Multiple sequence alignment - TraesCS1B01G224300

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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 TraesCS1B01G224300 chr1B 100.000 4866 0 0 1 4866 402151391 402146526 0.000000e+00 8986
1 TraesCS1B01G224300 chr1B 97.059 204 3 3 4327 4529 301282198 301282399 1.680000e-89 340
2 TraesCS1B01G224300 chr1D 96.930 3746 82 13 449 4171 298696014 298692279 0.000000e+00 6250
3 TraesCS1B01G224300 chr1D 89.264 326 16 6 4527 4846 298692075 298691763 1.640000e-104 390
4 TraesCS1B01G224300 chr1D 90.169 295 17 3 124 418 298696295 298696013 1.650000e-99 374
5 TraesCS1B01G224300 chr1D 96.629 178 5 1 4170 4346 298692246 298692069 1.320000e-75 294
6 TraesCS1B01G224300 chr1D 76.660 467 74 19 2735 3193 12259739 12260178 4.900000e-55 226
7 TraesCS1B01G224300 chr1D 75.456 493 64 24 2735 3195 486702799 486702332 2.310000e-43 187
8 TraesCS1B01G224300 chr1D 95.690 116 4 1 1 116 298696615 298696501 8.320000e-43 185
9 TraesCS1B01G224300 chr1A 96.976 2546 59 10 1635 4170 372641606 372639069 0.000000e+00 4259
10 TraesCS1B01G224300 chr1A 93.325 1588 60 11 1 1577 372643392 372641840 0.000000e+00 2303
11 TraesCS1B01G224300 chr1A 91.358 324 23 4 4527 4846 372638864 372638542 5.780000e-119 438
12 TraesCS1B01G224300 chr1A 99.479 192 1 0 4343 4534 352854987 352854796 2.790000e-92 350
13 TraesCS1B01G224300 chr1A 98.974 195 0 2 4333 4526 250111729 250111536 1.000000e-91 348
14 TraesCS1B01G224300 chr1A 96.610 177 6 0 4170 4346 372639034 372638858 1.320000e-75 294
15 TraesCS1B01G224300 chr1A 74.879 621 86 31 2591 3193 45649118 45648550 8.200000e-53 219
16 TraesCS1B01G224300 chr2B 100.000 190 0 0 4340 4529 342298321 342298132 7.750000e-93 351
17 TraesCS1B01G224300 chr2B 98.492 199 0 3 4343 4538 481540302 481540500 1.000000e-91 348
18 TraesCS1B01G224300 chr2B 75.244 307 47 15 2735 3034 145377186 145376902 8.560000e-23 119
19 TraesCS1B01G224300 chr6B 98.980 196 1 1 4340 4534 422696831 422697026 2.790000e-92 350
20 TraesCS1B01G224300 chr4A 97.115 208 3 2 4342 4549 529621092 529621296 1.000000e-91 348
21 TraesCS1B01G224300 chr7B 98.477 197 1 1 4341 4535 246011556 246011360 3.610000e-91 346
22 TraesCS1B01G224300 chr4B 97.059 204 4 2 4342 4545 107234332 107234533 4.660000e-90 342
23 TraesCS1B01G224300 chr4B 79.331 329 50 13 2873 3193 566611815 566611497 1.060000e-51 215
24 TraesCS1B01G224300 chr2D 76.660 467 68 21 2735 3193 408536342 408535909 2.280000e-53 220
25 TraesCS1B01G224300 chr2D 76.068 468 74 24 2735 3193 408491042 408490604 4.940000e-50 209
26 TraesCS1B01G224300 chr7D 76.660 467 66 22 2735 3193 162187338 162186907 8.200000e-53 219
27 TraesCS1B01G224300 chr5A 76.581 427 71 17 2729 3155 565411537 565411934 1.780000e-49 207
28 TraesCS1B01G224300 chr7A 75.638 431 70 22 2729 3155 234635408 234635807 1.080000e-41 182


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 TraesCS1B01G224300 chr1B 402146526 402151391 4865 True 8986.0 8986 100.00000 1 4866 1 chr1B.!!$R1 4865
1 TraesCS1B01G224300 chr1D 298691763 298696615 4852 True 1498.6 6250 93.73640 1 4846 5 chr1D.!!$R2 4845
2 TraesCS1B01G224300 chr1A 372638542 372643392 4850 True 1823.5 4259 94.56725 1 4846 4 chr1A.!!$R4 4845
3 TraesCS1B01G224300 chr1A 45648550 45649118 568 True 219.0 219 74.87900 2591 3193 1 chr1A.!!$R1 602

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
520 719 0.393808 GGGTAACGGCATGGTCATGT 60.394 55.0 11.92 0.0 38.22 3.21 F
1678 2067 0.030638 TTTTCGCTTGCTGAGTTGGC 59.969 50.0 0.00 0.0 0.00 4.52 F
2645 3037 0.734889 TAACCGAGCTGTACTACGCC 59.265 55.0 0.00 0.0 0.00 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2224 2613 0.249398 TTGCCTCGAAGGAGCCTAAC 59.751 55.0 5.24 0.0 37.67 2.34 R
3039 3449 0.306228 CATGTGGTGCAACGTTTCGA 59.694 50.0 0.00 0.0 38.12 3.71 R
4373 4818 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.0 0.00 0.0 44.78 4.85 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
24 25 5.979656 AGGGTAGAGAGAGAAAGCTACTA 57.020 43.478 0.00 0.00 34.95 1.82
25 26 5.937111 AGGGTAGAGAGAGAAAGCTACTAG 58.063 45.833 0.00 0.00 34.95 2.57
