Multiple sequence alignment - TraesCS4B01G170300

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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 TraesCS4B01G170300 chr4B 100.000 6071 0 0 1 6071 372818476 372824546 0.000000e+00 11212.0
1 TraesCS4B01G170300 chr4B 80.899 178 29 5 4552 4726 107663068 107662893 1.060000e-27 135.0
2 TraesCS4B01G170300 chr4B 95.000 40 1 1 4446 4485 581904593 581904555 1.830000e-05 62.1
3 TraesCS4B01G170300 chr4D 94.712 4406 158 39 1 4383 299762606 299766959 0.000000e+00 6776.0
4 TraesCS4B01G170300 chr4D 95.298 1510 35 8 4577 6071 299767085 299768573 0.000000e+00 2362.0
5 TraesCS4B01G170300 chr4D 89.252 214 20 3 4503 4714 40952346 40952134 1.300000e-66 265.0
6 TraesCS4B01G170300 chr4D 93.182 44 3 0 4219 4262 299766698 299766741 1.410000e-06 65.8
7 TraesCS4B01G170300 chr4D 100.000 28 0 0 4446 4473 218113249 218113222 1.100000e-02 52.8
8 TraesCS4B01G170300 chr4A 90.408 1887 109 38 1 1875 183985895 183984069 0.000000e+00 2416.0
9 TraesCS4B01G170300 chr4A 97.639 1398 25 4 1894 3284 183983652 183982256 0.000000e+00 2392.0
10 TraesCS4B01G170300 chr4A 95.093 1508 46 9 4580 6071 183981094 183979599 0.000000e+00 2350.0
11 TraesCS4B01G170300 chr4A 96.365 1183 33 5 3298 4474 183982273 183981095 0.000000e+00 1938.0
12 TraesCS4B01G170300 chr4A 81.655 278 44 5 4450 4722 614227943 614228218 2.200000e-54 224.0
13 TraesCS4B01G170300 chr4A 88.889 63 2 3 4898 4960 493268146 493268089 8.440000e-09 73.1
14 TraesCS4B01G170300 chr4A 97.368 38 1 0 4225 4262 183981439 183981402 1.410000e-06 65.8
15 TraesCS4B01G170300 chr7B 87.200 250 30 2 4453 4701 736300571 736300323 3.580000e-72 283.0
16 TraesCS4B01G170300 chr7B 83.065 248 33 8 4453 4695 537461522 537461279 3.680000e-52 217.0
17 TraesCS4B01G170300 chr1B 84.043 282 33 4 4449 4719 558228124 558228404 1.680000e-65 261.0
18 TraesCS4B01G170300 chr5B 83.696 276 31 7 4456 4719 595288569 595288842 1.310000e-61 248.0
19 TraesCS4B01G170300 chr5B 86.222 225 25 5 4503 4723 270679456 270679678 7.860000e-59 239.0
20 TraesCS4B01G170300 chr5B 86.829 205 23 4 4523 4724 541090835 541090632 6.120000e-55 226.0
21 TraesCS4B01G170300 chr5B 87.500 176 21 1 480 655 398078410 398078584 1.030000e-47 202.0
22 TraesCS4B01G170300 chr5B 82.286 175 29 2 484 657 628508207 628508034 3.790000e-32 150.0
23 TraesCS4B01G170300 chr5B 81.818 176 30 2 481 655 624935399 624935225 4.900000e-31 147.0
24 TraesCS4B01G170300 chr5B 84.444 135 12 5 471 605 382068242 382068367 2.300000e-24 124.0
25 TraesCS4B01G170300 chr5B 97.222 36 1 0 4450 4485 143720274 143720239 1.830000e-05 62.1
26 TraesCS4B01G170300 chr3D 81.851 281 36 7 4453 4719 416394115 416393836 7.920000e-54 222.0
27 TraesCS4B01G170300 chr3D 87.805 82 8 2 519 599 550249207 550249127 1.800000e-15 95.3
28 TraesCS4B01G170300 chr6D 85.714 175 25 0 481 655 464894751 464894577 1.040000e-42 185.0
29 TraesCS4B01G170300 chr5D 85.876 177 18 7 481 654 328702715 328702887 1.340000e-41 182.0
30 TraesCS4B01G170300 chr5D 87.200 125 16 0 481 605 8964345 8964221 6.340000e-30 143.0
31 TraesCS4B01G170300 chr5D 100.000 36 0 0 4450 4485 132417987 132417952 3.930000e-07 67.6
32 TraesCS4B01G170300 chr7D 85.227 176 24 2 481 655 57880646 57880472 4.830000e-41 180.0
33 TraesCS4B01G170300 chr7D 90.816 98 8 1 552 649 561921952 561922048 4.940000e-26 130.0
34 TraesCS4B01G170300 chr7D 79.213 178 22 8 490 655 599532274 599532448 6.430000e-20 110.0
35 TraesCS4B01G170300 chr6A 88.889 144 15 1 481 624 554512761 554512619 6.250000e-40 176.0
36 TraesCS4B01G170300 chr6A 85.714 119 7 2 4471 4579 524070091 524069973 3.840000e-22 117.0
37 TraesCS4B01G170300 chr6A 85.124 121 7 4 4469 4578 564730181 564730061 4.970000e-21 113.0
38 TraesCS4B01G170300 chr6A 83.193 119 10 3 4471 4579 2401314 2401432 3.870000e-17 100.0
39 TraesCS4B01G170300 chr6A 82.787 122 11 2 4467 4578 464513190 464513311 3.870000e-17 100.0
40 TraesCS4B01G170300 chr6A 82.051 117 11 3 4472 4578 616884144 616884028 2.330000e-14 91.6
41 TraesCS4B01G170300 chr5A 85.227 176 21 5 481 654 427836816 427836644 6.250000e-40 176.0
42 TraesCS4B01G170300 chr5A 87.013 154 20 0 483 636 7024047 7023894 2.250000e-39 174.0
43 TraesCS4B01G170300 chr5A 88.889 63 2 3 4898 4960 671856180 671856237 8.440000e-09 73.1
44 TraesCS4B01G170300 chr6B 86.335 161 16 4 481 637 512177819 512177977 2.910000e-38 171.0
45 TraesCS4B01G170300 chr6B 82.979 141 13 4 4449 4578 712173887 712173747 3.840000e-22 117.0
46 TraesCS4B01G170300 chr6B 84.298 121 8 6 4469 4578 687051724 687051844 2.310000e-19 108.0
