Multiple sequence alignment - TraesCS2B01G271700

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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 TraesCS2B01G271700 chr2B 100.000 5467 0 0 1 5467 373300831 373306297 0.000000e+00 10096.0
1 TraesCS2B01G271700 chr2A 96.765 2102 50 12 2599 4698 382808979 382811064 0.000000e+00 3489.0
2 TraesCS2B01G271700 chr2A 88.929 2195 82 49 417 2530 382806863 382808977 0.000000e+00 2558.0
3 TraesCS2B01G271700 chr2A 97.533 689 15 2 4699 5385 686248531 686249219 0.000000e+00 1177.0
4 TraesCS2B01G271700 chr2A 87.980 391 34 9 1 386 382803437 382803819 3.000000e-122 449.0
5 TraesCS2B01G271700 chr2D 96.247 2105 59 11 2596 4698 304642511 304644597 0.000000e+00 3432.0
6 TraesCS2B01G271700 chr2D 90.339 2153 59 50 417 2530 304640469 304642511 0.000000e+00 2686.0
7 TraesCS2B01G271700 chr2D 93.282 387 23 3 1 385 304639280 304639665 7.950000e-158 568.0
8 TraesCS2B01G271700 chr2D 80.153 393 62 8 2689 3081 633229934 633230310 4.170000e-71 279.0
9 TraesCS2B01G271700 chr2D 85.870 184 20 4 3128 3311 633230309 633230486 2.010000e-44 191.0
10 TraesCS2B01G271700 chr3B 99.563 687 3 0 4699 5385 340133054 340133740 0.000000e+00 1253.0
11 TraesCS2B01G271700 chr3B 79.558 181 32 3 2622 2797 744946724 744946544 2.070000e-24 124.0
12 TraesCS2B01G271700 chr3B 93.846 65 2 2 2534 2596 45839807 45839743 4.510000e-16 97.1
13 TraesCS2B01G271700 chr6B 97.242 689 17 2 4699 5385 614948510 614949198 0.000000e+00 1166.0
14 TraesCS2B01G271700 chr6B 83.436 326 47 7 3470 3794 556764815 556765134 4.140000e-76 296.0
15 TraesCS2B01G271700 chr5B 97.101 690 18 2 4698 5385 601421073 601421762 0.000000e+00 1162.0
16 TraesCS2B01G271700 chr5B 93.614 689 40 3 4698 5385 44273234 44273919 0.000000e+00 1026.0
17 TraesCS2B01G271700 chr5B 79.148 446 71 12 2644 3084 268248837 268248409 6.930000e-74 289.0
18 TraesCS2B01G271700 chr5B 86.224 196 26 1 2878 3072 460758646 460758841 1.540000e-50 211.0
19 TraesCS2B01G271700 chr5B 84.783 184 22 4 3128 3311 268248413 268248236 4.350000e-41 180.0
20 TraesCS2B01G271700 chr4A 97.097 689 19 1 4698 5385 676923859 676924547 0.000000e+00 1160.0
21 TraesCS2B01G271700 chr1A 96.952 689 19 2 4699 5385 481766032 481766720 0.000000e+00 1155.0
22 TraesCS2B01G271700 chr1A 81.935 310 49 7 3486 3794 8165273 8165576 7.030000e-64 255.0
23 TraesCS2B01G271700 chr5A 96.532 692 20 2 4698 5385 558320548 558319857 0.000000e+00 1142.0
24 TraesCS2B01G271700 chr1B 96.221 688 24 2 4699 5385 613248229 613248915 0.000000e+00 1125.0
25 TraesCS2B01G271700 chr1B 83.129 326 48 7 3470 3794 122346305 122345986 1.930000e-74 291.0
26 TraesCS2B01G271700 chr1B 79.385 325 61 4 2622 2941 622833887 622833564 1.980000e-54 224.0
27 TraesCS2B01G271700 chr1B 96.721 61 2 0 2532 2592 174249424 174249484 9.690000e-18 102.0
28 TraesCS2B01G271700 chrUn 78.632 468 79 11 2622 3084 42464477 42464026 1.930000e-74 291.0
29 TraesCS2B01G271700 chrUn 84.568 162 19 4 3128 3289 478752086 478752241 7.330000e-34 156.0
30 TraesCS2B01G271700 chrUn 92.105 76 5 1 2528 2603 93800215 93800289 7.490000e-19 106.0
31 TraesCS2B01G271700 chr6D 82.875 327 48 8 3470 3794 28037387 28037067 2.490000e-73 287.0
32 TraesCS2B01G271700 chr7B 84.239 184 23 4 3128 3311 439959537 439959714 2.020000e-39 174.0
33 TraesCS2B01G271700 chr7B 83.696 184 24 4 3128 3311 439934794 439934971 9.420000e-38 169.0
34 TraesCS2B01G271700 chr6A 93.421 76 4 1 2528 2602 24329680 24329755 1.610000e-20 111.0
35 TraesCS2B01G271700 chr4D 92.537 67 3 1 2536 2600 99657302 99657236 1.620000e-15 95.3
36 TraesCS2B01G271700 chr7D 90.141 71 4 3 2534 2602 614532397 614532328 7.540000e-14 89.8
37 TraesCS2B01G271700 chr7D 97.917 48 0 1 2549 2596 32508708 32508754 1.260000e-11 82.4
38 TraesCS2B01G271700 chr7A 91.045 67 3 3 2531 2596 63453738 63453802 2.710000e-13 87.9
39 TraesCS2B01G271700 chr7A 91.045 67 3 3 2534 2597 685920566 685920500 2.710000e-13 87.9


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 TraesCS2B01G271700 chr2B 373300831 373306297 5466 False 10096.000000 10096 100.000000 1 5467 1 chr2B.!!$F1 5466
1 TraesCS2B01G271700 chr2A 382803437 382811064 7627 False 2165.333333 3489 91.224667 1 4698 3 chr2A.!!$F2 4697
2 TraesCS2B01G271700 chr2A 686248531 686249219 688 False 1177.000000 1177 97.533000 4699 5385 1 chr2A.!!$F1 686
