893 1977 8.662781 TTAAAGCTGTTATTATGAGCCTACTG 57.337 34.615 0.00 0.00 32.86 2.74
2064 2148 3.928727 TGGACAGAAAGTGTAGTACGG 57.071 47.619 0.00 0.00 40.56 4.02
2066 2150 3.638160 TGGACAGAAAGTGTAGTACGGTT 59.362 43.478 0.00 0.00 40.56 4.44
2135 2219 5.835819 TGACCCTTTGTTCCAATGATACAAA 59.164 36.000 10.69 10.69 38.90 2.83
2167 2251 5.350914 TCAACCTTGCAAATTGTTGTTTGAG 59.649 36.000 24.05 8.35 40.64 3.02
2266 2350 7.989741 AGTATGAGCAAGCATAATTCTGTAGTT 59.010 33.333 0.00 0.00 32.92 2.24
2277 2361 8.827677 GCATAATTCTGTAGTTAAAGTACTGGG 58.172 37.037 0.00 0.00 0.00 4.45
2285 2369 7.315142 TGTAGTTAAAGTACTGGGATGTTACG 58.685 38.462 0.00 0.00 0.00 3.18
2298 2382 7.012327 ACTGGGATGTTACGTTCATGATAATTG 59.988 37.037 9.95 0.00 0.00 2.32
2490 2574 6.155049 TGACATTCTTGATACTCTGATGGACA 59.845 38.462 0.00 0.00 0.00 4.02
2563 2647 9.498176 GTTACCTAACATATACCAAATTCCGAT 57.502 33.333 0.00 0.00 36.25 4.18
2644 2728 3.435327 TGGTTGCTGTTATTCGTTAGCAG 59.565 43.478 0.00 7.33 45.69 4.24
2763 2852 0.323999 TAGCTTCTACTGACGGCCCA 60.324 55.000 0.00 0.00 0.00 5.36
2819 2908 0.682209 GTCTACGACCTACCCCTGCA 60.682 60.000 0.00 0.00 0.00 4.41
2847 2936 1.084289 GGCTGTAAGTTGGGTAAGCG 58.916 55.000 0.00 0.00 35.30 4.68
2889 2978 6.527057 AAAGTTTCTAGCAGGTAGTACGAT 57.473 37.500 6.54 0.28 0.00 3.73
2890 2979 6.527057 AAGTTTCTAGCAGGTAGTACGATT 57.473 37.500 6.54 0.00 0.00 3.34
3033 3122 5.560724 AGGATATTTGGTGGGTAATCATCG 58.439 41.667 0.00 0.00 0.00 3.84
3113 3202 7.596248 TGAAATTTTCTTTCTAAGCTGCATCAC 59.404 33.333 10.33 0.00 0.00 3.06
3277 3366 1.726865 CTGCACTTCAAACGGCACA 59.273 52.632 0.00 0.00 32.06 4.57
3329 3418 3.132160 TGCGTGTTTAATTTGTCGAGGA 58.868 40.909 0.00 0.00 0.00 3.71
3367 3456 2.159819 GACTGTCCTCTGCGCCTGAA 62.160 60.000 4.18 0.00 0.00 3.02
3403 3492 5.828747 TGACTGTAGATTATAGGACGTTGC 58.171 41.667 0.00 0.00 0.00 4.17
3496 3585 3.521531 TGTCATTGTAGGGAATGGCTGTA 59.478 43.478 0.00 0.00 38.52 2.74
3718 3807 8.045176 AGTTACTCTGTTTCATTTTATCAGGC 57.955 34.615 0.00 0.00 0.00 4.85
3730 3819 8.177119 TCATTTTATCAGGCAAGTAACAAAGT 57.823 30.769 0.00 0.00 0.00 2.66
3918 4011 2.038952 GCTGTGCATATATGGGGAGTGA 59.961 50.000 14.51 0.00 0.00 3.41
3971 4064 4.278419 ACACTTAATCCACAAAGAACAGCC 59.722 41.667 0.00 0.00 0.00 4.85
4001 4094 5.047377 GGTGGCTGATTTTATCAAGGTTTCA 60.047 40.000 0.00 0.00 39.11 2.69
4014 4107 4.753107 TCAAGGTTTCATACGTTTGACCTC 59.247 41.667 16.21 7.45 32.78 3.85
4023 4116 6.849502 TCATACGTTTGACCTCTAACTGTAG 58.150 40.000 4.46 0.00 31.28 2.74
4024 4117 4.516365 ACGTTTGACCTCTAACTGTAGG 57.484 45.455 0.00 0.00 38.93 3.18
4041 4134 0.537371 AGGTGCTTCCTGTTTTCCGG 60.537 55.000 0.00 0.00 46.19 5.14
4048 4141 4.020039 TGCTTCCTGTTTTCCGGATTACTA 60.020 41.667 4.15 0.00 33.38 1.82
4054 4147 7.622713 TCCTGTTTTCCGGATTACTACAATAA 58.377 34.615 4.15 0.00 0.00 1.40
4143 4236 2.038033 TCTTCTGTTCCCTAACCGGTTG 59.962 50.000 30.08 18.34 34.49 3.77
4347 4440 2.512515 GCTGCCTTCGCTTCGGAT 60.513 61.111 0.00 0.00 35.36 4.18
4434 4527 1.268625 GTGTTCCCCATGTTCGTTTCC 59.731 52.381 0.00 0.00 0.00 3.13
4494 4587 6.496911 TCTTGGATGGAAATCATAGTCGGATA 59.503 38.462 0.00 0.00 35.97 2.59
4497 4590 5.337571 GGATGGAAATCATAGTCGGATAGCA 60.338 44.000 0.00 0.00 35.97 3.49