47 TraesCS4B01G170300 chr2A 84.211 171 23 4 481 649 78767527 78767695 4.870000e-36 163.0
48 TraesCS4B01G170300 chr3B 77.778 297 36 14 4453 4721 384067206 384066912 8.150000e-34 156.0
49 TraesCS4B01G170300 chr3B 77.957 186 20 8 4445 4610 456792835 456792651 5.010000e-16 97.1
50 TraesCS4B01G170300 chr3B 77.401 177 19 7 4445 4601 574901982 574902157 1.080000e-12 86.1
51 TraesCS4B01G170300 chr3B 76.471 187 22 6 4445 4610 36124749 36124934 1.400000e-11 82.4
52 TraesCS4B01G170300 chr7A 85.926 135 9 4 4457 4581 632588283 632588149 1.060000e-27 135.0
53 TraesCS4B01G170300 chr7A 86.842 114 5 5 4468 4571 692915100 692915213 1.070000e-22 119.0
54 TraesCS4B01G170300 chr7A 88.889 63 2 3 4898 4960 12211275 12211332 8.440000e-09 73.1
55 TraesCS4B01G170300 chr2B 75.445 281 54 7 4453 4720 620639166 620639444 8.260000e-24 122.0
56 TraesCS4B01G170300 chr2B 79.144 187 17 8 4445 4610 242473695 242473880 6.430000e-20 110.0
57 TraesCS4B01G170300 chr2B 86.364 66 9 0 4445 4510 312956378 312956313 8.440000e-09 73.1
58 TraesCS4B01G170300 chr2B 91.667 48 4 0 4469 4516 494880103 494880056 3.930000e-07 67.6
59 TraesCS4B01G170300 chr2B 89.796 49 3 1 4472 4518 201381685 201381733 1.830000e-05 62.1
60 TraesCS4B01G170300 chr1D 88.889 63 2 3 4898 4960 5660357 5660414 8.440000e-09 73.1
61 TraesCS4B01G170300 chr1D 88.889 63 2 3 4898 4960 64303544 64303487 8.440000e-09 73.1


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G170300 chr4B 372818476 372824546 6070 False 11212.000000 11212 100.000000 1 6071 1 chr4B.!!$F1 6070
1 TraesCS4B01G170300 chr4D 299762606 299768573 5967 False 3067.933333 6776 94.397333 1 6071 3 chr4D.!!$F1 6070
2 TraesCS4B01G170300 chr4A 183979599 183985895 6296 True 1832.360000 2416 95.374600 1 6071 5 chr4A.!!$R2 6070

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
386 402 0.105039 GTACAGATCCTCCCAAGCCG 59.895 60.000 0.00 0.0 0.00 5.52 F
699 732 0.960286 GATGGGTACGCTACTCCCTC 59.040 60.000 11.59 0.0 41.58 4.30 F
941 979 1.128878 CCCGATACGATACGAGAGCAG 59.871 57.143 0.00 0.0 0.00 4.24 F
2412 2858 1.924731 TCTGTGATCCTCAACTCCGT 58.075 50.000 0.00 0.0 0.00 4.69 F
4487 4985 0.032813 AAATACTCCCTCCGTCCGGA 60.033 55.000 0.00 0.0 42.90 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1363 1407 1.040339 TCGCCCAAAAAGCAACACCT 61.040 50.000 0.00 0.0 0.00 4.00 R
2469 2915 1.338020 GTCATCATCGGGGCCATTTTC 59.662 52.381 4.39 0.0 0.00 2.29 R
3135 3581 2.361119 CTGTAGCACGAGCCCTTGTATA 59.639 50.000 0.00 0.0 43.56 1.47 R
4474 4972 0.032813 AGTAATTCCGGACGGAGGGA 60.033 55.000 13.64 0.0 46.06 4.20 R
5894 6408 1.106351 ACTGCAATTGGGCACAACGA 61.106 50.000 1.86 0.0 39.87 3.85 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 5.882557 CACTATACCCAAGCTCTTTGACAAT 59.117 40.000 0.00 0.00 39.21 2.71
88 89 2.413765 CCATCTTCGTTGCAAAGCTCTG 60.414 50.000 7.57 2.94 0.00 3.35
98 99 1.881973 GCAAAGCTCTGGTCATTGTGA 59.118 47.619 0.00 0.00 0.00 3.58
160 161 5.864474 GCACGTATTGGACTTAGATATCCAG 59.136 44.000 0.00 0.00 45.66 3.86
206 207 9.978044 CCAACTTAACCTAACTCCTACATATAC 57.022 37.037 0.00 0.00 0.00 1.47
272 278 7.540745 CCTTTTTCACAGGTAAACCAAATATCG 59.459 37.037 1.26 0.00 38.89 2.92
346 353 1.339644 TGGTACTATTGGACCGCCCC 61.340 60.000 3.98 0.00 38.69 5.80
347 354 1.448924 GTACTATTGGACCGCCCCC 59.551 63.158 0.00 0.00 0.00 5.40
373 389 2.279935 AAACAAATGGCGGGTACAGA 57.720 45.000 0.00 0.00 0.00 3.41
374 390 2.507407 AACAAATGGCGGGTACAGAT 57.493 45.000 0.00 0.00 0.00 2.90
375 391 2.038387 ACAAATGGCGGGTACAGATC 57.962 50.000 0.00 0.00 0.00 2.75
376 392 1.308998 CAAATGGCGGGTACAGATCC 58.691 55.000 0.00 0.00 0.00 3.36
377 393 1.134098 CAAATGGCGGGTACAGATCCT 60.134 52.381 0.00 0.00 0.00 3.24
378 394 0.759346 AATGGCGGGTACAGATCCTC 59.241 55.000 0.00 0.00 0.00 3.71
379 395 1.122019 ATGGCGGGTACAGATCCTCC 61.122 60.000 0.00 0.00 0.00 4.30
380 396 2.508751 GGCGGGTACAGATCCTCCC 61.509 68.421 0.00 0.00 36.82 4.30
381 397 1.760875 GCGGGTACAGATCCTCCCA 60.761 63.158 11.05 0.00 39.87 4.37
382 398 1.335132 GCGGGTACAGATCCTCCCAA 61.335 60.000 11.05 0.00 39.87 4.12
383 399 0.753262 CGGGTACAGATCCTCCCAAG 59.247 60.000 11.05 0.00 39.87 3.61
384 400 0.470341 GGGTACAGATCCTCCCAAGC 59.530 60.000 0.00 0.00 39.68 4.01
385 401 0.470341 GGTACAGATCCTCCCAAGCC 59.530 60.000 0.00 0.00 0.00 4.35
386 402 0.105039 GTACAGATCCTCCCAAGCCG 59.895 60.000 0.00 0.00 0.00 5.52
387 403 1.686325 TACAGATCCTCCCAAGCCGC 61.686 60.000 0.00 0.00 0.00 6.53
388 404 2.688666 AGATCCTCCCAAGCCGCA 60.689 61.111 0.00 0.00 0.00 5.69
