Multiple sequence alignment - TraesCS2D01G229000

Loading Multiple Alignment...

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 TraesCS2D01G229000 chr2D 100.000 5814 0 0 1 5814 198130422 198136235 0.000000e+00 10737.0
1 TraesCS2D01G229000 chr2D 80.633 537 88 11 2151 2679 198132530 198133058 9.070000e-108 401.0
2 TraesCS2D01G229000 chr2D 80.633 537 88 12 2109 2637 198132572 198133100 9.070000e-108 401.0
3 TraesCS2D01G229000 chr2D 81.238 501 75 14 2193 2682 198132530 198133022 2.540000e-103 387.0
4 TraesCS2D01G229000 chr2D 81.238 501 75 14 2109 2601 198132614 198133103 2.540000e-103 387.0
5 TraesCS2D01G229000 chr2D 90.580 138 13 0 5677 5814 21060243 21060380 3.580000e-42 183.0
6 TraesCS2D01G229000 chr2A 96.430 5294 96 17 1 5262 214896884 214902116 0.000000e+00 8643.0
7 TraesCS2D01G229000 chr2A 81.400 500 76 12 2193 2682 214898992 214899484 5.460000e-105 392.0
8 TraesCS2D01G229000 chr2A 80.261 537 90 11 2151 2679 214898992 214899520 1.960000e-104 390.0
9 TraesCS2D01G229000 chr2A 80.074 537 91 11 2109 2637 214899034 214899562 9.140000e-103 385.0
10 TraesCS2D01G229000 chr2A 81.000 500 78 12 2109 2601 214899076 214899565 1.180000e-101 381.0
11 TraesCS2D01G229000 chr2A 94.898 98 3 1 5261 5356 214902178 214902275 1.010000e-32 152.0
12 TraesCS2D01G229000 chr2B 97.160 4930 67 17 366 5256 254874606 254879501 0.000000e+00 8261.0
13 TraesCS2D01G229000 chr2B 96.496 371 8 2 1 371 254868830 254869195 4.980000e-170 608.0
14 TraesCS2D01G229000 chr2B 80.633 537 88 12 2151 2679 254876352 254876880 9.070000e-108 401.0
15 TraesCS2D01G229000 chr2B 80.483 538 87 14 2109 2637 254876394 254876922 4.220000e-106 396.0
16 TraesCS2D01G229000 chr2B 81.038 501 76 14 2193 2682 254876352 254876844 1.180000e-101 381.0
17 TraesCS2D01G229000 chr2B 80.639 501 78 14 2109 2601 254876436 254876925 2.560000e-98 370.0
18 TraesCS2D01G229000 chr3D 91.398 186 13 2 5491 5673 460449884 460449699 9.670000e-63 252.0
19 TraesCS2D01G229000 chr3D 92.090 177 12 1 5491 5665 460451049 460450873 1.250000e-61 248.0
20 TraesCS2D01G229000 chr1D 90.580 138 13 0 5677 5814 43196245 43196108 3.580000e-42 183.0
21 TraesCS2D01G229000 chr1D 90.977 133 12 0 5682 5814 477499350 477499218 4.630000e-41 180.0
22 TraesCS2D01G229000 chr6B 90.441 136 12 1 5679 5814 12658140 12658006 1.660000e-40 178.0
23 TraesCS2D01G229000 chr1A 90.441 136 12 1 5679 5814 512470182 512470048 1.660000e-40 178.0
24 TraesCS2D01G229000 chr5A 89.706 136 13 1 5679 5814 701968550 701968684 7.750000e-39 172.0
25 TraesCS2D01G229000 chr6A 88.406 138 13 2 5679 5814 64264825 64264961 4.660000e-36 163.0
26 TraesCS2D01G229000 chr3B 87.500 136 16 1 5679 5814 683105675 683105541 7.800000e-34 156.0
27 TraesCS2D01G229000 chr3B 77.465 142 18 9 5363 5494 160436439 160436302 8.080000e-09 73.1
28 TraesCS2D01G229000 chr4A 84.892 139 20 1 5677 5814 207359146 207359284 7.860000e-29 139.0


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 TraesCS2D01G229000 chr2D 198130422 198136235 5813 False 2462.600000 10737 84.748400 1 5814 5 chr2D.!!$F2 5813
1 TraesCS2D01G229000 chr2A 214896884 214902275 5391 False 1723.833333 8643 85.677167 1 5356 6 chr2A.!!$F1 5355
2 TraesCS2D01G229000 chr2B 254874606 254879501 4895 False 1961.800000 8261 83.990600 366 5256 5 chr2B.!!$F2 4890
3 TraesCS2D01G229000 chr3D 460449699 460451049 1350 True 250.000000 252 91.744000 5491 5673 2 chr3D.!!$R1 182

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
224 225 0.895530 CAGGGTCTAAGCGGTTGAGA 59.104 55.000 10.73 6.30 0.00 3.27 F
539 540 1.688772 ATGCTTCATGATGCACCCTC 58.311 50.000 31.59 6.57 42.92 4.30 F
1987 1991 0.178953 AAGCCCACCAGCAAGACATT 60.179 50.000 0.00 0.00 34.23 2.71 F
1994 1998 0.251297 CCAGCAAGACATTGGTCCCA 60.251 55.000 0.00 0.00 45.12 4.37 F
3889 3942 2.179427 GGATTTTAGCTGGTTTGCCCT 58.821 47.619 0.00 0.00 0.00 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1987 1991 1.010046 AGATCCAGGAGATTGGGACCA 59.990 52.381 0.0 0.0 38.81 4.02 R
2322 2326 1.183030 ATCTTCGTCGTGGTGACCCA 61.183 55.000 0.0 0.0 45.23 4.51 R
3927 3980 0.896940 TACAGTCACCGTCAGTCCCC 60.897 60.000 0.0 0.0 0.00 4.81 R
4031 4086 1.022735 CTGCCAGCCTCATCATCAAC 58.977 55.000 0.0 0.0 0.00 3.18 R
5264 5357 0.107800 CTGCTGCTGGCTATGTGTCT 60.108 55.000 0.0 0.0 42.39 3.41 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 8.391859 TGTATTAACATATTGCACTTGTTACGG 58.608 33.333 12.45 0.00 36.01 4.02
