Multiple sequence alignment - TraesCS6D01G051900

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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 TraesCS6D01G051900 chr6D 100.000 4610 0 0 1 4610 24751768 24747159 0.000000e+00 8514.0
1 TraesCS6D01G051900 chr6D 79.007 886 147 25 84 959 400783 399927 1.860000e-158 569.0
2 TraesCS6D01G051900 chr6D 83.660 612 87 9 238 849 687620 688218 8.660000e-157 564.0
3 TraesCS6D01G051900 chr6A 96.293 4262 132 13 94 4347 9015799 9011556 0.000000e+00 6972.0
4 TraesCS6D01G051900 chr6A 82.021 940 133 20 9 942 1757934 1757025 0.000000e+00 767.0
5 TraesCS6D01G051900 chr6A 93.814 97 4 2 1 96 9016654 9016559 1.340000e-30 145.0
6 TraesCS6D01G051900 chr6B 96.153 4185 139 11 121 4303 15277747 15273583 0.000000e+00 6817.0
7 TraesCS6D01G051900 chr6B 85.394 2588 349 22 960 3527 65090246 65087668 0.000000e+00 2658.0
8 TraesCS6D01G051900 chr6B 78.941 793 145 16 168 956 2716261 2717035 1.900000e-143 520.0
9 TraesCS6D01G051900 chr6B 79.422 277 45 11 3747 4016 402076904 402077175 7.880000e-43 185.0
10 TraesCS6D01G051900 chr1B 87.698 2585 313 5 943 3525 2917467 2920048 0.000000e+00 3007.0
11 TraesCS6D01G051900 chr1B 82.982 758 113 8 84 841 2915880 2916621 0.000000e+00 671.0
12 TraesCS6D01G051900 chr1B 90.769 65 6 0 4196 4260 149866637 149866573 2.280000e-13 87.9
13 TraesCS6D01G051900 chr4B 85.334 2591 358 21 954 3533 650656511 650659090 0.000000e+00 2660.0
14 TraesCS6D01G051900 chr5D 85.288 2583 358 18 954 3527 369019466 369022035 0.000000e+00 2645.0
15 TraesCS6D01G051900 chr4A 84.141 2579 381 25 967 3526 657097704 657100273 0.000000e+00 2471.0
16 TraesCS6D01G051900 chr4A 84.034 2568 392 17 969 3527 730948224 730950782 0.000000e+00 2455.0
17 TraesCS6D01G051900 chr4A 83.506 770 117 7 182 948 730947513 730948275 0.000000e+00 710.0
18 TraesCS6D01G051900 chr4A 89.591 269 22 4 4342 4610 663657899 663658161 2.050000e-88 337.0
19 TraesCS6D01G051900 chr3A 83.816 2626 393 19 956 3561 36661977 36659364 0.000000e+00 2466.0
20 TraesCS6D01G051900 chr3A 80.645 279 39 13 3748 4018 128269114 128269385 7.820000e-48 202.0
21 TraesCS6D01G051900 chr3A 86.517 89 10 2 4018 4106 529004756 529004842 3.800000e-16 97.1
22 TraesCS6D01G051900 chr3A 92.308 65 5 0 4196 4260 39145809 39145745 4.910000e-15 93.5
23 TraesCS6D01G051900 chr7D 84.002 2569 391 18 969 3527 9183020 9185578 0.000000e+00 2449.0
24 TraesCS6D01G051900 chr7D 83.740 738 112 5 212 948 9182341 9183071 0.000000e+00 691.0
25 TraesCS6D01G051900 chr7D 89.630 270 23 3 4342 4610 24636377 24636642 5.710000e-89 339.0
26 TraesCS6D01G051900 chr7D 89.591 269 23 3 4342 4610 584202334 584202071 2.050000e-88 337.0
27 TraesCS6D01G051900 chr3D 91.078 269 19 3 4342 4610 530382324 530382587 4.390000e-95 359.0
28 TraesCS6D01G051900 chr3D 80.000 280 41 13 3747 4018 122440175 122440447 4.710000e-45 193.0
29 TraesCS6D01G051900 chr3D 76.419 229 41 13 3794 4016 97052918 97053139 1.360000e-20 111.0
30 TraesCS6D01G051900 chr4D 90.706 269 20 3 4342 4610 487659129 487659392 2.040000e-93 353.0
31 TraesCS6D01G051900 chr1D 90.335 269 22 2 4342 4610 17994297 17994033 2.640000e-92 350.0
32 TraesCS6D01G051900 chr1D 89.219 269 25 2 4342 4610 296527039 296526775 2.660000e-87 333.0
33 TraesCS6D01G051900 chr2B 89.963 269 22 3 4342 4610 236609542 236609279 4.420000e-90 342.0
34 TraesCS6D01G051900 chr2B 79.577 284 44 13 3747 4023 614952065 614951789 1.690000e-44 191.0
35 TraesCS6D01G051900 chr2B 88.750 80 8 1 4028 4106 277632435 277632356 3.800000e-16 97.1
36 TraesCS6D01G051900 chr2B 90.476 63 6 0 4198 4260 280305215 280305277 2.960000e-12 84.2
37 TraesCS6D01G051900 chr2B 88.889 63 7 0 4198 4260 332452531 332452469 1.380000e-10 78.7
38 TraesCS6D01G051900 chr1A 89.513 267 26 2 4342 4608 579524670 579524934 2.050000e-88 337.0
39 TraesCS6D01G051900 chr2D 82.684 231 30 9 3747 3971 185948940 185949166 3.640000e-46 196.0
40 TraesCS6D01G051900 chr2D 79.927 274 48 7 3745 4014 241865408 241865138 1.310000e-45 195.0
41 TraesCS6D01G051900 chr2A 79.715 281 45 12 3740 4013 30431860 30431585 4.710000e-45 193.0
42 TraesCS6D01G051900 chr5A 91.837 49 3 1 4212 4260 102748256 102748209 2.980000e-07 67.6


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 TraesCS6D01G051900 chr6D 24747159 24751768 4609 True 8514.0 8514 100.0000 1 4610 1 chr6D.!!$R2 4609
1 TraesCS6D01G051900 chr6D 399927 400783 856 True 569.0 569 79.0070 84 959 1 chr6D.!!$R1 875
2 TraesCS6D01G051900 chr6D 687620 688218 598 False 564.0 564 83.6600 238 849 1 chr6D.!!$F1 611
3 TraesCS6D01G051900 chr6A 9011556 9016654 5098 True 3558.5 6972 95.0535 1 4347 2 chr6A.!!$R2 4346
4 TraesCS6D01G051900 chr6A 1757025 1757934 909 True 767.0 767 82.0210 9 942 1 chr6A.!!$R1 933
5 TraesCS6D01G051900 chr6B 15273583 15277747 4164 True 6817.0 6817 96.1530 121 4303 1 chr6B.!!$R1 4182