389 405 2.514824 GATCCTCCCAAGCCGCAC 60.515 66.667 0.00 0.00 0.00 5.34
390 406 3.329542 GATCCTCCCAAGCCGCACA 62.330 63.158 0.00 0.00 0.00 4.57
391 407 3.335356 ATCCTCCCAAGCCGCACAG 62.335 63.158 0.00 0.00 0.00 3.66
448 464 7.496529 TTTCTTGACAATCCACTAGACAAAG 57.503 36.000 0.00 0.00 0.00 2.77
459 475 6.776744 TCCACTAGACAAAGTAGTACTCTCA 58.223 40.000 2.58 0.00 0.00 3.27
465 481 6.972722 AGACAAAGTAGTACTCTCAGTGTTC 58.027 40.000 2.58 0.00 0.00 3.18
655 671 3.202829 ACCCACTCAAAGTTCGCTTAA 57.797 42.857 0.00 0.00 36.20 1.85
657 673 3.751698 ACCCACTCAAAGTTCGCTTAATC 59.248 43.478 0.00 0.00 36.20 1.75
659 675 5.175859 CCCACTCAAAGTTCGCTTAATCTA 58.824 41.667 0.00 0.00 36.20 1.98
663 696 7.707035 CCACTCAAAGTTCGCTTAATCTATAGT 59.293 37.037 0.00 0.00 36.20 2.12
666 699 8.858003 TCAAAGTTCGCTTAATCTATAGTCAG 57.142 34.615 0.00 0.00 36.20 3.51
675 708 6.804295 GCTTAATCTATAGTCAGTGATCGTGG 59.196 42.308 0.00 0.00 0.00 4.94
699 732 0.960286 GATGGGTACGCTACTCCCTC 59.040 60.000 11.59 0.00 41.58 4.30
731 769 6.980416 AAAATAATACGCTACTCCCTCTCT 57.020 37.500 0.00 0.00 0.00 3.10
732 770 8.474710 AAAAATAATACGCTACTCCCTCTCTA 57.525 34.615 0.00 0.00 0.00 2.43
733 771 8.474710 AAAATAATACGCTACTCCCTCTCTAA 57.525 34.615 0.00 0.00 0.00 2.10
734 772 8.653036 AAATAATACGCTACTCCCTCTCTAAT 57.347 34.615 0.00 0.00 0.00 1.73
735 773 7.868906 ATAATACGCTACTCCCTCTCTAATC 57.131 40.000 0.00 0.00 0.00 1.75
736 774 3.868619 ACGCTACTCCCTCTCTAATCT 57.131 47.619 0.00 0.00 0.00 2.40
737 775 4.978438 ACGCTACTCCCTCTCTAATCTA 57.022 45.455 0.00 0.00 0.00 1.98
738 776 5.307544 ACGCTACTCCCTCTCTAATCTAA 57.692 43.478 0.00 0.00 0.00 2.10
739 777 5.883180 ACGCTACTCCCTCTCTAATCTAAT 58.117 41.667 0.00 0.00 0.00 1.73
740 778 5.708230 ACGCTACTCCCTCTCTAATCTAATG 59.292 44.000 0.00 0.00 0.00 1.90
741 779 5.941058 CGCTACTCCCTCTCTAATCTAATGA 59.059 44.000 0.00 0.00 0.00 2.57
742 780 6.431543 CGCTACTCCCTCTCTAATCTAATGAA 59.568 42.308 0.00 0.00 0.00 2.57
743 781 7.040340 CGCTACTCCCTCTCTAATCTAATGAAA 60.040 40.741 0.00 0.00 0.00 2.69
744 782 8.303876 GCTACTCCCTCTCTAATCTAATGAAAG 58.696 40.741 0.00 0.00 0.00 2.62
745 783 9.581289 CTACTCCCTCTCTAATCTAATGAAAGA 57.419 37.037 0.00 0.00 0.00 2.52
746 784 8.846423 ACTCCCTCTCTAATCTAATGAAAGAA 57.154 34.615 0.00 0.00 0.00 2.52
747 785 9.273137 ACTCCCTCTCTAATCTAATGAAAGAAA 57.727 33.333 0.00 0.00 0.00 2.52
941 979 1.128878 CCCGATACGATACGAGAGCAG 59.871 57.143 0.00 0.00 0.00 4.24
1003 1041 2.125961 GCTCGTACCCTCCCGATGT 61.126 63.158 0.00 0.00 31.90 3.06
1009 1047 2.815684 TACCCTCCCGATGTGGCTGT 62.816 60.000 0.00 0.00 35.87 4.40
1047 1085 4.516195 GGTCTCGCCCTTCTCGCC 62.516 72.222 0.00 0.00 0.00 5.54
1353 1397 2.350388 CGTGCGCCTTTTGTTCTGTTAT 60.350 45.455 4.18 0.00 0.00 1.89
1354 1398 3.120477 CGTGCGCCTTTTGTTCTGTTATA 60.120 43.478 4.18 0.00 0.00 0.98
1363 1407 7.115663 GCCTTTTGTTCTGTTATAAATTTCGCA 59.884 33.333 0.00 0.00 0.00 5.10
1387 1431 2.822561 TGTTGCTTTTTGGGCGATGATA 59.177 40.909 0.00 0.00 0.00 2.15
1390 1434 2.223782 TGCTTTTTGGGCGATGATATGC 60.224 45.455 0.00 0.00 0.00 3.14
1449 1493 4.216257 GTCTGCAATGCTTTAAGTCTCCAA 59.784 41.667 6.82 0.00 0.00 3.53
1497 1543 3.592059 TCTGTTCCAATTACGTAGGTGC 58.408 45.455 0.00 0.00 0.00 5.01
1585 1631 2.222027 CTTCAAGTTGCCCGTTCTCTT 58.778 47.619 0.00 0.00 0.00 2.85
1674 1721 3.326297 AGCTTAGTCCAGTTCTTGCTCTT 59.674 43.478 0.00 0.00 0.00 2.85
1790 1837 2.009774 GCTAATGTGATTGTCGTGCCT 58.990 47.619 0.00 0.00 0.00 4.75
1844 1891 6.151691 GCATAGACAACAAACACAACATGAT 58.848 36.000 0.00 0.00 0.00 2.45
1876 1923 8.046708 TCCATTGTTTCTGTACATATTAGCACT 58.953 33.333 0.00 0.00 0.00 4.40
1879 1926 7.827819 TGTTTCTGTACATATTAGCACTGAC 57.172 36.000 0.00 0.00 0.00 3.51
2012 2457 2.707791 TCAAGGGCAGATATCCTTCAGG 59.292 50.000 0.00 0.00 41.06 3.86
2019 2464 6.157645 AGGGCAGATATCCTTCAGGTATTATG 59.842 42.308 0.00 0.00 36.34 1.90
2128 2574 3.005155 AGAAATGCAGCAAAAGACAGGAC 59.995 43.478 0.00 0.00 0.00 3.85
2412 2858 1.924731 TCTGTGATCCTCAACTCCGT 58.075 50.000 0.00 0.00 0.00 4.69
2469 2915 3.531059 TCCTCATGGTTATATCCCTGGG 58.469 50.000 6.33 6.33 34.23 4.45
3172 3618 5.869888 GTGCTACAGCTGTTTACATTCTAGT 59.130 40.000 27.06 0.00 42.66 2.57
3239 3690 1.955778 TGTGGCCATGTCTTTCAACAG 59.044 47.619 9.72 0.00 31.50 3.16
3265 3716 6.093909 TCAGTATCTGTGTTGCATGTTATTGG 59.906 38.462 0.00 0.00 32.61 3.16
3379 3831 3.691609 CCAGGATAAAGTTGGTTGCTCTC 59.308 47.826 0.00 0.00 0.00 3.20
3393 3845 4.021544 GGTTGCTCTCCTCTGATACCTATG 60.022 50.000 0.00 0.00 0.00 2.23