62 63 5.163642 TGCACTTGTTACGGTAAATGTTTGT 60.164 36.000 1.47 0.00 0.00 2.83
104 105 4.355543 TGTTGCTCTGAAGTGTCAAAAC 57.644 40.909 0.00 0.00 31.88 2.43
161 162 3.153919 GTTAGGCCAGTTTGATGAACCA 58.846 45.455 5.01 0.00 39.13 3.67
162 163 2.610438 AGGCCAGTTTGATGAACCAT 57.390 45.000 5.01 0.00 39.13 3.55
163 164 3.737559 AGGCCAGTTTGATGAACCATA 57.262 42.857 5.01 0.00 39.13 2.74
224 225 0.895530 CAGGGTCTAAGCGGTTGAGA 59.104 55.000 10.73 6.30 0.00 3.27
226 227 2.093447 CAGGGTCTAAGCGGTTGAGAAT 60.093 50.000 10.73 0.00 0.00 2.40
539 540 1.688772 ATGCTTCATGATGCACCCTC 58.311 50.000 31.59 6.57 42.92 4.30
727 728 7.308348 CCACATCACAAGTAAGTCCGTATTTTT 60.308 37.037 0.00 0.00 0.00 1.94
840 841 7.489757 GCTGTTTGTTACCTTTTATGTGTGAAA 59.510 33.333 0.00 0.00 0.00 2.69
1221 1222 9.552695 TCTGTACCCTATATGAATGATCAGATT 57.447 33.333 0.09 0.00 38.42 2.40
1987 1991 0.178953 AAGCCCACCAGCAAGACATT 60.179 50.000 0.00 0.00 34.23 2.71
1994 1998 0.251297 CCAGCAAGACATTGGTCCCA 60.251 55.000 0.00 0.00 45.12 4.37
2099 2103 6.299141 ACTCTCCAGAAAGAAAAGCACAATA 58.701 36.000 0.00 0.00 0.00 1.90
2118 2122 4.873129 CGGCGTGGAGATGGGTCG 62.873 72.222 0.00 0.00 0.00 4.79
2322 2326 2.654385 TCCATCCCCCAAAAGAAGACAT 59.346 45.455 0.00 0.00 0.00 3.06
3822 3875 7.687445 GCAAGAGCATAATTGGTAAATTTTGG 58.313 34.615 0.00 0.00 41.58 3.28
3827 3880 7.330262 AGCATAATTGGTAAATTTTGGTCTGG 58.670 34.615 0.00 0.00 39.62 3.86
3889 3942 2.179427 GGATTTTAGCTGGTTTGCCCT 58.821 47.619 0.00 0.00 0.00 5.19
3891 3944 3.767131 GGATTTTAGCTGGTTTGCCCTTA 59.233 43.478 0.00 0.00 0.00 2.69
3926 3979 3.851098 ACCACGAGAAAGCTAGATTGAC 58.149 45.455 0.00 0.00 0.00 3.18
3927 3980 2.854777 CCACGAGAAAGCTAGATTGACG 59.145 50.000 0.00 3.61 0.00 4.35
3975 4029 6.289745 ACTACGTTGCGATTGAACTAAAAA 57.710 33.333 0.00 0.00 0.00 1.94
4060 4115 1.448013 GGCTGGCAGAGAACGTACC 60.448 63.158 20.86 2.91 0.00 3.34
4182 4238 9.305555 TCTACATTTGTACTCTGTTAAGTAGGT 57.694 33.333 0.00 0.00 32.52 3.08
4183 4239 9.924650 CTACATTTGTACTCTGTTAAGTAGGTT 57.075 33.333 0.00 0.00 32.52 3.50
4185 4241 9.052759 ACATTTGTACTCTGTTAAGTAGGTTTG 57.947 33.333 0.00 0.00 32.52 2.93
4186 4242 7.486802 TTTGTACTCTGTTAAGTAGGTTTGC 57.513 36.000 0.00 0.00 32.52 3.68
4187 4243 6.415206 TGTACTCTGTTAAGTAGGTTTGCT 57.585 37.500 0.00 0.00 32.52 3.91
4188 4244 7.528996 TGTACTCTGTTAAGTAGGTTTGCTA 57.471 36.000 0.00 0.00 32.52 3.49
4189 4245 7.600065 TGTACTCTGTTAAGTAGGTTTGCTAG 58.400 38.462 0.00 0.00 32.52 3.42
4190 4246 6.912951 ACTCTGTTAAGTAGGTTTGCTAGA 57.087 37.500 0.00 0.00 0.00 2.43
4191 4247 7.483580 ACTCTGTTAAGTAGGTTTGCTAGAT 57.516 36.000 0.00 0.00 0.00 1.98
4192 4248 7.324178 ACTCTGTTAAGTAGGTTTGCTAGATG 58.676 38.462 0.00 0.00 0.00 2.90
4193 4249 7.038941 ACTCTGTTAAGTAGGTTTGCTAGATGT 60.039 37.037 0.00 0.00 0.00 3.06
4194 4250 8.357290 TCTGTTAAGTAGGTTTGCTAGATGTA 57.643 34.615 0.00 0.00 0.00 2.29
4195 4251 8.248945 TCTGTTAAGTAGGTTTGCTAGATGTAC 58.751 37.037 0.00 0.00 0.00 2.90
4196 4252 7.898918 TGTTAAGTAGGTTTGCTAGATGTACA 58.101 34.615 0.00 0.00 0.00 2.90
4197 4253 7.816031 TGTTAAGTAGGTTTGCTAGATGTACAC 59.184 37.037 0.00 0.00 0.00 2.90
4198 4254 6.607004 AAGTAGGTTTGCTAGATGTACACT 57.393 37.500 0.00 0.13 0.00 3.55
4199 4255 6.607004 AGTAGGTTTGCTAGATGTACACTT 57.393 37.500 0.00 0.00 0.00 3.16
4662 4748 1.664151 GGAGTTAGCGGTACACATTGC 59.336 52.381 0.00 0.00 0.00 3.56
4663 4749 2.618053 GAGTTAGCGGTACACATTGCT 58.382 47.619 0.00 0.00 41.32 3.91
4664 4750 3.000727 GAGTTAGCGGTACACATTGCTT 58.999 45.455 0.00 0.00 38.82 3.91
4665 4751 3.408634 AGTTAGCGGTACACATTGCTTT 58.591 40.909 0.00 0.00 38.82 3.51
4897 4986 4.798882 TGGATATGGCCCGATAACTTTTT 58.201 39.130 0.00 0.00 0.00 1.94
4974 5063 5.152623 AGAACGACATTCTGATCCTTCAA 57.847 39.130 0.00 0.00 46.44 2.69
5000 5089 1.358759 CCCGTTTGTCTGTTGCCAC 59.641 57.895 0.00 0.00 0.00 5.01
5001 5090 1.101049 CCCGTTTGTCTGTTGCCACT 61.101 55.000 0.00 0.00 0.00 4.00
5002 5091 0.738389 CCGTTTGTCTGTTGCCACTT 59.262 50.000 0.00 0.00 0.00 3.16
5003 5092 1.533756 CCGTTTGTCTGTTGCCACTTG 60.534 52.381 0.00 0.00 0.00 3.16
5004 5093 1.559831 GTTTGTCTGTTGCCACTTGC 58.440 50.000 0.00 0.00 41.77 4.01
5005 5094 0.459489 TTTGTCTGTTGCCACTTGCC 59.541 50.000 0.00 0.00 40.16 4.52
5006 5095 0.682532 TTGTCTGTTGCCACTTGCCA 60.683 50.000 0.00 0.00 40.16 4.92