6 TraesCS6D01G051900 chr6B 65087668 65090246 2578 True 2658.0 2658 85.3940 960 3527 1 chr6B.!!$R2 2567
7 TraesCS6D01G051900 chr6B 2716261 2717035 774 False 520.0 520 78.9410 168 956 1 chr6B.!!$F1 788
8 TraesCS6D01G051900 chr1B 2915880 2920048 4168 False 1839.0 3007 85.3400 84 3525 2 chr1B.!!$F1 3441
9 TraesCS6D01G051900 chr4B 650656511 650659090 2579 False 2660.0 2660 85.3340 954 3533 1 chr4B.!!$F1 2579
10 TraesCS6D01G051900 chr5D 369019466 369022035 2569 False 2645.0 2645 85.2880 954 3527 1 chr5D.!!$F1 2573
11 TraesCS6D01G051900 chr4A 657097704 657100273 2569 False 2471.0 2471 84.1410 967 3526 1 chr4A.!!$F1 2559
12 TraesCS6D01G051900 chr4A 730947513 730950782 3269 False 1582.5 2455 83.7700 182 3527 2 chr4A.!!$F3 3345
13 TraesCS6D01G051900 chr3A 36659364 36661977 2613 True 2466.0 2466 83.8160 956 3561 1 chr3A.!!$R1 2605
14 TraesCS6D01G051900 chr7D 9182341 9185578 3237 False 1570.0 2449 83.8710 212 3527 2 chr7D.!!$F2 3315

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
208 986 1.705186 ACCCACATGACCAACTAAGCT 59.295 47.619 0.00 0.0 0.0 3.74 F
1092 2698 1.378531 TGGCAGTATTTGATGTCGGC 58.621 50.000 0.00 0.0 0.0 5.54 F
1960 3566 2.159476 CCCGACAGCATTCAGAATTGTG 60.159 50.000 5.36 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2111 3717 0.395311 TGCTAGGTACAGTCCCTCCG 60.395 60.0 0.00 0.0 33.35 4.63 R
2836 4451 1.961793 AGGCTGAGCGTGTTGTTTAA 58.038 45.0 0.00 0.0 0.00 1.52 R
3643 5264 0.399091 TGGGCCCCATGACAAACAAA 60.399 50.0 22.27 0.0 0.00 2.83 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
65 66 4.469657 AGTCTTTGCTCAACCATGGTAAA 58.530 39.130 20.12 13.43 0.00 2.01
76 77 6.486056 TCAACCATGGTAAATTAACAGCCTA 58.514 36.000 20.12 0.00 0.00 3.93
133 903 5.495640 ACTCTTCATCAAGGTGGAGATTTC 58.504 41.667 0.00 0.00 33.36 2.17
150 920 2.477972 TTCGAGAGCTGTGCTGACGG 62.478 60.000 0.00 0.00 39.88 4.79
151 921 2.965783 GAGAGCTGTGCTGACGGA 59.034 61.111 0.00 0.00 39.88 4.69
153 923 2.147315 GAGAGCTGTGCTGACGGACA 62.147 60.000 0.00 0.00 39.88 4.02
180 950 7.880160 AAGCTCAATATTATTACCACAGCAA 57.120 32.000 0.00 0.00 0.00 3.91
208 986 1.705186 ACCCACATGACCAACTAAGCT 59.295 47.619 0.00 0.00 0.00 3.74
209 987 2.910319 ACCCACATGACCAACTAAGCTA 59.090 45.455 0.00 0.00 0.00 3.32
210 988 3.329520 ACCCACATGACCAACTAAGCTAA 59.670 43.478 0.00 0.00 0.00 3.09
300 1083 5.014123 AGGGACACAAAAATAGAGGTGATCA 59.986 40.000 0.00 0.00 35.33 2.92
348 1131 4.980805 TGCCGTCCTGTTGGTCGC 62.981 66.667 0.00 0.00 42.11 5.19
730 1519 4.080469 AGCATGACTGAAATGAGACTGGAT 60.080 41.667 0.00 0.00 0.00 3.41
798 1587 2.899900 TCAAGTACCTGACAGTGCTCAT 59.100 45.455 0.93 0.00 30.81 2.90
942 2547 3.807553 TCCAGAGCATGCGATATTTCAA 58.192 40.909 13.01 0.00 0.00 2.69
1076 2682 1.803334 TACAACTGGTCGTCATTGGC 58.197 50.000 0.00 0.00 0.00 4.52
1092 2698 1.378531 TGGCAGTATTTGATGTCGGC 58.621 50.000 0.00 0.00 0.00 5.54
1286 2892 2.825836 CACATTGGGGAGGCTCGC 60.826 66.667 22.20 22.20 0.00 5.03
1695 3301 5.692115 TGAGTATCCTTTCTGCATACCAA 57.308 39.130 0.00 0.00 0.00 3.67
1960 3566 2.159476 CCCGACAGCATTCAGAATTGTG 60.159 50.000 5.36 0.00 0.00 3.33
2111 3717 3.288092 CCCTTGGTAGCATTAGAAACCC 58.712 50.000 0.00 0.00 0.00 4.11
2142 3748 4.124238 TGTACCTAGCACACAACAACTTC 58.876 43.478 0.00 0.00 0.00 3.01
2314 3920 3.568007 TGGTACACCTCAACTTCATTTGC 59.432 43.478 0.00 0.00 36.82 3.68
2585 4200 7.336396 AGAGGAAGTTATGGTGTGGTTTATAC 58.664 38.462 0.00 0.00 0.00 1.47
2703 4318 2.273370 TGAGAAGAATACGACACCGC 57.727 50.000 0.00 0.00 39.95 5.68
2836 4451 2.629617 CCAAAATCACAAGAGCCCACTT 59.370 45.455 0.00 0.00 0.00 3.16
2880 4495 4.443457 GCCCAGAGACTTGATATTGCTGTA 60.443 45.833 0.00 0.00 0.00 2.74
2925 4540 7.928307 ATATTTGCACAACTACTGTCAATCT 57.072 32.000 0.00 0.00 35.47 2.40
3373 4994 3.091545 CCCAACAATCTGGCTACACAAT 58.908 45.455 0.00 0.00 34.88 2.71
3602 5223 6.430962 TTGAGCTAGAATGATATGAGCCTT 57.569 37.500 0.00 0.00 33.50 4.35
3643 5264 6.942532 ATGTATGTCACTTCAGTTTGTGTT 57.057 33.333 0.00 0.00 35.82 3.32
3655 5276 6.702972 TCAGTTTGTGTTTTGTTTGTCATG 57.297 33.333 0.00 0.00 0.00 3.07
3678 5299 3.823304 GGGCCCATTTTATTTGCAACAAA 59.177 39.130 19.95 0.00 0.00 2.83
3679 5300 4.279420 GGGCCCATTTTATTTGCAACAAAA 59.721 37.500 19.95 16.40 0.00 2.44
3695 5316 7.370383 TGCAACAAAATGAGGTCTCTATTTTC 58.630 34.615 13.16 7.42 32.94 2.29
3863 5484 7.202029 CCCTAGCACCAAATGGAATTCAAATAT 60.202 37.037 7.93 0.00 33.67 1.28
3950 5575 4.529716 AGGTGGAAACCTAAACCAGAAA 57.470 40.909 0.00 0.00 38.58 2.52
3971 5596 3.931907 TGGTGCACATTTAGCTAGGAT 57.068 42.857 20.43 0.00 0.00 3.24
4065 5690 1.204146 TGTGAGGGGCTCTGGAATAC 58.796 55.000 0.00 0.00 0.00 1.89
4188 5814 0.538287 GGAAAACTCACCTGGCAGCT 60.538 55.000 9.56 0.00 0.00 4.24
4227 5853 1.050988 GCAGCCTCCTCCCTGTCATA 61.051 60.000 0.00 0.00 0.00 2.15