3 TraesCS2B01G271700 chr2D 304639280 304644597 5317 False 2228.666667 3432 93.289333 1 4698 3 chr2D.!!$F1 4697
4 TraesCS2B01G271700 chr2D 633229934 633230486 552 False 235.000000 279 83.011500 2689 3311 2 chr2D.!!$F2 622
5 TraesCS2B01G271700 chr3B 340133054 340133740 686 False 1253.000000 1253 99.563000 4699 5385 1 chr3B.!!$F1 686
6 TraesCS2B01G271700 chr6B 614948510 614949198 688 False 1166.000000 1166 97.242000 4699 5385 1 chr6B.!!$F2 686
7 TraesCS2B01G271700 chr5B 601421073 601421762 689 False 1162.000000 1162 97.101000 4698 5385 1 chr5B.!!$F3 687
8 TraesCS2B01G271700 chr5B 44273234 44273919 685 False 1026.000000 1026 93.614000 4698 5385 1 chr5B.!!$F1 687
9 TraesCS2B01G271700 chr5B 268248236 268248837 601 True 234.500000 289 81.965500 2644 3311 2 chr5B.!!$R1 667
10 TraesCS2B01G271700 chr4A 676923859 676924547 688 False 1160.000000 1160 97.097000 4698 5385 1 chr4A.!!$F1 687
11 TraesCS2B01G271700 chr1A 481766032 481766720 688 False 1155.000000 1155 96.952000 4699 5385 1 chr1A.!!$F2 686
12 TraesCS2B01G271700 chr5A 558319857 558320548 691 True 1142.000000 1142 96.532000 4698 5385 1 chr5A.!!$R1 687
13 TraesCS2B01G271700 chr1B 613248229 613248915 686 False 1125.000000 1125 96.221000 4699 5385 1 chr1B.!!$F2 686

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
692 4140 1.139947 CCTCGTTCTTCTCCGCCTC 59.860 63.158 0.00 0.0 0.0 4.70 F
1217 4697 0.249489 ATGATCGCGCAGGTACTTCC 60.249 55.000 8.75 0.0 34.6 3.46 F
1219 4699 0.249489 GATCGCGCAGGTACTTCCAT 60.249 55.000 8.75 0.0 34.6 3.41 F
1220 4700 0.249489 ATCGCGCAGGTACTTCCATC 60.249 55.000 8.75 0.0 34.6 3.51 F
2328 5850 0.389391 ATCTCAAGGTATCGTGGCGG 59.611 55.000 0.00 0.0 0.0 6.13 F
2590 6119 0.687354 GAGTCCTGCTGTTTCCCTCA 59.313 55.000 0.00 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1620 5101 0.110486 TTGGTCTTGGTCTTGGCCTC 59.890 55.0 3.32 0.0 0.00 4.70 R
2186 5706 0.165944 GACCACGATCACCGCAAAAG 59.834 55.0 0.00 0.0 43.32 2.27 R
2571 6100 0.687354 TGAGGGAAACAGCAGGACTC 59.313 55.0 0.00 0.0 0.00 3.36 R
2747 6283 1.019278 AAGTCGTATGCAACAGCCCG 61.019 55.0 0.00 0.0 0.00 6.13 R
3513 7051 0.616371 TTACCAAGTCCATCCACCGG 59.384 55.0 0.00 0.0 0.00 5.28 R
4514 8052 0.329261 TCCACATGCCTTTCCTGAGG 59.671 55.0 0.00 0.0 39.93 3.86 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 7.118101 AGCAACAAAATACAAATGCAATACTGG 59.882 33.333 0.00 0.00 36.30 4.00
57 61 1.629504 GGTTGCGCTCGTCGTATTC 59.370 57.895 9.73 0.00 41.07 1.75
69 73 2.222508 CGTCGTATTCCTCTTTGTTGCG 60.223 50.000 0.00 0.00 0.00 4.85
70 74 2.991190 GTCGTATTCCTCTTTGTTGCGA 59.009 45.455 0.00 0.00 0.00 5.10
77 81 3.585862 TCCTCTTTGTTGCGATCACTAC 58.414 45.455 0.00 0.00 0.00 2.73
90 95 1.917273 TCACTACTATTTGGCGTCGC 58.083 50.000 9.22 9.22 0.00 5.19
117 122 5.681337 AAACCAACACAAACCAAAACAAG 57.319 34.783 0.00 0.00 0.00 3.16
121 126 5.221541 ACCAACACAAACCAAAACAAGAAGA 60.222 36.000 0.00 0.00 0.00 2.87
149 154 2.541588 CGTGTTGTGCCAAAAGGAGAAG 60.542 50.000 0.00 0.00 0.00 2.85
185 190 7.479980 TGGAGAAATAGCCAAAATTGAATACG 58.520 34.615 0.00 0.00 0.00 3.06
302 308 2.520465 TACAGATGGTGCACTGCCGG 62.520 60.000 17.98 0.00 37.61 6.13
371 377 3.728076 TCGAGTGTACAAACAAGCTCT 57.272 42.857 0.00 0.00 37.36 4.09
379 386 2.310538 ACAAACAAGCTCTTGGGGAAG 58.689 47.619 13.48 2.56 44.45 3.46
433 3853 8.557029 GTGGAATATACCTACGATTGGAAAAAG 58.443 37.037 0.00 0.00 0.00 2.27
459 3883 9.784680 GAAATACTACGATTGAACTACTGAAGA 57.215 33.333 0.00 0.00 0.00 2.87
688 4136 1.982938 ACCCCCTCGTTCTTCTCCG 60.983 63.158 0.00 0.00 0.00 4.63
689 4137 2.184579 CCCCTCGTTCTTCTCCGC 59.815 66.667 0.00 0.00 0.00 5.54
690 4138 2.184579 CCCTCGTTCTTCTCCGCC 59.815 66.667 0.00 0.00 0.00 6.13
691 4139 2.352032 CCCTCGTTCTTCTCCGCCT 61.352 63.158 0.00 0.00 0.00 5.52
692 4140 1.139947 CCTCGTTCTTCTCCGCCTC 59.860 63.158 0.00 0.00 0.00 4.70
693 4141 1.139947 CTCGTTCTTCTCCGCCTCC 59.860 63.158 0.00 0.00 0.00 4.30
800 4250 2.765699 ACTGCCTCTCTTCCTGAATCTC 59.234 50.000 0.00 0.00 0.00 2.75
991 4467 6.121590 GGGTAATTCTTTTAATCGGTGGGTA 58.878 40.000 0.00 0.00 0.00 3.69
1095 4575 4.154347 GAGCTGGGGAGGACGCTG 62.154 72.222 0.00 0.00 31.96 5.18
1216 4696 1.132588 GATGATCGCGCAGGTACTTC 58.867 55.000 8.75 0.00 34.60 3.01