5049 5138 1.003355 CCAGGTTGTCATGCCGACT 60.003 57.895 5.13 0.00 45.60 4.18
5050 5139 1.300971 CCAGGTTGTCATGCCGACTG 61.301 60.000 5.13 0.00 45.60 3.51
5051 5140 1.003355 AGGTTGTCATGCCGACTGG 60.003 57.895 5.13 0.00 45.60 4.00
5052 5141 1.003839 GGTTGTCATGCCGACTGGA 60.004 57.895 5.13 0.00 45.60 3.86
5053 5142 1.021390 GGTTGTCATGCCGACTGGAG 61.021 60.000 5.13 0.00 45.60 3.86
5054 5143 0.320771 GTTGTCATGCCGACTGGAGT 60.321 55.000 5.13 0.00 45.60 3.85
5055 5144 1.067142 GTTGTCATGCCGACTGGAGTA 60.067 52.381 5.13 0.00 45.60 2.59
5056 5145 0.817654 TGTCATGCCGACTGGAGTAG 59.182 55.000 5.13 0.00 45.60 2.57
5187 5280 2.147958 TGGGTAGCGTTGATTTGACAC 58.852 47.619 0.00 0.00 0.00 3.67
5262 5355 7.239166 ACACTTTCTTGATCAACGCATATAG 57.761 36.000 3.38 0.00 0.00 1.31
5263 5356 6.132056 CACTTTCTTGATCAACGCATATAGC 58.868 40.000 3.38 0.00 40.87 2.97
5264 5357 5.817296 ACTTTCTTGATCAACGCATATAGCA 59.183 36.000 3.38 0.00 46.13 3.49
5265 5358 5.912360 TTCTTGATCAACGCATATAGCAG 57.088 39.130 3.38 0.00 46.13 4.24
5296 5454 2.667536 AGCAGCGCCTGTGTTCTG 60.668 61.111 2.29 0.00 33.43 3.02
5331 5489 2.098117 CCAAGGAAAATAGAAGCAGCCG 59.902 50.000 0.00 0.00 0.00 5.52
5346 5504 2.108362 CCGCCGTCCCTTATGGTC 59.892 66.667 0.00 0.00 36.53 4.02
5356 5514 2.108168 CCCTTATGGTCTCTTCCACGA 58.892 52.381 0.00 0.00 40.51 4.35
5357 5515 2.101582 CCCTTATGGTCTCTTCCACGAG 59.898 54.545 0.00 0.00 40.51 4.18
5358 5516 2.482142 CCTTATGGTCTCTTCCACGAGC 60.482 54.545 0.00 0.00 40.51 5.03
5359 5517 1.847328 TATGGTCTCTTCCACGAGCA 58.153 50.000 0.00 0.00 40.51 4.26
5360 5518 0.976641 ATGGTCTCTTCCACGAGCAA 59.023 50.000 0.00 0.00 40.51 3.91
5361 5519 0.033504 TGGTCTCTTCCACGAGCAAC 59.966 55.000 0.00 0.00 35.03 4.17
5362 5520 0.318762 GGTCTCTTCCACGAGCAACT 59.681 55.000 0.00 0.00 0.00 3.16
5363 5521 1.423395 GTCTCTTCCACGAGCAACTG 58.577 55.000 0.00 0.00 0.00 3.16
5364 5522 0.318441 TCTCTTCCACGAGCAACTGG 59.682 55.000 0.00 0.00 0.00 4.00
5365 5523 0.671781 CTCTTCCACGAGCAACTGGG 60.672 60.000 0.00 0.00 0.00 4.45
5366 5524 1.672356 CTTCCACGAGCAACTGGGG 60.672 63.158 0.00 0.00 0.00 4.96
5367 5525 3.842925 TTCCACGAGCAACTGGGGC 62.843 63.158 0.00 0.00 0.00 5.80
5371 5529 4.451150 CGAGCAACTGGGGCGCTA 62.451 66.667 7.64 0.00 35.75 4.26
5372 5530 2.190578 GAGCAACTGGGGCGCTAT 59.809 61.111 7.64 0.00 35.75 2.97
5373 5531 1.889573 GAGCAACTGGGGCGCTATC 60.890 63.158 7.64 0.00 35.75 2.08
5374 5532 2.124736 GCAACTGGGGCGCTATCA 60.125 61.111 7.64 2.32 0.00 2.15
5375 5533 2.182842 GCAACTGGGGCGCTATCAG 61.183 63.158 7.64 14.77 34.91 2.90
5376 5534 2.182842 CAACTGGGGCGCTATCAGC 61.183 63.158 19.35 0.00 38.02 4.26
5399 5557 4.406173 CCACGTGTCGCGCTCTCT 62.406 66.667 15.65 0.00 46.11 3.10
5400 5558 2.429236 CACGTGTCGCGCTCTCTT 60.429 61.111 7.58 0.00 46.11 2.85
5401 5559 2.126812 ACGTGTCGCGCTCTCTTC 60.127 61.111 5.56 0.00 46.11 2.87
5402 5560 2.126850 CGTGTCGCGCTCTCTTCA 60.127 61.111 5.56 0.00 0.00 3.02
5403 5561 2.148982 CGTGTCGCGCTCTCTTCAG 61.149 63.158 5.56 0.00 0.00 3.02
5404 5562 1.210413 GTGTCGCGCTCTCTTCAGA 59.790 57.895 5.56 0.00 0.00 3.27
5405 5563 0.179150 GTGTCGCGCTCTCTTCAGAT 60.179 55.000 5.56 0.00 0.00 2.90
5406 5564 0.528017 TGTCGCGCTCTCTTCAGATT 59.472 50.000 5.56 0.00 0.00 2.40
5407 5565 1.067565 TGTCGCGCTCTCTTCAGATTT 60.068 47.619 5.56 0.00 0.00 2.17
5408 5566 1.996191 GTCGCGCTCTCTTCAGATTTT 59.004 47.619 5.56 0.00 0.00 1.82
5409 5567 2.413453 GTCGCGCTCTCTTCAGATTTTT 59.587 45.455 5.56 0.00 0.00 1.94
5484 5642 2.122783 TGGTTTTCCATCGGCCTTAG 57.877 50.000 0.00 0.00 46.22 2.18
5485 5643 0.738975 GGTTTTCCATCGGCCTTAGC 59.261 55.000 0.00 0.00 40.31 3.09
5486 5644 1.682087 GGTTTTCCATCGGCCTTAGCT 60.682 52.381 0.00 0.00 40.31 3.32
5487 5645 2.092323 GTTTTCCATCGGCCTTAGCTT 58.908 47.619 0.00 0.00 39.73 3.74
5488 5646 2.492088 GTTTTCCATCGGCCTTAGCTTT 59.508 45.455 0.00 0.00 39.73 3.51
5489 5647 2.507407 TTCCATCGGCCTTAGCTTTT 57.493 45.000 0.00 0.00 39.73 2.27
5498 5656 2.628178 GGCCTTAGCTTTTGGACAAAGT 59.372 45.455 0.00 0.00 39.73 2.66
5538 6861 6.325919 TGTCCGCTGTTTCAGAAATTAATT 57.674 33.333 0.00 0.00 32.44 1.40
5550 6873 5.494706 TCAGAAATTAATTAGTGGGGGAGGT 59.505 40.000 0.01 0.00 0.00 3.85
5556 6879 3.612115 TAGTGGGGGAGGTGACCGG 62.612 68.421 0.00 0.00 0.00 5.28
5603 6928 1.013323 CTGCGCGCGTAGATCAAAC 60.013 57.895 39.29 16.38 0.00 2.93