4303 5929 0.620556 CCTGGAGGCCTCTAAAAGCA 59.379 55.000 31.36 18.42 0.00 3.91
4304 5930 1.213926 CCTGGAGGCCTCTAAAAGCAT 59.786 52.381 31.36 0.00 0.00 3.79
4309 5935 1.017387 GGCCTCTAAAAGCATCACGG 58.983 55.000 0.00 0.00 0.00 4.94
4315 5941 0.250945 TAAAAGCATCACGGCACCCA 60.251 50.000 0.00 0.00 35.83 4.51
4347 5973 1.617536 AGCTCCTCCCCATGCTCAA 60.618 57.895 0.00 0.00 0.00 3.02
4348 5974 1.210204 AGCTCCTCCCCATGCTCAAA 61.210 55.000 0.00 0.00 0.00 2.69
4349 5975 0.106318 GCTCCTCCCCATGCTCAAAT 60.106 55.000 0.00 0.00 0.00 2.32
4350 5976 1.143684 GCTCCTCCCCATGCTCAAATA 59.856 52.381 0.00 0.00 0.00 1.40
4351 5977 2.224967 GCTCCTCCCCATGCTCAAATAT 60.225 50.000 0.00 0.00 0.00 1.28
4352 5978 3.418995 CTCCTCCCCATGCTCAAATATG 58.581 50.000 0.00 0.00 0.00 1.78
4353 5979 3.055328 TCCTCCCCATGCTCAAATATGA 58.945 45.455 0.00 0.00 0.00 2.15
4354 5980 3.659195 TCCTCCCCATGCTCAAATATGAT 59.341 43.478 0.00 0.00 34.37 2.45
4355 5981 3.762288 CCTCCCCATGCTCAAATATGATG 59.238 47.826 0.00 0.00 34.37 3.07
4356 5982 4.404640 CTCCCCATGCTCAAATATGATGT 58.595 43.478 0.00 0.00 34.37 3.06
4357 5983 5.515359 CCTCCCCATGCTCAAATATGATGTA 60.515 44.000 0.00 0.00 34.37 2.29
4358 5984 5.563592 TCCCCATGCTCAAATATGATGTAG 58.436 41.667 0.00 0.00 34.37 2.74
4359 5985 5.310331 TCCCCATGCTCAAATATGATGTAGA 59.690 40.000 0.00 0.00 34.37 2.59
4360 5986 6.012245 TCCCCATGCTCAAATATGATGTAGAT 60.012 38.462 0.00 0.00 34.37 1.98
4361 5987 7.182568 TCCCCATGCTCAAATATGATGTAGATA 59.817 37.037 0.00 0.00 34.37 1.98
4362 5988 7.997223 CCCCATGCTCAAATATGATGTAGATAT 59.003 37.037 0.00 0.00 34.37 1.63
4406 6032 8.798859 AGTGTTTCTCAAATAAGATATGTGCT 57.201 30.769 0.00 0.00 0.00 4.40
4407 6033 9.236006 AGTGTTTCTCAAATAAGATATGTGCTT 57.764 29.630 0.00 0.00 0.00 3.91
4408 6034 9.282247 GTGTTTCTCAAATAAGATATGTGCTTG 57.718 33.333 0.00 0.00 0.00 4.01
4409 6035 7.970061 TGTTTCTCAAATAAGATATGTGCTTGC 59.030 33.333 0.00 0.00 0.00 4.01
4410 6036 6.624352 TCTCAAATAAGATATGTGCTTGCC 57.376 37.500 0.00 0.00 0.00 4.52
4411 6037 5.532406 TCTCAAATAAGATATGTGCTTGCCC 59.468 40.000 0.00 0.00 0.00 5.36
4412 6038 5.199723 TCAAATAAGATATGTGCTTGCCCA 58.800 37.500 0.00 0.00 0.00 5.36
4413 6039 5.655974 TCAAATAAGATATGTGCTTGCCCAA 59.344 36.000 0.00 0.00 0.00 4.12
4414 6040 5.779529 AATAAGATATGTGCTTGCCCAAG 57.220 39.130 3.70 3.70 41.24 3.61
4415 6041 2.814805 AGATATGTGCTTGCCCAAGT 57.185 45.000 9.53 0.00 40.45 3.16
4416 6042 2.372264 AGATATGTGCTTGCCCAAGTG 58.628 47.619 9.53 0.00 40.45 3.16
4417 6043 1.406539 GATATGTGCTTGCCCAAGTGG 59.593 52.381 9.53 0.00 40.45 4.00
4428 6054 1.185315 CCCAAGTGGCCTATGTTTGG 58.815 55.000 3.32 10.42 38.37 3.28
4429 6055 1.272425 CCCAAGTGGCCTATGTTTGGA 60.272 52.381 19.14 0.00 40.52 3.53
4430 6056 2.094675 CCAAGTGGCCTATGTTTGGAG 58.905 52.381 3.32 0.00 40.52 3.86
4431 6057 2.094675 CAAGTGGCCTATGTTTGGAGG 58.905 52.381 3.32 0.00 35.78 4.30
4432 6058 0.625849 AGTGGCCTATGTTTGGAGGG 59.374 55.000 3.32 0.00 33.04 4.30
4433 6059 0.623723 GTGGCCTATGTTTGGAGGGA 59.376 55.000 3.32 0.00 33.04 4.20
4434 6060 1.005450 GTGGCCTATGTTTGGAGGGAA 59.995 52.381 3.32 0.00 33.04 3.97
4435 6061 1.005450 TGGCCTATGTTTGGAGGGAAC 59.995 52.381 3.32 0.00 33.04 3.62
4436 6062 1.005450 GGCCTATGTTTGGAGGGAACA 59.995 52.381 0.00 0.00 40.86 3.18
4437 6063 2.092323 GCCTATGTTTGGAGGGAACAC 58.908 52.381 0.00 0.00 39.57 3.32
4438 6064 2.723273 CCTATGTTTGGAGGGAACACC 58.277 52.381 0.00 0.00 39.57 4.16
4448 6074 4.081050 GGAACACCTCCAAGTGGC 57.919 61.111 0.00 0.00 44.67 5.01
4449 6075 1.603739 GGAACACCTCCAAGTGGCC 60.604 63.158 0.00 0.00 44.67 5.36
4450 6076 1.456287 GAACACCTCCAAGTGGCCT 59.544 57.895 3.32 0.00 42.28 5.19
4451 6077 0.690762 GAACACCTCCAAGTGGCCTA 59.309 55.000 3.32 0.00 42.28 3.93
4452 6078 1.282157 GAACACCTCCAAGTGGCCTAT 59.718 52.381 3.32 0.00 42.28 2.57
4453 6079 0.620556 ACACCTCCAAGTGGCCTATG 59.379 55.000 3.32 0.00 42.28 2.23
4454 6080 0.620556 CACCTCCAAGTGGCCTATGT 59.379 55.000 3.32 0.00 33.95 2.29
4455 6081 1.004745 CACCTCCAAGTGGCCTATGTT 59.995 52.381 3.32 0.00 33.95 2.71
4456 6082 1.710809 ACCTCCAAGTGGCCTATGTTT 59.289 47.619 3.32 0.00 34.44 2.83
4457 6083 2.110011 ACCTCCAAGTGGCCTATGTTTT 59.890 45.455 3.32 0.00 34.44 2.43
4458 6084 2.493278 CCTCCAAGTGGCCTATGTTTTG 59.507 50.000 3.32 0.00 34.44 2.44
4459 6085 1.892474 TCCAAGTGGCCTATGTTTTGC 59.108 47.619 3.32 0.00 34.44 3.68
4460 6086 1.066929 CCAAGTGGCCTATGTTTTGCC 60.067 52.381 3.32 0.00 45.56 4.52
4465 6091 1.839424 GGCCTATGTTTTGCCAGAGT 58.161 50.000 0.00 0.00 44.70 3.24
4466 6092 1.474077 GGCCTATGTTTTGCCAGAGTG 59.526 52.381 0.00 0.00 44.70 3.51
4467 6093 2.162681 GCCTATGTTTTGCCAGAGTGT 58.837 47.619 0.00 0.00 0.00 3.55
4468 6094 2.558359 GCCTATGTTTTGCCAGAGTGTT 59.442 45.455 0.00 0.00 0.00 3.32
4469 6095 3.612479 GCCTATGTTTTGCCAGAGTGTTG 60.612 47.826 0.00 0.00 0.00 3.33