34 35 4.724798 AGAGAAAGCTACTAGAGAGGGAGA 59.275 45.833 0.00 0.00 0.00 3.71
36 37 2.951229 AGCTACTAGAGAGGGAGAGC 57.049 55.000 0.00 0.00 0.00 4.09
165 364 4.101448 CGCCTCCCCTTCTGGTGG 62.101 72.222 0.00 0.00 41.15 4.61
316 515 0.860533 GCGTCTAGTAGATCTCGCGT 59.139 55.000 15.26 0.00 34.88 6.01
324 523 1.523095 GTAGATCTCGCGTGGAATTGC 59.477 52.381 5.77 0.00 0.00 3.56
442 641 1.917273 CATACGTGGAACTGTACCGG 58.083 55.000 0.00 0.00 31.03 5.28
445 644 1.445582 CGTGGAACTGTACCGGAGC 60.446 63.158 9.46 0.00 31.75 4.70
477 676 2.821378 ACGGGTATTTTTGGTTGGCTAC 59.179 45.455 0.00 0.00 0.00 3.58
489 688 1.599542 GTTGGCTACCGATTGATCTGC 59.400 52.381 0.00 0.00 0.00 4.26
520 719 0.393808 GGGTAACGGCATGGTCATGT 60.394 55.000 11.92 0.00 38.22 3.21
651 850 2.075338 GCAACTTGCAAGAGGAGAGAG 58.925 52.381 32.50 12.68 44.26 3.20
652 851 2.697654 CAACTTGCAAGAGGAGAGAGG 58.302 52.381 32.50 3.33 0.00 3.69
818 1017 0.604780 CCGGGCTCCATCATGATGTC 60.605 60.000 29.23 18.93 37.11 3.06
883 1082 3.198853 GCTATCCCTATCCAATCCCTCAC 59.801 52.174 0.00 0.00 0.00 3.51
934 1136 1.227497 GCGGCAGCTCAGCTAATCT 60.227 57.895 0.00 0.00 36.40 2.40
984 1186 3.476552 TGCCACCATTATTAGCACTAGC 58.523 45.455 0.00 0.00 42.56 3.42
1105 1307 3.880047 TCCACCGGTCAATTGTACTAG 57.120 47.619 2.59 0.00 0.00 2.57
1106 1308 3.167485 TCCACCGGTCAATTGTACTAGT 58.833 45.455 2.59 0.00 0.00 2.57
1107 1309 4.343231 TCCACCGGTCAATTGTACTAGTA 58.657 43.478 2.59 0.00 0.00 1.82
1115 1317 7.412563 CCGGTCAATTGTACTAGTATTGTGTTG 60.413 40.741 5.75 7.73 32.49 3.33
1161 1372 3.985019 TTATGCGGTTCCCACTTTCTA 57.015 42.857 0.00 0.00 0.00 2.10
1164 1375 3.255969 TGCGGTTCCCACTTTCTATAC 57.744 47.619 0.00 0.00 0.00 1.47
1222 1434 2.806945 AATGATGGGTGGATGTTCGT 57.193 45.000 0.00 0.00 0.00 3.85
1334 1546 1.089920 CTTGTCGCCCAGGATTCTTG 58.910 55.000 0.00 0.00 0.00 3.02
1353 1565 2.215196 TGTACAGAAAGTTGAACCGCC 58.785 47.619 0.00 0.00 0.00 6.13
1389 1601 8.627487 TTTTAACTTGCAAGACAAATGTACTG 57.373 30.769 32.50 2.55 37.96 2.74
1519 1731 6.256757 GGCTGTGACTCTACTCAATTATTGTC 59.743 42.308 4.77 0.00 0.00 3.18
1661 2050 3.902881 TGACACAAAATGCAGGGTTTT 57.097 38.095 0.00 0.00 0.00 2.43
1678 2067 0.030638 TTTTCGCTTGCTGAGTTGGC 59.969 50.000 0.00 0.00 0.00 4.52
2030 2419 2.152830 GGATGGCTTGATCTGATGCTC 58.847 52.381 0.00 0.00 0.00 4.26
2129 2518 4.328983 CGGTATCGTAATTGGATGGTATGC 59.671 45.833 4.58 0.00 0.00 3.14
2171 2560 5.597806 TGATAGTATTACAAGGAAGCCACG 58.402 41.667 0.00 0.00 0.00 4.94
2185 2574 1.465777 AGCCACGCACCGTTAAATTAC 59.534 47.619 0.00 0.00 38.32 1.89
2187 2576 2.672381 GCCACGCACCGTTAAATTACTA 59.328 45.455 0.00 0.00 38.32 1.82
2188 2577 3.242188 GCCACGCACCGTTAAATTACTAG 60.242 47.826 0.00 0.00 38.32 2.57
2224 2613 4.693283 TGTAGGTGAATTATCCTTCTGCG 58.307 43.478 6.27 0.00 35.51 5.18
2357 2746 9.146984 CAGTAATGTCTGACGAGGTTTATTTTA 57.853 33.333 2.98 0.00 37.61 1.52
2645 3037 0.734889 TAACCGAGCTGTACTACGCC 59.265 55.000 0.00 0.00 0.00 5.68
2763 3164 5.359756 AGCAACTTTCTTGATTTTGTTCCC 58.640 37.500 0.00 0.00 0.00 3.97
2908 3315 7.318141 TGTCTAAACTCTAAAGGTTACGATGG 58.682 38.462 0.00 0.00 33.42 3.51
3039 3449 2.385013 TCTGCGTGTCTGTGCATTAT 57.615 45.000 0.00 0.00 40.89 1.28
3258 3668 6.006275 AGGAAGGTGAATATTATGCACAGT 57.994 37.500 15.27 3.69 34.33 3.55
3404 3814 3.407698 TGCTTGAATCGCTTGGACTAAA 58.592 40.909 0.00 0.00 0.00 1.85
3411 3821 0.992802 CGCTTGGACTAAACGAGAGC 59.007 55.000 0.00 0.00 0.00 4.09
3495 3905 0.877071 ATGTCTCTGGTTTGCTTGCG 59.123 50.000 0.00 0.00 0.00 4.85
3582 3992 3.492313 GTGCATTTAGGTTCTGAAAGCG 58.508 45.455 0.00 0.00 37.95 4.68
3853 4263 1.187974 CATTGGCAGCATGGAAGGAA 58.812 50.000 0.00 0.00 35.86 3.36
4143 4553 3.965379 TGGTTGAAACGGCTGTCTATA 57.035 42.857 0.00 0.00 0.00 1.31
4152 4562 8.500753 TGAAACGGCTGTCTATATTTGTTTAT 57.499 30.769 0.00 0.00 0.00 1.40
4214 4658 8.928733 CAAAAATCTATTGTATGCTTTGCTGTT 58.071 29.630 0.00 0.00 0.00 3.16
4244 4688 2.522923 AAACCCAACGCCATGGCA 60.523 55.556 34.93 0.00 42.06 4.92
4339 4784 8.972458 TGAATCTATATGATTTTCAAACCGGA 57.028 30.769 9.46 0.00 44.70 5.14