4501 4594 6.210584 TGGAAATCATAGTCGGATAGCATACA 59.789 38.462 0.00 0.00 0.00 2.29
4517 4610 5.423015 AGCATACACGAAATCTGAATGACT 58.577 37.500 0.00 0.00 0.00 3.41
4520 4613 3.402110 ACACGAAATCTGAATGACTGCA 58.598 40.909 0.00 0.00 0.00 4.41
4521 4614 4.005650 ACACGAAATCTGAATGACTGCAT 58.994 39.130 0.00 0.00 35.92 3.96
4531 4624 1.893544 ATGACTGCATATGCTGGAGC 58.106 50.000 30.60 21.52 46.61 4.70
4543 4637 3.991725 CTGGAGCAAGAGCAGGGCC 62.992 68.421 0.00 0.00 45.49 5.80
4545 4639 2.438075 GAGCAAGAGCAGGGCCAG 60.438 66.667 6.18 0.00 45.49 4.85
4579 4676 4.154347 CCTCCCGCCTGCAGTCTC 62.154 72.222 13.81 0.22 0.00 3.36
4580 4677 3.385384 CTCCCGCCTGCAGTCTCA 61.385 66.667 13.81 0.00 0.00 3.27
4581 4678 2.922503 TCCCGCCTGCAGTCTCAA 60.923 61.111 13.81 0.00 0.00 3.02
4582 4679 2.032528 CCCGCCTGCAGTCTCAAA 59.967 61.111 13.81 0.00 0.00 2.69
4583 4680 2.037136 CCCGCCTGCAGTCTCAAAG 61.037 63.158 13.81 0.00 0.00 2.77
4586 4683 0.236711 CGCCTGCAGTCTCAAAGTTG 59.763 55.000 13.81 0.00 0.00 3.16
4590 4687 1.311859 TGCAGTCTCAAAGTTGCAGG 58.688 50.000 0.00 0.00 41.23 4.85
4592 4689 0.595095 CAGTCTCAAAGTTGCAGGGC 59.405 55.000 0.00 0.00 0.00 5.19
4595 4692 0.538057 TCTCAAAGTTGCAGGGCTGG 60.538 55.000 0.00 0.00 0.00 4.85
4597 4694 0.823356 TCAAAGTTGCAGGGCTGGAC 60.823 55.000 0.00 0.00 0.00 4.02
4598 4695 1.898574 AAAGTTGCAGGGCTGGACG 60.899 57.895 0.00 0.00 0.00 4.79
4600 4697 4.329545 GTTGCAGGGCTGGACGGA 62.330 66.667 0.00 0.00 0.00 4.69
4616 4713 4.339530 TGGACGGATCAATTTTGTTTCACA 59.660 37.500 0.00 0.00 0.00 3.58
4617 4714 5.010516 TGGACGGATCAATTTTGTTTCACAT 59.989 36.000 0.00 0.00 0.00 3.21
4618 4715 5.572896 GGACGGATCAATTTTGTTTCACATC 59.427 40.000 0.00 0.00 0.00 3.06
4620 4717 5.920273 ACGGATCAATTTTGTTTCACATCAC 59.080 36.000 0.00 0.00 0.00 3.06
4621 4718 5.059587 CGGATCAATTTTGTTTCACATCACG 59.940 40.000 0.00 0.00 0.00 4.35
4622 4719 5.920273 GGATCAATTTTGTTTCACATCACGT 59.080 36.000 0.00 0.00 0.00 4.49
4623 4720 6.420604 GGATCAATTTTGTTTCACATCACGTT 59.579 34.615 0.00 0.00 0.00 3.99
4624 4721 7.042791 GGATCAATTTTGTTTCACATCACGTTT 60.043 33.333 0.00 0.00 0.00 3.60
4625 4722 7.588143 TCAATTTTGTTTCACATCACGTTTT 57.412 28.000 0.00 0.00 0.00 2.43
4626 4723 8.023050 TCAATTTTGTTTCACATCACGTTTTT 57.977 26.923 0.00 0.00 0.00 1.94
4667 4771 1.436600 GTCTGTCGTCAGTCGTAGGA 58.563 55.000 9.48 0.00 41.91 2.94
4680 4784 3.191581 AGTCGTAGGATCGCCATTCTATG 59.808 47.826 0.00 0.00 36.29 2.23
4682 4786 3.057526 TCGTAGGATCGCCATTCTATGTG 60.058 47.826 0.00 0.00 31.10 3.21
4691 4799 3.019564 GCCATTCTATGTGCCTTCAGTT 58.980 45.455 0.00 0.00 0.00 3.16
4693 4801 3.629398 CCATTCTATGTGCCTTCAGTTCC 59.371 47.826 0.00 0.00 0.00 3.62
4721 4829 7.928167 TGTATGTATGACAGAAATGAGTGGATC 59.072 37.037 0.00 0.00 0.00 3.36
4733 4841 4.916041 TGAGTGGATCCTTTGTCTTCAT 57.084 40.909 14.23 0.00 0.00 2.57
4735 4843 5.982356 TGAGTGGATCCTTTGTCTTCATAG 58.018 41.667 14.23 0.00 0.00 2.23
4739 4847 6.156949 AGTGGATCCTTTGTCTTCATAGCTTA 59.843 38.462 14.23 0.00 0.00 3.09
4749 4857 8.429493 TTGTCTTCATAGCTTACTGAATCATG 57.571 34.615 0.00 0.00 31.39 3.07
4782 4890 0.321298 ACCAACACGATGCTGGTACC 60.321 55.000 4.43 4.43 44.33 3.34
4812 4920 2.357009 GGCTGCATCTGTTTGACTATGG 59.643 50.000 0.50 0.00 0.00 2.74