4470 6096 3.820467 CCTATGTTTTGCCAGAGTGTTGA 59.180 43.478 0.00 0.00 0.00 3.18
4471 6097 4.460382 CCTATGTTTTGCCAGAGTGTTGAT 59.540 41.667 0.00 0.00 0.00 2.57
4472 6098 4.942761 ATGTTTTGCCAGAGTGTTGATT 57.057 36.364 0.00 0.00 0.00 2.57
4473 6099 6.150976 CCTATGTTTTGCCAGAGTGTTGATTA 59.849 38.462 0.00 0.00 0.00 1.75
4474 6100 5.843673 TGTTTTGCCAGAGTGTTGATTAA 57.156 34.783 0.00 0.00 0.00 1.40
4475 6101 6.403866 TGTTTTGCCAGAGTGTTGATTAAT 57.596 33.333 0.00 0.00 0.00 1.40
4476 6102 6.815089 TGTTTTGCCAGAGTGTTGATTAATT 58.185 32.000 0.00 0.00 0.00 1.40
4477 6103 7.271511 TGTTTTGCCAGAGTGTTGATTAATTT 58.728 30.769 0.00 0.00 0.00 1.82
4478 6104 7.768120 TGTTTTGCCAGAGTGTTGATTAATTTT 59.232 29.630 0.00 0.00 0.00 1.82
4479 6105 7.945033 TTTGCCAGAGTGTTGATTAATTTTC 57.055 32.000 0.00 0.00 0.00 2.29
4480 6106 5.698832 TGCCAGAGTGTTGATTAATTTTCG 58.301 37.500 0.00 0.00 0.00 3.46
4481 6107 5.471797 TGCCAGAGTGTTGATTAATTTTCGA 59.528 36.000 0.00 0.00 0.00 3.71
4482 6108 6.150976 TGCCAGAGTGTTGATTAATTTTCGAT 59.849 34.615 0.00 0.00 0.00 3.59
4483 6109 6.688813 GCCAGAGTGTTGATTAATTTTCGATC 59.311 38.462 0.00 0.00 0.00 3.69
4484 6110 7.189512 CCAGAGTGTTGATTAATTTTCGATCC 58.810 38.462 0.00 0.00 0.00 3.36
4485 6111 6.901887 CAGAGTGTTGATTAATTTTCGATCCG 59.098 38.462 0.00 0.00 0.00 4.18
4486 6112 6.037172 AGAGTGTTGATTAATTTTCGATCCGG 59.963 38.462 0.00 0.00 0.00 5.14
4487 6113 4.733405 GTGTTGATTAATTTTCGATCCGGC 59.267 41.667 0.00 0.00 0.00 6.13
4488 6114 4.396478 TGTTGATTAATTTTCGATCCGGCA 59.604 37.500 0.00 0.00 0.00 5.69
4489 6115 5.106118 TGTTGATTAATTTTCGATCCGGCAA 60.106 36.000 0.00 0.00 0.00 4.52
4490 6116 5.568685 TGATTAATTTTCGATCCGGCAAA 57.431 34.783 0.00 0.00 0.00 3.68
4491 6117 6.142818 TGATTAATTTTCGATCCGGCAAAT 57.857 33.333 0.00 0.00 0.00 2.32
4492 6118 5.976534 TGATTAATTTTCGATCCGGCAAATG 59.023 36.000 0.00 0.00 0.00 2.32
4493 6119 3.866883 AATTTTCGATCCGGCAAATGT 57.133 38.095 0.00 0.00 0.00 2.71
4494 6120 2.911819 TTTTCGATCCGGCAAATGTC 57.088 45.000 0.00 0.00 0.00 3.06
4495 6121 1.814793 TTTCGATCCGGCAAATGTCA 58.185 45.000 0.00 0.00 0.00 3.58
4496 6122 1.368641 TTCGATCCGGCAAATGTCAG 58.631 50.000 0.00 0.00 0.00 3.51
4497 6123 0.461870 TCGATCCGGCAAATGTCAGG 60.462 55.000 0.00 0.00 0.00 3.86
4498 6124 1.729881 GATCCGGCAAATGTCAGGC 59.270 57.895 0.00 0.00 0.00 4.85
4501 6127 3.434319 CGGCAAATGTCAGGCGCT 61.434 61.111 7.64 0.00 46.46 5.92
4502 6128 2.486966 GGCAAATGTCAGGCGCTC 59.513 61.111 7.64 0.00 0.00 5.03
4503 6129 2.099062 GCAAATGTCAGGCGCTCG 59.901 61.111 7.64 0.00 0.00 5.03
4504 6130 2.390599 GCAAATGTCAGGCGCTCGA 61.391 57.895 7.64 0.28 0.00 4.04
4505 6131 1.709147 GCAAATGTCAGGCGCTCGAT 61.709 55.000 7.64 0.00 0.00 3.59
4506 6132 1.570813 CAAATGTCAGGCGCTCGATA 58.429 50.000 7.64 2.61 0.00 2.92
4507 6133 2.138320 CAAATGTCAGGCGCTCGATAT 58.862 47.619 7.64 5.16 0.00 1.63
4508 6134 1.788258 AATGTCAGGCGCTCGATATG 58.212 50.000 7.64 0.00 0.00 1.78
4509 6135 0.676184 ATGTCAGGCGCTCGATATGT 59.324 50.000 7.64 0.00 0.00 2.29
4510 6136 0.030773 TGTCAGGCGCTCGATATGTC 59.969 55.000 7.64 0.00 0.00 3.06
4511 6137 0.664767 GTCAGGCGCTCGATATGTCC 60.665 60.000 7.64 0.00 0.00 4.02
4512 6138 0.823769 TCAGGCGCTCGATATGTCCT 60.824 55.000 7.64 0.00 0.00 3.85
4513 6139 0.032678 CAGGCGCTCGATATGTCCTT 59.967 55.000 7.64 0.00 0.00 3.36
4514 6140 0.753262 AGGCGCTCGATATGTCCTTT 59.247 50.000 7.64 0.00 0.00 3.11
4515 6141 1.139058 AGGCGCTCGATATGTCCTTTT 59.861 47.619 7.64 0.00 0.00 2.27
4516 6142 1.940613 GGCGCTCGATATGTCCTTTTT 59.059 47.619 7.64 0.00 0.00 1.94
4539 6165 3.323751 GCAAAGGTCATGCTGGATTTT 57.676 42.857 0.00 0.00 40.64 1.82
4540 6166 3.667360 GCAAAGGTCATGCTGGATTTTT 58.333 40.909 0.00 0.00 40.64 1.94
4541 6167 3.681417 GCAAAGGTCATGCTGGATTTTTC 59.319 43.478 0.00 0.00 40.64 2.29
4542 6168 4.248058 CAAAGGTCATGCTGGATTTTTCC 58.752 43.478 0.00 0.00 0.00 3.13
4543 6169 2.094675 AGGTCATGCTGGATTTTTCCG 58.905 47.619 0.00 0.00 0.00 4.30
4544 6170 1.818674 GGTCATGCTGGATTTTTCCGT 59.181 47.619 0.00 0.00 0.00 4.69
4545 6171 2.415893 GGTCATGCTGGATTTTTCCGTG 60.416 50.000 0.00 0.00 0.00 4.94
4546 6172 1.818060 TCATGCTGGATTTTTCCGTGG 59.182 47.619 0.00 0.00 0.00 4.94
4547 6173 1.818060 CATGCTGGATTTTTCCGTGGA 59.182 47.619 0.00 0.00 0.00 4.02
4548 6174 2.214376 TGCTGGATTTTTCCGTGGAT 57.786 45.000 0.00 0.00 0.00 3.41
4549 6175 2.524306 TGCTGGATTTTTCCGTGGATT 58.476 42.857 0.00 0.00 0.00 3.01
4550 6176 2.896685 TGCTGGATTTTTCCGTGGATTT 59.103 40.909 0.00 0.00 0.00 2.17
4551 6177 3.253230 GCTGGATTTTTCCGTGGATTTG 58.747 45.455 0.00 0.00 0.00 2.32
4552 6178 3.056891 GCTGGATTTTTCCGTGGATTTGA 60.057 43.478 0.00 0.00 0.00 2.69
4553 6179 4.737054 CTGGATTTTTCCGTGGATTTGAG 58.263 43.478 0.00 0.00 0.00 3.02
4554 6180 3.056891 TGGATTTTTCCGTGGATTTGAGC 60.057 43.478 0.00 0.00 0.00 4.26
4555 6181 3.056891 GGATTTTTCCGTGGATTTGAGCA 60.057 43.478 0.00 0.00 0.00 4.26