4340 4785 9.573166 TGAATCTATATGATTTTCAAACCGGAT 57.427 29.630 9.46 0.00 44.70 4.18
4343 4788 8.972458 TCTATATGATTTTCAAACCGGATTGA 57.028 30.769 21.96 21.96 37.53 2.57
4344 4789 9.402320 TCTATATGATTTTCAAACCGGATTGAA 57.598 29.630 29.68 29.68 45.07 2.69
4345 4790 9.669353 CTATATGATTTTCAAACCGGATTGAAG 57.331 33.333 30.80 17.52 46.63 3.02
4346 4791 5.132897 TGATTTTCAAACCGGATTGAAGG 57.867 39.130 30.80 6.58 46.63 3.46
4347 4792 4.021544 TGATTTTCAAACCGGATTGAAGGG 60.022 41.667 30.80 6.24 46.63 3.95
4348 4793 1.917872 TTCAAACCGGATTGAAGGGG 58.082 50.000 29.68 3.54 42.68 4.79
4349 4794 1.068948 TCAAACCGGATTGAAGGGGA 58.931 50.000 23.34 0.93 36.42 4.81
4350 4795 1.004277 TCAAACCGGATTGAAGGGGAG 59.996 52.381 23.34 0.00 36.42 4.30
4351 4796 0.323451 AAACCGGATTGAAGGGGAGC 60.323 55.000 9.46 0.00 0.00 4.70
4352 4797 2.193248 CCGGATTGAAGGGGAGCC 59.807 66.667 0.00 0.00 0.00 4.70
4353 4798 2.378634 CCGGATTGAAGGGGAGCCT 61.379 63.158 0.00 0.00 0.00 4.58
4354 4799 1.609783 CGGATTGAAGGGGAGCCTT 59.390 57.895 0.00 0.00 0.00 4.35
4355 4800 0.749454 CGGATTGAAGGGGAGCCTTG 60.749 60.000 0.00 0.00 0.00 3.61
4356 4801 0.396278 GGATTGAAGGGGAGCCTTGG 60.396 60.000 0.00 0.00 0.00 3.61
4357 4802 1.000866 ATTGAAGGGGAGCCTTGGC 59.999 57.895 2.97 2.97 0.00 4.52
4358 4803 2.843912 ATTGAAGGGGAGCCTTGGCG 62.844 60.000 5.95 0.00 0.00 5.69
4366 4811 3.605749 GAGCCTTGGCGCAGTGGTA 62.606 63.158 10.83 0.00 0.00 3.25
4367 4812 2.671619 GCCTTGGCGCAGTGGTAA 60.672 61.111 10.83 0.00 0.00 2.85
4368 4813 2.265182 GCCTTGGCGCAGTGGTAAA 61.265 57.895 10.83 0.00 0.00 2.01
4369 4814 1.875963 CCTTGGCGCAGTGGTAAAG 59.124 57.895 10.83 0.71 0.00 1.85
4370 4815 1.210155 CTTGGCGCAGTGGTAAAGC 59.790 57.895 10.83 0.00 0.00 3.51
4371 4816 1.228124 TTGGCGCAGTGGTAAAGCT 60.228 52.632 10.83 0.00 0.00 3.74
4372 4817 1.514678 TTGGCGCAGTGGTAAAGCTG 61.515 55.000 10.83 0.00 35.93 4.24
4377 4822 1.878775 CAGTGGTAAAGCTGCTGCC 59.121 57.895 12.44 7.07 40.80 4.85
4378 4823 0.607489 CAGTGGTAAAGCTGCTGCCT 60.607 55.000 12.44 2.45 40.80 4.75
4379 4824 0.111253 AGTGGTAAAGCTGCTGCCTT 59.889 50.000 12.44 8.34 40.80 4.35
4380 4825 0.242017 GTGGTAAAGCTGCTGCCTTG 59.758 55.000 12.44 0.00 40.80 3.61
4381 4826 0.178992 TGGTAAAGCTGCTGCCTTGT 60.179 50.000 12.44 0.00 40.80 3.16
4382 4827 0.242017 GGTAAAGCTGCTGCCTTGTG 59.758 55.000 12.44 0.00 40.80 3.33
4383 4828 1.238439 GTAAAGCTGCTGCCTTGTGA 58.762 50.000 12.44 0.00 40.80 3.58
4384 4829 1.068954 GTAAAGCTGCTGCCTTGTGAC 60.069 52.381 12.44 0.00 40.80 3.67
4385 4830 1.458639 AAAGCTGCTGCCTTGTGACC 61.459 55.000 12.44 0.00 40.80 4.02
4386 4831 2.595463 GCTGCTGCCTTGTGACCA 60.595 61.111 3.85 0.00 0.00 4.02
4387 4832 1.975407 GCTGCTGCCTTGTGACCAT 60.975 57.895 3.85 0.00 0.00 3.55
4388 4833 1.880894 CTGCTGCCTTGTGACCATG 59.119 57.895 0.00 0.00 0.00 3.66
4389 4834 0.607217 CTGCTGCCTTGTGACCATGA 60.607 55.000 0.00 0.00 0.00 3.07
4390 4835 0.607217 TGCTGCCTTGTGACCATGAG 60.607 55.000 0.00 0.00 0.00 2.90
4391 4836 1.310933 GCTGCCTTGTGACCATGAGG 61.311 60.000 0.00 0.00 42.21 3.86
4406 4851 2.859165 TGAGGTCATGGGTTCAAGTC 57.141 50.000 0.00 0.00 0.00 3.01
4407 4852 1.351017 TGAGGTCATGGGTTCAAGTCC 59.649 52.381 0.00 0.00 0.00 3.85
4408 4853 1.630878 GAGGTCATGGGTTCAAGTCCT 59.369 52.381 0.00 0.00 0.00 3.85
4409 4854 1.352352 AGGTCATGGGTTCAAGTCCTG 59.648 52.381 0.00 0.00 0.00 3.86
4410 4855 1.614317 GGTCATGGGTTCAAGTCCTGG 60.614 57.143 0.00 0.00 0.00 4.45
4411 4856 1.351017 GTCATGGGTTCAAGTCCTGGA 59.649 52.381 0.00 0.00 0.00 3.86
4412 4857 2.061848 TCATGGGTTCAAGTCCTGGAA 58.938 47.619 0.00 0.00 0.00 3.53
4413 4858 2.445145 TCATGGGTTCAAGTCCTGGAAA 59.555 45.455 0.00 0.00 0.00 3.13
4414 4859 2.358322 TGGGTTCAAGTCCTGGAAAC 57.642 50.000 0.00 0.00 0.00 2.78
4415 4860 1.566703 TGGGTTCAAGTCCTGGAAACA 59.433 47.619 0.00 0.00 32.36 2.83
4429 4874 4.431416 TGGAAACAGCCTCTTACAGAAA 57.569 40.909 0.00 0.00 35.01 2.52
4430 4875 4.985538 TGGAAACAGCCTCTTACAGAAAT 58.014 39.130 0.00 0.00 35.01 2.17
4431 4876 4.761739 TGGAAACAGCCTCTTACAGAAATG 59.238 41.667 0.00 0.00 35.01 2.32
