Multiple sequence alignment - TraesCS2B01G592900

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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 TraesCS2B01G592900 chr2B 100.000 2714 0 0 1 2714 777659955 777657242 0.000000e+00 5012.0
1 TraesCS2B01G592900 chr2B 89.012 810 51 28 650 1433 777635559 777634762 0.000000e+00 968.0
2 TraesCS2B01G592900 chr2B 80.389 1081 112 54 792 1795 777549746 777548689 0.000000e+00 730.0
3 TraesCS2B01G592900 chr2B 80.080 999 91 55 858 1795 777619058 777618107 0.000000e+00 643.0
4 TraesCS2B01G592900 chr2B 82.514 692 56 34 903 1555 777522052 777521387 5.110000e-152 547.0
5 TraesCS2B01G592900 chr2B 91.570 344 29 0 1429 1772 777634018 777633675 2.450000e-130 475.0
6 TraesCS2B01G592900 chr2B 91.594 345 20 7 10 348 777643328 777642987 4.090000e-128 468.0
7 TraesCS2B01G592900 chr2B 90.029 341 16 4 2112 2448 777632339 777632013 2.500000e-115 425.0
8 TraesCS2B01G592900 chr2B 91.639 299 22 3 1823 2119 774874340 774874637 6.990000e-111 411.0
9 TraesCS2B01G592900 chr2B 79.233 313 24 16 373 650 777642908 777642602 2.150000e-41 180.0
10 TraesCS2B01G592900 chr2A 86.193 1941 119 58 1 1832 778758958 778760858 0.000000e+00 1962.0
11 TraesCS2B01G592900 chr2A 90.752 638 29 15 1144 1760 778789062 778789690 0.000000e+00 824.0
12 TraesCS2B01G592900 chr2A 81.891 994 95 43 858 1795 778876207 778877171 0.000000e+00 760.0
13 TraesCS2B01G592900 chr2A 81.718 1001 76 50 858 1788 778914594 778915557 0.000000e+00 736.0
14 TraesCS2B01G592900 chr2A 87.270 597 57 11 1200 1788 778827501 778828086 0.000000e+00 664.0
15 TraesCS2B01G592900 chr2A 83.654 624 77 16 2111 2714 778789759 778790377 5.070000e-157 564.0
16 TraesCS2B01G592900 chr2A 84.459 148 11 8 2123 2263 778877209 778877351 4.710000e-28 135.0
17 TraesCS2B01G592900 chr2A 78.161 261 20 23 1554 1795 778814331 778814573 6.100000e-27 132.0
18 TraesCS2B01G592900 chr2A 78.138 247 19 21 782 994 778827030 778827275 1.020000e-24 124.0
19 TraesCS2B01G592900 chr2A 77.232 224 41 8 2320 2537 10491024 10491243 3.670000e-24 122.0
20 TraesCS2B01G592900 chr2A 88.235 102 4 1 2111 2212 778760874 778760967 6.140000e-22 115.0
21 TraesCS2B01G592900 chr2A 74.643 280 32 22 792 1037 778788655 778788929 1.340000e-13 87.9
22 TraesCS2B01G592900 chr2A 86.667 75 7 2 782 856 778814253 778814324 2.240000e-11 80.5
23 TraesCS2B01G592900 chr2D 88.707 1408 63 39 508 1832 634659380 634657986 0.000000e+00 1631.0
24 TraesCS2B01G592900 chr2D 83.229 954 71 49 903 1784 634482554 634481618 0.000000e+00 793.0
25 TraesCS2B01G592900 chr2D 80.576 1076 118 65 782 1782 634575762 634574703 0.000000e+00 745.0
26 TraesCS2B01G592900 chr2D 86.600 597 61 11 1200 1788 634556378 634555793 2.280000e-180 641.0
27 TraesCS2B01G592900 chr2D 91.099 191 15 2 2515 2704 634644767 634644578 9.640000e-65 257.0
28 TraesCS2B01G592900 chr2D 81.717 361 10 14 1 348 634659858 634659541 1.610000e-62 250.0
29 TraesCS2B01G592900 chr2D 83.019 159 13 5 890 1036 634556665 634556509 6.100000e-27 132.0
30 TraesCS2B01G592900 chr2D 84.138 145 6 6 598 738 634575964 634575833 1.020000e-24 124.0
31 TraesCS2B01G592900 chr2D 79.688 192 19 9 598 783 634482935 634482758 1.320000e-23 121.0
32 TraesCS2B01G592900 chr2D 100.000 41 0 0 2199 2239 634644809 634644769 2.900000e-10 76.8
33 TraesCS2B01G592900 chr1B 93.151 292 17 3 1813 2103 662522793 662523082 2.500000e-115 425.0
34 TraesCS2B01G592900 chr1B 93.031 287 18 2 1820 2104 638037106 638037392 4.180000e-113 418.0
35 TraesCS2B01G592900 chr6B 92.282 298 21 2 1823 2119 689209463 689209759 3.230000e-114 422.0
36 TraesCS2B01G592900 chr7B 92.808 292 18 3 1823 2112 409013778 409014068 1.160000e-113 420.0
37 TraesCS2B01G592900 chr7B 93.031 287 19 1 1819 2104 460381687 460381401 4.180000e-113 418.0
38 TraesCS2B01G592900 chr7B 92.683 287 20 1 1819 2104 31801368 31801082 1.940000e-111 412.0
39 TraesCS2B01G592900 chr7B 78.199 211 36 7 2324 2527 21662797 21662590 2.840000e-25 126.0
40 TraesCS2B01G592900 chr5B 92.440 291 20 2 1815 2104 671039511 671039800 5.410000e-112 414.0
41 TraesCS2B01G592900 chr5D 91.667 300 19 6 1808 2103 77866515 77866812 6.990000e-111 411.0
42 TraesCS2B01G592900 chr5D 80.541 185 31 4 2320 2500 505397777 505397960 1.310000e-28 137.0
43 TraesCS2B01G592900 chr7D 78.222 225 38 9 2318 2535 84247366 84247586 1.700000e-27 134.0
44 TraesCS2B01G592900 chr7D 78.500 200 36 6 2335 2529 102546567 102546370 1.020000e-24 124.0
45 TraesCS2B01G592900 chr7D 75.299 251 45 14 2297 2535 176580873 176580628 1.330000e-18 104.0