1217 4697 0.249489 ATGATCGCGCAGGTACTTCC 60.249 55.000 8.75 0.00 34.60 3.46
1218 4698 1.141019 GATCGCGCAGGTACTTCCA 59.859 57.895 8.75 0.00 34.60 3.53
1219 4699 0.249489 GATCGCGCAGGTACTTCCAT 60.249 55.000 8.75 0.00 34.60 3.41
1220 4700 0.249489 ATCGCGCAGGTACTTCCATC 60.249 55.000 8.75 0.00 34.60 3.51
1221 4701 1.141881 CGCGCAGGTACTTCCATCT 59.858 57.895 8.75 0.00 34.60 2.90
1222 4702 0.460284 CGCGCAGGTACTTCCATCTT 60.460 55.000 8.75 0.00 34.60 2.40
1258 4738 6.019779 TCTTCTTCTTCTTCTTCTTCGGAG 57.980 41.667 0.00 0.00 0.00 4.63
1263 4743 2.751166 TCTTCTTCTTCGGAGCCAAG 57.249 50.000 0.00 0.00 0.00 3.61
1286 4766 7.144722 AGGCCAAAAAGAAAAAGAAAAACTG 57.855 32.000 5.01 0.00 0.00 3.16
1356 4836 3.649023 TCTGTTGTACTAAAAGGGAGGCA 59.351 43.478 0.00 0.00 0.00 4.75
1465 4946 6.448207 AAAATGTTTGGTGAAAACCATTGG 57.552 33.333 0.00 0.00 46.47 3.16
1476 4957 4.642885 TGAAAACCATTGGACGAAAGAGTT 59.357 37.500 10.37 0.00 0.00 3.01
1478 4959 5.684550 AAACCATTGGACGAAAGAGTTAC 57.315 39.130 10.37 0.00 0.00 2.50
1482 4963 5.245526 ACCATTGGACGAAAGAGTTACTAGT 59.754 40.000 10.37 0.00 0.00 2.57
1485 4966 7.362747 CCATTGGACGAAAGAGTTACTAGTAGT 60.363 40.741 8.14 8.14 0.00 2.73
1486 4967 8.671921 CATTGGACGAAAGAGTTACTAGTAGTA 58.328 37.037 5.90 5.90 0.00 1.82
1487 4968 7.602517 TGGACGAAAGAGTTACTAGTAGTAC 57.397 40.000 9.62 5.81 28.93 2.73
1503 4984 6.756299 AGTAGTACTACTAGTTGGACTTGC 57.244 41.667 29.96 17.66 43.98 4.01
1513 4994 2.032681 GGACTTGCTGGAACGCCT 59.967 61.111 0.00 0.00 34.31 5.52
1725 5206 4.083110 CGTGATCAAATTTGGCTCTTCACT 60.083 41.667 17.90 0.00 32.19 3.41
1726 5207 5.563475 CGTGATCAAATTTGGCTCTTCACTT 60.563 40.000 17.90 0.00 32.19 3.16
1727 5208 6.218746 GTGATCAAATTTGGCTCTTCACTTT 58.781 36.000 17.90 0.00 31.78 2.66
1729 5210 6.702723 TGATCAAATTTGGCTCTTCACTTTTG 59.297 34.615 17.90 0.00 0.00 2.44
1730 5211 5.976458 TCAAATTTGGCTCTTCACTTTTGT 58.024 33.333 17.90 0.00 0.00 2.83
1756 5237 4.009675 TGTTTGGCCTCTGAATGATACAC 58.990 43.478 3.32 0.00 0.00 2.90
1762 5243 4.376146 GCCTCTGAATGATACACCTCTTC 58.624 47.826 0.00 0.00 0.00 2.87
1845 5327 4.093115 CCGCATGTACGAGGTATAGACTAG 59.907 50.000 0.00 0.00 34.06 2.57
1846 5328 4.689812 CGCATGTACGAGGTATAGACTAGT 59.310 45.833 0.00 0.00 34.06 2.57
1847 5329 5.866092 CGCATGTACGAGGTATAGACTAGTA 59.134 44.000 0.00 0.00 34.06 1.82
1875 5358 2.357009 GCGCAACCTGAAATCATCATCT 59.643 45.455 0.30 0.00 37.44 2.90
1900 5412 6.966021 TCATTTTAAGCAAAGTACAGTGGAC 58.034 36.000 0.00 0.00 0.00 4.02
1901 5413 6.770785 TCATTTTAAGCAAAGTACAGTGGACT 59.229 34.615 0.73 0.73 0.00 3.85
1902 5414 7.934665 TCATTTTAAGCAAAGTACAGTGGACTA 59.065 33.333 8.88 0.00 0.00 2.59
1903 5415 7.486802 TTTTAAGCAAAGTACAGTGGACTAC 57.513 36.000 8.88 1.54 0.00 2.73
1982 5495 9.893305 ATCTTTTGATTTCTGGTTAAAACTACG 57.107 29.630 0.00 0.00 35.18 3.51
1985 5498 9.934190 TTTTGATTTCTGGTTAAAACTACGTAC 57.066 29.630 0.00 0.00 0.00 3.67
1997 5517 5.428496 AAACTACGTACCTTTTGCCTTTC 57.572 39.130 0.00 0.00 0.00 2.62
2021 5541 7.722363 TCGACTATGTATGTAAATGACCATGT 58.278 34.615 0.00 0.00 0.00 3.21
2042 5562 1.737793 CCACTTCTAATTGGCGTGTCC 59.262 52.381 9.14 0.00 0.00 4.02
2186 5706 3.578716 TCCCACTCTGCCTATATGCTTAC 59.421 47.826 1.58 0.00 0.00 2.34
2200 5720 1.463056 TGCTTACTTTTGCGGTGATCG 59.537 47.619 0.00 0.00 42.76 3.69
2201 5721 1.463444 GCTTACTTTTGCGGTGATCGT 59.537 47.619 0.00 0.00 41.72 3.73
2328 5850 0.389391 ATCTCAAGGTATCGTGGCGG 59.611 55.000 0.00 0.00 0.00 6.13
2363 5891 2.104792 TGGTTACTCATCTGCCCTATGC 59.895 50.000 0.00 0.00 41.77 3.14
2499 6028 1.671261 CGCAGCAAGTCAGAGTAAGCT 60.671 52.381 0.00 0.30 0.00 3.74
2530 6059 6.322201 ACTGCTTTCTCTTTTTCCATCTTGAA 59.678 34.615 0.00 0.00 0.00 2.69
2531 6060 6.507023 TGCTTTCTCTTTTTCCATCTTGAAC 58.493 36.000 0.00 0.00 0.00 3.18
2532 6061 5.923114 GCTTTCTCTTTTTCCATCTTGAACC 59.077 40.000 0.00 0.00 0.00 3.62
2533 6062 6.239148 GCTTTCTCTTTTTCCATCTTGAACCT 60.239 38.462 0.00 0.00 0.00 3.50
2534 6063 7.660030 TTTCTCTTTTTCCATCTTGAACCTT 57.340 32.000 0.00 0.00 0.00 3.50
2535 6064 6.639632 TCTCTTTTTCCATCTTGAACCTTG 57.360 37.500 0.00 0.00 0.00 3.61
2536 6065 6.129179 TCTCTTTTTCCATCTTGAACCTTGT 58.871 36.000 0.00 0.00 0.00 3.16
2537 6066 7.287061 TCTCTTTTTCCATCTTGAACCTTGTA 58.713 34.615 0.00 0.00 0.00 2.41
2538 6067 7.944554 TCTCTTTTTCCATCTTGAACCTTGTAT 59.055 33.333 0.00 0.00 0.00 2.29