4432 4877 4.762251 GGAAACAGCCTCTTACAGAAATGT 59.238 41.667 0.00 0.00 0.00 2.71
4433 4878 5.938125 GGAAACAGCCTCTTACAGAAATGTA 59.062 40.000 0.00 0.00 0.00 2.29
4434 4879 6.092807 GGAAACAGCCTCTTACAGAAATGTAG 59.907 42.308 0.00 0.00 0.00 2.74
4435 4880 5.091261 ACAGCCTCTTACAGAAATGTAGG 57.909 43.478 0.00 0.00 0.00 3.18
4436 4881 4.080863 ACAGCCTCTTACAGAAATGTAGGG 60.081 45.833 0.00 0.66 0.00 3.53
4437 4882 4.162320 CAGCCTCTTACAGAAATGTAGGGA 59.838 45.833 0.00 0.00 0.00 4.20
4438 4883 4.783227 AGCCTCTTACAGAAATGTAGGGAA 59.217 41.667 0.00 0.00 0.00 3.97
4439 4884 5.250774 AGCCTCTTACAGAAATGTAGGGAAA 59.749 40.000 0.00 0.00 0.00 3.13
4440 4885 5.586643 GCCTCTTACAGAAATGTAGGGAAAG 59.413 44.000 0.00 0.00 0.00 2.62
4441 4886 6.116126 CCTCTTACAGAAATGTAGGGAAAGG 58.884 44.000 0.00 0.00 0.00 3.11
4442 4887 5.497474 TCTTACAGAAATGTAGGGAAAGGC 58.503 41.667 0.00 0.00 0.00 4.35
4443 4888 5.250774 TCTTACAGAAATGTAGGGAAAGGCT 59.749 40.000 0.00 0.00 0.00 4.58
4444 4889 3.690460 ACAGAAATGTAGGGAAAGGCTG 58.310 45.455 0.00 0.00 0.00 4.85
4445 4890 2.424956 CAGAAATGTAGGGAAAGGCTGC 59.575 50.000 0.00 0.00 0.00 5.25
4446 4891 1.401905 GAAATGTAGGGAAAGGCTGCG 59.598 52.381 0.00 0.00 0.00 5.18
4447 4892 0.328258 AATGTAGGGAAAGGCTGCGT 59.672 50.000 0.00 0.00 0.00 5.24
4448 4893 1.200519 ATGTAGGGAAAGGCTGCGTA 58.799 50.000 0.00 0.00 0.00 4.42
4449 4894 0.248289 TGTAGGGAAAGGCTGCGTAC 59.752 55.000 0.00 0.00 37.28 3.67
4450 4895 0.535797 GTAGGGAAAGGCTGCGTACT 59.464 55.000 0.00 0.00 34.81 2.73
4451 4896 1.753073 GTAGGGAAAGGCTGCGTACTA 59.247 52.381 0.00 0.00 34.81 1.82
4452 4897 1.497161 AGGGAAAGGCTGCGTACTAT 58.503 50.000 0.00 0.00 0.00 2.12
4453 4898 2.674420 AGGGAAAGGCTGCGTACTATA 58.326 47.619 0.00 0.00 0.00 1.31
4454 4899 2.628657 AGGGAAAGGCTGCGTACTATAG 59.371 50.000 0.00 0.00 0.00 1.31
4455 4900 2.626743 GGGAAAGGCTGCGTACTATAGA 59.373 50.000 6.78 0.00 0.00 1.98
4456 4901 3.552478 GGGAAAGGCTGCGTACTATAGAC 60.552 52.174 6.78 0.00 0.00 2.59
4457 4902 3.552478 GGAAAGGCTGCGTACTATAGACC 60.552 52.174 6.78 0.00 0.00 3.85
4458 4903 1.618487 AGGCTGCGTACTATAGACCC 58.382 55.000 6.78 0.00 0.00 4.46
4459 4904 1.133575 AGGCTGCGTACTATAGACCCA 60.134 52.381 6.78 0.00 0.00 4.51
4460 4905 1.684983 GGCTGCGTACTATAGACCCAA 59.315 52.381 6.78 0.00 0.00 4.12
4461 4906 2.101917 GGCTGCGTACTATAGACCCAAA 59.898 50.000 6.78 0.00 0.00 3.28
4462 4907 3.381949 GCTGCGTACTATAGACCCAAAG 58.618 50.000 6.78 0.00 0.00 2.77
4463 4908 3.181478 GCTGCGTACTATAGACCCAAAGT 60.181 47.826 6.78 0.00 0.00 2.66
4464 4909 4.360563 CTGCGTACTATAGACCCAAAGTG 58.639 47.826 6.78 0.00 0.00 3.16
4465 4910 3.131577 TGCGTACTATAGACCCAAAGTGG 59.868 47.826 6.78 0.00 37.25 4.00
4466 4911 3.131755 GCGTACTATAGACCCAAAGTGGT 59.868 47.826 6.78 0.00 42.79 4.16
4471 4916 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
4472 4917 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
4473 4918 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
4474 4919 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
4475 4920 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
4476 4921 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
4477 4922 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
4478 4923 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
4479 4924 2.606826 GTGGTCGGACCCTTCCCT 60.607 66.667 23.81 0.00 38.99 4.20
4480 4925 2.606519 TGGTCGGACCCTTCCCTG 60.607 66.667 23.81 0.00 38.99 4.45
4481 4926 3.400054 GGTCGGACCCTTCCCTGG 61.400 72.222 16.55 0.00 38.99 4.45
4482 4927 2.284405 GTCGGACCCTTCCCTGGA 60.284 66.667 0.00 0.00 38.99 3.86
4483 4928 2.284405 TCGGACCCTTCCCTGGAC 60.284 66.667 0.00 0.00 38.99 4.02
4484 4929 3.400054 CGGACCCTTCCCTGGACC 61.400 72.222 0.00 0.00 38.99 4.46
4485 4930 3.015753 GGACCCTTCCCTGGACCC 61.016 72.222 0.00 0.00 35.57 4.46
4486 4931 2.125225 GACCCTTCCCTGGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
4487 4932 2.204151 ACCCTTCCCTGGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
4488 4933 3.732849 CCCTTCCCTGGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