4832 4940 1.406341 GGCTGCCGTATGGTTTGACTA 60.406 52.381 1.35 0.00 37.67 2.59
4838 4946 2.602878 CGTATGGTTTGACTACGTGCT 58.397 47.619 0.00 0.00 34.91 4.40
4976 5094 4.051922 CGAAGCCATCTGTATTCTGTACC 58.948 47.826 0.00 0.00 0.00 3.34
4990 5108 5.633830 TTCTGTACCAGTACTAGGTTTCG 57.366 43.478 18.25 9.67 40.54 3.46
4994 5112 4.396166 TGTACCAGTACTAGGTTTCGCTAC 59.604 45.833 18.25 11.65 40.54 3.58
5037 5155 2.225068 AGTCACCACGAGTTGAACTG 57.775 50.000 0.90 0.00 0.00 3.16
5049 5167 0.601057 TTGAACTGTCCTGCGATCGA 59.399 50.000 21.57 3.01 0.00 3.59
5088 5207 1.162181 TGAACCACGTCGTCGACTCT 61.162 55.000 22.18 5.29 40.62 3.24
5145 5272 1.431440 CCTCTCAGAGTTCTCGCGG 59.569 63.158 6.13 0.00 0.00 6.46
5146 5273 1.027255 CCTCTCAGAGTTCTCGCGGA 61.027 60.000 6.13 0.00 0.00 5.54
5254 5387 2.132762 GCGATCGAAATTACCGTGGAT 58.867 47.619 21.57 0.00 0.00 3.41
5257 5390 3.554324 CGATCGAAATTACCGTGGATTGT 59.446 43.478 10.26 0.00 0.00 2.71
5276 5409 6.208204 GGATTGTATGCTCTGCTAAATCCAAT 59.792 38.462 6.64 0.00 40.73 3.16
5280 5413 8.518430 TGTATGCTCTGCTAAATCCAATTTTA 57.482 30.769 0.00 0.00 33.82 1.52
5308 5441 2.903547 GCTGAGTTTCGGGCGCAAA 61.904 57.895 10.83 0.00 0.00 3.68
5330 5463 2.429571 GACGAAGGCACGTACGCA 60.430 61.111 16.72 0.00 46.52 5.24
5358 5494 1.071542 TCTGGCTGAAACCATCAACGA 59.928 47.619 0.00 0.00 39.54 3.85
5362 5498 1.400242 GCTGAAACCATCAACGACTGC 60.400 52.381 0.00 0.00 37.67 4.40
5365 5501 1.732259 GAAACCATCAACGACTGCGAT 59.268 47.619 0.00 0.00 41.64 4.58
5366 5502 1.078709 AACCATCAACGACTGCGATG 58.921 50.000 0.00 0.00 41.07 3.84
5368 5504 2.009108 CATCAACGACTGCGATGGG 58.991 57.895 0.00 0.00 40.25 4.00
5369 5505 1.815421 ATCAACGACTGCGATGGGC 60.815 57.895 0.00 0.00 40.25 5.36
5370 5506 3.499737 CAACGACTGCGATGGGCC 61.500 66.667 0.00 0.00 42.61 5.80
5374 5510 3.838271 GACTGCGATGGGCCGAGA 61.838 66.667 0.00 0.00 42.61 4.04
5390 5526 2.486203 CCGAGAGAGGATATTGGACGAG 59.514 54.545 0.00 0.00 0.00 4.18
5397 5533 5.429130 AGAGGATATTGGACGAGGAAAAAC 58.571 41.667 0.00 0.00 0.00 2.43
5406 5542 1.574702 CGAGGAAAAACGTCAGGCCC 61.575 60.000 0.00 0.00 33.59 5.80
5423 5559 0.890996 CCCGCAAAGGCAAAGAGTCT 60.891 55.000 0.00 0.00 41.24 3.24
5429 5565 3.181502 GCAAAGGCAAAGAGTCTATGCTC 60.182 47.826 0.00 0.00 39.94 4.26
5440 5576 4.900652 AGAGTCTATGCTCAGACCAATCAT 59.099 41.667 12.79 0.00 45.08 2.45
5444 5580 4.837298 TCTATGCTCAGACCAATCATAGCT 59.163 41.667 0.00 0.00 37.55 3.32
5461 5597 2.427506 AGCTTTTTCTCTGGCCTAACG 58.572 47.619 3.32 0.00 0.00 3.18
5462 5598 1.468914 GCTTTTTCTCTGGCCTAACGG 59.531 52.381 3.32 0.00 0.00 4.44
5472 5608 2.044451 CCTAACGGCCCCAATGCA 60.044 61.111 0.00 0.00 0.00 3.96
5473 5609 2.120909 CCTAACGGCCCCAATGCAG 61.121 63.158 0.00 0.00 0.00 4.41
5474 5610 1.077787 CTAACGGCCCCAATGCAGA 60.078 57.895 0.00 0.00 0.00 4.26
5475 5611 1.077787 TAACGGCCCCAATGCAGAG 60.078 57.895 0.00 0.00 0.00 3.35
5476 5612 1.558167 TAACGGCCCCAATGCAGAGA 61.558 55.000 0.00 0.00 0.00 3.10
5477 5613 2.045045 CGGCCCCAATGCAGAGAA 60.045 61.111 0.00 0.00 0.00 2.87
5478 5614 2.409870 CGGCCCCAATGCAGAGAAC 61.410 63.158 0.00 0.00 0.00 3.01
5479 5615 1.000396 GGCCCCAATGCAGAGAACT 60.000 57.895 0.00 0.00 0.00 3.01