4556 6182 4.381932 GGATTTTTCCGTGGATTTGAGCAT 60.382 41.667 0.00 0.00 0.00 3.79
4557 6183 3.574284 TTTTCCGTGGATTTGAGCATG 57.426 42.857 0.00 0.00 0.00 4.06
4558 6184 2.488204 TTCCGTGGATTTGAGCATGA 57.512 45.000 0.00 0.00 0.00 3.07
4559 6185 1.737838 TCCGTGGATTTGAGCATGAC 58.262 50.000 0.00 0.00 0.00 3.06
4560 6186 1.278985 TCCGTGGATTTGAGCATGACT 59.721 47.619 0.00 0.00 0.00 3.41
4561 6187 2.086869 CCGTGGATTTGAGCATGACTT 58.913 47.619 0.00 0.00 0.00 3.01
4562 6188 2.159476 CCGTGGATTTGAGCATGACTTG 60.159 50.000 0.00 0.00 0.00 3.16
4563 6189 2.485426 CGTGGATTTGAGCATGACTTGT 59.515 45.455 0.00 0.00 0.00 3.16
4564 6190 3.058016 CGTGGATTTGAGCATGACTTGTT 60.058 43.478 0.00 0.00 0.00 2.83
4565 6191 4.479619 GTGGATTTGAGCATGACTTGTTC 58.520 43.478 0.00 0.00 36.21 3.18
4566 6192 4.217118 GTGGATTTGAGCATGACTTGTTCT 59.783 41.667 0.00 0.00 36.59 3.01
4567 6193 5.412594 GTGGATTTGAGCATGACTTGTTCTA 59.587 40.000 0.00 0.00 36.59 2.10
4568 6194 5.645067 TGGATTTGAGCATGACTTGTTCTAG 59.355 40.000 0.00 0.00 36.59 2.43
4569 6195 5.877012 GGATTTGAGCATGACTTGTTCTAGA 59.123 40.000 0.00 0.00 36.59 2.43
4570 6196 6.372659 GGATTTGAGCATGACTTGTTCTAGAA 59.627 38.462 0.00 0.00 36.59 2.10
4571 6197 7.066766 GGATTTGAGCATGACTTGTTCTAGAAT 59.933 37.037 8.75 0.00 36.59 2.40
4572 6198 6.732531 TTGAGCATGACTTGTTCTAGAATG 57.267 37.500 8.75 2.06 36.59 2.67
4573 6199 5.798132 TGAGCATGACTTGTTCTAGAATGT 58.202 37.500 8.75 8.28 36.59 2.71
4574 6200 6.935167 TGAGCATGACTTGTTCTAGAATGTA 58.065 36.000 8.75 0.00 36.59 2.29
4575 6201 7.038048 TGAGCATGACTTGTTCTAGAATGTAG 58.962 38.462 8.75 8.83 36.59 2.74
4576 6202 6.940739 AGCATGACTTGTTCTAGAATGTAGT 58.059 36.000 8.75 11.81 0.00 2.73
4577 6203 8.067751 AGCATGACTTGTTCTAGAATGTAGTA 57.932 34.615 8.75 3.40 0.00 1.82
4578 6204 8.531982 AGCATGACTTGTTCTAGAATGTAGTAA 58.468 33.333 8.75 6.32 0.00 2.24
4579 6205 9.151471 GCATGACTTGTTCTAGAATGTAGTAAA 57.849 33.333 8.75 5.49 0.00 2.01
4590 6216 9.982651 TCTAGAATGTAGTAAATATTGAGTGCC 57.017 33.333 0.00 0.00 0.00 5.01
4591 6217 9.988815 CTAGAATGTAGTAAATATTGAGTGCCT 57.011 33.333 0.00 0.00 0.00 4.75
4593 6219 9.686683 AGAATGTAGTAAATATTGAGTGCCTTT 57.313 29.630 0.00 0.00 0.00 3.11
4594 6220 9.722056 GAATGTAGTAAATATTGAGTGCCTTTG 57.278 33.333 0.00 0.00 0.00 2.77
4595 6221 9.461312 AATGTAGTAAATATTGAGTGCCTTTGA 57.539 29.630 0.00 0.00 0.00 2.69
4596 6222 9.632638 ATGTAGTAAATATTGAGTGCCTTTGAT 57.367 29.630 0.00 0.00 0.00 2.57
4597 6223 9.461312 TGTAGTAAATATTGAGTGCCTTTGATT 57.539 29.630 0.00 0.00 0.00 2.57
4600 6226 6.973229 AAATATTGAGTGCCTTTGATTTGC 57.027 33.333 0.00 0.00 0.00 3.68
4601 6227 2.818130 TTGAGTGCCTTTGATTTGCC 57.182 45.000 0.00 0.00 0.00 4.52
4602 6228 0.597568 TGAGTGCCTTTGATTTGCCG 59.402 50.000 0.00 0.00 0.00 5.69
4603 6229 0.881118 GAGTGCCTTTGATTTGCCGA 59.119 50.000 0.00 0.00 0.00 5.54
4604 6230 1.269448 GAGTGCCTTTGATTTGCCGAA 59.731 47.619 0.00 0.00 0.00 4.30
4605 6231 1.686052 AGTGCCTTTGATTTGCCGAAA 59.314 42.857 0.00 0.00 0.00 3.46
4606 6232 2.102252 AGTGCCTTTGATTTGCCGAAAA 59.898 40.909 0.00 0.00 0.00 2.29
4607 6233 2.476241 GTGCCTTTGATTTGCCGAAAAG 59.524 45.455 0.00 0.00 0.00 2.27
4608 6234 2.363680 TGCCTTTGATTTGCCGAAAAGA 59.636 40.909 0.00 0.00 32.53 2.52
4609 6235 2.989166 GCCTTTGATTTGCCGAAAAGAG 59.011 45.455 0.00 0.00 32.53 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 66 4.619160 GCAAAGCAAAGCTAGGCTGTTAAT 60.619 41.667 12.28 0.00 39.62 1.40
76 77 1.137479 TCAGCAAAGCAAAGCAAAGCT 59.863 42.857 0.00 0.00 44.31 3.74
133 903 2.505777 CCGTCAGCACAGCTCTCG 60.506 66.667 0.00 0.00 36.40 4.04
150 920 9.109393 TGTGGTAATAATATTGAGCTTTCTGTC 57.891 33.333 0.00 0.00 0.00 3.51
151 921 9.113838 CTGTGGTAATAATATTGAGCTTTCTGT 57.886 33.333 0.00 0.00 0.00 3.41
153 923 7.775093 TGCTGTGGTAATAATATTGAGCTTTCT 59.225 33.333 0.00 0.00 0.00 2.52
154 924 7.930217 TGCTGTGGTAATAATATTGAGCTTTC 58.070 34.615 0.00 0.00 0.00 2.62
155 925 7.880160 TGCTGTGGTAATAATATTGAGCTTT 57.120 32.000 0.00 0.00 0.00 3.51
157 927 8.355169 CAATTGCTGTGGTAATAATATTGAGCT 58.645 33.333 0.00 0.00 0.00 4.09
158 928 7.115378 GCAATTGCTGTGGTAATAATATTGAGC 59.885 37.037 23.21 0.00 38.21 4.26
159 929 8.136800 TGCAATTGCTGTGGTAATAATATTGAG 58.863 33.333 29.37 0.00 42.66 3.02
160 930 8.005192 TGCAATTGCTGTGGTAATAATATTGA 57.995 30.769 29.37 1.18 42.66 2.57
161 931 8.542132 GTTGCAATTGCTGTGGTAATAATATTG 58.458 33.333 29.37 0.00 42.66 1.90
180 950 0.968405 GGTCATGTGGGTGTTGCAAT 59.032 50.000 0.59 0.00 0.00 3.56
209 987 9.534565 CGTGTTCCATATATATGCTAGCTTATT 57.465 33.333 23.60 15.31 32.40 1.40
210 988 7.653713 GCGTGTTCCATATATATGCTAGCTTAT 59.346 37.037 22.45 22.45 32.40 1.73
239 1022 2.167487 TGGTTTGGTTTGGAAGAAGCAC 59.833 45.455 0.00 0.00 36.82 4.40
798 1587 0.944386 GAAGCCGTTGTTTCTCAGCA 59.056 50.000 0.00 0.00 0.00 4.41