46 TraesCS2B01G592900 chr3D 75.197 254 55 6 2287 2535 607008129 607008379 2.210000e-21 113.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G592900 chr2B 777657242 777659955 2713 True 5012.000000 5012 100.000000 1 2714 1 chr2B.!!$R4 2713
1 TraesCS2B01G592900 chr2B 777548689 777549746 1057 True 730.000000 730 80.389000 792 1795 1 chr2B.!!$R2 1003
2 TraesCS2B01G592900 chr2B 777618107 777619058 951 True 643.000000 643 80.080000 858 1795 1 chr2B.!!$R3 937
3 TraesCS2B01G592900 chr2B 777632013 777635559 3546 True 622.666667 968 90.203667 650 2448 3 chr2B.!!$R5 1798
4 TraesCS2B01G592900 chr2B 777521387 777522052 665 True 547.000000 547 82.514000 903 1555 1 chr2B.!!$R1 652
5 TraesCS2B01G592900 chr2B 777642602 777643328 726 True 324.000000 468 85.413500 10 650 2 chr2B.!!$R6 640
6 TraesCS2B01G592900 chr2A 778758958 778760967 2009 False 1038.500000 1962 87.214000 1 2212 2 chr2A.!!$F3 2211
7 TraesCS2B01G592900 chr2A 778914594 778915557 963 False 736.000000 736 81.718000 858 1788 1 chr2A.!!$F2 930
8 TraesCS2B01G592900 chr2A 778788655 778790377 1722 False 491.966667 824 83.016333 792 2714 3 chr2A.!!$F4 1922
9 TraesCS2B01G592900 chr2A 778876207 778877351 1144 False 447.500000 760 83.175000 858 2263 2 chr2A.!!$F7 1405
10 TraesCS2B01G592900 chr2A 778827030 778828086 1056 False 394.000000 664 82.704000 782 1788 2 chr2A.!!$F6 1006
11 TraesCS2B01G592900 chr2D 634657986 634659858 1872 True 940.500000 1631 85.212000 1 1832 2 chr2D.!!$R5 1831
12 TraesCS2B01G592900 chr2D 634481618 634482935 1317 True 457.000000 793 81.458500 598 1784 2 chr2D.!!$R1 1186
13 TraesCS2B01G592900 chr2D 634574703 634575964 1261 True 434.500000 745 82.357000 598 1782 2 chr2D.!!$R3 1184
14 TraesCS2B01G592900 chr2D 634555793 634556665 872 True 386.500000 641 84.809500 890 1788 2 chr2D.!!$R2 898

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
602 758 0.249398 GGTCCTACCAAGACGCATGT 59.751 55.0 0.0 0.0 38.42 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2457 4986 0.598562 TTGAGAGACTGAGACGGCAC 59.401 55.0 0.0 0.0 0.0 5.01 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
34 35 2.496817 CAGTAGAGGAGCCACCGC 59.503 66.667 0.00 0.00 44.74 5.68
125 128 1.577328 ATGAAACCAACCTCGCAGCG 61.577 55.000 9.06 9.06 0.00 5.18
128 131 0.889186 AAACCAACCTCGCAGCGATT 60.889 50.000 19.91 8.02 34.61 3.34
277 307 0.522705 GTAACGCGACGATCAGAGCA 60.523 55.000 15.93 0.00 0.00 4.26
279 309 2.202479 CGCGACGATCAGAGCACA 60.202 61.111 0.00 0.00 0.00 4.57
282 312 1.154207 CGACGATCAGAGCACACGT 60.154 57.895 0.00 0.00 39.82 4.49
285 315 0.879090 ACGATCAGAGCACACGTACA 59.121 50.000 0.00 0.00 35.49 2.90
294 324 1.227321 CACACGTACAACCACCCGT 60.227 57.895 0.00 0.00 0.00 5.28
303 333 2.283529 AACCACCCGTCAGCTCGAT 61.284 57.895 0.00 0.00 0.00 3.59
324 354 1.227438 CGTCCCCATTAACGCCGAT 60.227 57.895 0.00 0.00 31.48 4.18
355 456 2.104331 CGTCGTTGCCCGCTATCT 59.896 61.111 0.00 0.00 36.19 1.98
366 467 1.082431 CGCTATCTCGGTGAGCTCG 60.082 63.158 9.64 0.00 33.91 5.03
367 468 1.499688 CGCTATCTCGGTGAGCTCGA 61.500 60.000 9.64 2.19 33.91 4.04
368 469 0.878416 GCTATCTCGGTGAGCTCGAT 59.122 55.000 9.64 7.70 36.01 3.59
396 507 1.152819 ATGCGATGATGCCTTGGCT 60.153 52.632 13.18 0.00 0.00 4.75
397 508 0.754217 ATGCGATGATGCCTTGGCTT 60.754 50.000 13.18 6.47 0.00 4.35
411 522 0.608856 TGGCTTGCATGGATCACGTT 60.609 50.000 1.34 0.00 0.00 3.99
431 544 6.140265 CACGTTACGTATGTACAGAATAGCTG 59.860 42.308 10.89 0.00 44.04 4.24
433 546 9.533804 ACGTTACGTATGTACAGAATAGCTGGG 62.534 44.444 9.22 0.00 43.27 4.45
456 569 0.962356 ACCGGGTTACGTCGATCACT 60.962 55.000 6.32 0.00 42.24 3.41
464 577 4.272991 GGTTACGTCGATCACTGTATCTCT 59.727 45.833 0.00 0.00 0.00 3.10
576 721 0.794473 CGGTTTCCTCGGTAAACTGC 59.206 55.000 0.00 0.00 36.65 4.40
581 726 2.388232 CCTCGGTAAACTGCACGGC 61.388 63.158 0.00 0.00 0.00 5.68
596 748 1.218316 CGGCAGGTCCTACCAAGAC 59.782 63.158 8.97 0.00 41.95 3.01
602 758 0.249398 GGTCCTACCAAGACGCATGT 59.751 55.000 0.00 0.00 38.42 3.21
787 1032 2.037381 GCCGGCTTCTATATATAGGCCC 59.963 54.545 22.15 17.47 35.53 5.80
958 1307 4.025401 CGCCCGCAGCTCGTTTTT 62.025 61.111 5.15 0.00 40.39 1.94
1071 1473 3.241530 ACCCCTGACGCTGCTGAA 61.242 61.111 0.00 0.00 0.00 3.02
1114 1530 1.337917 ACTGCATGCTCACTCTGTCTG 60.338 52.381 20.33 0.00 0.00 3.51
1118 1534 2.538437 CATGCTCACTCTGTCTGCTAC 58.462 52.381 0.00 0.00 0.00 3.58
1131 1551 1.733402 CTGCTACTCCTCTCCGGCAG 61.733 65.000 0.00 0.00 40.52 4.85