5480 5616 0.613012 GGCCCCAATGCAGAGAACTT 60.613 55.000 0.00 0.00 0.00 2.66
5481 5617 0.813821 GCCCCAATGCAGAGAACTTC 59.186 55.000 0.00 0.00 0.00 3.01
5482 5618 1.887956 GCCCCAATGCAGAGAACTTCA 60.888 52.381 0.00 0.00 0.00 3.02
5483 5619 2.089980 CCCCAATGCAGAGAACTTCAG 58.910 52.381 0.00 0.00 0.00 3.02
5484 5620 1.471684 CCCAATGCAGAGAACTTCAGC 59.528 52.381 0.00 0.00 38.68 4.26
5485 5621 1.129998 CCAATGCAGAGAACTTCAGCG 59.870 52.381 0.00 0.00 40.90 5.18
5486 5622 2.071540 CAATGCAGAGAACTTCAGCGA 58.928 47.619 0.00 0.00 40.90 4.93
5487 5623 2.007360 ATGCAGAGAACTTCAGCGAG 57.993 50.000 0.00 0.00 40.90 5.03
5488 5624 0.961753 TGCAGAGAACTTCAGCGAGA 59.038 50.000 0.00 0.00 40.90 4.04
5489 5625 1.341209 TGCAGAGAACTTCAGCGAGAA 59.659 47.619 0.00 0.00 40.90 2.87
5490 5626 1.724082 GCAGAGAACTTCAGCGAGAAC 59.276 52.381 0.00 0.00 31.61 3.01
5491 5627 2.609244 GCAGAGAACTTCAGCGAGAACT 60.609 50.000 0.00 0.00 31.61 3.01
5492 5628 3.648009 CAGAGAACTTCAGCGAGAACTT 58.352 45.455 0.00 0.00 31.61 2.66
5493 5629 3.672867 CAGAGAACTTCAGCGAGAACTTC 59.327 47.826 0.00 0.00 32.47 3.01
5502 5638 2.823628 CGAGAACTTCGGGTCCAAC 58.176 57.895 0.00 0.00 45.54 3.77
5503 5639 0.317479 CGAGAACTTCGGGTCCAACT 59.683 55.000 0.00 0.00 45.54 3.16
5504 5640 1.669211 CGAGAACTTCGGGTCCAACTC 60.669 57.143 0.00 0.00 45.54 3.01
5505 5641 1.343465 GAGAACTTCGGGTCCAACTCA 59.657 52.381 0.00 0.00 30.55 3.41
5506 5642 1.344763 AGAACTTCGGGTCCAACTCAG 59.655 52.381 0.00 0.00 30.55 3.35
5507 5643 0.250338 AACTTCGGGTCCAACTCAGC 60.250 55.000 0.00 0.00 0.00 4.26
5508 5644 1.371183 CTTCGGGTCCAACTCAGCA 59.629 57.895 0.00 0.00 0.00 4.41
5509 5645 0.250295 CTTCGGGTCCAACTCAGCAA 60.250 55.000 0.00 0.00 0.00 3.91
5510 5646 0.181587 TTCGGGTCCAACTCAGCAAA 59.818 50.000 0.00 0.00 0.00 3.68
5511 5647 0.181587 TCGGGTCCAACTCAGCAAAA 59.818 50.000 0.00 0.00 0.00 2.44
5512 5648 1.028905 CGGGTCCAACTCAGCAAAAA 58.971 50.000 0.00 0.00 0.00 1.94
5513 5649 1.613437 CGGGTCCAACTCAGCAAAAAT 59.387 47.619 0.00 0.00 0.00 1.82
5514 5650 2.035832 CGGGTCCAACTCAGCAAAAATT 59.964 45.455 0.00 0.00 0.00 1.82
5515 5651 3.653344 GGGTCCAACTCAGCAAAAATTC 58.347 45.455 0.00 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 5.172934 CCTGCAAAGTAGTTTCGGTGTATA 58.827 41.667 0.00 0.00 0.00 1.47
25 26 3.746492 GTCAATCGTCTTACCTGCAAAGT 59.254 43.478 0.00 0.00 0.00 2.66
40 41 9.773328 ACTACAATGAACATTATTTGTCAATCG 57.227 29.630 0.00 0.00 37.68 3.34
115 121 9.927668 ATGAAAATTTTGTCATTCTAATCCGTT 57.072 25.926 8.47 0.00 30.12 4.44
121 127 8.869109 ACCTGGATGAAAATTTTGTCATTCTAA 58.131 29.630 8.47 0.00 34.61 2.10
231 283 2.365293 GCAGAGTTGTTTGGGGTTGAAT 59.635 45.455 0.00 0.00 0.00 2.57
255 310 1.795768 TCGGTGAAGTAGCAGCTTTG 58.204 50.000 0.00 0.00 34.28 2.77
295 350 2.423577 ACTACTCACGCCCACAAATTC 58.576 47.619 0.00 0.00 0.00 2.17
300 355 2.165641 CTGAATACTACTCACGCCCACA 59.834 50.000 0.00 0.00 0.00 4.17
310 366 4.142138 CCTCGAGGTTTGCTGAATACTACT 60.142 45.833 24.04 0.00 0.00 2.57
426 482 3.181367 GAGTTCGTCCTCGGCGTA 58.819 61.111 6.85 0.00 37.69 4.42
794 861 2.357517 AGGCCGTGAACTGCTTCG 60.358 61.111 0.00 0.00 0.00 3.79
819 886 3.550678 GTCGACGTGTGAGTTTTTCTTCT 59.449 43.478 0.00 0.00 0.00 2.85