2539 6068 8.477419 TCTTTTTCCATCTTGAACCTTGTATT 57.523 30.769 0.00 0.00 0.00 1.89
2540 6069 9.581289 TCTTTTTCCATCTTGAACCTTGTATTA 57.419 29.630 0.00 0.00 0.00 0.98
2574 6103 9.880157 AAAATCAATAAAAATATGCAGCAGAGT 57.120 25.926 0.00 0.00 0.00 3.24
2575 6104 9.525409 AAATCAATAAAAATATGCAGCAGAGTC 57.475 29.630 0.00 0.00 0.00 3.36
2576 6105 7.031226 TCAATAAAAATATGCAGCAGAGTCC 57.969 36.000 0.00 0.00 0.00 3.85
2577 6106 6.830324 TCAATAAAAATATGCAGCAGAGTCCT 59.170 34.615 0.00 0.00 0.00 3.85
2578 6107 4.978083 AAAAATATGCAGCAGAGTCCTG 57.022 40.909 0.00 0.00 43.22 3.86
2587 6116 3.239861 CAGAGTCCTGCTGTTTCCC 57.760 57.895 0.00 0.00 33.07 3.97
2588 6117 0.689623 CAGAGTCCTGCTGTTTCCCT 59.310 55.000 0.00 0.00 33.07 4.20
2589 6118 0.980423 AGAGTCCTGCTGTTTCCCTC 59.020 55.000 0.00 0.00 0.00 4.30
2590 6119 0.687354 GAGTCCTGCTGTTTCCCTCA 59.313 55.000 0.00 0.00 0.00 3.86
2591 6120 1.072331 GAGTCCTGCTGTTTCCCTCAA 59.928 52.381 0.00 0.00 0.00 3.02
2592 6121 1.494721 AGTCCTGCTGTTTCCCTCAAA 59.505 47.619 0.00 0.00 0.00 2.69
2593 6122 2.091885 AGTCCTGCTGTTTCCCTCAAAA 60.092 45.455 0.00 0.00 0.00 2.44
2594 6123 2.693074 GTCCTGCTGTTTCCCTCAAAAA 59.307 45.455 0.00 0.00 0.00 1.94
2799 6335 4.196193 CAATTATGTTGCTCCCGAGGTTA 58.804 43.478 0.00 0.00 0.00 2.85
2888 6426 6.248433 TCATTTTTCAATACTCTCTTGGGCT 58.752 36.000 0.00 0.00 0.00 5.19
2917 6455 9.620660 CAGGTTATAAACAACAAAGGTTATGAC 57.379 33.333 2.78 0.00 34.87 3.06
2986 6524 1.002502 GGCAGGCTACCTTCCGTTT 60.003 57.895 0.00 0.00 25.50 3.60
3074 6612 2.385315 GCAAGTTCCTCTTTTTGCGAC 58.615 47.619 0.00 0.00 36.89 5.19
3077 6615 2.557317 AGTTCCTCTTTTTGCGACGAA 58.443 42.857 0.00 0.00 0.00 3.85
3327 6865 7.630242 AGCTTATATCTGAGAGATAGCTCAC 57.370 40.000 11.20 4.44 38.94 3.51
3481 7019 6.478129 TCAACGAATCTGGGGTAAGTATTTT 58.522 36.000 0.00 0.00 0.00 1.82
3893 7431 9.046846 ACAAGGTGCCTATTATATTAGCAGATA 57.953 33.333 0.00 0.00 0.00 1.98
3974 7512 9.643693 TTTTCTGGAATTAAATCAAATCAGCTC 57.356 29.630 0.00 0.00 0.00 4.09
4037 7575 6.070881 TGGCAATTGCAACAGAGGTATATTTT 60.071 34.615 30.32 0.00 44.36 1.82
4038 7576 7.123397 TGGCAATTGCAACAGAGGTATATTTTA 59.877 33.333 30.32 0.00 44.36 1.52
4039 7577 8.143835 GGCAATTGCAACAGAGGTATATTTTAT 58.856 33.333 30.32 0.00 44.36 1.40
4040 7578 9.533253 GCAATTGCAACAGAGGTATATTTTATT 57.467 29.630 25.36 0.00 41.59 1.40
4257 7795 2.638480 TCCACAAGGTGAGGTTCAAG 57.362 50.000 0.00 0.00 35.23 3.02
4283 7821 8.186821 GCTGAGATATTGCAGTGAAATTACTTT 58.813 33.333 0.46 0.00 34.66 2.66
4292 7830 5.625311 GCAGTGAAATTACTTTGGAACTTCG 59.375 40.000 0.00 0.00 0.00 3.79
4643 8181 7.824779 CCTAGTAGGAAATATGGAGTAATTGGC 59.175 40.741 11.09 0.00 37.67 4.52
4656 8194 7.744733 TGGAGTAATTGGCATTATCATCTGTA 58.255 34.615 0.00 0.00 0.00 2.74
4692 8230 6.492007 ACATTCATGTTCTGCTCTACAAAG 57.508 37.500 0.00 0.00 37.90 2.77
5385 8930 3.012119 TGCGGGTGCCATCCCTAA 61.012 61.111 7.05 0.00 44.95 2.69
5386 8931 2.203209 GCGGGTGCCATCCCTAAG 60.203 66.667 7.05 0.00 44.95 2.18
5387 8932 2.203209 CGGGTGCCATCCCTAAGC 60.203 66.667 7.05 0.00 44.95 3.09
5388 8933 3.006677 GGGTGCCATCCCTAAGCA 58.993 61.111 2.05 0.00 43.85 3.91
5389 8934 1.538666 GGGTGCCATCCCTAAGCAT 59.461 57.895 2.05 0.00 43.85 3.79
5390 8935 0.825010 GGGTGCCATCCCTAAGCATG 60.825 60.000 2.05 0.00 43.85 4.06
5391 8936 1.458639 GGTGCCATCCCTAAGCATGC 61.459 60.000 10.51 10.51 39.04 4.06
5392 8937 0.752743 GTGCCATCCCTAAGCATGCA 60.753 55.000 21.98 0.00 39.04 3.96
5393 8938 0.186630 TGCCATCCCTAAGCATGCAT 59.813 50.000 21.98 11.22 0.00 3.96
5394 8939 1.335145 GCCATCCCTAAGCATGCATT 58.665 50.000 21.98 13.44 0.00 3.56
5395 8940 1.000506 GCCATCCCTAAGCATGCATTG 59.999 52.381 21.98 9.09 0.00 2.82
5396 8941 1.616865 CCATCCCTAAGCATGCATTGG 59.383 52.381 21.98 18.22 0.00 3.16
5397 8942 2.313317 CATCCCTAAGCATGCATTGGT 58.687 47.619 21.98 0.26 37.77 3.67
5398 8943 3.489355 CATCCCTAAGCATGCATTGGTA 58.511 45.455 21.98 5.72 34.16 3.25
5399 8944 2.930950 TCCCTAAGCATGCATTGGTAC 58.069 47.619 21.98 0.00 34.16 3.34
5400 8945 2.240921 TCCCTAAGCATGCATTGGTACA 59.759 45.455 21.98 1.82 34.16 2.90
5414 8959 3.764237 TGGTACAACACTCTCCCTTTC 57.236 47.619 0.00 0.00 31.92 2.62
5415 8960 3.042682 TGGTACAACACTCTCCCTTTCA 58.957 45.455 0.00 0.00 31.92 2.69