5636 6961 2.796651 GGACGTATCGTGCGGAGT 59.203 61.111 0.00 0.00 41.37 3.85
5666 6991 2.434185 CGTAGCAGCGCCCAAAGA 60.434 61.111 2.29 0.00 0.00 2.52
5698 7023 8.511604 GGAGACCTCAATCTGAAAATATTTCA 57.488 34.615 0.10 5.50 0.00 2.69
5699 7024 8.401709 GGAGACCTCAATCTGAAAATATTTCAC 58.598 37.037 0.10 0.23 0.00 3.18
5700 7025 8.868522 AGACCTCAATCTGAAAATATTTCACA 57.131 30.769 0.10 4.76 0.00 3.58
5701 7026 9.300681 AGACCTCAATCTGAAAATATTTCACAA 57.699 29.630 0.10 0.00 0.00 3.33
5702 7027 9.912634 GACCTCAATCTGAAAATATTTCACAAA 57.087 29.630 0.10 0.00 0.00 2.83
5709 7034 9.657419 ATCTGAAAATATTTCACAAAATGGTCC 57.343 29.630 0.10 0.00 35.84 4.46
5710 7035 8.869109 TCTGAAAATATTTCACAAAATGGTCCT 58.131 29.630 0.10 0.00 35.84 3.85
5711 7036 9.143631 CTGAAAATATTTCACAAAATGGTCCTC 57.856 33.333 0.10 0.00 35.84 3.71
5712 7037 8.869109 TGAAAATATTTCACAAAATGGTCCTCT 58.131 29.630 0.10 0.00 35.84 3.69
5713 7038 9.710900 GAAAATATTTCACAAAATGGTCCTCTT 57.289 29.630 0.10 0.00 35.84 2.85
5716 7041 9.492973 AATATTTCACAAAATGGTCCTCTTTTG 57.507 29.630 20.01 20.01 44.22 2.44
5717 7042 4.320608 TCACAAAATGGTCCTCTTTTGC 57.679 40.909 20.88 0.00 43.07 3.68
5718 7043 3.703556 TCACAAAATGGTCCTCTTTTGCA 59.296 39.130 20.88 11.29 43.07 4.08
5719 7044 4.344679 TCACAAAATGGTCCTCTTTTGCAT 59.655 37.500 20.88 8.03 43.07 3.96
5720 7045 4.449743 CACAAAATGGTCCTCTTTTGCATG 59.550 41.667 20.88 13.53 43.07 4.06
5721 7046 4.344679 ACAAAATGGTCCTCTTTTGCATGA 59.655 37.500 20.88 0.00 43.07 3.07
5722 7047 4.525912 AAATGGTCCTCTTTTGCATGAC 57.474 40.909 0.00 0.00 0.00 3.06
5723 7048 1.522668 TGGTCCTCTTTTGCATGACG 58.477 50.000 0.00 0.00 0.00 4.35
5724 7049 0.169009 GGTCCTCTTTTGCATGACGC 59.831 55.000 0.00 0.00 42.89 5.19
5725 7050 0.169009 GTCCTCTTTTGCATGACGCC 59.831 55.000 0.00 0.00 41.33 5.68
5726 7051 0.960364 TCCTCTTTTGCATGACGCCC 60.960 55.000 0.00 0.00 41.33 6.13
5727 7052 1.135315 CTCTTTTGCATGACGCCCG 59.865 57.895 0.00 0.00 41.33 6.13
5728 7053 2.504681 CTTTTGCATGACGCCCGC 60.505 61.111 0.00 0.00 41.33 6.13
5729 7054 4.397090 TTTTGCATGACGCCCGCG 62.397 61.111 7.69 7.69 46.03 6.46
5747 7072 3.924507 GCTAGGGTGCCATGTTGG 58.075 61.111 0.00 0.00 41.55 3.77
5748 7073 1.302949 GCTAGGGTGCCATGTTGGA 59.697 57.895 0.00 0.00 40.96 3.53
5749 7074 0.749454 GCTAGGGTGCCATGTTGGAG 60.749 60.000 0.00 0.00 40.96 3.86
5750 7075 0.911769 CTAGGGTGCCATGTTGGAGA 59.088 55.000 0.00 0.00 40.96 3.71
5751 7076 0.911769 TAGGGTGCCATGTTGGAGAG 59.088 55.000 0.00 0.00 40.96 3.20
5752 7077 1.379044 GGGTGCCATGTTGGAGAGG 60.379 63.158 0.00 0.00 40.96 3.69
5753 7078 1.685224 GGTGCCATGTTGGAGAGGA 59.315 57.895 0.00 0.00 40.96 3.71
5754 7079 0.257039 GGTGCCATGTTGGAGAGGAT 59.743 55.000 0.00 0.00 40.96 3.24
5755 7080 1.386533 GTGCCATGTTGGAGAGGATG 58.613 55.000 0.00 0.00 40.96 3.51
5756 7081 1.065199 GTGCCATGTTGGAGAGGATGA 60.065 52.381 0.00 0.00 40.96 2.92
5757 7082 1.065199 TGCCATGTTGGAGAGGATGAC 60.065 52.381 0.00 0.00 40.96 3.06
5758 7083 1.945387 CCATGTTGGAGAGGATGACG 58.055 55.000 0.00 0.00 40.96 4.35
5759 7084 1.293924 CATGTTGGAGAGGATGACGC 58.706 55.000 0.00 0.00 0.00 5.19
5760 7085 0.179000 ATGTTGGAGAGGATGACGCC 59.821 55.000 0.00 0.00 0.00 5.68
5761 7086 1.153349 GTTGGAGAGGATGACGCCC 60.153 63.158 0.00 0.00 0.00 6.13
5762 7087 2.367202 TTGGAGAGGATGACGCCCC 61.367 63.158 0.00 0.00 0.00 5.80
5763 7088 3.917760 GGAGAGGATGACGCCCCG 61.918 72.222 0.00 0.00 0.00 5.73
5764 7089 3.917760 GAGAGGATGACGCCCCGG 61.918 72.222 0.00 0.00 0.00 5.73
5778 7103 4.609018 CCGGGCTAGGGCGTCATG 62.609 72.222 0.00 0.00 39.81 3.07
5779 7104 4.609018 CGGGCTAGGGCGTCATGG 62.609 72.222 0.00 0.00 39.81 3.66
5780 7105 3.480133 GGGCTAGGGCGTCATGGT 61.480 66.667 0.00 0.00 39.81 3.55
5781 7106 2.138179 GGGCTAGGGCGTCATGGTA 61.138 63.158 0.00 0.00 39.81 3.25
5782 7107 1.367840 GGCTAGGGCGTCATGGTAG 59.632 63.158 0.00 0.00 39.81 3.18
5783 7108 1.301009 GCTAGGGCGTCATGGTAGC 60.301 63.158 0.00 0.00 0.00 3.58
5784 7109 1.007271 CTAGGGCGTCATGGTAGCG 60.007 63.158 0.00 0.00 0.00 4.26
5785 7110 1.452953 CTAGGGCGTCATGGTAGCGA 61.453 60.000 0.00 0.00 0.00 4.93
5786 7111 1.731433 TAGGGCGTCATGGTAGCGAC 61.731 60.000 0.00 0.00 0.00 5.19
5787 7112 2.183300 GGCGTCATGGTAGCGACA 59.817 61.111 0.00 0.00 33.26 4.35
5788 7113 1.227263 GGCGTCATGGTAGCGACAT 60.227 57.895 0.00 0.00 33.26 3.06