3607 4060 1.480545 GGTATGTGTTGGGCCAATTCC 59.519 52.381 23.95 13.46 0.00 3.01
3715 4168 7.528307 TCAATTATTTCATGCAAATTGTTGGC 58.472 30.769 15.37 0.00 39.32 4.52
3763 4216 2.009681 ATTTTTCCCTTGTCCGCCTT 57.990 45.000 0.00 0.00 0.00 4.35
3825 4282 5.045942 TGAGTGATCACCTTTATGCAGGTTA 60.046 40.000 22.21 0.00 45.76 2.85
3831 4288 4.704540 TCACCTTTATGCAGGTTATGTTGG 59.295 41.667 0.00 0.00 45.76 3.77
3975 4432 3.216800 GTCCTTCTTGCCATCATATGCA 58.783 45.455 0.00 0.00 35.27 3.96
4135 4595 7.324178 AGTCTCTAACTGTCATTATGTTGACC 58.676 38.462 7.22 0.00 44.37 4.02
4160 4620 7.274033 CCAAGCTGTCAATAACATTATTGTGTG 59.726 37.037 19.08 12.84 46.28 3.82
4296 4756 3.184379 CGGCTGATATGTTGTAACCATCG 59.816 47.826 0.00 0.00 0.00 3.84
4434 4932 8.658499 AACTATTACTCCATTTTCCACGATAC 57.342 34.615 0.00 0.00 0.00 2.24
4461 4959 5.834204 GTCACCACTGTTATATACTCCCTCT 59.166 44.000 0.00 0.00 0.00 3.69
4475 4973 7.842887 ATACTCCCTCTGTTCCTAAATACTC 57.157 40.000 0.00 0.00 0.00 2.59
4476 4974 4.963628 ACTCCCTCTGTTCCTAAATACTCC 59.036 45.833 0.00 0.00 0.00 3.85
4477 4975 4.296056 TCCCTCTGTTCCTAAATACTCCC 58.704 47.826 0.00 0.00 0.00 4.30
4478 4976 4.015541 TCCCTCTGTTCCTAAATACTCCCT 60.016 45.833 0.00 0.00 0.00 4.20
4479 4977 4.345547 CCCTCTGTTCCTAAATACTCCCTC 59.654 50.000 0.00 0.00 0.00 4.30
4480 4978 4.345547 CCTCTGTTCCTAAATACTCCCTCC 59.654 50.000 0.00 0.00 0.00 4.30
4481 4979 3.958798 TCTGTTCCTAAATACTCCCTCCG 59.041 47.826 0.00 0.00 0.00 4.63
4482 4980 3.705072 CTGTTCCTAAATACTCCCTCCGT 59.295 47.826 0.00 0.00 0.00 4.69
4483 4981 3.703052 TGTTCCTAAATACTCCCTCCGTC 59.297 47.826 0.00 0.00 0.00 4.79
4484 4982 2.954792 TCCTAAATACTCCCTCCGTCC 58.045 52.381 0.00 0.00 0.00 4.79
4485 4983 1.612463 CCTAAATACTCCCTCCGTCCG 59.388 57.143 0.00 0.00 0.00 4.79
4486 4984 1.612463 CTAAATACTCCCTCCGTCCGG 59.388 57.143 0.00 0.00 0.00 5.14
4487 4985 0.032813 AAATACTCCCTCCGTCCGGA 60.033 55.000 0.00 0.00 42.90 5.14
4488 4986 0.032813 AATACTCCCTCCGTCCGGAA 60.033 55.000 5.23 0.00 44.66 4.30
4489 4987 0.187851 ATACTCCCTCCGTCCGGAAT 59.812 55.000 5.23 0.00 44.66 3.01
4490 4988 0.032813 TACTCCCTCCGTCCGGAATT 60.033 55.000 5.23 0.00 44.66 2.17
4491 4989 0.032813 ACTCCCTCCGTCCGGAATTA 60.033 55.000 5.23 0.00 44.66 1.40
4492 4990 0.388294 CTCCCTCCGTCCGGAATTAC 59.612 60.000 5.23 0.00 44.66 1.89
4493 4991 0.032813 TCCCTCCGTCCGGAATTACT 60.033 55.000 5.23 0.00 44.66 2.24
4494 4992 0.828677 CCCTCCGTCCGGAATTACTT 59.171 55.000 5.23 0.00 44.66 2.24
4495 4993 1.472728 CCCTCCGTCCGGAATTACTTG 60.473 57.143 5.23 0.00 44.66 3.16
4496 4994 1.206371 CCTCCGTCCGGAATTACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
4497 4995 2.537401 CTCCGTCCGGAATTACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
4498 4996 1.135315 TCCGTCCGGAATTACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
4499 4997 1.403249 CCGTCCGGAATTACTTGTCGT 60.403 52.381 5.23 0.00 37.50 4.34
4500 4998 1.652124 CGTCCGGAATTACTTGTCGTG 59.348 52.381 5.23 0.00 0.00 4.35
4501 4999 1.997606 GTCCGGAATTACTTGTCGTGG 59.002 52.381 5.23 0.00 0.00 4.94
4502 5000 1.894466 TCCGGAATTACTTGTCGTGGA 59.106 47.619 0.00 0.00 0.00 4.02
4503 5001 2.299582 TCCGGAATTACTTGTCGTGGAA 59.700 45.455 0.00 0.00 0.00 3.53
4504 5002 3.068560 CCGGAATTACTTGTCGTGGAAA 58.931 45.455 0.00 0.00 0.00 3.13
4505 5003 3.687698 CCGGAATTACTTGTCGTGGAAAT 59.312 43.478 0.00 0.00 0.00 2.17
4506 5004 4.436852 CCGGAATTACTTGTCGTGGAAATG 60.437 45.833 0.00 0.00 0.00 2.32
4507 5005 4.436852 CGGAATTACTTGTCGTGGAAATGG 60.437 45.833 0.00 0.00 0.00 3.16
4508 5006 4.698304 GGAATTACTTGTCGTGGAAATGGA 59.302 41.667 0.00 0.00 0.00 3.41
4509 5007 5.357032 GGAATTACTTGTCGTGGAAATGGAT 59.643 40.000 0.00 0.00 0.00 3.41
4510 5008 5.818136 ATTACTTGTCGTGGAAATGGATG 57.182 39.130 0.00 0.00 0.00 3.51
4511 5009 3.140325 ACTTGTCGTGGAAATGGATGT 57.860 42.857 0.00 0.00 0.00 3.06
4512 5010 4.280436 ACTTGTCGTGGAAATGGATGTA 57.720 40.909 0.00 0.00 0.00 2.29
4513 5011 4.843728 ACTTGTCGTGGAAATGGATGTAT 58.156 39.130 0.00 0.00 0.00 2.29
4514 5012 5.253330 ACTTGTCGTGGAAATGGATGTATT 58.747 37.500 0.00 0.00 0.00 1.89
4515 5013 5.710099 ACTTGTCGTGGAAATGGATGTATTT 59.290 36.000 0.00 0.00 33.19 1.40
4516 5014 6.882140 ACTTGTCGTGGAAATGGATGTATTTA 59.118 34.615 0.00 0.00 30.78 1.40
4517 5015 6.918892 TGTCGTGGAAATGGATGTATTTAG 57.081 37.500 0.00 0.00 30.78 1.85
4518 5016 6.645306 TGTCGTGGAAATGGATGTATTTAGA 58.355 36.000 0.00 0.00 30.78 2.10
4519 5017 7.106890 TGTCGTGGAAATGGATGTATTTAGAA 58.893 34.615 0.00 0.00 30.78 2.10
4520 5018 7.065324 TGTCGTGGAAATGGATGTATTTAGAAC 59.935 37.037 0.00 0.00 30.78 3.01