837 904 1.960689 TCCTTCTGTCACATGTGTCGA 59.039 47.619 24.63 16.83 0.00 4.20
943 1019 1.302671 CTTTTGGGCCGGTCGGTTA 60.303 57.895 11.25 0.00 37.65 2.85
960 1036 4.742649 TCGCCTCGTCTGCCTCCT 62.743 66.667 0.00 0.00 0.00 3.69
964 1040 4.500116 GGACTCGCCTCGTCTGCC 62.500 72.222 0.00 0.00 0.00 4.85
999 1075 2.159156 TGCGCTTACGAGTATGTCCATT 60.159 45.455 9.73 0.00 43.93 3.16
1037 1113 1.065647 GGGGAGTAGGGATAAAGGGC 58.934 60.000 0.00 0.00 0.00 5.19
1038 1114 1.349067 CGGGGAGTAGGGATAAAGGG 58.651 60.000 0.00 0.00 0.00 3.95
1085 1161 4.666618 GCGCGCAAAACTAAGAGATAATTC 59.333 41.667 29.10 0.00 0.00 2.17
1090 1166 0.727398 GGCGCGCAAAACTAAGAGAT 59.273 50.000 34.42 0.00 0.00 2.75
1104 1180 4.228097 CTGCGGAAGATTGGCGCG 62.228 66.667 0.00 0.00 0.00 6.86
1156 1232 4.770362 TCCGGGGCGTCTCCATCA 62.770 66.667 0.00 0.00 36.21 3.07
1190 1266 2.680841 CGAGACGGACTCTGAAATCTCT 59.319 50.000 5.97 0.00 42.92 3.10
1355 1436 4.636206 GTCATCCTAGTTTCATGTTGGGAC 59.364 45.833 0.00 0.00 0.00 4.46
1356 1437 4.288366 TGTCATCCTAGTTTCATGTTGGGA 59.712 41.667 0.00 0.00 0.00 4.37
1358 1439 5.122869 CACTGTCATCCTAGTTTCATGTTGG 59.877 44.000 0.00 0.00 0.00 3.77
1359 1440 5.934043 TCACTGTCATCCTAGTTTCATGTTG 59.066 40.000 0.00 0.00 0.00 3.33
1360 1441 6.114187 TCACTGTCATCCTAGTTTCATGTT 57.886 37.500 0.00 0.00 0.00 2.71
1362 1443 7.439157 TTTTCACTGTCATCCTAGTTTCATG 57.561 36.000 0.00 0.00 0.00 3.07
1420 1501 2.239654 CCAATTTCAGGTGCTAGAGGGA 59.760 50.000 0.00 0.00 0.00 4.20
1486 1567 6.849085 TTGGCCAAGTATGTATTTTGTGAT 57.151 33.333 16.05 0.00 0.00 3.06
1710 1793 5.548406 AGACGATTTTGTGGCTAGTTTAGT 58.452 37.500 0.00 0.00 0.00 2.24
1807 1890 9.990360 TGTTATTCACACTAAGTCAATCTAACA 57.010 29.630 0.00 0.00 0.00 2.41
1812 1895 9.546909 CACATTGTTATTCACACTAAGTCAATC 57.453 33.333 0.00 0.00 33.98 2.67
1863 1947 9.025041 AGGCTCATAATAACAGCTTTAAAGTTT 57.975 29.630 16.38 9.80 33.38 2.66
1873 1957 6.750148 ACTACAGTAGGCTCATAATAACAGC 58.250 40.000 12.42 0.00 0.00 4.40
1893 1977 7.967890 TTTAACTGGGCAGTACTAAAACTAC 57.032 36.000 0.00 0.00 41.58 2.73
1977 2061 6.313905 GCTACTGTACTATTGTGCAAACTGAT 59.686 38.462 0.00 0.00 38.28 2.90
1985 2069 8.197988 ACAAATTAGCTACTGTACTATTGTGC 57.802 34.615 0.00 0.00 0.00 4.57
2064 2148 6.809196 TCAGTTAAACAATCACACCAAACAAC 59.191 34.615 0.00 0.00 0.00 3.32
2066 2150 6.516739 TCAGTTAAACAATCACACCAAACA 57.483 33.333 0.00 0.00 0.00 2.83
2100 2184 6.772233 TGGAACAAAGGGTCATATGATATGTG 59.228 38.462 9.02 6.11 31.92 3.21
2135 2219 5.481473 ACAATTTGCAAGGTTGATAGTCCAT 59.519 36.000 24.64 0.55 0.00 3.41
2259 2343 7.487189 CGTAACATCCCAGTACTTTAACTACAG 59.513 40.741 0.00 0.00 0.00 2.74
2266 2350 6.343716 TGAACGTAACATCCCAGTACTTTA 57.656 37.500 0.00 0.00 0.00 1.85
2351 2435 5.633655 TCCTGGACAAGTTTTACCTACAA 57.366 39.130 0.00 0.00 0.00 2.41
2366 2450 1.490490 TGCCATCCTGTTATCCTGGAC 59.510 52.381 0.00 0.00 43.20 4.02
2563 2647 3.753272 GCACTAGAAAAATGCTGGAGTGA 59.247 43.478 0.00 0.00 35.87 3.41
2644 2728 6.844696 TTATCCAATGACGACTCTTATTGC 57.155 37.500 0.00 0.00 31.03 3.56
2645 2729 8.278408 CACATTATCCAATGACGACTCTTATTG 58.722 37.037 4.46 0.00 43.67 1.90
2646 2730 7.987458 ACACATTATCCAATGACGACTCTTATT 59.013 33.333 4.46 0.00 43.67 1.40