5416 8961 3.650942 TGGTACAACACTCTCCCTTTCAT 59.349 43.478 0.00 0.00 31.92 2.57
5417 8962 4.003648 GGTACAACACTCTCCCTTTCATG 58.996 47.826 0.00 0.00 0.00 3.07
5418 8963 3.146104 ACAACACTCTCCCTTTCATGG 57.854 47.619 0.00 0.00 0.00 3.66
5419 8964 2.443255 ACAACACTCTCCCTTTCATGGT 59.557 45.455 0.00 0.00 0.00 3.55
5420 8965 3.650942 ACAACACTCTCCCTTTCATGGTA 59.349 43.478 0.00 0.00 0.00 3.25
5421 8966 4.104102 ACAACACTCTCCCTTTCATGGTAA 59.896 41.667 0.00 0.00 0.00 2.85
5422 8967 4.559862 ACACTCTCCCTTTCATGGTAAG 57.440 45.455 0.00 0.00 0.00 2.34
5423 8968 4.168101 ACACTCTCCCTTTCATGGTAAGA 58.832 43.478 9.28 0.00 0.00 2.10
5424 8969 4.223923 ACACTCTCCCTTTCATGGTAAGAG 59.776 45.833 9.28 7.94 39.25 2.85
5425 8970 3.777522 ACTCTCCCTTTCATGGTAAGAGG 59.222 47.826 9.28 8.78 38.43 3.69
5426 8971 4.033709 CTCTCCCTTTCATGGTAAGAGGA 58.966 47.826 9.28 11.49 34.30 3.71
5427 8972 4.033709 TCTCCCTTTCATGGTAAGAGGAG 58.966 47.826 22.51 22.51 39.21 3.69
5428 8973 3.115390 TCCCTTTCATGGTAAGAGGAGG 58.885 50.000 9.28 3.76 0.00 4.30
5429 8974 2.846827 CCCTTTCATGGTAAGAGGAGGT 59.153 50.000 9.28 0.00 0.00 3.85
5430 8975 3.267031 CCCTTTCATGGTAAGAGGAGGTT 59.733 47.826 9.28 0.00 0.00 3.50
5431 8976 4.518249 CCTTTCATGGTAAGAGGAGGTTC 58.482 47.826 9.28 0.00 0.00 3.62
5432 8977 4.019321 CCTTTCATGGTAAGAGGAGGTTCA 60.019 45.833 9.28 0.00 0.00 3.18
5433 8978 5.514834 CCTTTCATGGTAAGAGGAGGTTCAA 60.515 44.000 9.28 0.00 0.00 2.69
5434 8979 5.779241 TTCATGGTAAGAGGAGGTTCAAT 57.221 39.130 0.00 0.00 0.00 2.57
5435 8980 5.779241 TCATGGTAAGAGGAGGTTCAATT 57.221 39.130 0.00 0.00 0.00 2.32
5436 8981 6.884472 TCATGGTAAGAGGAGGTTCAATTA 57.116 37.500 0.00 0.00 0.00 1.40
5437 8982 7.265599 TCATGGTAAGAGGAGGTTCAATTAA 57.734 36.000 0.00 0.00 0.00 1.40
5438 8983 7.695055 TCATGGTAAGAGGAGGTTCAATTAAA 58.305 34.615 0.00 0.00 0.00 1.52
5439 8984 8.336235 TCATGGTAAGAGGAGGTTCAATTAAAT 58.664 33.333 0.00 0.00 0.00 1.40
5440 8985 9.627123 CATGGTAAGAGGAGGTTCAATTAAATA 57.373 33.333 0.00 0.00 0.00 1.40
5441 8986 9.628500 ATGGTAAGAGGAGGTTCAATTAAATAC 57.372 33.333 0.00 0.00 0.00 1.89
5442 8987 8.050930 TGGTAAGAGGAGGTTCAATTAAATACC 58.949 37.037 0.00 0.00 0.00 2.73
5443 8988 8.272889 GGTAAGAGGAGGTTCAATTAAATACCT 58.727 37.037 0.00 0.00 43.48 3.08
5449 8994 8.914011 AGGAGGTTCAATTAAATACCTAAATGC 58.086 33.333 0.00 0.00 40.97 3.56
5450 8995 8.914011 GGAGGTTCAATTAAATACCTAAATGCT 58.086 33.333 0.00 0.00 40.97 3.79
5451 8996 9.736023 GAGGTTCAATTAAATACCTAAATGCTG 57.264 33.333 0.00 0.00 40.97 4.41
5452 8997 9.474313 AGGTTCAATTAAATACCTAAATGCTGA 57.526 29.630 0.00 0.00 39.17 4.26
5453 8998 9.516314 GGTTCAATTAAATACCTAAATGCTGAC 57.484 33.333 0.00 0.00 0.00 3.51
5461 9006 8.986477 AAATACCTAAATGCTGACAATTTGAC 57.014 30.769 2.79 0.00 0.00 3.18
5462 9007 5.046910 ACCTAAATGCTGACAATTTGACG 57.953 39.130 2.79 0.00 0.00 4.35
5463 9008 4.518970 ACCTAAATGCTGACAATTTGACGT 59.481 37.500 2.79 0.00 0.00 4.34
5464 9009 5.088739 CCTAAATGCTGACAATTTGACGTC 58.911 41.667 9.11 9.11 0.00 4.34
5465 9010 2.880822 ATGCTGACAATTTGACGTCG 57.119 45.000 11.62 0.00 34.78 5.12
5466 9011 0.865111 TGCTGACAATTTGACGTCGG 59.135 50.000 11.62 0.37 40.76 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 2.568090 CAACCGTGGATGGCTTGC 59.432 61.111 0.00 0.00 0.00 4.01
57 61 3.589988 AGTAGTGATCGCAACAAAGAGG 58.410 45.455 9.33 0.00 0.00 3.69
69 73 2.471743 GCGACGCCAAATAGTAGTGATC 59.528 50.000 9.14 0.00 0.00 2.92
70 74 2.470821 GCGACGCCAAATAGTAGTGAT 58.529 47.619 9.14 0.00 0.00 3.06
90 95 4.457834 TTGGTTTGTGTTGGTTTACAGG 57.542 40.909 0.00 0.00 0.00 4.00
93 98 6.424207 TCTTGTTTTGGTTTGTGTTGGTTTAC 59.576 34.615 0.00 0.00 0.00 2.01
121 126 1.227409 TGGCACAACACGATGACGT 60.227 52.632 0.00 0.00 46.13 4.34
149 154 6.769512 TGGCTATTTCTCCATATACCTTGAC 58.230 40.000 0.00 0.00 0.00 3.18
185 190 3.584868 AAGTGGCCGAGGTACACGC 62.585 63.158 0.00 0.00 42.01 5.34
246 252 2.693267 AGCGTTGTCCCTATCCTTTC 57.307 50.000 0.00 0.00 0.00 2.62
409 3815 8.897872 TCTTTTTCCAATCGTAGGTATATTCC 57.102 34.615 0.00 0.00 0.00 3.01
433 3853 9.784680 TCTTCAGTAGTTCAATCGTAGTATTTC 57.215 33.333 0.00 0.00 0.00 2.17
473 3904 4.613622 CGACTTTGCCACGATCTTCAAATT 60.614 41.667 0.00 0.00 0.00 1.82
484 3915 0.653323 CGTTCAACGACTTTGCCACG 60.653 55.000 3.01 0.00 46.05 4.94
800 4250 2.111878 GGCATGGGAGTGGGATCG 59.888 66.667 0.00 0.00 0.00 3.69