1419 1889 3.043713 CGCAAGTGCTCCGCTGAA 61.044 61.111 1.21 0.00 39.32 3.02
1485 2703 3.068691 CGCCCTCTCTCCGACCAA 61.069 66.667 0.00 0.00 0.00 3.67
1605 2829 1.452651 CCACCTCTACGACGGGCTA 60.453 63.158 0.00 0.00 0.00 3.93
1823 4318 3.443681 AGTTTGCATGGGAAATTCTACGG 59.556 43.478 0.00 0.00 0.00 4.02
1825 4320 0.668535 GCATGGGAAATTCTACGGCC 59.331 55.000 0.00 0.00 0.00 6.13
1828 4323 1.525306 GGGAAATTCTACGGCCCCG 60.525 63.158 4.96 4.96 46.03 5.73
1839 4346 1.377463 CGGCCCCGTTTGGTTCATA 60.377 57.895 0.00 0.00 34.35 2.15
1841 4348 0.815095 GGCCCCGTTTGGTTCATAAG 59.185 55.000 0.00 0.00 0.00 1.73
1843 4350 1.890489 GCCCCGTTTGGTTCATAAGTT 59.110 47.619 0.00 0.00 0.00 2.66
1846 4353 4.022155 GCCCCGTTTGGTTCATAAGTTTTA 60.022 41.667 0.00 0.00 0.00 1.52
1848 4355 6.096695 CCCCGTTTGGTTCATAAGTTTTATG 58.903 40.000 3.06 3.06 0.00 1.90
1849 4356 6.071840 CCCCGTTTGGTTCATAAGTTTTATGA 60.072 38.462 7.28 7.28 32.63 2.15
1850 4357 6.804783 CCCGTTTGGTTCATAAGTTTTATGAC 59.195 38.462 10.22 6.83 34.07 3.06
1851 4358 7.308951 CCCGTTTGGTTCATAAGTTTTATGACT 60.309 37.037 10.22 0.00 34.07 3.41
1853 4360 9.458374 CGTTTGGTTCATAAGTTTTATGACTTT 57.542 29.630 10.22 0.00 40.24 2.66
1881 4388 9.924650 TTTAGTCTCAACTTATAAGTCCAAGTC 57.075 33.333 18.28 12.65 38.57 3.01
1882 4389 6.937392 AGTCTCAACTTATAAGTCCAAGTCC 58.063 40.000 18.28 10.58 38.57 3.85
1883 4390 6.070710 AGTCTCAACTTATAAGTCCAAGTCCC 60.071 42.308 18.28 8.73 38.57 4.46
1884 4391 6.023603 TCTCAACTTATAAGTCCAAGTCCCT 58.976 40.000 18.28 0.00 38.57 4.20
1885 4392 7.123847 GTCTCAACTTATAAGTCCAAGTCCCTA 59.876 40.741 18.28 0.00 38.57 3.53
1886 4393 7.676893 TCTCAACTTATAAGTCCAAGTCCCTAA 59.323 37.037 18.28 0.00 38.57 2.69
1887 4394 8.209802 TCAACTTATAAGTCCAAGTCCCTAAA 57.790 34.615 18.28 0.00 38.57 1.85
1888 4395 8.662255 TCAACTTATAAGTCCAAGTCCCTAAAA 58.338 33.333 18.28 0.00 38.57 1.52
1889 4396 9.292195 CAACTTATAAGTCCAAGTCCCTAAAAA 57.708 33.333 18.28 0.00 38.57 1.94
1910 4417 7.855784 AAAAATCCCTACCTGTTTGATTTCT 57.144 32.000 0.00 0.00 35.28 2.52
1911 4418 8.950007 AAAAATCCCTACCTGTTTGATTTCTA 57.050 30.769 0.00 0.00 35.28 2.10
1912 4419 8.581253 AAAATCCCTACCTGTTTGATTTCTAG 57.419 34.615 0.00 0.00 35.28 2.43
1913 4420 5.693769 TCCCTACCTGTTTGATTTCTAGG 57.306 43.478 0.00 0.00 34.70 3.02
1914 4421 5.347124 TCCCTACCTGTTTGATTTCTAGGA 58.653 41.667 0.00 0.00 32.86 2.94
1915 4422 5.970640 TCCCTACCTGTTTGATTTCTAGGAT 59.029 40.000 0.00 0.00 32.86 3.24
1916 4423 6.447084 TCCCTACCTGTTTGATTTCTAGGATT 59.553 38.462 0.00 0.00 32.86 3.01
1917 4424 7.036863 TCCCTACCTGTTTGATTTCTAGGATTT 60.037 37.037 0.00 0.00 32.86 2.17
1918 4425 8.272173 CCCTACCTGTTTGATTTCTAGGATTTA 58.728 37.037 0.00 0.00 32.86 1.40
1919 4426 9.853177 CCTACCTGTTTGATTTCTAGGATTTAT 57.147 33.333 0.00 0.00 32.86 1.40
1937 4444 9.860393 AGGATTTATAAGTCCCTATAAGACCAT 57.140 33.333 20.25 0.00 35.00 3.55
1967 4474 9.994017 ATAACTATAAGTCCCTATAAGTCCCTC 57.006 37.037 0.00 0.00 0.00 4.30
1968 4475 6.803017 ACTATAAGTCCCTATAAGTCCCTCC 58.197 44.000 0.00 0.00 0.00 4.30
1969 4476 5.970692 ATAAGTCCCTATAAGTCCCTCCT 57.029 43.478 0.00 0.00 0.00 3.69
1970 4477 4.645968 AAGTCCCTATAAGTCCCTCCTT 57.354 45.455 0.00 0.00 0.00 3.36
1971 4478 3.930035 AGTCCCTATAAGTCCCTCCTTG 58.070 50.000 0.00 0.00 0.00 3.61
1972 4479 3.536434 AGTCCCTATAAGTCCCTCCTTGA 59.464 47.826 0.00 0.00 0.00 3.02
1973 4480 3.898741 GTCCCTATAAGTCCCTCCTTGAG 59.101 52.174 0.00 0.00 0.00 3.02
1974 4481 3.797845 TCCCTATAAGTCCCTCCTTGAGA 59.202 47.826 0.00 0.00 0.00 3.27
1975 4482 4.140900 TCCCTATAAGTCCCTCCTTGAGAG 60.141 50.000 0.00 0.00 42.83 3.20
1976 4483 4.388118 CCCTATAAGTCCCTCCTTGAGAGT 60.388 50.000 0.00 0.00 41.47 3.24
1977 4484 4.830600 CCTATAAGTCCCTCCTTGAGAGTC 59.169 50.000 0.00 0.00 41.47 3.36
1978 4485 4.618378 ATAAGTCCCTCCTTGAGAGTCT 57.382 45.455 0.00 0.00 41.47 3.24
1979 4486 3.268034 AAGTCCCTCCTTGAGAGTCTT 57.732 47.619 0.00 0.00 41.47 3.01
1980 4487 4.405756 AAGTCCCTCCTTGAGAGTCTTA 57.594 45.455 0.00 0.00 41.47 2.10
1981 4488 4.618378 AGTCCCTCCTTGAGAGTCTTAT 57.382 45.455 0.00 0.00 41.47 1.73
1982 4489 4.954089 AGTCCCTCCTTGAGAGTCTTATT 58.046 43.478 0.00 0.00 41.47 1.40
1983 4490 5.346270 AGTCCCTCCTTGAGAGTCTTATTT 58.654 41.667 0.00 0.00 41.47 1.40
1984 4491 5.423931 AGTCCCTCCTTGAGAGTCTTATTTC 59.576 44.000 0.00 0.00 41.47 2.17
1985 4492 5.187967 GTCCCTCCTTGAGAGTCTTATTTCA 59.812 44.000 0.00 0.00 41.47 2.69
1986 4493 5.966935 TCCCTCCTTGAGAGTCTTATTTCAT 59.033 40.000 0.00 0.00 41.47 2.57