5789 7114 1.490693 GGCGTCATGGTAGCGACATG 61.491 60.000 10.73 10.73 45.39 3.21
5790 7115 0.806102 GCGTCATGGTAGCGACATGT 60.806 55.000 0.00 0.00 44.57 3.21
5791 7116 1.535226 GCGTCATGGTAGCGACATGTA 60.535 52.381 0.00 3.59 44.57 2.29
5792 7117 2.385315 CGTCATGGTAGCGACATGTAG 58.615 52.381 0.00 0.00 44.57 2.74
5793 7118 2.128035 GTCATGGTAGCGACATGTAGC 58.872 52.381 21.79 21.79 44.57 3.58
5794 7119 1.754226 TCATGGTAGCGACATGTAGCA 59.246 47.619 29.04 15.95 44.57 3.49
5795 7120 2.365293 TCATGGTAGCGACATGTAGCAT 59.635 45.455 29.04 17.40 44.57 3.79
5796 7121 2.223537 TGGTAGCGACATGTAGCATG 57.776 50.000 29.04 7.48 33.49 4.06
5797 7122 1.754226 TGGTAGCGACATGTAGCATGA 59.246 47.619 29.04 13.58 33.49 3.07
5798 7123 2.128035 GGTAGCGACATGTAGCATGAC 58.872 52.381 29.04 22.21 33.49 3.06
5799 7124 1.781429 GTAGCGACATGTAGCATGACG 59.219 52.381 29.04 22.18 39.43 4.35
5801 7126 1.927210 CGACATGTAGCATGACGCC 59.073 57.895 17.22 4.27 44.04 5.68
5802 7127 1.490693 CGACATGTAGCATGACGCCC 61.491 60.000 17.22 2.43 44.04 6.13
5803 7128 1.153168 ACATGTAGCATGACGCCCC 60.153 57.895 15.03 0.00 44.04 5.80
5804 7129 2.108976 ATGTAGCATGACGCCCCG 59.891 61.111 0.00 0.00 44.04 5.73
5805 7130 3.460672 ATGTAGCATGACGCCCCGG 62.461 63.158 0.00 0.00 44.04 5.73
5806 7131 4.157120 GTAGCATGACGCCCCGGT 62.157 66.667 0.00 0.00 44.04 5.28
5807 7132 3.845259 TAGCATGACGCCCCGGTC 61.845 66.667 0.00 0.00 44.04 4.79
5809 7134 2.914756 TAGCATGACGCCCCGGTCTA 62.915 60.000 0.00 0.00 44.04 2.59
5810 7135 2.417516 CATGACGCCCCGGTCTAG 59.582 66.667 0.00 0.00 37.81 2.43
5811 7136 2.838225 ATGACGCCCCGGTCTAGG 60.838 66.667 0.00 0.00 37.81 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 4.559862 ACAGCTCTTACTACAAGGCAAT 57.440 40.909 0.00 0.00 0.00 3.56
73 74 3.213206 TCAGAGCAACAACATGTTCCT 57.787 42.857 8.48 2.78 38.77 3.36
125 126 2.225727 GCCTAACACAAGAAAAGGACCG 59.774 50.000 0.00 0.00 0.00 4.79
291 292 5.625311 GCTAATCAGAACCAAACAAACGAAG 59.375 40.000 0.00 0.00 0.00 3.79
341 342 6.880484 TCTTAAGGACAAGGCATTCGTAATA 58.120 36.000 1.85 0.00 0.00 0.98
729 730 8.196771 GCCTCAGATTCATATCCACTAAGATAG 58.803 40.741 0.00 0.00 32.39 2.08
1221 1222 7.337480 AGCAGATTTCATTGTATTGCACATA 57.663 32.000 0.00 0.00 36.90 2.29
1503 1504 7.530863 TGCTATTATCAGCTAACATAGAGTCG 58.469 38.462 0.00 0.00 42.30 4.18
1635 1639 3.156293 TGTCCCATTCACTTCATTGTGG 58.844 45.455 0.00 0.00 38.40 4.17
1987 1991 1.010046 AGATCCAGGAGATTGGGACCA 59.990 52.381 0.00 0.00 38.81 4.02
1994 1998 4.080072 GGTTTTCAGGAGATCCAGGAGATT 60.080 45.833 0.92 0.00 38.89 2.40
2099 2103 2.764128 ACCCATCTCCACGCCGAT 60.764 61.111 0.00 0.00 0.00 4.18
2118 2122 3.030882 GTAGATCTTCGGCGCGGC 61.031 66.667 24.49 24.49 0.00 6.53
2223 2227 3.935828 GTGAACCATGTCTTCTTCTAGGC 59.064 47.826 0.00 0.00 0.00 3.93
2322 2326 1.183030 ATCTTCGTCGTGGTGACCCA 61.183 55.000 0.00 0.00 45.23 4.51
3536 3589 2.154139 AGGTGTGCCTTGTCCATGA 58.846 52.632 0.00 0.00 44.18 3.07
3822 3875 4.125703 CAATCATAGCAGACTTCCCAGAC 58.874 47.826 0.00 0.00 0.00 3.51
3827 3880 9.202273 CTTATAGTTCAATCATAGCAGACTTCC 57.798 37.037 0.00 0.00 0.00 3.46
3926 3979 2.989824 AGTCACCGTCAGTCCCCG 60.990 66.667 0.00 0.00 0.00 5.73
3927 3980 0.896940 TACAGTCACCGTCAGTCCCC 60.897 60.000 0.00 0.00 0.00 4.81
4025 4080 3.564644 CCAGCCTCATCATCAACTCAATC 59.435 47.826 0.00 0.00 0.00 2.67
4031 4086 1.022735 CTGCCAGCCTCATCATCAAC 58.977 55.000 0.00 0.00 0.00 3.18
4105 4161 7.272037 ACCAAAGTGTACCAGAGTTATTTTG 57.728 36.000 0.00 0.00 0.00 2.44
4175 4231 6.607004 AGTGTACATCTAGCAAACCTACTT 57.393 37.500 0.00 0.00 0.00 2.24
4176 4232 6.607004 AAGTGTACATCTAGCAAACCTACT 57.393 37.500 0.00 0.00 0.00 2.57
4177 4233 8.033626 ACTTAAGTGTACATCTAGCAAACCTAC 58.966 37.037 7.48 0.00 0.00 3.18
4178 4234 8.130671 ACTTAAGTGTACATCTAGCAAACCTA 57.869 34.615 7.48 0.00 0.00 3.08
4179 4235 7.005709 ACTTAAGTGTACATCTAGCAAACCT 57.994 36.000 7.48 0.00 0.00 3.50
4180 4236 7.491696 CCTACTTAAGTGTACATCTAGCAAACC 59.508 40.741 18.56 0.00 0.00 3.27
4181 4237 8.033626 ACCTACTTAAGTGTACATCTAGCAAAC 58.966 37.037 18.56 0.00 0.00 2.93
4182 4238 8.130671 ACCTACTTAAGTGTACATCTAGCAAA 57.869 34.615 18.56 0.00 0.00 3.68
4183 4239 7.713734 ACCTACTTAAGTGTACATCTAGCAA 57.286 36.000 18.56 0.00 0.00 3.91
4184 4240 7.713734 AACCTACTTAAGTGTACATCTAGCA 57.286 36.000 18.56 0.00 0.00 3.49
4185 4241 7.010275 GCAAACCTACTTAAGTGTACATCTAGC 59.990 40.741 18.56 7.48 0.00 3.42