844 4294 2.290323 GCATGGAGTCTGGTGGTAGTTT 60.290 50.000 0.00 0.00 0.00 2.66
991 4467 3.355378 TCGAATCAACCATTCAGCCAAT 58.645 40.909 0.00 0.00 41.13 3.16
1095 4575 4.772687 GCGAACGTCCCTTCCCCC 62.773 72.222 0.00 0.00 0.00 5.40
1216 4696 6.179040 AGAAGAAAGACAAGATGGAAGATGG 58.821 40.000 0.00 0.00 0.00 3.51
1217 4697 7.607223 AGAAGAAGAAAGACAAGATGGAAGATG 59.393 37.037 0.00 0.00 0.00 2.90
1218 4698 7.688343 AGAAGAAGAAAGACAAGATGGAAGAT 58.312 34.615 0.00 0.00 0.00 2.40
1219 4699 7.072263 AGAAGAAGAAAGACAAGATGGAAGA 57.928 36.000 0.00 0.00 0.00 2.87
1220 4700 7.661027 AGAAGAAGAAGAAAGACAAGATGGAAG 59.339 37.037 0.00 0.00 0.00 3.46
1221 4701 7.512992 AGAAGAAGAAGAAAGACAAGATGGAA 58.487 34.615 0.00 0.00 0.00 3.53
1222 4702 7.072263 AGAAGAAGAAGAAAGACAAGATGGA 57.928 36.000 0.00 0.00 0.00 3.41
1258 4738 3.540617 TCTTTTTCTTTTTGGCCTTGGC 58.459 40.909 3.32 2.49 0.00 4.52
1263 4743 6.908825 ACAGTTTTTCTTTTTCTTTTTGGCC 58.091 32.000 0.00 0.00 0.00 5.36
1312 4792 3.959495 ATAATCTGAACAGGCCATGGT 57.041 42.857 14.67 0.00 0.00 3.55
1356 4836 5.798125 TCGAGAAAGATGATCAAGGCTAT 57.202 39.130 0.00 0.00 0.00 2.97
1460 4941 7.536855 ACTACTAGTAACTCTTTCGTCCAATG 58.463 38.462 3.76 0.00 0.00 2.82
1465 4946 9.581099 AGTAGTACTACTAGTAACTCTTTCGTC 57.419 37.037 29.96 0.57 43.98 4.20
1482 4963 5.651139 CCAGCAAGTCCAACTAGTAGTACTA 59.349 44.000 9.66 9.66 0.00 1.82
1485 4966 4.669700 TCCAGCAAGTCCAACTAGTAGTA 58.330 43.478 2.50 0.00 0.00 1.82
1486 4967 3.507411 TCCAGCAAGTCCAACTAGTAGT 58.493 45.455 0.00 0.00 0.00 2.73
1487 4968 4.246458 GTTCCAGCAAGTCCAACTAGTAG 58.754 47.826 0.00 0.00 0.00 2.57
1496 4977 0.741221 CTAGGCGTTCCAGCAAGTCC 60.741 60.000 0.00 0.00 39.27 3.85
1503 4984 0.179161 CTCACGTCTAGGCGTTCCAG 60.179 60.000 21.79 12.48 43.83 3.86
1513 4994 3.366679 GGTTTCACGGATTCTCACGTCTA 60.367 47.826 0.00 0.00 42.04 2.59
1617 5098 2.747855 CTTGGTCTTGGCCTCGGC 60.748 66.667 3.32 0.00 41.06 5.54
1618 5099 1.376037 GTCTTGGTCTTGGCCTCGG 60.376 63.158 3.32 0.00 0.00 4.63
1619 5100 1.376037 GGTCTTGGTCTTGGCCTCG 60.376 63.158 3.32 0.00 0.00 4.63
1620 5101 0.110486 TTGGTCTTGGTCTTGGCCTC 59.890 55.000 3.32 0.00 0.00 4.70
1621 5102 0.111253 CTTGGTCTTGGTCTTGGCCT 59.889 55.000 3.32 0.00 0.00 5.19
1622 5103 0.110486 TCTTGGTCTTGGTCTTGGCC 59.890 55.000 0.00 0.00 0.00 5.36
1623 5104 1.239347 GTCTTGGTCTTGGTCTTGGC 58.761 55.000 0.00 0.00 0.00 4.52
1624 5105 1.142870 TGGTCTTGGTCTTGGTCTTGG 59.857 52.381 0.00 0.00 0.00 3.61
1625 5106 2.638480 TGGTCTTGGTCTTGGTCTTG 57.362 50.000 0.00 0.00 0.00 3.02
1626 5107 2.158608 CCTTGGTCTTGGTCTTGGTCTT 60.159 50.000 0.00 0.00 0.00 3.01
1627 5108 1.421646 CCTTGGTCTTGGTCTTGGTCT 59.578 52.381 0.00 0.00 0.00 3.85
1628 5109 1.897560 CCTTGGTCTTGGTCTTGGTC 58.102 55.000 0.00 0.00 0.00 4.02
1629 5110 0.178990 GCCTTGGTCTTGGTCTTGGT 60.179 55.000 0.00 0.00 0.00 3.67
1630 5111 0.111253 AGCCTTGGTCTTGGTCTTGG 59.889 55.000 0.00 0.00 0.00 3.61
1631 5112 1.610522 CAAGCCTTGGTCTTGGTCTTG 59.389 52.381 0.00 0.00 37.77 3.02
1672 5153 0.668535 AAACTCTGCGCTTTCCAACC 59.331 50.000 9.73 0.00 0.00 3.77
1725 5206 4.899502 TCAGAGGCCAAACAAAAACAAAA 58.100 34.783 5.01 0.00 0.00 2.44
1726 5207 4.543590 TCAGAGGCCAAACAAAAACAAA 57.456 36.364 5.01 0.00 0.00 2.83
1727 5208 4.543590 TTCAGAGGCCAAACAAAAACAA 57.456 36.364 5.01 0.00 0.00 2.83
1729 5210 4.692228 TCATTCAGAGGCCAAACAAAAAC 58.308 39.130 5.01 0.00 0.00 2.43
1730 5211 5.549742 ATCATTCAGAGGCCAAACAAAAA 57.450 34.783 5.01 0.00 0.00 1.94
1756 5237 4.033817 CGCTTTATCTGCAGAAAGAAGAGG 59.966 45.833 25.59 17.22 34.61 3.69
1762 5243 1.660607 TCGCGCTTTATCTGCAGAAAG 59.339 47.619 22.50 20.75 36.04 2.62
1845 5327 3.498927 TTCAGGTTGCGCTAGTACTAC 57.501 47.619 9.73 0.00 0.00 2.73
1846 5328 4.158949 TGATTTCAGGTTGCGCTAGTACTA 59.841 41.667 9.73 1.89 0.00 1.82
1847 5329 3.056107 TGATTTCAGGTTGCGCTAGTACT 60.056 43.478 9.73 0.00 0.00 2.73
1855 5338 4.095334 TGAAGATGATGATTTCAGGTTGCG 59.905 41.667 0.00 0.00 37.89 4.85
1875 5358 7.284489 AGTCCACTGTACTTTGCTTAAAATGAA 59.716 33.333 0.00 0.00 0.00 2.57
1890 5402 8.943909 AGCAAATAATTAGTAGTCCACTGTAC 57.056 34.615 0.00 0.00 38.24 2.90
1901 5413 9.151471 GCGAGGAATATGAGCAAATAATTAGTA 57.849 33.333 0.00 0.00 0.00 1.82
1902 5414 7.661437 TGCGAGGAATATGAGCAAATAATTAGT 59.339 33.333 0.00 0.00 34.66 2.24