1987 4494 7.070074 GTCCCTCCTTGAGAGTCTTATTTCATA 59.930 40.741 0.00 0.00 41.47 2.15
1988 4495 7.623677 TCCCTCCTTGAGAGTCTTATTTCATAA 59.376 37.037 0.00 0.00 41.47 1.90
1989 4496 7.930865 CCCTCCTTGAGAGTCTTATTTCATAAG 59.069 40.741 0.00 0.00 41.47 1.73
1990 4497 8.482128 CCTCCTTGAGAGTCTTATTTCATAAGT 58.518 37.037 0.00 0.00 41.47 2.24
1991 4498 9.528018 CTCCTTGAGAGTCTTATTTCATAAGTC 57.472 37.037 0.00 0.00 37.60 3.01
1992 4499 8.478877 TCCTTGAGAGTCTTATTTCATAAGTCC 58.521 37.037 0.00 0.00 42.21 3.85
1993 4500 7.713073 CCTTGAGAGTCTTATTTCATAAGTCCC 59.287 40.741 0.00 0.00 42.21 4.46
1994 4501 7.733773 TGAGAGTCTTATTTCATAAGTCCCA 57.266 36.000 0.00 0.00 42.21 4.37
1995 4502 8.146053 TGAGAGTCTTATTTCATAAGTCCCAA 57.854 34.615 0.00 0.00 42.21 4.12
1996 4503 8.602424 TGAGAGTCTTATTTCATAAGTCCCAAA 58.398 33.333 0.00 0.00 42.21 3.28
1997 4504 9.620259 GAGAGTCTTATTTCATAAGTCCCAAAT 57.380 33.333 0.00 0.00 42.21 2.32
1998 4505 9.401058 AGAGTCTTATTTCATAAGTCCCAAATG 57.599 33.333 3.93 0.00 42.21 2.32
1999 4506 8.000780 AGTCTTATTTCATAAGTCCCAAATGC 57.999 34.615 3.93 0.00 42.21 3.56
2000 4507 7.068716 AGTCTTATTTCATAAGTCCCAAATGCC 59.931 37.037 3.93 0.00 42.21 4.40
2001 4508 6.323739 TCTTATTTCATAAGTCCCAAATGCCC 59.676 38.462 3.93 0.00 42.21 5.36
2002 4509 3.464720 TTCATAAGTCCCAAATGCCCA 57.535 42.857 0.00 0.00 0.00 5.36
2003 4510 3.686227 TCATAAGTCCCAAATGCCCAT 57.314 42.857 0.00 0.00 0.00 4.00
2004 4511 3.992999 TCATAAGTCCCAAATGCCCATT 58.007 40.909 0.00 0.00 0.00 3.16
2005 4512 4.360889 TCATAAGTCCCAAATGCCCATTT 58.639 39.130 0.57 0.57 41.33 2.32
2006 4513 4.782156 TCATAAGTCCCAAATGCCCATTTT 59.218 37.500 3.61 0.00 38.84 1.82
2007 4514 5.960811 TCATAAGTCCCAAATGCCCATTTTA 59.039 36.000 3.61 0.00 38.84 1.52
2008 4515 6.441924 TCATAAGTCCCAAATGCCCATTTTAA 59.558 34.615 3.61 0.00 38.84 1.52
2009 4516 4.824479 AGTCCCAAATGCCCATTTTAAG 57.176 40.909 3.61 0.00 38.84 1.85
2010 4517 4.167319 AGTCCCAAATGCCCATTTTAAGT 58.833 39.130 3.61 0.00 38.84 2.24
2011 4518 4.222810 AGTCCCAAATGCCCATTTTAAGTC 59.777 41.667 3.61 0.00 38.84 3.01
2012 4519 3.517500 TCCCAAATGCCCATTTTAAGTCC 59.482 43.478 3.61 0.00 38.84 3.85
2013 4520 3.370421 CCCAAATGCCCATTTTAAGTCCC 60.370 47.826 3.61 0.00 38.84 4.46
2014 4521 3.519107 CCAAATGCCCATTTTAAGTCCCT 59.481 43.478 3.61 0.00 38.84 4.20
2015 4522 4.714308 CCAAATGCCCATTTTAAGTCCCTA 59.286 41.667 3.61 0.00 38.84 3.53
2016 4523 5.366477 CCAAATGCCCATTTTAAGTCCCTAT 59.634 40.000 3.61 0.00 38.84 2.57
2017 4524 6.553100 CCAAATGCCCATTTTAAGTCCCTATA 59.447 38.462 3.61 0.00 38.84 1.31
2018 4525 7.070571 CCAAATGCCCATTTTAAGTCCCTATAA 59.929 37.037 3.61 0.00 38.84 0.98
2019 4526 8.482128 CAAATGCCCATTTTAAGTCCCTATAAA 58.518 33.333 3.61 0.00 38.84 1.40
2020 4527 8.797436 AATGCCCATTTTAAGTCCCTATAAAT 57.203 30.769 0.00 0.00 0.00 1.40
2021 4528 7.833285 TGCCCATTTTAAGTCCCTATAAATC 57.167 36.000 0.00 0.00 0.00 2.17
2022 4529 6.780522 TGCCCATTTTAAGTCCCTATAAATCC 59.219 38.462 0.00 0.00 0.00 3.01
2023 4530 6.210784 GCCCATTTTAAGTCCCTATAAATCCC 59.789 42.308 0.00 0.00 0.00 3.85
2024 4531 7.535738 CCCATTTTAAGTCCCTATAAATCCCT 58.464 38.462 0.00 0.00 0.00 4.20
2025 4532 7.670140 CCCATTTTAAGTCCCTATAAATCCCTC 59.330 40.741 0.00 0.00 0.00 4.30
2026 4533 7.670140 CCATTTTAAGTCCCTATAAATCCCTCC 59.330 40.741 0.00 0.00 0.00 4.30
2027 4534 8.448816 CATTTTAAGTCCCTATAAATCCCTCCT 58.551 37.037 0.00 0.00 0.00 3.69
2028 4535 7.388638 TTTAAGTCCCTATAAATCCCTCCTG 57.611 40.000 0.00 0.00 0.00 3.86
2029 4536 4.578149 AGTCCCTATAAATCCCTCCTGT 57.422 45.455 0.00 0.00 0.00 4.00
2030 4537 4.909284 AGTCCCTATAAATCCCTCCTGTT 58.091 43.478 0.00 0.00 0.00 3.16
2031 4538 5.297799 AGTCCCTATAAATCCCTCCTGTTT 58.702 41.667 0.00 0.00 0.00 2.83
2032 4539 5.132816 AGTCCCTATAAATCCCTCCTGTTTG 59.867 44.000 0.00 0.00 0.00 2.93
2033 4540 5.132144 GTCCCTATAAATCCCTCCTGTTTGA 59.868 44.000 0.00 0.00 0.00 2.69
2034 4541 5.917087 TCCCTATAAATCCCTCCTGTTTGAT 59.083 40.000 0.00 0.00 0.00 2.57
2035 4542 6.392842 TCCCTATAAATCCCTCCTGTTTGATT 59.607 38.462 0.00 0.00 0.00 2.57
2036 4543 7.069344 CCCTATAAATCCCTCCTGTTTGATTT 58.931 38.462 0.00 0.00 39.83 2.17
2037 4544 8.224720 CCCTATAAATCCCTCCTGTTTGATTTA 58.775 37.037 0.00 0.00 41.37 1.40
2038 4545 9.289782 CCTATAAATCCCTCCTGTTTGATTTAG 57.710 37.037 0.00 0.00 40.81 1.85
2041 4548 7.651027 AAATCCCTCCTGTTTGATTTAGATG 57.349 36.000 0.00 0.00 36.08 2.90
2042 4549 5.116084 TCCCTCCTGTTTGATTTAGATGG 57.884 43.478 0.00 0.00 0.00 3.51
2043 4550 4.079787 TCCCTCCTGTTTGATTTAGATGGG 60.080 45.833 0.00 0.00 0.00 4.00