4186 4242 8.251721 AGCAAACCTACTTAAGTGTACATCTAG 58.748 37.037 18.56 4.69 0.00 2.43
4187 4243 8.130671 AGCAAACCTACTTAAGTGTACATCTA 57.869 34.615 18.56 0.00 0.00 1.98
4188 4244 7.005709 AGCAAACCTACTTAAGTGTACATCT 57.994 36.000 18.56 4.60 0.00 2.90
4189 4245 8.248945 TCTAGCAAACCTACTTAAGTGTACATC 58.751 37.037 18.56 2.45 0.00 3.06
4190 4246 8.130671 TCTAGCAAACCTACTTAAGTGTACAT 57.869 34.615 18.56 0.00 0.00 2.29
4191 4247 7.528996 TCTAGCAAACCTACTTAAGTGTACA 57.471 36.000 18.56 0.00 0.00 2.90
4192 4248 8.033626 ACATCTAGCAAACCTACTTAAGTGTAC 58.966 37.037 18.56 2.70 0.00 2.90
4193 4249 8.130671 ACATCTAGCAAACCTACTTAAGTGTA 57.869 34.615 18.56 0.00 0.00 2.90
4194 4250 7.005709 ACATCTAGCAAACCTACTTAAGTGT 57.994 36.000 18.56 5.57 0.00 3.55
4195 4251 7.907214 AACATCTAGCAAACCTACTTAAGTG 57.093 36.000 18.56 4.89 0.00 3.16
4196 4252 9.433153 GTTAACATCTAGCAAACCTACTTAAGT 57.567 33.333 13.68 13.68 0.00 2.24
4197 4253 8.880750 GGTTAACATCTAGCAAACCTACTTAAG 58.119 37.037 8.10 0.00 37.27 1.85
4198 4254 8.599792 AGGTTAACATCTAGCAAACCTACTTAA 58.400 33.333 8.10 0.00 46.19 1.85
4199 4255 8.142485 AGGTTAACATCTAGCAAACCTACTTA 57.858 34.615 8.10 0.00 46.19 2.24
4662 4748 9.817809 TGTAGTAGAGGTTGCAGATATTAAAAG 57.182 33.333 0.00 0.00 0.00 2.27
4663 4749 9.595823 GTGTAGTAGAGGTTGCAGATATTAAAA 57.404 33.333 0.00 0.00 0.00 1.52
4664 4750 8.755028 TGTGTAGTAGAGGTTGCAGATATTAAA 58.245 33.333 0.00 0.00 0.00 1.52
4665 4751 8.301252 TGTGTAGTAGAGGTTGCAGATATTAA 57.699 34.615 0.00 0.00 0.00 1.40
4897 4986 5.431765 AGAGACAGAAAGAAAAGACAGCAA 58.568 37.500 0.00 0.00 0.00 3.91
5000 5089 2.687935 ACCATAAATAGGCGTTGGCAAG 59.312 45.455 0.00 0.00 42.47 4.01
5001 5090 2.729194 ACCATAAATAGGCGTTGGCAA 58.271 42.857 0.00 0.00 42.47 4.52
5002 5091 2.428544 ACCATAAATAGGCGTTGGCA 57.571 45.000 0.00 0.00 42.47 4.92
5003 5092 2.812011 CCTACCATAAATAGGCGTTGGC 59.188 50.000 0.00 0.00 33.08 4.52
5004 5093 3.813166 CACCTACCATAAATAGGCGTTGG 59.187 47.826 0.00 0.00 42.75 3.77
5005 5094 3.813166 CCACCTACCATAAATAGGCGTTG 59.187 47.826 0.00 0.00 42.75 4.10
5006 5095 3.712733 TCCACCTACCATAAATAGGCGTT 59.287 43.478 0.00 0.00 42.75 4.84
5049 5138 4.950475 CAGACCAGAATCACTACTACTCCA 59.050 45.833 0.00 0.00 0.00 3.86
5050 5139 4.339814 CCAGACCAGAATCACTACTACTCC 59.660 50.000 0.00 0.00 0.00 3.85
5051 5140 4.951094 ACCAGACCAGAATCACTACTACTC 59.049 45.833 0.00 0.00 0.00 2.59
5052 5141 4.936802 ACCAGACCAGAATCACTACTACT 58.063 43.478 0.00 0.00 0.00 2.57
5053 5142 6.963083 ATACCAGACCAGAATCACTACTAC 57.037 41.667 0.00 0.00 0.00 2.73
5054 5143 7.973048 AAATACCAGACCAGAATCACTACTA 57.027 36.000 0.00 0.00 0.00 1.82
5055 5144 6.875972 AAATACCAGACCAGAATCACTACT 57.124 37.500 0.00 0.00 0.00 2.57
5056 5145 8.258708 ACTTAAATACCAGACCAGAATCACTAC 58.741 37.037 0.00 0.00 0.00 2.73
5262 5355 1.712977 GCTGCTGGCTATGTGTCTGC 61.713 60.000 0.00 0.00 44.04 4.26
5263 5356 0.392060 TGCTGCTGGCTATGTGTCTG 60.392 55.000 0.00 0.00 42.39 3.51
5264 5357 0.107800 CTGCTGCTGGCTATGTGTCT 60.108 55.000 0.00 0.00 42.39 3.41
5265 5358 1.712977 GCTGCTGCTGGCTATGTGTC 61.713 60.000 8.53 0.00 42.39 3.67
5331 5489 0.831307 AAGAGACCATAAGGGACGGC 59.169 55.000 0.00 0.00 41.15 5.68
5346 5504 0.671781 CCCAGTTGCTCGTGGAAGAG 60.672 60.000 0.00 0.00 41.03 2.85
5356 5514 2.190578 GATAGCGCCCCAGTTGCT 59.809 61.111 2.29 0.00 42.58 3.91
5357 5515 2.124736 TGATAGCGCCCCAGTTGC 60.125 61.111 2.29 0.00 0.00 4.17
5358 5516 2.182842 GCTGATAGCGCCCCAGTTG 61.183 63.158 18.34 0.76 0.00 3.16
5359 5517 2.190578 GCTGATAGCGCCCCAGTT 59.809 61.111 18.34 0.00 0.00 3.16
5360 5518 3.866582 GGCTGATAGCGCCCCAGT 61.867 66.667 18.34 0.00 43.62 4.00
5361 5519 4.976925 CGGCTGATAGCGCCCCAG 62.977 72.222 2.29 10.44 43.62 4.45
5382 5540 3.898627 AAGAGAGCGCGACACGTGG 62.899 63.158 21.57 3.72 46.11 4.94
5383 5541 2.429236 AAGAGAGCGCGACACGTG 60.429 61.111 15.48 15.48 46.11 4.49
5384 5542 2.126812 GAAGAGAGCGCGACACGT 60.127 61.111 12.10 0.00 46.11 4.49
5386 5544 0.179150 ATCTGAAGAGAGCGCGACAC 60.179 55.000 12.10 1.09 0.00 3.67
5387 5545 0.528017 AATCTGAAGAGAGCGCGACA 59.472 50.000 12.10 0.00 0.00 4.35
5388 5546 1.634702 AAATCTGAAGAGAGCGCGAC 58.365 50.000 12.10 2.22 0.00 5.19
5389 5547 2.370281 AAAATCTGAAGAGAGCGCGA 57.630 45.000 12.10 0.00 0.00 5.87
5453 5611 6.092807 CCGATGGAAAACCAAAAGTTCAAAAA 59.907 34.615 0.00 0.00 37.88 1.94