1903 5415 8.032952 TGCGAGGAATATGAGCAAATAATTAG 57.967 34.615 0.00 0.00 34.66 1.73
1947 5459 9.898152 AACCAGAAATCAAAAGATAACCAAAAA 57.102 25.926 0.00 0.00 0.00 1.94
1963 5476 7.895975 AGGTACGTAGTTTTAACCAGAAATC 57.104 36.000 0.00 0.00 37.78 2.17
1970 5483 5.239306 AGGCAAAAGGTACGTAGTTTTAACC 59.761 40.000 12.85 15.30 37.78 2.85
1978 5491 3.122445 GTCGAAAGGCAAAAGGTACGTAG 59.878 47.826 0.00 0.00 34.40 3.51
1979 5492 3.059166 GTCGAAAGGCAAAAGGTACGTA 58.941 45.455 0.00 0.00 34.40 3.57
1980 5493 1.869132 GTCGAAAGGCAAAAGGTACGT 59.131 47.619 0.00 0.00 34.40 3.57
1981 5494 2.140717 AGTCGAAAGGCAAAAGGTACG 58.859 47.619 0.00 0.00 38.99 3.67
1982 5495 4.694037 ACATAGTCGAAAGGCAAAAGGTAC 59.306 41.667 0.00 0.00 38.99 3.34
1985 5498 5.354234 ACATACATAGTCGAAAGGCAAAAGG 59.646 40.000 0.00 0.00 38.99 3.11
1997 5517 7.116376 GGACATGGTCATTTACATACATAGTCG 59.884 40.741 0.00 0.00 33.68 4.18
2021 5541 2.614481 GGACACGCCAATTAGAAGTGGA 60.614 50.000 12.74 0.00 46.59 4.02
2042 5562 2.165030 CTGCTGGCCATCACCTTTAAAG 59.835 50.000 5.51 8.32 0.00 1.85
2186 5706 0.165944 GACCACGATCACCGCAAAAG 59.834 55.000 0.00 0.00 43.32 2.27
2295 5817 3.381590 CCTTGAGATCACGGTGATAGACA 59.618 47.826 22.70 18.29 37.20 3.41
2363 5891 5.229921 TCAGACCACTTTTTGTTTCTTCG 57.770 39.130 0.00 0.00 0.00 3.79
2499 6028 7.581213 TGGAAAAAGAGAAAGCAGTCAATTA 57.419 32.000 0.00 0.00 0.00 1.40
2548 6077 9.880157 ACTCTGCTGCATATTTTTATTGATTTT 57.120 25.926 1.31 0.00 0.00 1.82
2549 6078 9.525409 GACTCTGCTGCATATTTTTATTGATTT 57.475 29.630 1.31 0.00 0.00 2.17
2550 6079 8.139989 GGACTCTGCTGCATATTTTTATTGATT 58.860 33.333 1.31 0.00 0.00 2.57
2551 6080 7.504911 AGGACTCTGCTGCATATTTTTATTGAT 59.495 33.333 1.31 0.00 0.00 2.57
2552 6081 6.830324 AGGACTCTGCTGCATATTTTTATTGA 59.170 34.615 1.31 0.00 0.00 2.57
2553 6082 6.916387 CAGGACTCTGCTGCATATTTTTATTG 59.084 38.462 1.31 0.00 33.86 1.90
2554 6083 7.035840 CAGGACTCTGCTGCATATTTTTATT 57.964 36.000 1.31 0.00 33.86 1.40
2555 6084 6.630444 CAGGACTCTGCTGCATATTTTTAT 57.370 37.500 1.31 0.00 33.86 1.40
2557 6086 4.978083 CAGGACTCTGCTGCATATTTTT 57.022 40.909 1.31 0.00 33.86 1.94
2569 6098 0.689623 AGGGAAACAGCAGGACTCTG 59.310 55.000 0.00 0.00 43.64 3.35
2570 6099 0.980423 GAGGGAAACAGCAGGACTCT 59.020 55.000 0.00 0.00 0.00 3.24
2571 6100 0.687354 TGAGGGAAACAGCAGGACTC 59.313 55.000 0.00 0.00 0.00 3.36
2572 6101 1.140312 TTGAGGGAAACAGCAGGACT 58.860 50.000 0.00 0.00 0.00 3.85
2573 6102 1.981256 TTTGAGGGAAACAGCAGGAC 58.019 50.000 0.00 0.00 0.00 3.85
2574 6103 2.746279 TTTTGAGGGAAACAGCAGGA 57.254 45.000 0.00 0.00 0.00 3.86
2747 6283 1.019278 AAGTCGTATGCAACAGCCCG 61.019 55.000 0.00 0.00 0.00 6.13
2799 6335 5.999205 TTAAGGTGTGGATGCAAATGAAT 57.001 34.783 0.00 0.00 0.00 2.57
2917 6455 1.523258 CAGATCAGCCTTGGCTCCG 60.523 63.158 11.72 1.82 0.00 4.63
2986 6524 3.065786 GCGCCATGAGATTTGAATCTTCA 59.934 43.478 7.60 7.66 45.39 3.02
3274 6812 9.341899 GATAAAACAAACTGACATGATACCAAC 57.658 33.333 0.00 0.00 0.00 3.77
3327 6865 2.731968 GCACAGGGCAATAACAATGACG 60.732 50.000 0.00 0.00 43.97 4.35
3513 7051 0.616371 TTACCAAGTCCATCCACCGG 59.384 55.000 0.00 0.00 0.00 5.28
4037 7575 6.765989 ACAAGGCAAAGCGATACTATGAAATA 59.234 34.615 0.00 0.00 0.00 1.40
4038 7576 5.590259 ACAAGGCAAAGCGATACTATGAAAT 59.410 36.000 0.00 0.00 0.00 2.17
4039 7577 4.941263 ACAAGGCAAAGCGATACTATGAAA 59.059 37.500 0.00 0.00 0.00 2.69
4040 7578 4.513442 ACAAGGCAAAGCGATACTATGAA 58.487 39.130 0.00 0.00 0.00 2.57
4041 7579 4.137116 ACAAGGCAAAGCGATACTATGA 57.863 40.909 0.00 0.00 0.00 2.15
4071 7609 3.876914 AGCGATTCTCTCAACAACAACAA 59.123 39.130 0.00 0.00 0.00 2.83
4072 7610 3.466836 AGCGATTCTCTCAACAACAACA 58.533 40.909 0.00 0.00 0.00 3.33
4073 7611 4.474226 AAGCGATTCTCTCAACAACAAC 57.526 40.909 0.00 0.00 0.00 3.32
4257 7795 7.256756 AGTAATTTCACTGCAATATCTCAGC 57.743 36.000 0.00 0.00 33.80 4.26
4283 7821 6.497785 TTTTTGAAACAGTACGAAGTTCCA 57.502 33.333 0.00 0.00 37.78 3.53
4514 8052 0.329261 TCCACATGCCTTTCCTGAGG 59.671 55.000 0.00 0.00 39.93 3.86
4552 8090 3.495377 CGGATCTTTGTTTACAACCACGA 59.505 43.478 0.00 0.00 35.28 4.35
4656 8194 9.254133 CAGAACATGAATGTCGTCTCTATTAAT 57.746 33.333 0.00 0.00 40.80 1.40
4663 8201 3.257393 AGCAGAACATGAATGTCGTCTC 58.743 45.455 0.00 0.00 40.80 3.36
4666 8204 3.325293 AGAGCAGAACATGAATGTCGT 57.675 42.857 0.00 0.00 40.80 4.34