2044 4551 4.079787 CCCTCCTGTTTGATTTAGATGGGA 60.080 45.833 0.00 0.00 31.98 4.37
2045 4552 5.399497 CCCTCCTGTTTGATTTAGATGGGAT 60.399 44.000 0.00 0.00 31.98 3.85
2046 4553 6.131961 CCTCCTGTTTGATTTAGATGGGATT 58.868 40.000 0.00 0.00 0.00 3.01
2047 4554 6.608808 CCTCCTGTTTGATTTAGATGGGATTT 59.391 38.462 0.00 0.00 0.00 2.17
2048 4555 7.779798 CCTCCTGTTTGATTTAGATGGGATTTA 59.220 37.037 0.00 0.00 0.00 1.40
2049 4556 9.359653 CTCCTGTTTGATTTAGATGGGATTTAT 57.640 33.333 0.00 0.00 0.00 1.40
2053 4560 9.586732 TGTTTGATTTAGATGGGATTTATAGGG 57.413 33.333 0.00 0.00 0.00 3.53
2054 4561 9.807921 GTTTGATTTAGATGGGATTTATAGGGA 57.192 33.333 0.00 0.00 0.00 4.20
2055 4562 9.807921 TTTGATTTAGATGGGATTTATAGGGAC 57.192 33.333 0.00 0.00 0.00 4.46
2056 4563 8.757307 TGATTTAGATGGGATTTATAGGGACT 57.243 34.615 0.00 0.00 46.37 3.85
2057 4564 9.182642 TGATTTAGATGGGATTTATAGGGACTT 57.817 33.333 0.00 0.00 41.75 3.01
2082 4589 7.933215 TTTTAAGTCCCTAAGCCAATAAGTC 57.067 36.000 0.00 0.00 0.00 3.01
2083 4590 4.505324 AAGTCCCTAAGCCAATAAGTCC 57.495 45.455 0.00 0.00 0.00 3.85
2084 4591 2.778270 AGTCCCTAAGCCAATAAGTCCC 59.222 50.000 0.00 0.00 0.00 4.46
2085 4592 2.778270 GTCCCTAAGCCAATAAGTCCCT 59.222 50.000 0.00 0.00 0.00 4.20
2086 4593 2.777692 TCCCTAAGCCAATAAGTCCCTG 59.222 50.000 0.00 0.00 0.00 4.45
2087 4594 2.777692 CCCTAAGCCAATAAGTCCCTGA 59.222 50.000 0.00 0.00 0.00 3.86
2088 4595 3.202151 CCCTAAGCCAATAAGTCCCTGAA 59.798 47.826 0.00 0.00 0.00 3.02
2089 4596 4.325030 CCCTAAGCCAATAAGTCCCTGAAA 60.325 45.833 0.00 0.00 0.00 2.69
2090 4597 5.261216 CCTAAGCCAATAAGTCCCTGAAAA 58.739 41.667 0.00 0.00 0.00 2.29
2091 4598 5.125578 CCTAAGCCAATAAGTCCCTGAAAAC 59.874 44.000 0.00 0.00 0.00 2.43
2092 4599 4.112634 AGCCAATAAGTCCCTGAAAACA 57.887 40.909 0.00 0.00 0.00 2.83
2093 4600 4.479158 AGCCAATAAGTCCCTGAAAACAA 58.521 39.130 0.00 0.00 0.00 2.83
2094 4601 4.898861 AGCCAATAAGTCCCTGAAAACAAA 59.101 37.500 0.00 0.00 0.00 2.83
2095 4602 4.988540 GCCAATAAGTCCCTGAAAACAAAC 59.011 41.667 0.00 0.00 0.00 2.93
2096 4603 5.452636 GCCAATAAGTCCCTGAAAACAAACA 60.453 40.000 0.00 0.00 0.00 2.83
2097 4604 5.983118 CCAATAAGTCCCTGAAAACAAACAC 59.017 40.000 0.00 0.00 0.00 3.32
2098 4605 5.784578 ATAAGTCCCTGAAAACAAACACC 57.215 39.130 0.00 0.00 0.00 4.16
2099 4606 2.384828 AGTCCCTGAAAACAAACACCC 58.615 47.619 0.00 0.00 0.00 4.61
2100 4607 2.024369 AGTCCCTGAAAACAAACACCCT 60.024 45.455 0.00 0.00 0.00 4.34
2101 4608 2.361119 GTCCCTGAAAACAAACACCCTC 59.639 50.000 0.00 0.00 0.00 4.30
2102 4609 2.243736 TCCCTGAAAACAAACACCCTCT 59.756 45.455 0.00 0.00 0.00 3.69
2103 4610 3.460340 TCCCTGAAAACAAACACCCTCTA 59.540 43.478 0.00 0.00 0.00 2.43
2104 4611 3.568430 CCCTGAAAACAAACACCCTCTAC 59.432 47.826 0.00 0.00 0.00 2.59
2105 4612 3.250040 CCTGAAAACAAACACCCTCTACG 59.750 47.826 0.00 0.00 0.00 3.51
2106 4613 3.875134 CTGAAAACAAACACCCTCTACGT 59.125 43.478 0.00 0.00 0.00 3.57
2107 4614 3.872771 TGAAAACAAACACCCTCTACGTC 59.127 43.478 0.00 0.00 0.00 4.34
2108 4615 3.832615 AAACAAACACCCTCTACGTCT 57.167 42.857 0.00 0.00 0.00 4.18
2109 4616 3.382048 AACAAACACCCTCTACGTCTC 57.618 47.619 0.00 0.00 0.00 3.36
2150 4660 7.766278 CACACTAATTGTCTGATTACCTAGCTT 59.234 37.037 0.00 0.00 35.67 3.74
2354 4883 0.587768 TGACACTTGTGCTCGCAATG 59.412 50.000 0.10 1.50 0.00 2.82
2380 4909 7.831691 TTTTGGATTTATTTCAGTCCTGTCA 57.168 32.000 0.00 0.00 0.00 3.58
2409 4938 4.283722 AGTTCGTTTGGAGTAGATGTTCCT 59.716 41.667 0.00 0.00 34.48 3.36
2410 4939 4.188247 TCGTTTGGAGTAGATGTTCCTG 57.812 45.455 0.00 0.00 34.48 3.86
2454 4983 5.406477 TGACAACTTCGTCAATCTCAAGATG 59.594 40.000 0.00 0.00 42.82 2.90
2457 4986 6.091849 ACAACTTCGTCAATCTCAAGATGATG 59.908 38.462 0.00 0.00 34.49 3.07
2460 4989 3.867493 TCGTCAATCTCAAGATGATGTGC 59.133 43.478 0.00 0.00 34.49 4.57
2480 5009 2.479389 GCCGTCTCAGTCTCTCAAGATG 60.479 54.545 0.00 0.00 33.08 2.90
2483 5012 3.487376 CGTCTCAGTCTCTCAAGATGCTC 60.487 52.174 0.00 0.00 33.08 4.26
2489 5018 4.392445 CAGTCTCTCAAGATGCTCAAAAGG 59.608 45.833 0.00 0.00 33.08 3.11
2490 5019 4.285517 AGTCTCTCAAGATGCTCAAAAGGA 59.714 41.667 0.00 0.00 33.08 3.36
2494 5023 5.678583 TCTCAAGATGCTCAAAAGGATAGG 58.321 41.667 0.00 0.00 33.08 2.57
2495 5024 5.190528 TCTCAAGATGCTCAAAAGGATAGGT 59.809 40.000 0.00 0.00 33.08 3.08
2496 5025 5.819991 TCAAGATGCTCAAAAGGATAGGTT 58.180 37.500 0.00 0.00 33.08 3.50
2497 5026 5.649395 TCAAGATGCTCAAAAGGATAGGTTG 59.351 40.000 0.00 0.00 33.08 3.77
2500 5029 3.420893 TGCTCAAAAGGATAGGTTGTGG 58.579 45.455 0.00 0.00 0.00 4.17