5454 5612 5.582665 CCGATGGAAAACCAAAAGTTCAAAA 59.417 36.000 0.00 0.00 37.88 2.44
5455 5613 5.112686 CCGATGGAAAACCAAAAGTTCAAA 58.887 37.500 0.00 0.00 37.88 2.69
5456 5614 4.688021 CCGATGGAAAACCAAAAGTTCAA 58.312 39.130 0.00 0.00 37.88 2.69
5457 5615 3.491792 GCCGATGGAAAACCAAAAGTTCA 60.492 43.478 0.00 0.00 37.88 3.18
5458 5616 3.057019 GCCGATGGAAAACCAAAAGTTC 58.943 45.455 0.00 0.00 37.88 3.01
5459 5617 2.224185 GGCCGATGGAAAACCAAAAGTT 60.224 45.455 0.00 0.00 41.81 2.66
5460 5618 1.343142 GGCCGATGGAAAACCAAAAGT 59.657 47.619 0.00 0.00 0.00 2.66
5461 5619 1.618343 AGGCCGATGGAAAACCAAAAG 59.382 47.619 0.00 0.00 0.00 2.27
5462 5620 1.710816 AGGCCGATGGAAAACCAAAA 58.289 45.000 0.00 0.00 0.00 2.44
5463 5621 1.710816 AAGGCCGATGGAAAACCAAA 58.289 45.000 0.00 0.00 0.00 3.28
5464 5622 2.442413 CTAAGGCCGATGGAAAACCAA 58.558 47.619 0.00 0.00 0.00 3.67
5465 5623 1.953311 GCTAAGGCCGATGGAAAACCA 60.953 52.381 0.00 0.00 0.00 3.67
5466 5624 0.738975 GCTAAGGCCGATGGAAAACC 59.261 55.000 0.00 0.00 0.00 3.27
5467 5625 1.751437 AGCTAAGGCCGATGGAAAAC 58.249 50.000 0.00 0.00 39.73 2.43
5468 5626 2.507407 AAGCTAAGGCCGATGGAAAA 57.493 45.000 0.00 0.00 39.73 2.29
5469 5627 2.491693 CAAAAGCTAAGGCCGATGGAAA 59.508 45.455 0.00 0.00 39.73 3.13
5470 5628 2.091541 CAAAAGCTAAGGCCGATGGAA 58.908 47.619 0.00 0.00 39.73 3.53
5471 5629 1.681780 CCAAAAGCTAAGGCCGATGGA 60.682 52.381 0.00 0.00 37.06 3.41
5472 5630 0.740737 CCAAAAGCTAAGGCCGATGG 59.259 55.000 0.00 0.00 39.73 3.51
5473 5631 1.401905 GTCCAAAAGCTAAGGCCGATG 59.598 52.381 0.00 0.00 39.73 3.84
5474 5632 1.004277 TGTCCAAAAGCTAAGGCCGAT 59.996 47.619 0.00 0.00 39.73 4.18
5475 5633 0.398696 TGTCCAAAAGCTAAGGCCGA 59.601 50.000 0.00 0.00 39.73 5.54
5476 5634 1.243902 TTGTCCAAAAGCTAAGGCCG 58.756 50.000 0.00 0.00 39.73 6.13
5477 5635 2.628178 ACTTTGTCCAAAAGCTAAGGCC 59.372 45.455 0.00 0.00 39.73 5.19
5478 5636 3.642705 CACTTTGTCCAAAAGCTAAGGC 58.357 45.455 0.00 0.00 39.06 4.35
5479 5637 3.319122 AGCACTTTGTCCAAAAGCTAAGG 59.681 43.478 14.17 0.00 38.85 2.69
5480 5638 4.574599 AGCACTTTGTCCAAAAGCTAAG 57.425 40.909 14.17 0.00 38.85 2.18
5481 5639 4.681744 CAAGCACTTTGTCCAAAAGCTAA 58.318 39.130 15.42 0.00 39.34 3.09
5482 5640 4.305989 CAAGCACTTTGTCCAAAAGCTA 57.694 40.909 15.42 0.00 39.34 3.32
5483 5641 3.169355 CAAGCACTTTGTCCAAAAGCT 57.831 42.857 11.42 11.42 40.86 3.74
5538 6861 2.038329 CGGTCACCTCCCCCACTA 59.962 66.667 0.00 0.00 0.00 2.74
5600 6925 2.046314 CCACCTCGATGGCCGTTT 60.046 61.111 0.00 0.00 40.22 3.60
5603 6928 4.838152 CCACCACCTCGATGGCCG 62.838 72.222 4.93 0.00 44.33 6.13
5672 6997 7.557719 TGAAATATTTTCAGATTGAGGTCTCCC 59.442 37.037 1.43 0.00 0.00 4.30
5674 6999 8.950210 TGTGAAATATTTTCAGATTGAGGTCTC 58.050 33.333 1.43 0.00 0.00 3.36
5675 7000 8.868522 TGTGAAATATTTTCAGATTGAGGTCT 57.131 30.769 1.43 0.00 0.00 3.85
5676 7001 9.912634 TTTGTGAAATATTTTCAGATTGAGGTC 57.087 29.630 1.43 0.00 0.00 3.85
5683 7008 9.657419 GGACCATTTTGTGAAATATTTTCAGAT 57.343 29.630 1.43 2.20 33.78 2.90
5684 7009 8.869109 AGGACCATTTTGTGAAATATTTTCAGA 58.131 29.630 1.43 0.00 33.78 3.27
5685 7010 9.143631 GAGGACCATTTTGTGAAATATTTTCAG 57.856 33.333 1.43 0.00 33.78 3.02
5686 7011 8.869109 AGAGGACCATTTTGTGAAATATTTTCA 58.131 29.630 1.43 2.91 33.78 2.69
5687 7012 9.710900 AAGAGGACCATTTTGTGAAATATTTTC 57.289 29.630 1.43 0.32 33.78 2.29
5690 7015 9.492973 CAAAAGAGGACCATTTTGTGAAATATT 57.507 29.630 19.45 0.00 40.09 1.28
5691 7016 7.603784 GCAAAAGAGGACCATTTTGTGAAATAT 59.396 33.333 24.49 0.00 44.48 1.28
5692 7017 6.928492 GCAAAAGAGGACCATTTTGTGAAATA 59.072 34.615 24.49 0.00 44.48 1.40
5693 7018 5.759763 GCAAAAGAGGACCATTTTGTGAAAT 59.240 36.000 24.49 0.00 44.48 2.17
5694 7019 5.115480 GCAAAAGAGGACCATTTTGTGAAA 58.885 37.500 24.49 0.00 44.48 2.69
5695 7020 4.161189 TGCAAAAGAGGACCATTTTGTGAA 59.839 37.500 24.49 14.44 44.48 3.18
5696 7021 3.703556 TGCAAAAGAGGACCATTTTGTGA 59.296 39.130 24.49 15.05 44.48 3.58
5697 7022 4.057406 TGCAAAAGAGGACCATTTTGTG 57.943 40.909 24.49 10.77 44.48 3.33
5698 7023 4.344679 TCATGCAAAAGAGGACCATTTTGT 59.655 37.500 24.49 11.68 44.48 2.83
5699 7024 4.687483 GTCATGCAAAAGAGGACCATTTTG 59.313 41.667 21.80 21.80 45.10 2.44
5700 7025 4.559300 CGTCATGCAAAAGAGGACCATTTT 60.559 41.667 0.00 0.00 0.00 1.82
5701 7026 3.057315 CGTCATGCAAAAGAGGACCATTT 60.057 43.478 0.00 0.00 0.00 2.32
5702 7027 2.489329 CGTCATGCAAAAGAGGACCATT 59.511 45.455 0.00 0.00 0.00 3.16