4521 5019 6.540914 TCGTGGAAATGGATGTATTTAGAACC 59.459 38.462 0.00 0.00 30.78 3.62
4522 5020 6.317642 CGTGGAAATGGATGTATTTAGAACCA 59.682 38.462 0.00 0.00 30.78 3.67
4523 5021 7.148154 CGTGGAAATGGATGTATTTAGAACCAA 60.148 37.037 0.00 0.00 30.78 3.67
4524 5022 8.527810 GTGGAAATGGATGTATTTAGAACCAAA 58.472 33.333 0.00 0.00 30.78 3.28
4525 5023 9.265862 TGGAAATGGATGTATTTAGAACCAAAT 57.734 29.630 0.00 0.00 30.78 2.32
4543 5041 9.778741 GAACCAAATTATGTCTAGATACATCCA 57.221 33.333 0.00 0.00 40.52 3.41
4551 5049 6.332735 TGTCTAGATACATCCATTTCTCCG 57.667 41.667 0.00 0.00 0.00 4.63
4552 5050 6.068670 TGTCTAGATACATCCATTTCTCCGA 58.931 40.000 0.00 0.00 0.00 4.55
4553 5051 6.016192 TGTCTAGATACATCCATTTCTCCGAC 60.016 42.308 0.00 0.00 0.00 4.79
4554 5052 6.016192 GTCTAGATACATCCATTTCTCCGACA 60.016 42.308 0.00 0.00 0.00 4.35
4555 5053 5.614324 AGATACATCCATTTCTCCGACAA 57.386 39.130 0.00 0.00 0.00 3.18
4556 5054 5.605534 AGATACATCCATTTCTCCGACAAG 58.394 41.667 0.00 0.00 0.00 3.16
4557 5055 3.703001 ACATCCATTTCTCCGACAAGT 57.297 42.857 0.00 0.00 0.00 3.16
4558 5056 4.819105 ACATCCATTTCTCCGACAAGTA 57.181 40.909 0.00 0.00 0.00 2.24
4559 5057 5.359194 ACATCCATTTCTCCGACAAGTAT 57.641 39.130 0.00 0.00 0.00 2.12
4560 5058 5.745227 ACATCCATTTCTCCGACAAGTATT 58.255 37.500 0.00 0.00 0.00 1.89
4561 5059 6.180472 ACATCCATTTCTCCGACAAGTATTT 58.820 36.000 0.00 0.00 0.00 1.40
4562 5060 6.316390 ACATCCATTTCTCCGACAAGTATTTC 59.684 38.462 0.00 0.00 0.00 2.17
4563 5061 5.183228 TCCATTTCTCCGACAAGTATTTCC 58.817 41.667 0.00 0.00 0.00 3.13
4564 5062 4.034048 CCATTTCTCCGACAAGTATTTCCG 59.966 45.833 0.00 0.00 0.00 4.30
4565 5063 2.953466 TCTCCGACAAGTATTTCCGG 57.047 50.000 0.00 0.00 41.36 5.14
4566 5064 2.449464 TCTCCGACAAGTATTTCCGGA 58.551 47.619 0.00 0.00 45.74 5.14
4567 5065 2.165030 TCTCCGACAAGTATTTCCGGAC 59.835 50.000 1.83 0.00 43.47 4.79
4568 5066 1.135315 TCCGACAAGTATTTCCGGACG 60.135 52.381 1.83 0.00 43.47 4.79
4569 5067 1.274596 CGACAAGTATTTCCGGACGG 58.725 55.000 1.83 3.96 0.00 4.79
4570 5068 1.135315 CGACAAGTATTTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
4571 5069 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
4572 5070 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
4573 5071 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
4574 5072 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
4575 5073 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
4576 5074 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
4577 5075 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
4578 5076 0.032813 TTTCCGGACGGAGGGAGTAT 60.033 55.000 13.64 0.00 46.06 2.12
4582 5080 1.245732 CGGACGGAGGGAGTATAAGG 58.754 60.000 0.00 0.00 0.00 2.69
4812 5311 6.650807 ACATTAGTTGGTCACATTGTCTGTAG 59.349 38.462 0.00 0.00 35.91 2.74
4913 5412 5.068987 ACCATGTGCACAGATTTAACTTTGT 59.931 36.000 25.84 4.00 0.00 2.83
4914 5413 5.984926 CCATGTGCACAGATTTAACTTTGTT 59.015 36.000 25.84 0.00 0.00 2.83
5212 5711 9.747898 TCAAATATGGTTGGATAACAAGTTAGT 57.252 29.630 0.00 0.00 40.38 2.24
5495 6009 5.611796 TTGTCATTTTTCTCAGATCCACG 57.388 39.130 0.00 0.00 0.00 4.94
5587 6101 6.599445 AGCAGCTATAGAATGGAACTTCATT 58.401 36.000 3.21 0.00 39.76 2.57
5588 6102 6.709846 AGCAGCTATAGAATGGAACTTCATTC 59.290 38.462 3.21 8.92 41.23 2.67
5610 6124 8.734386 CATTCTTTATTTACTCCAGCAAAGAGT 58.266 33.333 8.17 8.17 46.22 3.24
5646 6160 0.332972 AATTGTCTGCTCCCCCTTCC 59.667 55.000 0.00 0.00 0.00 3.46
5670 6184 5.275280 CGCGAGAAAAGTTTTCTGTGTTTTC 60.275 40.000 30.66 15.83 38.59 2.29
5775 6289 8.304202 TGCAAAACATTTAGCATAAAAACGAT 57.696 26.923 0.00 0.00 31.05 3.73
5777 6291 8.220434 GCAAAACATTTAGCATAAAAACGATGT 58.780 29.630 0.00 0.00 0.00 3.06
5860 6374 0.606130 GCACAGGGCCCCAAATTTTG 60.606 55.000 21.43 11.23 36.11 2.44
5935 6449 2.507407 AGTACCGTACCGTTTCCCTA 57.493 50.000 5.02 0.00 0.00 3.53
5981 6495 0.950555 TGAAGCTTGCGTGCGATTCT 60.951 50.000 2.10 0.00 38.13 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 4.393371 GTGAACTTGAGCTTTCCATACTCC 59.607 45.833 0.00 0.00 0.00 3.85
14 15 5.488341 GGTATAGTGAACTTGAGCTTTCCA 58.512 41.667 0.00 0.00 0.00 3.53
17 18 5.499004 TGGGTATAGTGAACTTGAGCTTT 57.501 39.130 0.00 0.00 0.00 3.51
53 54 1.348064 AGATGGTCTTCGGGTCAACA 58.652 50.000 0.00 0.00 0.00 3.33
98 99 0.968393 AACACACCGCAAACCTTGGT 60.968 50.000 0.00 0.00 36.10 3.67
104 105 3.619233 AGATACAAACACACCGCAAAC 57.381 42.857 0.00 0.00 0.00 2.93
160 161 8.910351 AGTTGGATTTATAATTACCAGAGAGC 57.090 34.615 0.00 0.00 32.16 4.09