2504 5033 4.016444 TCAAAAGGATAGGTTGTGGATGC 58.984 43.478 0.00 0.00 0.00 3.91
2505 5034 3.737559 AAAGGATAGGTTGTGGATGCA 57.262 42.857 0.00 0.00 0.00 3.96
2508 5037 1.610522 GGATAGGTTGTGGATGCATGC 59.389 52.381 11.82 11.82 0.00 4.06
2509 5038 2.579873 GATAGGTTGTGGATGCATGCT 58.420 47.619 20.33 4.11 0.00 3.79
2512 5041 1.547372 AGGTTGTGGATGCATGCTTTC 59.453 47.619 20.33 12.35 0.00 2.62
2514 5043 2.093869 GGTTGTGGATGCATGCTTTCAT 60.094 45.455 20.33 3.20 0.00 2.57
2519 5048 3.252701 GTGGATGCATGCTTTCATAGAGG 59.747 47.826 20.33 0.00 0.00 3.69
2531 5060 8.837788 TGCTTTCATAGAGGTGAATGTATATG 57.162 34.615 0.00 0.00 37.88 1.78
2532 5061 7.388776 TGCTTTCATAGAGGTGAATGTATATGC 59.611 37.037 0.00 0.00 37.88 3.14
2533 5062 7.412346 GCTTTCATAGAGGTGAATGTATATGCG 60.412 40.741 0.00 0.00 37.88 4.73
2536 5065 4.937201 AGAGGTGAATGTATATGCGTGA 57.063 40.909 0.00 0.00 0.00 4.35
2537 5066 4.876125 AGAGGTGAATGTATATGCGTGAG 58.124 43.478 0.00 0.00 0.00 3.51
2552 5083 3.634568 CGTGAGCCTAGGTCTCTATTG 57.365 52.381 24.53 13.27 0.00 1.90
2555 5086 4.579340 CGTGAGCCTAGGTCTCTATTGTAA 59.421 45.833 24.53 8.21 0.00 2.41
2556 5087 5.241949 CGTGAGCCTAGGTCTCTATTGTAAT 59.758 44.000 24.53 0.00 0.00 1.89
2557 5088 6.430308 CGTGAGCCTAGGTCTCTATTGTAATA 59.570 42.308 24.53 7.14 0.00 0.98
2558 5089 7.040617 CGTGAGCCTAGGTCTCTATTGTAATAA 60.041 40.741 24.53 6.61 0.00 1.40
2561 5092 9.478768 GAGCCTAGGTCTCTATTGTAATAAAAC 57.521 37.037 19.92 0.00 0.00 2.43
2617 5148 3.648716 TGCTTCTGCATGTTAGCCA 57.351 47.368 0.00 0.00 45.31 4.75
2660 5191 3.855950 CGAAATGGTGTAAGTCGAGTACC 59.144 47.826 4.03 4.03 33.63 3.34
2676 5207 2.139917 GTACCGATCAAAGCACACACA 58.860 47.619 0.00 0.00 0.00 3.72
2695 5226 4.331717 ACACAGTAACAAAAGTGAACTCGG 59.668 41.667 0.00 0.00 35.97 4.63
2701 5232 3.537580 ACAAAAGTGAACTCGGCTTACA 58.462 40.909 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 0.233590 CTCTACTGCTCGATCGACGG 59.766 60.000 15.15 17.48 42.82 4.79
8 9 1.872388 CTCCTCTACTGCTCGATCGA 58.128 55.000 18.32 18.32 0.00 3.59
125 128 3.120786 CGTGGGTTTTGTCTGTCGTAATC 60.121 47.826 0.00 0.00 0.00 1.75
128 131 1.408340 TCGTGGGTTTTGTCTGTCGTA 59.592 47.619 0.00 0.00 0.00 3.43
260 274 1.801913 GTGCTCTGATCGTCGCGTT 60.802 57.895 5.77 0.00 0.00 4.84
270 300 0.747852 TGGTTGTACGTGTGCTCTGA 59.252 50.000 0.00 0.00 0.00 3.27
277 307 1.067916 GACGGGTGGTTGTACGTGT 59.932 57.895 0.00 0.00 39.95 4.49
279 309 1.364901 CTGACGGGTGGTTGTACGT 59.635 57.895 0.00 0.00 42.88 3.57
282 312 1.669440 GAGCTGACGGGTGGTTGTA 59.331 57.895 0.00 0.00 0.00 2.41
285 315 1.827399 AATCGAGCTGACGGGTGGTT 61.827 55.000 0.00 0.00 0.00 3.67
294 324 2.423898 GGGGACGGAATCGAGCTGA 61.424 63.158 0.00 0.00 40.11 4.26
303 333 1.078285 GGCGTTAATGGGGACGGAA 60.078 57.895 0.00 0.00 39.52 4.30
355 456 1.743995 TCGACATCGAGCTCACCGA 60.744 57.895 15.40 6.48 44.22 4.69
366 467 0.092519 CATCGCATCGCATCGACATC 59.907 55.000 0.00 0.00 39.18 3.06
367 468 0.318955 TCATCGCATCGCATCGACAT 60.319 50.000 0.00 0.00 39.18 3.06
368 469 0.318955 ATCATCGCATCGCATCGACA 60.319 50.000 0.00 0.00 39.18 4.35
373 474 0.887836 AAGGCATCATCGCATCGCAT 60.888 50.000 0.00 0.00 0.00 4.73
374 475 1.524393 AAGGCATCATCGCATCGCA 60.524 52.632 0.00 0.00 0.00 5.10
396 507 2.087501 ACGTAACGTGATCCATGCAA 57.912 45.000 0.00 0.00 39.18 4.08
397 508 2.943449 TACGTAACGTGATCCATGCA 57.057 45.000 0.00 0.00 41.39 3.96
402 513 5.160699 TCTGTACATACGTAACGTGATCC 57.839 43.478 0.00 0.00 41.39 3.36
411 522 5.135383 ACCCAGCTATTCTGTACATACGTA 58.865 41.667 0.00 0.00 41.25 3.57
431 544 3.300934 GACGTAACCCGGTGGACCC 62.301 68.421 0.00 0.00 42.24 4.46
433 546 1.937546 ATCGACGTAACCCGGTGGAC 61.938 60.000 0.00 0.00 42.24 4.02
576 721 1.079127 CTTGGTAGGACCTGCCGTG 60.079 63.158 22.19 13.87 39.12 4.94
581 726 0.537188 ATGCGTCTTGGTAGGACCTG 59.463 55.000 3.53 0.00 39.58 4.00
584 729 1.641577 GACATGCGTCTTGGTAGGAC 58.358 55.000 0.00 0.00 39.22 3.85
635 791 4.680171 TCTATATATGTCTGGCACGACG 57.320 45.455 10.89 0.00 35.36 5.12
1054 1450 3.241530 TTCAGCAGCGTCAGGGGT 61.242 61.111 0.00 0.00 0.00 4.95
1071 1473 1.185618 TGACCTGCGCTAGTGGAAGT 61.186 55.000 9.73 1.51 0.00 3.01
1114 1530 2.494530 CCTGCCGGAGAGGAGTAGC 61.495 68.421 5.05 0.00 45.00 3.58
1419 1889 2.037527 GAGGAGGTCGTCTGGGGT 59.962 66.667 0.00 0.00 0.00 4.95
1750 2997 2.230508 TGATAAAACACGAGCCTCGAGT 59.769 45.455 22.80 16.88 45.01 4.18
1751 2998 2.876091 TGATAAAACACGAGCCTCGAG 58.124 47.619 22.80 16.12 43.74 4.04
1761 3008 2.285834 CGAGGCTGCGATGATAAAACAC 60.286 50.000 0.00 0.00 0.00 3.32