942 2547 5.551233 TCACAAGATTGTTTCCGAAGAGAT 58.449 37.500 0.00 0.00 39.91 2.75
1076 2682 2.809446 TCGAGCCGACATCAAATACTG 58.191 47.619 0.00 0.00 0.00 2.74
1092 2698 4.109766 TGCTTCCGTACAACATATTCGAG 58.890 43.478 0.00 0.00 0.00 4.04
1132 2738 1.531365 CCAACTTGGGGAGCTTGCA 60.531 57.895 0.00 0.00 32.67 4.08
1695 3301 1.778383 TGGCCCCTCCAAGTTTCCT 60.778 57.895 0.00 0.00 43.21 3.36
2111 3717 0.395311 TGCTAGGTACAGTCCCTCCG 60.395 60.000 0.00 0.00 33.35 4.63
2314 3920 4.428294 TCTTTCTTATGGAGCATGGAGG 57.572 45.455 0.00 0.00 0.00 4.30
2361 3976 7.413657 GCTCCAGCTATTACTAGAGAGATTACG 60.414 44.444 0.00 0.00 38.21 3.18
2585 4200 4.718858 TCTTCGTTGTCCAAAATACACG 57.281 40.909 0.00 0.00 0.00 4.49
2703 4318 8.750416 CAAGACGTAATGATCTTAATGAGACAG 58.250 37.037 0.00 0.00 37.17 3.51
2836 4451 1.961793 AGGCTGAGCGTGTTGTTTAA 58.038 45.000 0.00 0.00 0.00 1.52
3280 4901 5.503002 TGCAGATCCAATGAATCTCTGAAA 58.497 37.500 2.23 0.00 36.32 2.69
3373 4994 5.071250 ACTTGTAGTGTTATCCTGTTGTCCA 59.929 40.000 0.00 0.00 0.00 4.02
3602 5223 9.313118 GACATACATACACACATCTATTGTTGA 57.687 33.333 0.00 0.00 36.00 3.18
3643 5264 0.399091 TGGGCCCCATGACAAACAAA 60.399 50.000 22.27 0.00 0.00 2.83
3655 5276 2.290577 TGTTGCAAATAAAATGGGCCCC 60.291 45.455 22.27 0.85 0.00 5.80
3678 5299 9.440761 ACCTACATAGAAAATAGAGACCTCATT 57.559 33.333 0.00 0.00 0.00 2.57
3679 5300 9.440761 AACCTACATAGAAAATAGAGACCTCAT 57.559 33.333 0.00 0.00 0.00 2.90
3695 5316 8.581253 AAGAAATCTCCCAAAAACCTACATAG 57.419 34.615 0.00 0.00 0.00 2.23
3703 5324 9.541143 TCAAACAATAAGAAATCTCCCAAAAAC 57.459 29.630 0.00 0.00 0.00 2.43
3731 5352 2.440613 ACACCGGCAAAAACCCGT 60.441 55.556 0.00 0.00 44.13 5.28
3909 5534 4.957954 ACCTTGTGCCATAATCATGAACAT 59.042 37.500 0.00 0.00 33.67 2.71
3950 5575 3.931907 TCCTAGCTAAATGTGCACCAT 57.068 42.857 15.69 5.14 34.36 3.55
3964 5589 6.587273 ACTCAAAGACCAGAAATATCCTAGC 58.413 40.000 0.00 0.00 0.00 3.42
3971 5596 6.843752 TGGGTTAACTCAAAGACCAGAAATA 58.156 36.000 5.47 0.00 33.81 1.40
4039 5664 2.310538 CAGAGCCCCTCACAACTTTTT 58.689 47.619 0.00 0.00 32.06 1.94
4065 5690 9.495572 GATAATTTTTGTAGGGACTAGATGGAG 57.504 37.037 0.00 0.00 44.14 3.86
4227 5853 1.695597 CTCCTGGCAGGGGAGGAAT 60.696 63.158 30.21 0.00 38.47 3.01
4299 5925 2.672996 GTGGGTGCCGTGATGCTT 60.673 61.111 0.00 0.00 0.00 3.91
4303 5929 2.927856 TCCAGTGGGTGCCGTGAT 60.928 61.111 9.92 0.00 34.93 3.06
4304 5930 3.936203 GTCCAGTGGGTGCCGTGA 61.936 66.667 9.92 0.00 34.93 4.35
4315 5941 3.966930 GAGCTCGAGGGGGTCCAGT 62.967 68.421 15.58 0.00 34.83 4.00
4380 6006 9.890629 AGCACATATCTTATTTGAGAAACACTA 57.109 29.630 0.00 0.00 0.00 2.74
4381 6007 8.798859 AGCACATATCTTATTTGAGAAACACT 57.201 30.769 0.00 0.00 0.00 3.55
4382 6008 9.282247 CAAGCACATATCTTATTTGAGAAACAC 57.718 33.333 0.00 0.00 0.00 3.32
4383 6009 7.970061 GCAAGCACATATCTTATTTGAGAAACA 59.030 33.333 0.00 0.00 0.00 2.83
4384 6010 7.433425 GGCAAGCACATATCTTATTTGAGAAAC 59.567 37.037 0.00 0.00 0.00 2.78
4385 6011 7.416664 GGGCAAGCACATATCTTATTTGAGAAA 60.417 37.037 0.00 0.00 0.00 2.52
4386 6012 6.039717 GGGCAAGCACATATCTTATTTGAGAA 59.960 38.462 0.00 0.00 0.00 2.87
4387 6013 5.532406 GGGCAAGCACATATCTTATTTGAGA 59.468 40.000 0.00 0.00 0.00 3.27
4388 6014 5.300034 TGGGCAAGCACATATCTTATTTGAG 59.700 40.000 0.00 0.00 0.00 3.02
4389 6015 5.199723 TGGGCAAGCACATATCTTATTTGA 58.800 37.500 0.00 0.00 0.00 2.69
4390 6016 5.518848 TGGGCAAGCACATATCTTATTTG 57.481 39.130 0.00 0.00 0.00 2.32
4391 6017 5.658190 ACTTGGGCAAGCACATATCTTATTT 59.342 36.000 0.00 0.00 41.99 1.40
4392 6018 5.068198 CACTTGGGCAAGCACATATCTTATT 59.932 40.000 0.00 0.00 41.99 1.40
4393 6019 4.581824 CACTTGGGCAAGCACATATCTTAT 59.418 41.667 0.00 0.00 41.99 1.73
4394 6020 3.947196 CACTTGGGCAAGCACATATCTTA 59.053 43.478 0.00 0.00 41.99 2.10
4395 6021 2.756760 CACTTGGGCAAGCACATATCTT 59.243 45.455 0.00 0.00 41.99 2.40
4396 6022 2.372264 CACTTGGGCAAGCACATATCT 58.628 47.619 0.00 0.00 41.99 1.98
4397 6023 1.406539 CCACTTGGGCAAGCACATATC 59.593 52.381 0.00 0.00 41.99 1.63
4398 6024 1.477553 CCACTTGGGCAAGCACATAT 58.522 50.000 0.00 0.00 41.99 1.78
4399 6025 2.959967 CCACTTGGGCAAGCACATA 58.040 52.632 0.00 0.00 41.99 2.29
4400 6026 3.781760 CCACTTGGGCAAGCACAT 58.218 55.556 0.00 0.00 41.99 3.21
4409 6035 1.185315 CCAAACATAGGCCACTTGGG 58.815 55.000 5.01 0.00 40.85 4.12
4410 6036 2.094675 CTCCAAACATAGGCCACTTGG 58.905 52.381 5.01 10.11 38.31 3.61
4411 6037 2.094675 CCTCCAAACATAGGCCACTTG 58.905 52.381 5.01 1.10 0.00 3.16
4412 6038 1.005924 CCCTCCAAACATAGGCCACTT 59.994 52.381 5.01 0.00 0.00 3.16
4413 6039 0.625849 CCCTCCAAACATAGGCCACT 59.374 55.000 5.01 0.00 0.00 4.00
4414 6040 0.623723 TCCCTCCAAACATAGGCCAC 59.376 55.000 5.01 0.00 0.00 5.01
4415 6041 1.005450 GTTCCCTCCAAACATAGGCCA 59.995 52.381 5.01 0.00 0.00 5.36
4416 6042 1.005450 TGTTCCCTCCAAACATAGGCC 59.995 52.381 0.00 0.00 31.90 5.19