175 176 9.103582 TGTAGGAGTTAGGTTAAGTTGGATTTA 57.896 33.333 0.00 0.00 0.00 1.40
305 312 3.322254 AGAACACTGAGATGGACGAGTTT 59.678 43.478 0.00 0.00 0.00 2.66
352 368 2.959707 TCTGTACCCGCCATTTGTTTTT 59.040 40.909 0.00 0.00 0.00 1.94
373 389 3.329889 TGTGCGGCTTGGGAGGAT 61.330 61.111 0.00 0.00 0.00 3.24
374 390 4.020617 CTGTGCGGCTTGGGAGGA 62.021 66.667 0.00 0.00 0.00 3.71
375 391 3.335356 ATCTGTGCGGCTTGGGAGG 62.335 63.158 0.00 0.00 0.00 4.30
376 392 1.817099 GATCTGTGCGGCTTGGGAG 60.817 63.158 0.00 0.00 0.00 4.30
377 393 2.268920 GATCTGTGCGGCTTGGGA 59.731 61.111 0.00 0.00 0.00 4.37
378 394 2.825836 GGATCTGTGCGGCTTGGG 60.826 66.667 0.00 0.00 0.00 4.12
379 395 1.817099 GAGGATCTGTGCGGCTTGG 60.817 63.158 0.00 0.00 0.00 3.61
380 396 1.817099 GGAGGATCTGTGCGGCTTG 60.817 63.158 0.00 0.00 33.73 4.01
381 397 2.586792 GGAGGATCTGTGCGGCTT 59.413 61.111 0.00 0.00 33.73 4.35
382 398 3.474570 GGGAGGATCTGTGCGGCT 61.475 66.667 0.00 0.00 33.73 5.52
383 399 3.329542 TTGGGAGGATCTGTGCGGC 62.330 63.158 0.00 0.00 33.73 6.53
384 400 1.153289 CTTGGGAGGATCTGTGCGG 60.153 63.158 0.00 0.00 33.73 5.69
385 401 1.817099 GCTTGGGAGGATCTGTGCG 60.817 63.158 0.00 0.00 33.73 5.34
386 402 1.452833 GGCTTGGGAGGATCTGTGC 60.453 63.158 0.00 0.00 33.73 4.57
387 403 1.225704 GGGCTTGGGAGGATCTGTG 59.774 63.158 0.00 0.00 33.73 3.66
388 404 0.625683 ATGGGCTTGGGAGGATCTGT 60.626 55.000 0.00 0.00 33.73 3.41
389 405 0.110104 GATGGGCTTGGGAGGATCTG 59.890 60.000 0.00 0.00 33.73 2.90
390 406 1.064824 GGATGGGCTTGGGAGGATCT 61.065 60.000 0.00 0.00 33.73 2.75
391 407 1.064824 AGGATGGGCTTGGGAGGATC 61.065 60.000 0.00 0.00 0.00 3.36
637 653 6.910536 ATAGATTAAGCGAACTTTGAGTGG 57.089 37.500 0.00 0.00 37.33 4.00
655 671 5.049336 CGTTCCACGATCACTGACTATAGAT 60.049 44.000 6.78 0.00 46.05 1.98
657 673 4.528504 CGTTCCACGATCACTGACTATAG 58.471 47.826 0.00 0.00 46.05 1.31
659 675 2.099263 CCGTTCCACGATCACTGACTAT 59.901 50.000 0.00 0.00 46.05 2.12
663 696 1.135112 CATCCGTTCCACGATCACTGA 60.135 52.381 0.00 0.00 46.05 3.41
666 699 0.810031 CCCATCCGTTCCACGATCAC 60.810 60.000 0.00 0.00 46.05 3.06
675 708 0.743097 AGTAGCGTACCCATCCGTTC 59.257 55.000 0.00 0.00 0.00 3.95
715 753 4.978438 AGATTAGAGAGGGAGTAGCGTA 57.022 45.455 0.00 0.00 0.00 4.42
746 784 6.016860 GGTGAAAGGAGTACCGTGTTATTTTT 60.017 38.462 0.00 0.00 41.83 1.94
747 785 5.471116 GGTGAAAGGAGTACCGTGTTATTTT 59.529 40.000 0.00 0.00 41.83 1.82
748 786 4.999311 GGTGAAAGGAGTACCGTGTTATTT 59.001 41.667 0.00 0.00 41.83 1.40
749 787 4.040706 TGGTGAAAGGAGTACCGTGTTATT 59.959 41.667 0.00 0.00 41.83 1.40
750 788 3.579586 TGGTGAAAGGAGTACCGTGTTAT 59.420 43.478 0.00 0.00 41.83 1.89
751 789 2.964464 TGGTGAAAGGAGTACCGTGTTA 59.036 45.455 0.00 0.00 41.83 2.41
752 790 1.764134 TGGTGAAAGGAGTACCGTGTT 59.236 47.619 0.00 0.00 41.83 3.32
753 791 1.416243 TGGTGAAAGGAGTACCGTGT 58.584 50.000 0.00 0.00 41.83 4.49
754 792 2.233922 AGATGGTGAAAGGAGTACCGTG 59.766 50.000 0.00 0.00 41.83 4.94
755 793 2.537143 AGATGGTGAAAGGAGTACCGT 58.463 47.619 0.00 0.00 41.83 4.83
756 794 3.611766 AAGATGGTGAAAGGAGTACCG 57.388 47.619 0.00 0.00 41.83 4.02
757 795 5.290386 CGATAAGATGGTGAAAGGAGTACC 58.710 45.833 0.00 0.00 35.05 3.34
758 796 4.745620 GCGATAAGATGGTGAAAGGAGTAC 59.254 45.833 0.00 0.00 0.00 2.73
759 797 4.499188 CGCGATAAGATGGTGAAAGGAGTA 60.499 45.833 0.00 0.00 0.00 2.59
760 798 3.738281 CGCGATAAGATGGTGAAAGGAGT 60.738 47.826 0.00 0.00 0.00 3.85
761 799 2.797156 CGCGATAAGATGGTGAAAGGAG 59.203 50.000 0.00 0.00 0.00 3.69
762 800 2.167693 ACGCGATAAGATGGTGAAAGGA 59.832 45.455 15.93 0.00 0.00 3.36
763 801 2.540101 GACGCGATAAGATGGTGAAAGG 59.460 50.000 15.93 0.00 0.00 3.11
764 802 2.540101 GGACGCGATAAGATGGTGAAAG 59.460 50.000 15.93 0.00 0.00 2.62
941 979 3.545481 CCGTCGCGTGCAGATGTC 61.545 66.667 5.77 0.00 0.00 3.06
1363 1407 1.040339 TCGCCCAAAAAGCAACACCT 61.040 50.000 0.00 0.00 0.00 4.00
1387 1431 1.452110 TCATAACGCTTGCTGTGCAT 58.548 45.000 0.00 0.00 38.76 3.96
1390 1434 1.532505 GCCATCATAACGCTTGCTGTG 60.533 52.381 0.00 0.00 0.00 3.66
1497 1543 1.079543 CCACAAGTCCTCGCCTGAG 60.080 63.158 0.00 0.00 42.18 3.35
1509 1555 5.682862 GTCTATGCGCATAAAATTCCACAAG 59.317 40.000 28.66 15.47 0.00 3.16
1679 1726 9.112725 CAATGTTAACATCTCCTGAATATGACA 57.887 33.333 21.02 0.00 35.10 3.58
1693 1740 6.480320 AGCTATCGGAAGACAATGTTAACATC 59.520 38.462 21.02 10.30 46.97 3.06
1700 1747 3.085443 CGAGCTATCGGAAGACAATGT 57.915 47.619 0.00 0.00 46.97 2.71
1790 1837 4.384547 CACACGTTATCTTTCACATGTCGA 59.615 41.667 0.00 0.00 0.00 4.20