1823 4318 1.541379 ACTTATGAACCAAACGGGGC 58.459 50.000 0.00 0.00 42.91 5.80
1825 4320 6.804783 GTCATAAAACTTATGAACCAAACGGG 59.195 38.462 9.98 0.00 44.81 5.28
1855 4362 9.924650 GACTTGGACTTATAAGTTGAGACTAAA 57.075 33.333 18.96 5.15 39.88 1.85
1856 4363 8.529476 GGACTTGGACTTATAAGTTGAGACTAA 58.471 37.037 18.96 9.16 39.88 2.24
1858 4365 6.070710 GGGACTTGGACTTATAAGTTGAGACT 60.071 42.308 18.96 1.63 39.88 3.24
1859 4366 6.070710 AGGGACTTGGACTTATAAGTTGAGAC 60.071 42.308 18.96 15.18 34.84 3.36
1860 4367 6.023603 AGGGACTTGGACTTATAAGTTGAGA 58.976 40.000 18.96 5.83 34.84 3.27
1861 4368 6.301169 AGGGACTTGGACTTATAAGTTGAG 57.699 41.667 18.96 17.25 34.84 3.02
1862 4369 7.801893 TTAGGGACTTGGACTTATAAGTTGA 57.198 36.000 18.96 6.51 38.78 3.18
1863 4370 8.857694 TTTTAGGGACTTGGACTTATAAGTTG 57.142 34.615 18.96 11.90 38.78 3.16
1886 4393 7.855784 AGAAATCAAACAGGTAGGGATTTTT 57.144 32.000 0.00 0.00 38.06 1.94
1887 4394 7.615757 CCTAGAAATCAAACAGGTAGGGATTTT 59.384 37.037 0.00 0.00 38.06 1.82
1888 4395 7.036863 TCCTAGAAATCAAACAGGTAGGGATTT 60.037 37.037 0.00 0.00 39.96 2.17
1889 4396 6.447084 TCCTAGAAATCAAACAGGTAGGGATT 59.553 38.462 0.00 0.00 0.00 3.01
1890 4397 5.970640 TCCTAGAAATCAAACAGGTAGGGAT 59.029 40.000 0.00 0.00 0.00 3.85
1891 4398 5.347124 TCCTAGAAATCAAACAGGTAGGGA 58.653 41.667 0.00 0.00 0.00 4.20
1892 4399 5.693769 TCCTAGAAATCAAACAGGTAGGG 57.306 43.478 0.00 0.00 0.00 3.53
1893 4400 9.853177 ATAAATCCTAGAAATCAAACAGGTAGG 57.147 33.333 0.00 0.00 0.00 3.18
1911 4418 9.860393 ATGGTCTTATAGGGACTTATAAATCCT 57.140 33.333 12.47 8.97 41.75 3.24
1941 4448 9.994017 GAGGGACTTATAGGGACTTATAGTTAT 57.006 37.037 0.00 0.00 41.55 1.89
1942 4449 8.397172 GGAGGGACTTATAGGGACTTATAGTTA 58.603 40.741 0.00 0.00 41.55 2.24
1943 4450 7.076566 AGGAGGGACTTATAGGGACTTATAGTT 59.923 40.741 0.00 0.00 41.55 2.24
1944 4451 6.571180 AGGAGGGACTTATAGGGACTTATAGT 59.429 42.308 0.00 0.00 41.55 2.12
1945 4452 7.046891 AGGAGGGACTTATAGGGACTTATAG 57.953 44.000 0.00 0.00 41.55 1.31
1946 4453 7.075915 TCAAGGAGGGACTTATAGGGACTTATA 59.924 40.741 0.00 0.00 41.55 0.98
1947 4454 5.970692 AGGAGGGACTTATAGGGACTTAT 57.029 43.478 0.00 0.00 41.55 1.73
1948 4455 5.197189 TCAAGGAGGGACTTATAGGGACTTA 59.803 44.000 0.00 0.00 41.55 2.24
1949 4456 4.015541 TCAAGGAGGGACTTATAGGGACTT 60.016 45.833 0.00 0.00 41.55 3.01
1950 4457 3.536434 TCAAGGAGGGACTTATAGGGACT 59.464 47.826 0.00 0.00 41.55 3.85
1951 4458 3.898741 CTCAAGGAGGGACTTATAGGGAC 59.101 52.174 0.00 0.00 41.55 4.46
1952 4459 3.797845 TCTCAAGGAGGGACTTATAGGGA 59.202 47.826 0.00 0.00 41.55 4.20
1953 4460 4.156477 CTCTCAAGGAGGGACTTATAGGG 58.844 52.174 0.00 0.00 41.55 3.53
1954 4461 4.810345 ACTCTCAAGGAGGGACTTATAGG 58.190 47.826 0.00 0.00 45.83 2.57
1955 4462 5.701224 AGACTCTCAAGGAGGGACTTATAG 58.299 45.833 0.00 0.00 45.83 1.31
1956 4463 5.735733 AGACTCTCAAGGAGGGACTTATA 57.264 43.478 0.00 0.00 45.83 0.98
1957 4464 4.618378 AGACTCTCAAGGAGGGACTTAT 57.382 45.455 0.00 0.00 45.83 1.73
1958 4465 4.405756 AAGACTCTCAAGGAGGGACTTA 57.594 45.455 8.68 0.00 41.64 2.24
1959 4466 3.268034 AAGACTCTCAAGGAGGGACTT 57.732 47.619 5.25 5.25 45.83 3.01
1960 4467 4.618378 ATAAGACTCTCAAGGAGGGACT 57.382 45.455 0.00 0.00 45.83 3.85
1961 4468 5.187967 TGAAATAAGACTCTCAAGGAGGGAC 59.812 44.000 0.00 0.00 45.83 4.46
1962 4469 5.342017 TGAAATAAGACTCTCAAGGAGGGA 58.658 41.667 0.00 0.00 45.83 4.20
1963 4470 5.683876 TGAAATAAGACTCTCAAGGAGGG 57.316 43.478 0.00 0.00 45.83 4.30
1978 4485 5.960811 TGGGCATTTGGGACTTATGAAATAA 59.039 36.000 0.00 0.00 36.20 1.40
1979 4486 5.523588 TGGGCATTTGGGACTTATGAAATA 58.476 37.500 0.00 0.00 0.00 1.40
1980 4487 4.360889 TGGGCATTTGGGACTTATGAAAT 58.639 39.130 0.00 0.00 0.00 2.17
1981 4488 3.784178 TGGGCATTTGGGACTTATGAAA 58.216 40.909 0.00 0.00 0.00 2.69
1982 4489 3.464720 TGGGCATTTGGGACTTATGAA 57.535 42.857 0.00 0.00 0.00 2.57
1983 4490 3.686227 ATGGGCATTTGGGACTTATGA 57.314 42.857 0.00 0.00 0.00 2.15
1984 4491 4.758773 AAATGGGCATTTGGGACTTATG 57.241 40.909 0.00 0.00 39.36 1.90
1985 4492 6.443527 ACTTAAAATGGGCATTTGGGACTTAT 59.556 34.615 0.00 0.00 40.57 1.73
1986 4493 5.782845 ACTTAAAATGGGCATTTGGGACTTA 59.217 36.000 0.00 0.00 40.57 2.24
1987 4494 4.597075 ACTTAAAATGGGCATTTGGGACTT 59.403 37.500 0.00 0.00 40.57 3.01
1988 4495 4.167319 ACTTAAAATGGGCATTTGGGACT 58.833 39.130 0.00 0.00 40.57 3.85
1989 4496 4.503910 GACTTAAAATGGGCATTTGGGAC 58.496 43.478 0.00 0.00 40.57 4.46
1990 4497 3.517500 GGACTTAAAATGGGCATTTGGGA 59.482 43.478 0.00 0.00 40.57 4.37