2746 2835 0.811616 CATGGGCCGTCAGTAGAAGC 60.812 60.000 0.00 0.00 0.00 3.86
2763 2852 4.790962 CTGAGCCGCAGCCCACAT 62.791 66.667 0.00 0.00 41.25 3.21
2847 2936 5.355596 ACTTTAGCATCTCTGTCAGCATAC 58.644 41.667 0.00 0.00 0.00 2.39
2889 2978 6.183360 ACAGAAAATCAGCCAAGATGTTTCAA 60.183 34.615 14.12 0.00 33.03 2.69
2890 2979 5.302568 ACAGAAAATCAGCCAAGATGTTTCA 59.697 36.000 14.12 0.00 33.03 2.69
3033 3122 7.119553 TCAGAAAATGGGTAACACGGTTAATAC 59.880 37.037 0.00 0.00 39.74 1.89
3113 3202 2.095059 CACCAAAAGAAAGAGGCATCGG 60.095 50.000 0.00 0.00 0.00 4.18
3126 3215 0.963962 ACATCAGCTGGCACCAAAAG 59.036 50.000 15.13 0.00 0.00 2.27
3271 3360 6.845302 AGATTGTATTGCAATATATGTGCCG 58.155 36.000 21.52 0.00 46.90 5.69
3302 3391 4.672862 CGACAAATTAAACACGCAATGTCA 59.327 37.500 0.00 0.00 42.31 3.58
3329 3418 7.384387 GGACAGTCGTTTTATCTTTGAGTAAGT 59.616 37.037 0.00 0.00 35.28 2.24
3403 3492 9.439500 AAATCTGGACAAATATGTTCATTTTGG 57.561 29.630 16.43 6.93 44.11 3.28
3447 3536 6.567321 GCAATAAGATATCACTGTGATGGCAC 60.567 42.308 28.67 17.49 45.35 5.01
3819 3912 6.354130 AGCTTGTACCAAACAGAAAGTTCTA 58.646 36.000 0.00 0.00 40.26 2.10
3918 4011 3.533547 GAGTTGCTCTCATCTCTTGCAT 58.466 45.455 0.00 0.00 42.34 3.96
3971 4064 3.700539 TGATAAAATCAGCCACCACCATG 59.299 43.478 0.00 0.00 33.59 3.66
4001 4094 5.713861 ACCTACAGTTAGAGGTCAAACGTAT 59.286 40.000 0.00 0.00 42.69 3.06
4023 4116 0.536460 TCCGGAAAACAGGAAGCACC 60.536 55.000 0.00 0.00 39.35 5.01
4024 4117 1.534729 ATCCGGAAAACAGGAAGCAC 58.465 50.000 9.01 0.00 40.32 4.40
4054 4147 7.201565 GCTCTGCAGAGTAAGAAACGAAATTAT 60.202 37.037 37.25 0.00 43.85 1.28
4143 4236 2.863137 CACGCTTCCTGCTTCTTCTATC 59.137 50.000 0.00 0.00 40.11 2.08
4170 4263 1.373435 CCTACGAAGTGGTTGCCCA 59.627 57.895 0.00 0.00 45.73 5.36
4347 4440 0.964700 CAGCGCCTGATCTCTCCATA 59.035 55.000 2.29 0.00 32.44 2.74
4434 4527 2.045926 CCCCTGCCCTTGACTTCG 60.046 66.667 0.00 0.00 0.00 3.79
4444 4537 3.628646 CTGTGTACCAGCCCCTGCC 62.629 68.421 0.00 0.00 38.69 4.85
4485 4578 5.472478 AGATTTCGTGTATGCTATCCGACTA 59.528 40.000 0.00 0.00 0.00 2.59
4494 4587 5.292834 CAGTCATTCAGATTTCGTGTATGCT 59.707 40.000 0.00 0.00 0.00 3.79
4497 4590 5.178061 TGCAGTCATTCAGATTTCGTGTAT 58.822 37.500 0.00 0.00 0.00 2.29
4501 4594 5.277683 GCATATGCAGTCATTCAGATTTCGT 60.278 40.000 22.84 0.00 41.59 3.85
4563 4657 2.454832 TTTGAGACTGCAGGCGGGAG 62.455 60.000 19.93 4.36 41.43 4.30
4574 4668 0.475906 AGCCCTGCAACTTTGAGACT 59.524 50.000 0.00 0.00 0.00 3.24
4577 4674 0.538057 TCCAGCCCTGCAACTTTGAG 60.538 55.000 0.00 0.00 0.00 3.02
4578 4675 0.823356 GTCCAGCCCTGCAACTTTGA 60.823 55.000 0.00 0.00 0.00 2.69
4579 4676 1.662044 GTCCAGCCCTGCAACTTTG 59.338 57.895 0.00 0.00 0.00 2.77
4580 4677 1.898574 CGTCCAGCCCTGCAACTTT 60.899 57.895 0.00 0.00 0.00 2.66
4581 4678 2.281761 CGTCCAGCCCTGCAACTT 60.282 61.111 0.00 0.00 0.00 2.66
4582 4679 4.335647 CCGTCCAGCCCTGCAACT 62.336 66.667 0.00 0.00 0.00 3.16
4583 4680 3.628646 ATCCGTCCAGCCCTGCAAC 62.629 63.158 0.00 0.00 0.00 4.17
4586 4683 2.615227 ATTGATCCGTCCAGCCCTGC 62.615 60.000 0.00 0.00 0.00 4.85
4590 4687 1.818674 ACAAAATTGATCCGTCCAGCC 59.181 47.619 0.00 0.00 0.00 4.85
4592 4689 4.917415 GTGAAACAAAATTGATCCGTCCAG 59.083 41.667 0.00 0.00 36.32 3.86