4692 8230 0.601558 CATTGCCATCCCTAGCATGC 59.398 55.000 10.51 10.51 39.11 4.06
5250 8795 1.119684 CATACCCATCACCCGACAGA 58.880 55.000 0.00 0.00 0.00 3.41
5385 8930 2.489329 GAGTGTTGTACCAATGCATGCT 59.511 45.455 20.33 0.00 0.00 3.79
5386 8931 2.489329 AGAGTGTTGTACCAATGCATGC 59.511 45.455 11.82 11.82 0.00 4.06
5387 8932 3.127548 GGAGAGTGTTGTACCAATGCATG 59.872 47.826 0.00 0.00 0.00 4.06
5388 8933 3.347216 GGAGAGTGTTGTACCAATGCAT 58.653 45.455 0.00 0.00 0.00 3.96
5389 8934 2.552155 GGGAGAGTGTTGTACCAATGCA 60.552 50.000 0.00 0.00 0.00 3.96
5390 8935 2.084546 GGGAGAGTGTTGTACCAATGC 58.915 52.381 0.00 0.00 0.00 3.56
5391 8936 3.703001 AGGGAGAGTGTTGTACCAATG 57.297 47.619 0.00 0.00 0.00 2.82
5392 8937 4.104102 TGAAAGGGAGAGTGTTGTACCAAT 59.896 41.667 0.00 0.00 0.00 3.16
5393 8938 3.456644 TGAAAGGGAGAGTGTTGTACCAA 59.543 43.478 0.00 0.00 0.00 3.67
5394 8939 3.042682 TGAAAGGGAGAGTGTTGTACCA 58.957 45.455 0.00 0.00 0.00 3.25
5395 8940 3.764237 TGAAAGGGAGAGTGTTGTACC 57.236 47.619 0.00 0.00 0.00 3.34
5396 8941 4.003648 CCATGAAAGGGAGAGTGTTGTAC 58.996 47.826 0.00 0.00 43.46 2.90
5397 8942 3.650942 ACCATGAAAGGGAGAGTGTTGTA 59.349 43.478 0.00 0.00 43.46 2.41
5398 8943 2.443255 ACCATGAAAGGGAGAGTGTTGT 59.557 45.455 0.00 0.00 43.46 3.32
5399 8944 3.146104 ACCATGAAAGGGAGAGTGTTG 57.854 47.619 0.00 0.00 43.46 3.33
5400 8945 4.597507 TCTTACCATGAAAGGGAGAGTGTT 59.402 41.667 0.00 0.00 43.46 3.32
5401 8946 4.168101 TCTTACCATGAAAGGGAGAGTGT 58.832 43.478 0.00 0.00 43.46 3.55
5402 8947 4.383552 CCTCTTACCATGAAAGGGAGAGTG 60.384 50.000 8.71 3.94 43.46 3.51
5403 8948 3.777522 CCTCTTACCATGAAAGGGAGAGT 59.222 47.826 8.71 0.00 43.46 3.24
5404 8949 4.033709 TCCTCTTACCATGAAAGGGAGAG 58.966 47.826 8.71 0.00 43.46 3.20
5405 8950 4.033709 CTCCTCTTACCATGAAAGGGAGA 58.966 47.826 23.19 13.51 43.46 3.71
5406 8951 3.135530 CCTCCTCTTACCATGAAAGGGAG 59.864 52.174 22.04 22.04 43.46 4.30
5407 8952 3.115390 CCTCCTCTTACCATGAAAGGGA 58.885 50.000 8.71 11.13 43.46 4.20
5409 8954 4.019321 TGAACCTCCTCTTACCATGAAAGG 60.019 45.833 0.00 0.00 0.00 3.11
5410 8955 5.165961 TGAACCTCCTCTTACCATGAAAG 57.834 43.478 0.00 0.00 0.00 2.62
5411 8956 5.576563 TTGAACCTCCTCTTACCATGAAA 57.423 39.130 0.00 0.00 0.00 2.69
5412 8957 5.779241 ATTGAACCTCCTCTTACCATGAA 57.221 39.130 0.00 0.00 0.00 2.57
5413 8958 5.779241 AATTGAACCTCCTCTTACCATGA 57.221 39.130 0.00 0.00 0.00 3.07
5414 8959 7.938140 TTTAATTGAACCTCCTCTTACCATG 57.062 36.000 0.00 0.00 0.00 3.66
5415 8960 9.628500 GTATTTAATTGAACCTCCTCTTACCAT 57.372 33.333 0.00 0.00 0.00 3.55
5416 8961 8.050930 GGTATTTAATTGAACCTCCTCTTACCA 58.949 37.037 0.00 0.00 0.00 3.25
5417 8962 8.272889 AGGTATTTAATTGAACCTCCTCTTACC 58.727 37.037 0.00 0.00 37.87 2.85
5423 8968 8.914011 GCATTTAGGTATTTAATTGAACCTCCT 58.086 33.333 1.55 3.21 41.44 3.69
5424 8969 8.914011 AGCATTTAGGTATTTAATTGAACCTCC 58.086 33.333 1.55 0.00 41.44 4.30
5425 8970 9.736023 CAGCATTTAGGTATTTAATTGAACCTC 57.264 33.333 1.55 0.00 41.44 3.85
5426 8971 9.474313 TCAGCATTTAGGTATTTAATTGAACCT 57.526 29.630 3.71 3.71 44.47 3.50
5427 8972 9.516314 GTCAGCATTTAGGTATTTAATTGAACC 57.484 33.333 0.00 0.00 0.00 3.62
5436 8981 7.754924 CGTCAAATTGTCAGCATTTAGGTATTT 59.245 33.333 0.00 0.00 0.00 1.40
5437 8982 7.094377 ACGTCAAATTGTCAGCATTTAGGTATT 60.094 33.333 0.00 0.00 0.00 1.89
5438 8983 6.374333 ACGTCAAATTGTCAGCATTTAGGTAT 59.626 34.615 0.00 0.00 0.00 2.73
5439 8984 5.703592 ACGTCAAATTGTCAGCATTTAGGTA 59.296 36.000 0.00 0.00 0.00 3.08
5440 8985 4.518970 ACGTCAAATTGTCAGCATTTAGGT 59.481 37.500 0.00 0.00 0.00 3.08
5441 8986 5.046910 ACGTCAAATTGTCAGCATTTAGG 57.953 39.130 0.00 0.00 0.00 2.69
5442 8987 4.783036 CGACGTCAAATTGTCAGCATTTAG 59.217 41.667 17.16 0.00 34.78 1.85
5443 8988 4.377943 CCGACGTCAAATTGTCAGCATTTA 60.378 41.667 17.16 0.00 34.78 1.40
5444 8989 3.554524 CGACGTCAAATTGTCAGCATTT 58.445 40.909 17.16 0.00 34.78 2.32
5445 8990 2.095768 CCGACGTCAAATTGTCAGCATT 60.096 45.455 17.16 0.00 34.78 3.56
5446 8991 1.464608 CCGACGTCAAATTGTCAGCAT 59.535 47.619 17.16 0.00 34.78 3.79
5447 8992 0.865111 CCGACGTCAAATTGTCAGCA 59.135 50.000 17.16 0.00 34.78 4.41
5448 8993 3.657537 CCGACGTCAAATTGTCAGC 57.342 52.632 17.16 0.00 34.78 4.26


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

AutoCloner maintained by Alex Coulton.