4489 4934 4.101448 CCTTCCCTGGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
4490 4935 4.785453 CTTCCCTGGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
4515 4960 3.558674 GAGCTACATGCACCAGGTT 57.441 52.632 0.00 0.00 45.94 3.50
4516 4961 1.089920 GAGCTACATGCACCAGGTTG 58.910 55.000 0.00 0.00 45.94 3.77
4517 4962 0.962356 AGCTACATGCACCAGGTTGC 60.962 55.000 8.03 8.03 44.17 4.17
4518 4963 1.937546 GCTACATGCACCAGGTTGCC 61.938 60.000 10.46 0.00 39.88 4.52
4519 4964 1.304052 TACATGCACCAGGTTGCCC 60.304 57.895 10.46 0.00 42.25 5.36
4520 4965 1.788518 TACATGCACCAGGTTGCCCT 61.789 55.000 10.46 0.00 42.25 5.19
4521 4966 1.909781 CATGCACCAGGTTGCCCTT 60.910 57.895 10.46 0.00 42.25 3.95
4522 4967 1.152269 ATGCACCAGGTTGCCCTTT 60.152 52.632 10.46 0.00 42.25 3.11
4523 4968 0.763986 ATGCACCAGGTTGCCCTTTT 60.764 50.000 10.46 0.00 42.25 2.27
4524 4969 0.980231 TGCACCAGGTTGCCCTTTTT 60.980 50.000 10.46 0.00 42.25 1.94
4555 5000 6.291377 AGTGCAAGTCTCTTGAATTCTAACA 58.709 36.000 12.77 0.00 0.00 2.41
4750 5197 3.359950 AGCTCCAAAAAGCCTATGAAGG 58.640 45.455 0.00 0.00 46.76 3.46
4807 5257 8.548721 GGTACTGTAAAAATTATCGGAGATGTG 58.451 37.037 0.00 0.00 45.12 3.21
4846 5296 9.474920 TCAGATTTTTAAGCATGGTAAAACAAG 57.525 29.630 7.54 2.46 31.78 3.16
4847 5297 9.474920 CAGATTTTTAAGCATGGTAAAACAAGA 57.525 29.630 7.54 0.00 31.78 3.02
4850 5300 9.995003 ATTTTTAAGCATGGTAAAACAAGATGA 57.005 25.926 7.54 0.00 31.78 2.92
4851 5301 9.823647 TTTTTAAGCATGGTAAAACAAGATGAA 57.176 25.926 0.00 0.00 31.78 2.57
4852 5302 9.474920 TTTTAAGCATGGTAAAACAAGATGAAG 57.525 29.630 0.00 0.00 0.00 3.02
4853 5303 5.649782 AGCATGGTAAAACAAGATGAAGG 57.350 39.130 0.00 0.00 0.00 3.46
4854 5304 4.463891 AGCATGGTAAAACAAGATGAAGGG 59.536 41.667 0.00 0.00 0.00 3.95
4855 5305 4.220602 GCATGGTAAAACAAGATGAAGGGT 59.779 41.667 0.00 0.00 0.00 4.34
4856 5306 5.279456 GCATGGTAAAACAAGATGAAGGGTT 60.279 40.000 0.00 0.00 0.00 4.11
4857 5307 6.741240 GCATGGTAAAACAAGATGAAGGGTTT 60.741 38.462 0.00 0.00 35.15 3.27
4858 5308 6.155475 TGGTAAAACAAGATGAAGGGTTTG 57.845 37.500 0.00 0.00 34.03 2.93
4859 5309 4.988540 GGTAAAACAAGATGAAGGGTTTGC 59.011 41.667 0.00 0.00 34.03 3.68
4860 5310 5.221441 GGTAAAACAAGATGAAGGGTTTGCT 60.221 40.000 0.00 0.00 34.03 3.91
4861 5311 5.357742 AAAACAAGATGAAGGGTTTGCTT 57.642 34.783 0.00 0.00 34.03 3.91
4862 5312 4.590850 AACAAGATGAAGGGTTTGCTTC 57.409 40.909 0.00 0.00 0.00 3.86
4863 5313 3.837355 ACAAGATGAAGGGTTTGCTTCT 58.163 40.909 0.00 0.00 0.00 2.85
4864 5314 4.985538 ACAAGATGAAGGGTTTGCTTCTA 58.014 39.130 0.00 0.00 0.00 2.10
4865 5315 5.385198 ACAAGATGAAGGGTTTGCTTCTAA 58.615 37.500 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 0.923729 TCTCCCTGCTCTCCCTCTCT 60.924 60.000 0.00 0.00 0.00 3.10
25 26 0.468029 CTCTCCCTGCTCTCCCTCTC 60.468 65.000 0.00 0.00 0.00 3.20
75 76 2.364448 AAGGAGAGGAGACCGGGC 60.364 66.667 6.32 0.52 0.00 6.13
257 456 4.091365 GCAGCCAATTAAAACGAATCCAAC 59.909 41.667 0.00 0.00 0.00 3.77
324 523 1.953772 CGGGGAAACAACCGGAAAG 59.046 57.895 9.46 0.00 46.08 2.62
477 676 0.319900 CCTACCCGCAGATCAATCGG 60.320 60.000 11.76 11.76 42.58 4.18
489 688 1.679559 CGTTACCCTTCCCCTACCCG 61.680 65.000 0.00 0.00 0.00 5.28
520 719 2.498941 GCCTCGATCCATCCACGGA 61.499 63.158 0.00 0.00 40.07 4.69
810 1009 5.281727 CAATCAATCTGCCTTGACATCATG 58.718 41.667 0.00 0.00 37.93 3.07
818 1017 2.418197 CCCAAGCAATCAATCTGCCTTG 60.418 50.000 0.00 0.00 40.86 3.61
883 1082 3.920231 TCTCTGATGGATGGAACCAAG 57.080 47.619 0.00 0.00 43.47 3.61
1105 1307 6.831868 ACCCTATGTAAATCCCAACACAATAC 59.168 38.462 0.00 0.00 0.00 1.89
1106 1308 6.975949 ACCCTATGTAAATCCCAACACAATA 58.024 36.000 0.00 0.00 0.00 1.90
1107 1309 5.837829 ACCCTATGTAAATCCCAACACAAT 58.162 37.500 0.00 0.00 0.00 2.71
1115 1317 3.052414 ACCCCAAACCCTATGTAAATCCC 60.052 47.826 0.00 0.00 0.00 3.85
1161 1372 3.757270 TGGAACAAAATGACACGGGTAT 58.243 40.909 0.00 0.00 31.92 2.73
1307 1519 1.209504 CCTGGGCGACAAGGAGAAATA 59.790 52.381 5.42 0.00 0.00 1.40
1334 1546 1.534163 GGGCGGTTCAACTTTCTGTAC 59.466 52.381 0.00 0.00 0.00 2.90