4643 4747 0.031585 CGACTGACGACAGACCCAAA 59.968 55.000 21.50 0.00 46.03 3.28
4646 4750 0.447011 CTACGACTGACGACAGACCC 59.553 60.000 21.50 8.82 46.03 4.46
4647 4751 0.447011 CCTACGACTGACGACAGACC 59.553 60.000 21.50 11.08 46.03 3.85
4652 4756 0.316032 GCGATCCTACGACTGACGAC 60.316 60.000 6.52 0.00 45.77 4.34
4659 4763 3.057456 ACATAGAATGGCGATCCTACGAC 60.057 47.826 0.00 0.00 42.12 4.34
4667 4771 2.158769 TGAAGGCACATAGAATGGCGAT 60.159 45.455 0.00 0.00 46.73 4.58
4680 4784 1.732259 CATACACGGAACTGAAGGCAC 59.268 52.381 0.00 0.00 0.00 5.01
4682 4786 2.094762 ACATACACGGAACTGAAGGC 57.905 50.000 0.00 0.00 0.00 4.35
4691 4799 6.127451 ACTCATTTCTGTCATACATACACGGA 60.127 38.462 0.00 0.00 0.00 4.69
4693 4801 6.019559 CCACTCATTTCTGTCATACATACACG 60.020 42.308 0.00 0.00 0.00 4.49
4721 4829 7.550551 TGATTCAGTAAGCTATGAAGACAAAGG 59.449 37.037 12.69 0.00 38.72 3.11
4733 4841 4.385358 TCGTGCATGATTCAGTAAGCTA 57.615 40.909 3.97 0.00 0.00 3.32
4735 4843 4.340894 TTTCGTGCATGATTCAGTAAGC 57.659 40.909 9.96 0.00 0.00 3.09
4739 4847 3.346315 TCCATTTCGTGCATGATTCAGT 58.654 40.909 9.96 0.00 0.00 3.41
4782 4890 1.339824 ACAGATGCAGCCTCCTTTCAG 60.340 52.381 0.00 0.00 0.00 3.02
4812 4920 0.676782 AGTCAAACCATACGGCAGCC 60.677 55.000 0.00 0.00 34.57 4.85
4832 4940 1.071019 CACTCGCACGATAAGCACGT 61.071 55.000 0.00 0.00 44.83 4.49
4838 4946 1.107945 TCCCATCACTCGCACGATAA 58.892 50.000 0.00 0.00 0.00 1.75
4976 5094 3.022406 AGGGTAGCGAAACCTAGTACTG 58.978 50.000 5.39 0.00 39.65 2.74
5017 5135 2.691526 ACAGTTCAACTCGTGGTGACTA 59.308 45.455 4.39 0.00 0.00 2.59
5018 5136 1.480954 ACAGTTCAACTCGTGGTGACT 59.519 47.619 4.39 3.53 0.00 3.41
5037 5155 2.563471 AGTTAACTCGATCGCAGGAC 57.437 50.000 11.09 5.38 0.00 3.85
5088 5207 2.126463 CGCGCTCTGGAAGACGAA 60.126 61.111 5.56 0.00 38.67 3.85
5145 5272 0.955919 CCCTTCGGTCTGGCTTGTTC 60.956 60.000 0.00 0.00 0.00 3.18
5146 5273 1.073199 CCCTTCGGTCTGGCTTGTT 59.927 57.895 0.00 0.00 0.00 2.83
5220 5353 2.880268 TCGATCGCCTTTCGGTAGATAA 59.120 45.455 11.09 0.00 39.05 1.75
5254 5387 7.408756 AAATTGGATTTAGCAGAGCATACAA 57.591 32.000 0.00 0.00 0.00 2.41
5257 5390 7.255104 CCGTAAAATTGGATTTAGCAGAGCATA 60.255 37.037 0.00 0.00 0.00 3.14
5276 5409 3.769358 CAGCGCGCGACCGTAAAA 61.769 61.111 37.18 0.00 36.67 1.52
5296 5429 2.026301 CCGTTTTTGCGCCCGAAA 59.974 55.556 4.18 0.10 0.00 3.46
5308 5441 0.940991 GTACGTGCCTTCGTCCGTTT 60.941 55.000 0.00 0.00 43.12 3.60
5325 5458 2.387445 GCCAGAACATGCGTGCGTA 61.387 57.895 5.64 0.00 0.00 4.42
5330 5463 0.593128 GTTTCAGCCAGAACATGCGT 59.407 50.000 0.00 0.00 35.56 5.24
5334 5467 3.159213 TGATGGTTTCAGCCAGAACAT 57.841 42.857 0.00 0.00 42.47 2.71
5335 5468 2.622942 GTTGATGGTTTCAGCCAGAACA 59.377 45.455 0.00 0.00 42.47 3.18
5339 5472 1.197721 GTCGTTGATGGTTTCAGCCAG 59.802 52.381 0.00 0.00 42.47 4.85
5358 5494 3.842923 CTCTCGGCCCATCGCAGT 61.843 66.667 0.00 0.00 40.31 4.40
5362 5498 0.609406 TATCCTCTCTCGGCCCATCG 60.609 60.000 0.00 0.00 0.00 3.84
5365 5501 1.342074 CAATATCCTCTCTCGGCCCA 58.658 55.000 0.00 0.00 0.00 5.36
5366 5502 0.610687 CCAATATCCTCTCTCGGCCC 59.389 60.000 0.00 0.00 0.00 5.80
5367 5503 1.273886 GTCCAATATCCTCTCTCGGCC 59.726 57.143 0.00 0.00 0.00 6.13