4417 6043 2.092323 GTGTTCCCTCCAAACATAGGC 58.908 52.381 0.00 0.00 38.75 3.93
4418 6044 2.308866 AGGTGTTCCCTCCAAACATAGG 59.691 50.000 0.00 0.00 40.71 2.57
4419 6045 3.721087 AGGTGTTCCCTCCAAACATAG 57.279 47.619 0.00 0.00 40.71 2.23
4430 6056 1.603739 GCCACTTGGAGGTGTTCCC 60.604 63.158 0.00 0.00 46.19 3.97
4431 6057 1.603739 GGCCACTTGGAGGTGTTCC 60.604 63.158 0.00 0.00 46.98 3.62
4432 6058 0.690762 TAGGCCACTTGGAGGTGTTC 59.309 55.000 5.01 0.00 37.39 3.18
4433 6059 1.004745 CATAGGCCACTTGGAGGTGTT 59.995 52.381 5.01 0.00 37.39 3.32
4434 6060 0.620556 CATAGGCCACTTGGAGGTGT 59.379 55.000 5.01 0.00 37.39 4.16
4435 6061 0.620556 ACATAGGCCACTTGGAGGTG 59.379 55.000 5.01 0.00 37.39 4.00
4436 6062 1.372501 AACATAGGCCACTTGGAGGT 58.627 50.000 5.01 0.00 37.39 3.85
4437 6063 2.493278 CAAAACATAGGCCACTTGGAGG 59.507 50.000 5.01 0.00 37.39 4.30
4438 6064 2.094545 GCAAAACATAGGCCACTTGGAG 60.095 50.000 5.01 0.00 37.39 3.86
4439 6065 1.892474 GCAAAACATAGGCCACTTGGA 59.108 47.619 5.01 0.00 37.39 3.53
4440 6066 1.066929 GGCAAAACATAGGCCACTTGG 60.067 52.381 5.01 0.00 46.92 3.61
4441 6067 2.368655 GGCAAAACATAGGCCACTTG 57.631 50.000 5.01 1.10 46.92 3.16
4447 6073 2.162681 ACACTCTGGCAAAACATAGGC 58.837 47.619 0.00 0.00 0.00 3.93
4448 6074 3.820467 TCAACACTCTGGCAAAACATAGG 59.180 43.478 0.00 0.00 0.00 2.57
4449 6075 5.633830 ATCAACACTCTGGCAAAACATAG 57.366 39.130 0.00 0.00 0.00 2.23
4450 6076 7.517614 TTAATCAACACTCTGGCAAAACATA 57.482 32.000 0.00 0.00 0.00 2.29
4451 6077 4.942761 AATCAACACTCTGGCAAAACAT 57.057 36.364 0.00 0.00 0.00 2.71
4452 6078 5.843673 TTAATCAACACTCTGGCAAAACA 57.156 34.783 0.00 0.00 0.00 2.83
4453 6079 7.713764 AAATTAATCAACACTCTGGCAAAAC 57.286 32.000 0.00 0.00 0.00 2.43
4454 6080 7.168972 CGAAAATTAATCAACACTCTGGCAAAA 59.831 33.333 0.00 0.00 0.00 2.44
4455 6081 6.640499 CGAAAATTAATCAACACTCTGGCAAA 59.360 34.615 0.00 0.00 0.00 3.68
4456 6082 6.016693 TCGAAAATTAATCAACACTCTGGCAA 60.017 34.615 0.00 0.00 0.00 4.52
4457 6083 5.471797 TCGAAAATTAATCAACACTCTGGCA 59.528 36.000 0.00 0.00 0.00 4.92
4458 6084 5.938322 TCGAAAATTAATCAACACTCTGGC 58.062 37.500 0.00 0.00 0.00 4.85
4459 6085 7.189512 GGATCGAAAATTAATCAACACTCTGG 58.810 38.462 0.00 0.00 0.00 3.86
4460 6086 6.901887 CGGATCGAAAATTAATCAACACTCTG 59.098 38.462 0.00 0.00 0.00 3.35
4461 6087 6.037172 CCGGATCGAAAATTAATCAACACTCT 59.963 38.462 0.00 0.00 0.00 3.24
4462 6088 6.192360 CCGGATCGAAAATTAATCAACACTC 58.808 40.000 0.00 0.00 0.00 3.51
4463 6089 5.448632 GCCGGATCGAAAATTAATCAACACT 60.449 40.000 5.05 0.00 0.00 3.55
4464 6090 4.733405 GCCGGATCGAAAATTAATCAACAC 59.267 41.667 5.05 0.00 0.00 3.32
4465 6091 4.396478 TGCCGGATCGAAAATTAATCAACA 59.604 37.500 5.05 0.00 0.00 3.33
4466 6092 4.915704 TGCCGGATCGAAAATTAATCAAC 58.084 39.130 5.05 0.00 0.00 3.18
4467 6093 5.568685 TTGCCGGATCGAAAATTAATCAA 57.431 34.783 5.05 0.00 0.00 2.57
4468 6094 5.568685 TTTGCCGGATCGAAAATTAATCA 57.431 34.783 5.05 0.00 0.00 2.57
4469 6095 5.977129 ACATTTGCCGGATCGAAAATTAATC 59.023 36.000 5.05 0.00 0.00 1.75
4470 6096 5.901552 ACATTTGCCGGATCGAAAATTAAT 58.098 33.333 5.05 0.00 0.00 1.40
4471 6097 5.106118 TGACATTTGCCGGATCGAAAATTAA 60.106 36.000 5.05 0.00 0.00 1.40
4472 6098 4.396478 TGACATTTGCCGGATCGAAAATTA 59.604 37.500 5.05 0.00 0.00 1.40
4473 6099 3.192422 TGACATTTGCCGGATCGAAAATT 59.808 39.130 5.05 0.00 0.00 1.82
4474 6100 2.752354 TGACATTTGCCGGATCGAAAAT 59.248 40.909 5.05 0.00 0.00 1.82
4475 6101 2.155279 TGACATTTGCCGGATCGAAAA 58.845 42.857 5.05 0.00 0.00 2.29
4476 6102 1.737236 CTGACATTTGCCGGATCGAAA 59.263 47.619 5.05 0.00 0.00 3.46
4477 6103 1.368641 CTGACATTTGCCGGATCGAA 58.631 50.000 5.05 0.00 0.00 3.71
4478 6104 0.461870 CCTGACATTTGCCGGATCGA 60.462 55.000 5.05 0.00 0.00 3.59
4479 6105 2.016961 CCTGACATTTGCCGGATCG 58.983 57.895 5.05 0.00 0.00 3.69
4480 6106 1.729881 GCCTGACATTTGCCGGATC 59.270 57.895 5.05 0.00 0.00 3.36
4481 6107 2.114670 CGCCTGACATTTGCCGGAT 61.115 57.895 5.05 0.00 0.00 4.18
4482 6108 2.745884 CGCCTGACATTTGCCGGA 60.746 61.111 5.05 0.00 0.00 5.14
4483 6109 4.481112 GCGCCTGACATTTGCCGG 62.481 66.667 0.00 0.00 0.00 6.13
4484 6110 3.386867 GAGCGCCTGACATTTGCCG 62.387 63.158 2.29 0.00 0.00 5.69
4485 6111 2.486966 GAGCGCCTGACATTTGCC 59.513 61.111 2.29 0.00 0.00 4.52
4486 6112 1.709147 ATCGAGCGCCTGACATTTGC 61.709 55.000 2.29 0.00 0.00 3.68
4487 6113 1.570813 TATCGAGCGCCTGACATTTG 58.429 50.000 2.29 0.00 0.00 2.32
4488 6114 2.138320 CATATCGAGCGCCTGACATTT 58.862 47.619 2.29 0.00 0.00 2.32
4489 6115 1.069204 ACATATCGAGCGCCTGACATT 59.931 47.619 2.29 0.00 0.00 2.71
4490 6116 0.676184 ACATATCGAGCGCCTGACAT 59.324 50.000 2.29 0.00 0.00 3.06
4491 6117 0.030773 GACATATCGAGCGCCTGACA 59.969 55.000 2.29 0.00 0.00 3.58
4492 6118 0.664767 GGACATATCGAGCGCCTGAC 60.665 60.000 2.29 0.00 0.00 3.51