1353 1565 9.788960 GTCTTGCAAGTTAAAATAGGAAATAGG 57.211 33.333 25.19 0.00 0.00 2.57
1389 1601 3.191791 TCGGGTTGCTTTACAAAATAGCC 59.808 43.478 0.00 0.00 40.82 3.93
1560 1772 3.270877 GGATGCATACCGGTTGATATCC 58.729 50.000 15.04 20.36 0.00 2.59
1661 2050 1.227943 AGCCAACTCAGCAAGCGAA 60.228 52.632 0.00 0.00 0.00 4.70
1678 2067 0.771756 CAAACGTGCATGAAACGCAG 59.228 50.000 14.17 7.34 44.80 5.18
1724 2113 6.884295 CACTCAACCAACCCTCTTATCAATAA 59.116 38.462 0.00 0.00 0.00 1.40
1725 2114 6.012858 ACACTCAACCAACCCTCTTATCAATA 60.013 38.462 0.00 0.00 0.00 1.90
1835 2224 6.095377 GCTTGTCTTCAAATCCATAAACAGG 58.905 40.000 0.00 0.00 32.87 4.00
2030 2419 1.101635 TACGAGGAGGTGATGAGGCG 61.102 60.000 0.00 0.00 0.00 5.52
2166 2555 1.465777 AGTAATTTAACGGTGCGTGGC 59.534 47.619 0.00 0.00 39.99 5.01
2171 2560 4.269363 ACGATGCTAGTAATTTAACGGTGC 59.731 41.667 0.00 0.00 0.00 5.01
2185 2574 5.851177 CACCTACAAAACAAAACGATGCTAG 59.149 40.000 0.00 0.00 0.00 3.42
2187 2576 4.336993 TCACCTACAAAACAAAACGATGCT 59.663 37.500 0.00 0.00 0.00 3.79
2188 2577 4.602995 TCACCTACAAAACAAAACGATGC 58.397 39.130 0.00 0.00 0.00 3.91
2224 2613 0.249398 TTGCCTCGAAGGAGCCTAAC 59.751 55.000 5.24 0.00 37.67 2.34
2270 2659 9.316594 TCCATCATAATCAAGAAATAATGCCAT 57.683 29.630 0.00 0.00 0.00 4.40
2357 2746 3.157087 CTGTATGTGGAGCAAGGGTTTT 58.843 45.455 0.00 0.00 0.00 2.43
2645 3037 2.401583 TGTCCATTCCATGACTTCCG 57.598 50.000 0.00 0.00 0.00 4.30
2807 3208 7.037586 TGACCTCTTTACCCTATGAGTGAAAAT 60.038 37.037 0.00 0.00 0.00 1.82
3039 3449 0.306228 CATGTGGTGCAACGTTTCGA 59.694 50.000 0.00 0.00 38.12 3.71
3103 3513 9.921637 CCAGCCAACATTATTAAAAAGAAAGTA 57.078 29.630 0.00 0.00 0.00 2.24
3117 3527 5.435686 AGATAAGTGTCCAGCCAACATTA 57.564 39.130 0.00 0.00 0.00 1.90
3404 3814 0.522180 AAGAACATCGTCGCTCTCGT 59.478 50.000 0.00 0.00 36.96 4.18
3495 3905 2.680841 TCGTATGGGCTTTGCATGTTAC 59.319 45.455 0.00 0.00 0.00 2.50
3507 3917 5.116882 ACTCTAAAGAATTGTCGTATGGGC 58.883 41.667 0.00 0.00 0.00 5.36
3582 3992 3.683365 ATTCCAAAGCCATGGTTGTTC 57.317 42.857 14.67 0.00 41.46 3.18
3699 4109 5.376625 TGAAGCACTGGTAATGTCTTCTTT 58.623 37.500 0.00 0.00 34.29 2.52
3761 4171 1.346395 ACTCGACTACATGGTTGCCAA 59.654 47.619 0.00 0.00 36.95 4.52
3853 4263 0.814457 CGTCTGCTCAGCTAGAACCT 59.186 55.000 0.00 0.00 0.00 3.50
4016 4426 6.702716 AGTCCCATTAACAAAAGACGAAAA 57.297 33.333 0.00 0.00 0.00 2.29
4020 4430 7.119262 ACTGATAAGTCCCATTAACAAAAGACG 59.881 37.037 0.00 0.00 0.00 4.18
4152 4562 9.620259 AACAGGCCAAGAAATAAATTTGTAAAA 57.380 25.926 5.01 0.00 0.00 1.52
4214 4658 0.685785 TGGGTTTGGCTTCAGCAACA 60.686 50.000 0.30 0.00 44.36 3.33
4244 4688 1.616994 GGGTTTGCAGGAGTTAGCCAT 60.617 52.381 0.00 0.00 0.00 4.40
4348 4793 3.605749 TACCACTGCGCCAAGGCTC 62.606 63.158 4.18 1.20 39.32 4.70
4349 4794 2.690653 TTTACCACTGCGCCAAGGCT 62.691 55.000 4.18 0.00 39.32 4.58
4350 4795 2.200170 CTTTACCACTGCGCCAAGGC 62.200 60.000 4.18 0.00 37.85 4.35
4351 4796 1.875963 CTTTACCACTGCGCCAAGG 59.124 57.895 4.18 6.21 0.00 3.61
4352 4797 1.210155 GCTTTACCACTGCGCCAAG 59.790 57.895 4.18 0.00 0.00 3.61
4353 4798 1.228124 AGCTTTACCACTGCGCCAA 60.228 52.632 4.18 0.00 0.00 4.52
4354 4799 1.965930 CAGCTTTACCACTGCGCCA 60.966 57.895 4.18 0.00 0.00 5.69
4355 4800 2.870372 CAGCTTTACCACTGCGCC 59.130 61.111 4.18 0.00 0.00 6.53
4359 4804 0.607489 AGGCAGCAGCTTTACCACTG 60.607 55.000 0.00 0.00 41.70 3.66
4360 4805 0.111253 AAGGCAGCAGCTTTACCACT 59.889 50.000 0.00 0.00 38.40 4.00
4361 4806 0.242017 CAAGGCAGCAGCTTTACCAC 59.758 55.000 0.00 0.00 38.07 4.16
4362 4807 0.178992 ACAAGGCAGCAGCTTTACCA 60.179 50.000 0.00 0.00 38.07 3.25
4363 4808 0.242017 CACAAGGCAGCAGCTTTACC 59.758 55.000 0.00 0.00 38.07 2.85
4364 4809 1.068954 GTCACAAGGCAGCAGCTTTAC 60.069 52.381 0.00 0.00 38.07 2.01
4365 4810 1.238439 GTCACAAGGCAGCAGCTTTA 58.762 50.000 0.00 0.00 38.07 1.85
4366 4811 1.458639 GGTCACAAGGCAGCAGCTTT 61.459 55.000 0.00 0.00 41.17 3.51
4367 4812 1.900498 GGTCACAAGGCAGCAGCTT 60.900 57.895 0.00 0.00 41.70 3.74
4368 4813 2.282040 GGTCACAAGGCAGCAGCT 60.282 61.111 0.00 0.00 41.70 4.24