5368 5504 1.068194 CGTCCAATATCCTCTCTCGGC 60.068 57.143 0.00 0.00 0.00 5.54
5369 5505 2.486203 CTCGTCCAATATCCTCTCTCGG 59.514 54.545 0.00 0.00 0.00 4.63
5370 5506 2.486203 CCTCGTCCAATATCCTCTCTCG 59.514 54.545 0.00 0.00 0.00 4.04
5371 5507 3.757270 TCCTCGTCCAATATCCTCTCTC 58.243 50.000 0.00 0.00 0.00 3.20
5372 5508 3.885976 TCCTCGTCCAATATCCTCTCT 57.114 47.619 0.00 0.00 0.00 3.10
5373 5509 4.939052 TTTCCTCGTCCAATATCCTCTC 57.061 45.455 0.00 0.00 0.00 3.20
5374 5510 5.429130 GTTTTTCCTCGTCCAATATCCTCT 58.571 41.667 0.00 0.00 0.00 3.69
5390 5526 2.951458 CGGGCCTGACGTTTTTCC 59.049 61.111 5.28 0.00 0.00 3.13
5406 5542 2.476854 GCATAGACTCTTTGCCTTTGCG 60.477 50.000 9.67 0.00 41.78 4.85
5423 5559 5.557576 AAGCTATGATTGGTCTGAGCATA 57.442 39.130 10.70 2.60 36.10 3.14
5429 5565 6.183360 CCAGAGAAAAAGCTATGATTGGTCTG 60.183 42.308 0.00 0.00 28.76 3.51
5440 5576 3.596214 CGTTAGGCCAGAGAAAAAGCTA 58.404 45.455 5.01 0.00 0.00 3.32
5461 5597 0.613012 AAGTTCTCTGCATTGGGGCC 60.613 55.000 0.00 0.00 0.00 5.80
5462 5598 0.813821 GAAGTTCTCTGCATTGGGGC 59.186 55.000 0.00 0.00 0.00 5.80
5463 5599 2.089980 CTGAAGTTCTCTGCATTGGGG 58.910 52.381 4.17 0.00 0.00 4.96
5464 5600 1.471684 GCTGAAGTTCTCTGCATTGGG 59.528 52.381 4.17 0.00 45.70 4.12
5465 5601 1.129998 CGCTGAAGTTCTCTGCATTGG 59.870 52.381 4.17 0.00 46.49 3.16
5466 5602 2.071540 TCGCTGAAGTTCTCTGCATTG 58.928 47.619 4.17 0.00 46.49 2.82
5467 5603 2.028658 TCTCGCTGAAGTTCTCTGCATT 60.029 45.455 4.17 0.00 46.49 3.56
5468 5604 1.547820 TCTCGCTGAAGTTCTCTGCAT 59.452 47.619 4.17 0.00 46.49 3.96
5469 5605 0.961753 TCTCGCTGAAGTTCTCTGCA 59.038 50.000 4.17 0.00 46.49 4.41
5470 5606 1.724082 GTTCTCGCTGAAGTTCTCTGC 59.276 52.381 4.17 5.38 43.62 4.26
5471 5607 3.296322 AGTTCTCGCTGAAGTTCTCTG 57.704 47.619 4.17 0.00 34.90 3.35
5477 5613 0.038159 CCCGAAGTTCTCGCTGAAGT 60.038 55.000 0.56 0.00 46.71 3.01
5478 5614 0.038159 ACCCGAAGTTCTCGCTGAAG 60.038 55.000 0.56 0.00 46.71 3.02
5479 5615 0.038526 GACCCGAAGTTCTCGCTGAA 60.039 55.000 0.56 0.00 46.71 3.02
5480 5616 1.585006 GACCCGAAGTTCTCGCTGA 59.415 57.895 0.56 0.00 46.71 4.26
5481 5617 1.446272 GGACCCGAAGTTCTCGCTG 60.446 63.158 0.56 0.00 46.71 5.18
5482 5618 1.469335 TTGGACCCGAAGTTCTCGCT 61.469 55.000 0.56 0.00 46.71 4.93
5483 5619 1.005394 TTGGACCCGAAGTTCTCGC 60.005 57.895 0.56 0.00 46.71 5.03
5485 5621 1.343465 TGAGTTGGACCCGAAGTTCTC 59.657 52.381 0.56 0.00 0.00 2.87
5486 5622 1.344763 CTGAGTTGGACCCGAAGTTCT 59.655 52.381 0.56 0.00 0.00 3.01
5487 5623 1.797025 CTGAGTTGGACCCGAAGTTC 58.203 55.000 0.00 0.00 0.00 3.01
5488 5624 0.250338 GCTGAGTTGGACCCGAAGTT 60.250 55.000 0.00 0.00 0.00 2.66
5489 5625 1.371558 GCTGAGTTGGACCCGAAGT 59.628 57.895 0.00 0.00 0.00 3.01
5490 5626 0.250295 TTGCTGAGTTGGACCCGAAG 60.250 55.000 0.00 0.00 0.00 3.79
5491 5627 0.181587 TTTGCTGAGTTGGACCCGAA 59.818 50.000 0.00 0.00 0.00 4.30
5492 5628 0.181587 TTTTGCTGAGTTGGACCCGA 59.818 50.000 0.00 0.00 0.00 5.14
5493 5629 1.028905 TTTTTGCTGAGTTGGACCCG 58.971 50.000 0.00 0.00 0.00 5.28
5494 5630 3.653344 GAATTTTTGCTGAGTTGGACCC 58.347 45.455 0.00 0.00 0.00 4.46


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

AutoCloner maintained by Alex Coulton.