5703 7028 2.086869 CGTCATGCAAAAGAGGACCAT 58.913 47.619 0.00 0.00 0.00 3.55
5704 7029 1.522668 CGTCATGCAAAAGAGGACCA 58.477 50.000 0.00 0.00 0.00 4.02
5705 7030 0.169009 GCGTCATGCAAAAGAGGACC 59.831 55.000 9.98 0.00 45.45 4.46
5706 7031 3.683581 GCGTCATGCAAAAGAGGAC 57.316 52.632 9.98 2.69 45.45 3.85
5730 7055 0.749454 CTCCAACATGGCACCCTAGC 60.749 60.000 0.00 0.00 37.47 3.42
5731 7056 0.911769 TCTCCAACATGGCACCCTAG 59.088 55.000 0.00 0.00 37.47 3.02
5732 7057 0.911769 CTCTCCAACATGGCACCCTA 59.088 55.000 0.00 0.00 37.47 3.53
5733 7058 1.687612 CTCTCCAACATGGCACCCT 59.312 57.895 0.00 0.00 37.47 4.34
5734 7059 1.379044 CCTCTCCAACATGGCACCC 60.379 63.158 0.00 0.00 37.47 4.61
5735 7060 0.257039 ATCCTCTCCAACATGGCACC 59.743 55.000 0.00 0.00 37.47 5.01
5736 7061 1.065199 TCATCCTCTCCAACATGGCAC 60.065 52.381 0.00 0.00 37.47 5.01
5737 7062 1.065199 GTCATCCTCTCCAACATGGCA 60.065 52.381 0.00 0.00 37.47 4.92
5738 7063 1.673168 GTCATCCTCTCCAACATGGC 58.327 55.000 0.00 0.00 37.47 4.40
5739 7064 1.945387 CGTCATCCTCTCCAACATGG 58.055 55.000 0.00 0.00 39.43 3.66
5740 7065 1.293924 GCGTCATCCTCTCCAACATG 58.706 55.000 0.00 0.00 0.00 3.21
5741 7066 0.179000 GGCGTCATCCTCTCCAACAT 59.821 55.000 0.00 0.00 0.00 2.71
5742 7067 1.596934 GGCGTCATCCTCTCCAACA 59.403 57.895 0.00 0.00 0.00 3.33
5743 7068 1.153349 GGGCGTCATCCTCTCCAAC 60.153 63.158 0.00 0.00 0.00 3.77
5744 7069 2.367202 GGGGCGTCATCCTCTCCAA 61.367 63.158 0.00 0.00 0.00 3.53
5745 7070 2.764128 GGGGCGTCATCCTCTCCA 60.764 66.667 0.00 0.00 0.00 3.86
5746 7071 3.917760 CGGGGCGTCATCCTCTCC 61.918 72.222 0.00 0.00 0.00 3.71
5747 7072 3.917760 CCGGGGCGTCATCCTCTC 61.918 72.222 0.00 0.00 0.00 3.20
5761 7086 4.609018 CATGACGCCCTAGCCCGG 62.609 72.222 0.00 0.00 34.57 5.73
5762 7087 4.609018 CCATGACGCCCTAGCCCG 62.609 72.222 0.00 0.00 34.57 6.13
5763 7088 2.100879 CTACCATGACGCCCTAGCCC 62.101 65.000 0.00 0.00 34.57 5.19
5764 7089 1.367840 CTACCATGACGCCCTAGCC 59.632 63.158 0.00 0.00 34.57 3.93
5765 7090 1.301009 GCTACCATGACGCCCTAGC 60.301 63.158 0.00 0.00 0.00 3.42
5766 7091 1.007271 CGCTACCATGACGCCCTAG 60.007 63.158 0.00 0.00 0.00 3.02
5767 7092 1.454295 TCGCTACCATGACGCCCTA 60.454 57.895 0.00 0.00 0.00 3.53
5768 7093 2.758327 TCGCTACCATGACGCCCT 60.758 61.111 0.00 0.00 0.00 5.19
5769 7094 2.585247 GTCGCTACCATGACGCCC 60.585 66.667 0.00 0.00 0.00 6.13
5770 7095 1.227263 ATGTCGCTACCATGACGCC 60.227 57.895 0.00 0.00 37.94 5.68
5771 7096 0.806102 ACATGTCGCTACCATGACGC 60.806 55.000 12.32 0.00 41.78 5.19
5772 7097 2.385315 CTACATGTCGCTACCATGACG 58.615 52.381 0.00 0.00 41.78 4.35
5773 7098 2.128035 GCTACATGTCGCTACCATGAC 58.872 52.381 14.69 0.00 41.78 3.06
5774 7099 1.754226 TGCTACATGTCGCTACCATGA 59.246 47.619 21.42 0.00 41.78 3.07
5775 7100 2.223537 TGCTACATGTCGCTACCATG 57.776 50.000 21.42 0.00 44.17 3.66
5776 7101 2.365293 TCATGCTACATGTCGCTACCAT 59.635 45.455 21.42 5.62 0.00 3.55
5777 7102 1.754226 TCATGCTACATGTCGCTACCA 59.246 47.619 21.42 3.45 0.00 3.25
5778 7103 2.128035 GTCATGCTACATGTCGCTACC 58.872 52.381 21.42 5.31 0.00 3.18
5779 7104 1.781429 CGTCATGCTACATGTCGCTAC 59.219 52.381 21.42 15.37 0.00 3.58
5780 7105 1.864029 GCGTCATGCTACATGTCGCTA 60.864 52.381 30.59 9.79 46.93 4.26
5781 7106 1.148157 GCGTCATGCTACATGTCGCT 61.148 55.000 30.59 6.26 46.93 4.93
5782 7107 1.273887 GCGTCATGCTACATGTCGC 59.726 57.895 26.88 26.88 45.39 5.19
5783 7108 1.490693 GGGCGTCATGCTACATGTCG 61.491 60.000 18.39 18.39 45.43 4.35
5784 7109 1.160329 GGGGCGTCATGCTACATGTC 61.160 60.000 0.00 1.61 45.43 3.06
5785 7110 1.153168 GGGGCGTCATGCTACATGT 60.153 57.895 2.69 2.69 45.43 3.21
5786 7111 2.246739 CGGGGCGTCATGCTACATG 61.247 63.158 1.05 1.05 45.43 3.21
5787 7112 2.108976 CGGGGCGTCATGCTACAT 59.891 61.111 0.00 0.00 45.43 2.29
5788 7113 4.155733 CCGGGGCGTCATGCTACA 62.156 66.667 0.00 0.00 45.43 2.74
5789 7114 4.157120 ACCGGGGCGTCATGCTAC 62.157 66.667 6.32 0.00 45.43 3.58
5790 7115 2.914756 TAGACCGGGGCGTCATGCTA 62.915 60.000 6.32 0.00 45.43 3.49
5792 7117 3.792053 CTAGACCGGGGCGTCATGC 62.792 68.421 6.32 0.00 45.38 4.06
5793 7118 2.417516 CTAGACCGGGGCGTCATG 59.582 66.667 6.32 0.00 35.07 3.07
5794 7119 2.838225 CCTAGACCGGGGCGTCAT 60.838 66.667 6.32 0.00 35.07 3.06


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

AutoCloner maintained by Alex Coulton.