4369 4814 1.975407 ATGGTCACAAGGCAGCAGC 60.975 57.895 0.00 0.00 41.10 5.25
4370 4815 0.607217 TCATGGTCACAAGGCAGCAG 60.607 55.000 0.00 0.00 0.00 4.24
4371 4816 0.607217 CTCATGGTCACAAGGCAGCA 60.607 55.000 0.00 0.00 0.00 4.41
4372 4817 1.310933 CCTCATGGTCACAAGGCAGC 61.311 60.000 0.00 0.00 0.00 5.25
4373 4818 0.037303 ACCTCATGGTCACAAGGCAG 59.963 55.000 0.00 0.00 44.78 4.85
4374 4819 2.154139 ACCTCATGGTCACAAGGCA 58.846 52.632 0.00 0.00 44.78 4.75
4386 4831 2.025887 GGACTTGAACCCATGACCTCAT 60.026 50.000 0.00 0.00 36.96 2.90
4387 4832 1.351017 GGACTTGAACCCATGACCTCA 59.649 52.381 0.00 0.00 32.45 3.86
4388 4833 1.630878 AGGACTTGAACCCATGACCTC 59.369 52.381 0.00 0.00 37.82 3.85
4389 4834 1.352352 CAGGACTTGAACCCATGACCT 59.648 52.381 0.00 0.00 40.96 3.85
4390 4835 1.614317 CCAGGACTTGAACCCATGACC 60.614 57.143 0.00 0.00 34.29 4.02
4391 4836 1.351017 TCCAGGACTTGAACCCATGAC 59.649 52.381 0.00 0.00 0.00 3.06
4392 4837 1.741028 TCCAGGACTTGAACCCATGA 58.259 50.000 0.00 0.00 0.00 3.07
4393 4838 2.558359 GTTTCCAGGACTTGAACCCATG 59.442 50.000 0.00 0.00 0.00 3.66
4394 4839 2.176798 TGTTTCCAGGACTTGAACCCAT 59.823 45.455 0.00 0.00 0.00 4.00
4395 4840 1.566703 TGTTTCCAGGACTTGAACCCA 59.433 47.619 0.00 0.00 0.00 4.51
4396 4841 2.230660 CTGTTTCCAGGACTTGAACCC 58.769 52.381 0.00 0.00 34.90 4.11
4397 4842 1.609072 GCTGTTTCCAGGACTTGAACC 59.391 52.381 0.00 0.00 39.22 3.62
4398 4843 1.609072 GGCTGTTTCCAGGACTTGAAC 59.391 52.381 0.00 0.00 39.22 3.18
4399 4844 1.494721 AGGCTGTTTCCAGGACTTGAA 59.505 47.619 0.00 0.00 39.22 2.69
4400 4845 1.072331 GAGGCTGTTTCCAGGACTTGA 59.928 52.381 0.00 0.00 39.22 3.02
4401 4846 1.072965 AGAGGCTGTTTCCAGGACTTG 59.927 52.381 0.00 0.00 39.22 3.16
4402 4847 1.439543 AGAGGCTGTTTCCAGGACTT 58.560 50.000 0.00 0.00 39.22 3.01
4403 4848 1.439543 AAGAGGCTGTTTCCAGGACT 58.560 50.000 0.00 0.00 39.22 3.85
4404 4849 2.038557 TGTAAGAGGCTGTTTCCAGGAC 59.961 50.000 0.90 0.00 39.22 3.85
4405 4850 2.303022 CTGTAAGAGGCTGTTTCCAGGA 59.697 50.000 0.90 0.00 35.89 3.86
4406 4851 2.303022 TCTGTAAGAGGCTGTTTCCAGG 59.697 50.000 17.71 5.83 38.67 4.45
4407 4852 3.685139 TCTGTAAGAGGCTGTTTCCAG 57.315 47.619 0.90 9.48 38.67 3.86
4419 4864 5.250774 AGCCTTTCCCTACATTTCTGTAAGA 59.749 40.000 0.00 0.00 44.68 2.10
4420 4865 5.355350 CAGCCTTTCCCTACATTTCTGTAAG 59.645 44.000 0.00 0.00 37.41 2.34
4421 4866 5.253330 CAGCCTTTCCCTACATTTCTGTAA 58.747 41.667 0.00 0.00 37.41 2.41
4422 4867 4.843728 CAGCCTTTCCCTACATTTCTGTA 58.156 43.478 0.00 0.00 36.79 2.74
4423 4868 3.690460 CAGCCTTTCCCTACATTTCTGT 58.310 45.455 0.00 0.00 39.49 3.41
4424 4869 2.424956 GCAGCCTTTCCCTACATTTCTG 59.575 50.000 0.00 0.00 0.00 3.02
4425 4870 2.728007 GCAGCCTTTCCCTACATTTCT 58.272 47.619 0.00 0.00 0.00 2.52
4426 4871 1.401905 CGCAGCCTTTCCCTACATTTC 59.598 52.381 0.00 0.00 0.00 2.17
4427 4872 1.271926 ACGCAGCCTTTCCCTACATTT 60.272 47.619 0.00 0.00 0.00 2.32
4428 4873 0.328258 ACGCAGCCTTTCCCTACATT 59.672 50.000 0.00 0.00 0.00 2.71
4429 4874 1.134491 GTACGCAGCCTTTCCCTACAT 60.134 52.381 0.00 0.00 0.00 2.29
4430 4875 0.248289 GTACGCAGCCTTTCCCTACA 59.752 55.000 0.00 0.00 0.00 2.74
4431 4876 0.535797 AGTACGCAGCCTTTCCCTAC 59.464 55.000 0.00 0.00 0.00 3.18
4432 4877 2.148446 TAGTACGCAGCCTTTCCCTA 57.852 50.000 0.00 0.00 0.00 3.53
4433 4878 1.497161 ATAGTACGCAGCCTTTCCCT 58.503 50.000 0.00 0.00 0.00 4.20
4434 4879 2.626743 TCTATAGTACGCAGCCTTTCCC 59.373 50.000 0.00 0.00 0.00 3.97
4435 4880 3.552478 GGTCTATAGTACGCAGCCTTTCC 60.552 52.174 0.00 0.00 0.00 3.13
4436 4881 3.552478 GGGTCTATAGTACGCAGCCTTTC 60.552 52.174 0.00 0.00 0.00 2.62
4437 4882 2.364647 GGGTCTATAGTACGCAGCCTTT 59.635 50.000 0.00 0.00 0.00 3.11
4438 4883 1.962100 GGGTCTATAGTACGCAGCCTT 59.038 52.381 0.00 0.00 0.00 4.35
4439 4884 1.133575 TGGGTCTATAGTACGCAGCCT 60.134 52.381 13.98 0.00 35.18 4.58
4440 4885 1.325355 TGGGTCTATAGTACGCAGCC 58.675 55.000 13.98 8.23 35.18 4.85
4441 4886 3.181478 ACTTTGGGTCTATAGTACGCAGC 60.181 47.826 16.00 2.07 40.36 5.25
4442 4887 4.360563 CACTTTGGGTCTATAGTACGCAG 58.639 47.826 16.00 11.29 40.36 5.18
4443 4888 3.131577 CCACTTTGGGTCTATAGTACGCA 59.868 47.826 13.98 13.98 37.94 5.24