1844 1891 5.222079 TGTACAGAAACAATGGAGCAGTA 57.778 39.130 0.00 0.00 0.00 2.74
1896 2340 7.837202 AACAAATGCTTCATGAAATGTATGG 57.163 32.000 9.88 3.59 46.80 2.74
1973 2417 7.721842 TGCCCTTGATATTCGTATTTCCATAAA 59.278 33.333 0.00 0.00 0.00 1.40
2019 2464 5.047731 GCCCCATTAGATAGCAGAAAATTCC 60.048 44.000 0.00 0.00 0.00 3.01
2128 2574 7.055667 TCTCAACAATAATGGCCTCTACTAG 57.944 40.000 3.32 0.00 0.00 2.57
2139 2585 6.351711 TCTGTCCTGGATCTCAACAATAATG 58.648 40.000 0.00 0.00 0.00 1.90
2412 2858 3.523157 TCCTGCCTGTAATCTTCAATCCA 59.477 43.478 0.00 0.00 0.00 3.41
2469 2915 1.338020 GTCATCATCGGGGCCATTTTC 59.662 52.381 4.39 0.00 0.00 2.29
3135 3581 2.361119 CTGTAGCACGAGCCCTTGTATA 59.639 50.000 0.00 0.00 43.56 1.47
3239 3690 6.668541 ATAACATGCAACACAGATACTGAC 57.331 37.500 5.76 0.00 35.18 3.51
3353 3805 3.814316 GCAACCAACTTTATCCTGGACCT 60.814 47.826 0.00 0.00 34.16 3.85
3379 3831 2.255406 AGGCAGCATAGGTATCAGAGG 58.745 52.381 0.00 0.00 0.00 3.69
3393 3845 3.831715 ATCGACTTGTTTTTAGGCAGC 57.168 42.857 0.00 0.00 0.00 5.25
3607 4060 3.652274 ACTTTCCCAAATTGCAACGATG 58.348 40.909 0.00 0.69 0.00 3.84
3715 4168 3.763097 TGGCATTTGCTTCTATGTTCG 57.237 42.857 2.12 0.00 41.70 3.95
4065 4525 7.213216 TGAACTACATTGTGTACATGCAAAT 57.787 32.000 0.00 0.00 0.00 2.32
4296 4756 5.651530 TCTTCAGAATATCGTGGAAGTGTC 58.348 41.667 0.00 0.00 37.02 3.67
4373 4834 8.839343 CACTGATTGTATTGTTGGATAAGCATA 58.161 33.333 0.00 0.00 0.00 3.14
4434 4932 5.221461 GGGAGTATATAACAGTGGTGACCAG 60.221 48.000 3.58 0.00 32.34 4.00
4461 4959 3.703052 GACGGAGGGAGTATTTAGGAACA 59.297 47.826 0.00 0.00 0.00 3.18
4474 4972 0.032813 AGTAATTCCGGACGGAGGGA 60.033 55.000 13.64 0.00 46.06 4.20
4475 4973 0.828677 AAGTAATTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
4476 4974 1.206371 ACAAGTAATTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
4477 4975 2.537401 GACAAGTAATTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
4478 4976 1.135315 CGACAAGTAATTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
4479 4977 1.274596 CGACAAGTAATTCCGGACGG 58.725 55.000 1.83 3.96 0.00 4.79
4480 4978 1.652124 CACGACAAGTAATTCCGGACG 59.348 52.381 1.83 3.25 0.00 4.79
4481 4979 1.997606 CCACGACAAGTAATTCCGGAC 59.002 52.381 1.83 0.00 0.00 4.79
4482 4980 1.894466 TCCACGACAAGTAATTCCGGA 59.106 47.619 0.00 0.00 0.00 5.14
4483 4981 2.373540 TCCACGACAAGTAATTCCGG 57.626 50.000 0.00 0.00 0.00 5.14
4484 4982 4.436852 CCATTTCCACGACAAGTAATTCCG 60.437 45.833 0.00 0.00 0.00 4.30
4485 4983 4.698304 TCCATTTCCACGACAAGTAATTCC 59.302 41.667 0.00 0.00 0.00 3.01
4486 4984 5.873179 TCCATTTCCACGACAAGTAATTC 57.127 39.130 0.00 0.00 0.00 2.17
4487 4985 5.710099 ACATCCATTTCCACGACAAGTAATT 59.290 36.000 0.00 0.00 0.00 1.40
4488 4986 5.253330 ACATCCATTTCCACGACAAGTAAT 58.747 37.500 0.00 0.00 0.00 1.89
4489 4987 4.647611 ACATCCATTTCCACGACAAGTAA 58.352 39.130 0.00 0.00 0.00 2.24
4490 4988 4.280436 ACATCCATTTCCACGACAAGTA 57.720 40.909 0.00 0.00 0.00 2.24
4491 4989 3.140325 ACATCCATTTCCACGACAAGT 57.860 42.857 0.00 0.00 0.00 3.16
4492 4990 5.818136 AATACATCCATTTCCACGACAAG 57.182 39.130 0.00 0.00 0.00 3.16
4493 4991 7.106890 TCTAAATACATCCATTTCCACGACAA 58.893 34.615 0.00 0.00 30.84 3.18
4494 4992 6.645306 TCTAAATACATCCATTTCCACGACA 58.355 36.000 0.00 0.00 30.84 4.35
4495 4993 7.407337 GTTCTAAATACATCCATTTCCACGAC 58.593 38.462 0.00 0.00 30.84 4.34
4496 4994 6.540914 GGTTCTAAATACATCCATTTCCACGA 59.459 38.462 0.00 0.00 30.84 4.35
4497 4995 6.317642 TGGTTCTAAATACATCCATTTCCACG 59.682 38.462 0.00 0.00 30.84 4.94
4498 4996 7.639113 TGGTTCTAAATACATCCATTTCCAC 57.361 36.000 0.00 0.00 30.84 4.02
4499 4997 8.657387 TTTGGTTCTAAATACATCCATTTCCA 57.343 30.769 0.00 0.00 30.84 3.53
4517 5015 9.778741 TGGATGTATCTAGACATAATTTGGTTC 57.221 33.333 0.00 0.00 40.18 3.62
4525 5023 8.523658 CGGAGAAATGGATGTATCTAGACATAA 58.476 37.037 0.00 0.00 40.18 1.90
4526 5024 7.888546 TCGGAGAAATGGATGTATCTAGACATA 59.111 37.037 0.00 0.00 40.18 2.29
4527 5025 6.721668 TCGGAGAAATGGATGTATCTAGACAT 59.278 38.462 0.00 0.00 42.82 3.06
4528 5026 6.016192 GTCGGAGAAATGGATGTATCTAGACA 60.016 42.308 0.00 0.00 39.69 3.41
4529 5027 6.016192 TGTCGGAGAAATGGATGTATCTAGAC 60.016 42.308 0.00 0.00 39.69 2.59
4530 5028 6.068670 TGTCGGAGAAATGGATGTATCTAGA 58.931 40.000 0.00 0.00 39.69 2.43
4531 5029 6.332735 TGTCGGAGAAATGGATGTATCTAG 57.667 41.667 0.00 0.00 39.69 2.43
4532 5030 6.323996 ACTTGTCGGAGAAATGGATGTATCTA 59.676 38.462 0.00 0.00 39.69 1.98
4533 5031 5.129485 ACTTGTCGGAGAAATGGATGTATCT 59.871 40.000 0.00 0.00 39.69 1.98