4493 6119 0.823769 AGGACATATCGAGCGCCTGA 60.824 55.000 2.29 1.72 0.00 3.86
4494 6120 0.032678 AAGGACATATCGAGCGCCTG 59.967 55.000 2.29 0.00 0.00 4.85
4495 6121 0.753262 AAAGGACATATCGAGCGCCT 59.247 50.000 2.29 0.00 0.00 5.52
4496 6122 1.583054 AAAAGGACATATCGAGCGCC 58.417 50.000 2.29 0.00 0.00 6.53
4519 6145 3.323751 AAAATCCAGCATGACCTTTGC 57.676 42.857 0.00 0.00 39.69 3.68
4520 6146 4.248058 GGAAAAATCCAGCATGACCTTTG 58.752 43.478 0.00 0.00 39.69 2.77
4521 6147 3.056607 CGGAAAAATCCAGCATGACCTTT 60.057 43.478 0.00 0.00 39.69 3.11
4522 6148 2.493278 CGGAAAAATCCAGCATGACCTT 59.507 45.455 0.00 0.00 39.69 3.50
4523 6149 2.094675 CGGAAAAATCCAGCATGACCT 58.905 47.619 0.00 0.00 39.69 3.85
4524 6150 1.818674 ACGGAAAAATCCAGCATGACC 59.181 47.619 0.00 0.00 39.69 4.02
4525 6151 2.415893 CCACGGAAAAATCCAGCATGAC 60.416 50.000 0.00 0.00 39.69 3.06
4526 6152 1.818060 CCACGGAAAAATCCAGCATGA 59.182 47.619 0.00 0.00 39.69 3.07
4527 6153 1.818060 TCCACGGAAAAATCCAGCATG 59.182 47.619 0.00 0.00 0.00 4.06
4528 6154 2.214376 TCCACGGAAAAATCCAGCAT 57.786 45.000 0.00 0.00 0.00 3.79
4529 6155 2.214376 ATCCACGGAAAAATCCAGCA 57.786 45.000 0.00 0.00 0.00 4.41
4530 6156 3.056891 TCAAATCCACGGAAAAATCCAGC 60.057 43.478 0.00 0.00 0.00 4.85
4531 6157 4.737054 CTCAAATCCACGGAAAAATCCAG 58.263 43.478 0.00 0.00 0.00 3.86
4532 6158 3.056891 GCTCAAATCCACGGAAAAATCCA 60.057 43.478 0.00 0.00 0.00 3.41
4533 6159 3.056891 TGCTCAAATCCACGGAAAAATCC 60.057 43.478 0.00 0.00 0.00 3.01
4534 6160 4.173036 TGCTCAAATCCACGGAAAAATC 57.827 40.909 0.00 0.00 0.00 2.17
4535 6161 4.220382 TCATGCTCAAATCCACGGAAAAAT 59.780 37.500 0.00 0.00 0.00 1.82
4536 6162 3.571828 TCATGCTCAAATCCACGGAAAAA 59.428 39.130 0.00 0.00 0.00 1.94
4537 6163 3.057596 GTCATGCTCAAATCCACGGAAAA 60.058 43.478 0.00 0.00 0.00 2.29
4538 6164 2.487762 GTCATGCTCAAATCCACGGAAA 59.512 45.455 0.00 0.00 0.00 3.13
4539 6165 2.083774 GTCATGCTCAAATCCACGGAA 58.916 47.619 0.00 0.00 0.00 4.30
4540 6166 1.278985 AGTCATGCTCAAATCCACGGA 59.721 47.619 0.00 0.00 0.00 4.69
4541 6167 1.742761 AGTCATGCTCAAATCCACGG 58.257 50.000 0.00 0.00 0.00 4.94
4542 6168 2.485426 ACAAGTCATGCTCAAATCCACG 59.515 45.455 0.00 0.00 0.00 4.94
4543 6169 4.217118 AGAACAAGTCATGCTCAAATCCAC 59.783 41.667 0.00 0.00 0.00 4.02
4544 6170 4.401022 AGAACAAGTCATGCTCAAATCCA 58.599 39.130 0.00 0.00 0.00 3.41
4545 6171 5.877012 TCTAGAACAAGTCATGCTCAAATCC 59.123 40.000 0.00 0.00 0.00 3.01
4546 6172 6.974932 TCTAGAACAAGTCATGCTCAAATC 57.025 37.500 0.00 0.00 0.00 2.17
4547 6173 7.392673 ACATTCTAGAACAAGTCATGCTCAAAT 59.607 33.333 7.48 0.00 0.00 2.32
4548 6174 6.712095 ACATTCTAGAACAAGTCATGCTCAAA 59.288 34.615 7.48 0.00 0.00 2.69
4549 6175 6.233434 ACATTCTAGAACAAGTCATGCTCAA 58.767 36.000 7.48 0.00 0.00 3.02
4550 6176 5.798132 ACATTCTAGAACAAGTCATGCTCA 58.202 37.500 7.48 0.00 0.00 4.26
4551 6177 7.038659 ACTACATTCTAGAACAAGTCATGCTC 58.961 38.462 7.48 0.00 0.00 4.26
4552 6178 6.940739 ACTACATTCTAGAACAAGTCATGCT 58.059 36.000 7.48 0.00 0.00 3.79
4553 6179 8.703604 TTACTACATTCTAGAACAAGTCATGC 57.296 34.615 7.48 0.00 0.00 4.06
4564 6190 9.982651 GGCACTCAATATTTACTACATTCTAGA 57.017 33.333 0.00 0.00 0.00 2.43
4565 6191 9.988815 AGGCACTCAATATTTACTACATTCTAG 57.011 33.333 0.00 0.00 0.00 2.43
4567 6193 9.686683 AAAGGCACTCAATATTTACTACATTCT 57.313 29.630 0.00 0.00 38.49 2.40
4568 6194 9.722056 CAAAGGCACTCAATATTTACTACATTC 57.278 33.333 0.00 0.00 38.49 2.67
4569 6195 9.461312 TCAAAGGCACTCAATATTTACTACATT 57.539 29.630 0.00 0.00 38.49 2.71
4570 6196 9.632638 ATCAAAGGCACTCAATATTTACTACAT 57.367 29.630 0.00 0.00 38.49 2.29
4571 6197 9.461312 AATCAAAGGCACTCAATATTTACTACA 57.539 29.630 0.00 0.00 38.49 2.74
4574 6200 7.761249 GCAAATCAAAGGCACTCAATATTTACT 59.239 33.333 0.00 0.00 38.49 2.24
4575 6201 7.010460 GGCAAATCAAAGGCACTCAATATTTAC 59.990 37.037 0.00 0.00 38.49 2.01
4576 6202 7.041107 GGCAAATCAAAGGCACTCAATATTTA 58.959 34.615 0.00 0.00 38.49 1.40
4577 6203 5.876460 GGCAAATCAAAGGCACTCAATATTT 59.124 36.000 0.00 0.00 38.49 1.40
4578 6204 5.422145 GGCAAATCAAAGGCACTCAATATT 58.578 37.500 0.00 0.00 38.49 1.28
4579 6205 4.440525 CGGCAAATCAAAGGCACTCAATAT 60.441 41.667 0.00 0.00 38.49 1.28
4580 6206 3.119531 CGGCAAATCAAAGGCACTCAATA 60.120 43.478 0.00 0.00 38.49 1.90
4581 6207 2.353011 CGGCAAATCAAAGGCACTCAAT 60.353 45.455 0.00 0.00 38.49 2.57
4582 6208 1.000385 CGGCAAATCAAAGGCACTCAA 60.000 47.619 0.00 0.00 38.49 3.02
4583 6209 0.597568 CGGCAAATCAAAGGCACTCA 59.402 50.000 0.00 0.00 38.49 3.41
4584 6210 0.881118 TCGGCAAATCAAAGGCACTC 59.119 50.000 0.00 0.00 38.49 3.51
4586 6212 2.147436 TTTCGGCAAATCAAAGGCAC 57.853 45.000 0.00 0.00 0.00 5.01
4587 6213 2.363680 TCTTTTCGGCAAATCAAAGGCA 59.636 40.909 0.00 0.00 0.00 4.75
4588 6214 2.989166 CTCTTTTCGGCAAATCAAAGGC 59.011 45.455 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.