4444 4889 3.131755 ACCACTTTGGGTCTATAGTACGC 59.868 47.826 0.00 6.13 43.37 4.42
4445 4890 4.996788 ACCACTTTGGGTCTATAGTACG 57.003 45.455 0.00 0.00 43.37 3.67
4455 4900 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
4456 4901 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
4457 4902 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
4458 4903 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
4459 4904 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
4460 4905 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
4461 4906 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
4462 4907 2.606826 AGGGAAGGGTCCGACCAC 60.607 66.667 19.43 8.70 46.04 4.16
4463 4908 2.606519 CAGGGAAGGGTCCGACCA 60.607 66.667 19.43 0.00 46.04 4.02
4464 4909 3.400054 CCAGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
4465 4910 2.284405 TCCAGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
4466 4911 2.284405 GTCCAGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
4467 4912 3.400054 GGTCCAGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
4468 4913 3.015753 GGGTCCAGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
4469 4914 2.125225 AGGGTCCAGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
4470 4915 2.204151 CAGGGTCCAGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
4471 4916 3.732849 GCAGGGTCCAGGGAAGGG 61.733 72.222 0.00 0.00 0.00 3.95
4472 4917 4.101448 CGCAGGGTCCAGGGAAGG 62.101 72.222 0.00 0.00 0.00 3.46
4473 4918 4.785453 GCGCAGGGTCCAGGGAAG 62.785 72.222 0.30 0.00 0.00 3.46
4485 4930 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
4488 4933 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
4489 4934 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
4490 4935 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
4491 4936 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
4497 4942 1.089920 CAACCTGGTGCATGTAGCTC 58.910 55.000 14.15 0.00 45.94 4.09
4498 4943 0.962356 GCAACCTGGTGCATGTAGCT 60.962 55.000 14.15 0.00 44.29 3.32
4499 4944 1.508088 GCAACCTGGTGCATGTAGC 59.492 57.895 6.00 6.00 44.29 3.58
4500 4945 2.183409 GGCAACCTGGTGCATGTAG 58.817 57.895 18.44 0.00 46.81 2.74
4501 4946 4.413928 GGCAACCTGGTGCATGTA 57.586 55.556 18.44 0.00 46.81 2.29
4521 4966 7.995289 TCAAGAGACTTGCACTTCAATAAAAA 58.005 30.769 6.62 0.00 33.57 1.94
4522 4967 7.566760 TCAAGAGACTTGCACTTCAATAAAA 57.433 32.000 6.62 0.00 33.57 1.52
4523 4968 7.566760 TTCAAGAGACTTGCACTTCAATAAA 57.433 32.000 6.62 0.00 33.57 1.40
4524 4969 7.750229 ATTCAAGAGACTTGCACTTCAATAA 57.250 32.000 6.62 0.00 33.57 1.40
4525 4970 7.663081 AGAATTCAAGAGACTTGCACTTCAATA 59.337 33.333 8.44 0.00 33.57 1.90
4555 5000 6.267928 ACATGACACTTCAGTCCTAACTTACT 59.732 38.462 0.00 0.00 37.73 2.24
4567 5012 5.954296 ATCAAAAGGACATGACACTTCAG 57.046 39.130 0.00 0.00 34.35 3.02
4700 5147 8.869109 TGAATTCTTAGGATTGAAAACCATTGT 58.131 29.630 7.05 0.00 0.00 2.71
4701 5148 9.709495 TTGAATTCTTAGGATTGAAAACCATTG 57.291 29.630 7.05 0.00 0.00 2.82
4704 5151 9.762933 CTTTTGAATTCTTAGGATTGAAAACCA 57.237 29.630 6.53 0.00 0.00 3.67
4755 5202 6.550854 AGTTCCATCAAAATCTTTCAGTCCAA 59.449 34.615 0.00 0.00 0.00 3.53
4757 5204 6.385033 CAGTTCCATCAAAATCTTTCAGTCC 58.615 40.000 0.00 0.00 0.00 3.85
4758 5205 6.015940 ACCAGTTCCATCAAAATCTTTCAGTC 60.016 38.462 0.00 0.00 0.00 3.51
4759 5206 5.835280 ACCAGTTCCATCAAAATCTTTCAGT 59.165 36.000 0.00 0.00 0.00 3.41
4760 5207 6.336842 ACCAGTTCCATCAAAATCTTTCAG 57.663 37.500 0.00 0.00 0.00 3.02
4761 5208 7.004086 AGTACCAGTTCCATCAAAATCTTTCA 58.996 34.615 0.00 0.00 0.00 2.69
4762 5209 7.040409 ACAGTACCAGTTCCATCAAAATCTTTC 60.040 37.037 0.00 0.00 0.00 2.62
4763 5210 6.777580 ACAGTACCAGTTCCATCAAAATCTTT 59.222 34.615 0.00 0.00 0.00 2.52
4764 5211 6.306987 ACAGTACCAGTTCCATCAAAATCTT 58.693 36.000 0.00 0.00 0.00 2.40
4765 5212 5.880901 ACAGTACCAGTTCCATCAAAATCT 58.119 37.500 0.00 0.00 0.00 2.40
4771 5221 9.747898 ATAATTTTTACAGTACCAGTTCCATCA 57.252 29.630 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.