4534 5032 5.360591 ACTTGTCGGAGAAATGGATGTATC 58.639 41.667 0.00 0.00 39.69 2.24
4535 5033 5.359194 ACTTGTCGGAGAAATGGATGTAT 57.641 39.130 0.00 0.00 39.69 2.29
4536 5034 4.819105 ACTTGTCGGAGAAATGGATGTA 57.181 40.909 0.00 0.00 39.69 2.29
4537 5035 3.703001 ACTTGTCGGAGAAATGGATGT 57.297 42.857 0.00 0.00 39.69 3.06
4538 5036 6.238484 GGAAATACTTGTCGGAGAAATGGATG 60.238 42.308 0.00 0.00 39.69 3.51
4539 5037 5.823045 GGAAATACTTGTCGGAGAAATGGAT 59.177 40.000 0.00 0.00 39.69 3.41
4540 5038 5.183228 GGAAATACTTGTCGGAGAAATGGA 58.817 41.667 0.00 0.00 39.69 3.41
4541 5039 4.034048 CGGAAATACTTGTCGGAGAAATGG 59.966 45.833 0.00 0.00 39.69 3.16
4542 5040 4.034048 CCGGAAATACTTGTCGGAGAAATG 59.966 45.833 0.00 0.00 42.94 2.32
4543 5041 4.081309 TCCGGAAATACTTGTCGGAGAAAT 60.081 41.667 0.00 0.00 43.84 2.17
4544 5042 3.258872 TCCGGAAATACTTGTCGGAGAAA 59.741 43.478 0.00 0.00 43.84 2.52
4545 5043 2.827322 TCCGGAAATACTTGTCGGAGAA 59.173 45.455 0.00 0.00 43.84 2.87
4546 5044 2.449464 TCCGGAAATACTTGTCGGAGA 58.551 47.619 0.00 0.00 43.84 3.71
4547 5045 2.953466 TCCGGAAATACTTGTCGGAG 57.047 50.000 0.00 0.00 43.84 4.63
4548 5046 1.135315 CGTCCGGAAATACTTGTCGGA 60.135 52.381 5.23 0.00 46.06 4.55
4549 5047 1.274596 CGTCCGGAAATACTTGTCGG 58.725 55.000 5.23 0.00 41.80 4.79
4550 5048 1.135315 TCCGTCCGGAAATACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
4551 5049 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
4552 5050 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
4553 5051 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
4554 5052 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
4555 5053 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
4556 5054 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
4557 5055 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
4558 5056 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
4559 5057 0.032813 ATACTCCCTCCGTCCGGAAA 60.033 55.000 5.23 0.00 44.66 3.13
4560 5058 0.846015 TATACTCCCTCCGTCCGGAA 59.154 55.000 5.23 0.00 44.66 4.30
4561 5059 0.846015 TTATACTCCCTCCGTCCGGA 59.154 55.000 0.00 0.00 42.90 5.14
4562 5060 1.245732 CTTATACTCCCTCCGTCCGG 58.754 60.000 0.00 0.00 0.00 5.14
4563 5061 1.245732 CCTTATACTCCCTCCGTCCG 58.754 60.000 0.00 0.00 0.00 4.79
4564 5062 0.967662 GCCTTATACTCCCTCCGTCC 59.032 60.000 0.00 0.00 0.00 4.79
4565 5063 1.998222 AGCCTTATACTCCCTCCGTC 58.002 55.000 0.00 0.00 0.00 4.79
4566 5064 2.473576 AAGCCTTATACTCCCTCCGT 57.526 50.000 0.00 0.00 0.00 4.69
4567 5065 3.840124 AAAAGCCTTATACTCCCTCCG 57.160 47.619 0.00 0.00 0.00 4.63
4568 5066 6.496144 TCTAAAAAGCCTTATACTCCCTCC 57.504 41.667 0.00 0.00 0.00 4.30
4569 5067 7.793036 TCTTCTAAAAAGCCTTATACTCCCTC 58.207 38.462 0.00 0.00 0.00 4.30
4570 5068 7.750947 TCTTCTAAAAAGCCTTATACTCCCT 57.249 36.000 0.00 0.00 0.00 4.20
4571 5069 8.982091 AATCTTCTAAAAAGCCTTATACTCCC 57.018 34.615 0.00 0.00 0.00 4.30
4708 5207 6.005198 CGTGAGTTAGAATATACTCCCTCCT 58.995 44.000 0.00 0.00 40.00 3.69
4747 5246 9.878667 TGTTGAAGGAACTGTAAATATATTCGA 57.121 29.630 0.00 0.00 40.86 3.71
4797 5296 4.385825 TGGGTTTCTACAGACAATGTGAC 58.614 43.478 0.00 0.00 43.80 3.67
4812 5311 9.163899 GCTAAGCTATAGGTATAAATGGGTTTC 57.836 37.037 4.57 0.00 0.00 2.78
5211 5710 7.650504 TCCAAATTCACTATGCTATGTACGTAC 59.349 37.037 18.90 18.90 0.00 3.67
5212 5711 7.718525 TCCAAATTCACTATGCTATGTACGTA 58.281 34.615 0.00 0.00 0.00 3.57
5213 5712 6.578944 TCCAAATTCACTATGCTATGTACGT 58.421 36.000 0.00 0.00 0.00 3.57
5214 5713 7.658179 ATCCAAATTCACTATGCTATGTACG 57.342 36.000 0.00 0.00 0.00 3.67
5495 6009 4.286297 TGCCTCCCACTATGCATATAAC 57.714 45.455 6.92 0.00 0.00 1.89
5587 6101 9.216117 GTAACTCTTTGCTGGAGTAAATAAAGA 57.784 33.333 7.09 0.00 42.39 2.52
5588 6102 8.999431 TGTAACTCTTTGCTGGAGTAAATAAAG 58.001 33.333 7.09 0.00 42.39 1.85
5646 6160 3.319238 ACACAGAAAACTTTTCTCGCG 57.681 42.857 12.98 0.00 0.00 5.87
5670 6184 4.358851 TCAAAAACTTCCATGCAAAGACG 58.641 39.130 11.70 0.00 0.00 4.18
5716 6230 4.382040 CGACTATGACTCAAACCACAGGAT 60.382 45.833 0.00 0.00 0.00 3.24
5770 6284 5.514274 AAAACTTCACAATGGACATCGTT 57.486 34.783 0.00 0.00 0.00 3.85
5775 6289 9.258826 CATTATTCAAAAACTTCACAATGGACA 57.741 29.630 0.00 0.00 0.00 4.02
5777 6291 9.258826 CACATTATTCAAAAACTTCACAATGGA 57.741 29.630 0.00 0.00 0.00 3.41
5894 6408 1.106351 ACTGCAATTGGGCACAACGA 61.106 50.000 1.86 0.00 39.87 3.85
5935 6449 4.987963 TGTCAGCTATCCATGAATCCAT 57.012 40.909 0.00 0.00 0.00 3.41
5981 6495 5.012664 ACACAAAGTCACCACCTATACATCA 59.987 40.000 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.