1991 4498 3.370421 GGGACTTAAAATGGGCATTTGGG 60.370 47.826 0.00 0.00 40.57 4.12
1992 4499 3.519107 AGGGACTTAAAATGGGCATTTGG 59.481 43.478 0.00 0.00 36.76 3.28
1993 4500 4.824479 AGGGACTTAAAATGGGCATTTG 57.176 40.909 0.00 0.00 36.76 2.32
1994 4501 8.616799 TTTATAGGGACTTAAAATGGGCATTT 57.383 30.769 0.00 0.00 40.54 2.32
1995 4502 8.797436 ATTTATAGGGACTTAAAATGGGCATT 57.203 30.769 0.00 0.00 41.75 3.56
1996 4503 7.454694 GGATTTATAGGGACTTAAAATGGGCAT 59.545 37.037 0.00 0.00 41.75 4.40
1997 4504 6.780522 GGATTTATAGGGACTTAAAATGGGCA 59.219 38.462 0.00 0.00 41.75 5.36
1998 4505 6.210784 GGGATTTATAGGGACTTAAAATGGGC 59.789 42.308 0.00 0.00 41.75 5.36
1999 4506 7.535738 AGGGATTTATAGGGACTTAAAATGGG 58.464 38.462 0.00 0.00 41.75 4.00
2000 4507 7.670140 GGAGGGATTTATAGGGACTTAAAATGG 59.330 40.741 0.00 0.00 41.75 3.16
2001 4508 8.448816 AGGAGGGATTTATAGGGACTTAAAATG 58.551 37.037 0.00 0.00 41.75 2.32
2002 4509 8.448816 CAGGAGGGATTTATAGGGACTTAAAAT 58.551 37.037 0.00 0.00 41.75 1.82
2003 4510 7.407918 ACAGGAGGGATTTATAGGGACTTAAAA 59.592 37.037 0.00 0.00 41.75 1.52
2004 4511 6.912561 ACAGGAGGGATTTATAGGGACTTAAA 59.087 38.462 0.00 0.00 41.75 1.52
2005 4512 6.458784 ACAGGAGGGATTTATAGGGACTTAA 58.541 40.000 0.00 0.00 41.75 1.85
2006 4513 6.051946 ACAGGAGGGATTTATAGGGACTTA 57.948 41.667 0.00 0.00 41.75 2.24
2007 4514 4.909284 ACAGGAGGGATTTATAGGGACTT 58.091 43.478 0.00 0.00 41.75 3.01
2008 4515 4.578149 ACAGGAGGGATTTATAGGGACT 57.422 45.455 0.00 0.00 46.37 3.85
2009 4516 5.132144 TCAAACAGGAGGGATTTATAGGGAC 59.868 44.000 0.00 0.00 0.00 4.46
2010 4517 5.293643 TCAAACAGGAGGGATTTATAGGGA 58.706 41.667 0.00 0.00 0.00 4.20
2011 4518 5.646692 TCAAACAGGAGGGATTTATAGGG 57.353 43.478 0.00 0.00 0.00 3.53
2012 4519 9.289782 CTAAATCAAACAGGAGGGATTTATAGG 57.710 37.037 0.00 0.00 39.86 2.57
2015 4522 9.359653 CATCTAAATCAAACAGGAGGGATTTAT 57.640 33.333 0.00 0.00 39.86 1.40
2016 4523 7.779798 CCATCTAAATCAAACAGGAGGGATTTA 59.220 37.037 0.00 0.00 39.76 1.40
2017 4524 6.608808 CCATCTAAATCAAACAGGAGGGATTT 59.391 38.462 0.00 0.00 41.41 2.17
2018 4525 6.131961 CCATCTAAATCAAACAGGAGGGATT 58.868 40.000 0.00 0.00 0.00 3.01
2019 4526 5.399497 CCCATCTAAATCAAACAGGAGGGAT 60.399 44.000 0.00 0.00 33.23 3.85
2020 4527 4.079787 CCCATCTAAATCAAACAGGAGGGA 60.080 45.833 0.00 0.00 33.23 4.20
2021 4528 4.079787 TCCCATCTAAATCAAACAGGAGGG 60.080 45.833 0.00 0.00 0.00 4.30
2022 4529 5.116084 TCCCATCTAAATCAAACAGGAGG 57.884 43.478 0.00 0.00 0.00 4.30
2023 4530 7.651027 AAATCCCATCTAAATCAAACAGGAG 57.349 36.000 0.00 0.00 0.00 3.69
2027 4534 9.586732 CCCTATAAATCCCATCTAAATCAAACA 57.413 33.333 0.00 0.00 0.00 2.83
2028 4535 9.807921 TCCCTATAAATCCCATCTAAATCAAAC 57.192 33.333 0.00 0.00 0.00 2.93
2029 4536 9.807921 GTCCCTATAAATCCCATCTAAATCAAA 57.192 33.333 0.00 0.00 0.00 2.69
2030 4537 9.182642 AGTCCCTATAAATCCCATCTAAATCAA 57.817 33.333 0.00 0.00 0.00 2.57
2031 4538 8.757307 AGTCCCTATAAATCCCATCTAAATCA 57.243 34.615 0.00 0.00 0.00 2.57
2057 4564 7.395206 GGACTTATTGGCTTAGGGACTTAAAAA 59.605 37.037 0.00 0.00 41.75 1.94
2058 4565 6.888088 GGACTTATTGGCTTAGGGACTTAAAA 59.112 38.462 0.00 0.00 41.75 1.52
2059 4566 6.420638 GGACTTATTGGCTTAGGGACTTAAA 58.579 40.000 0.00 0.00 41.75 1.52
2060 4567 5.104235 GGGACTTATTGGCTTAGGGACTTAA 60.104 44.000 0.00 0.00 41.75 1.85
2061 4568 4.411212 GGGACTTATTGGCTTAGGGACTTA 59.589 45.833 0.00 0.00 41.75 2.24
2062 4569 3.202373 GGGACTTATTGGCTTAGGGACTT 59.798 47.826 0.00 0.00 41.75 3.01
2063 4570 2.778270 GGGACTTATTGGCTTAGGGACT 59.222 50.000 0.00 0.00 46.37 3.85
2064 4571 2.778270 AGGGACTTATTGGCTTAGGGAC 59.222 50.000 0.00 0.00 27.25 4.46
2065 4572 2.777692 CAGGGACTTATTGGCTTAGGGA 59.222 50.000 0.00 0.00 34.60 4.20
2066 4573 2.777692 TCAGGGACTTATTGGCTTAGGG 59.222 50.000 0.00 0.00 34.60 3.53
2067 4574 4.503714 TTCAGGGACTTATTGGCTTAGG 57.496 45.455 0.00 0.00 34.60 2.69
2068 4575 5.710099 TGTTTTCAGGGACTTATTGGCTTAG 59.290 40.000 0.00 0.00 34.60 2.18
2069 4576 5.636123 TGTTTTCAGGGACTTATTGGCTTA 58.364 37.500 0.00 0.00 34.60 3.09
2070 4577 4.479158 TGTTTTCAGGGACTTATTGGCTT 58.521 39.130 0.00 0.00 34.60 4.35
2071 4578 4.112634 TGTTTTCAGGGACTTATTGGCT 57.887 40.909 0.00 0.00 34.60 4.75
2072 4579 4.864704 TTGTTTTCAGGGACTTATTGGC 57.135 40.909 0.00 0.00 34.60 4.52
2073 4580 5.983118 GTGTTTGTTTTCAGGGACTTATTGG 59.017 40.000 0.00 0.00 34.60 3.16
2074 4581 5.983118 GGTGTTTGTTTTCAGGGACTTATTG 59.017 40.000 0.00 0.00 34.60 1.90
2075 4582 5.069914 GGGTGTTTGTTTTCAGGGACTTATT 59.930 40.000 0.00 0.00 34.60 1.40
2076 4583 4.587262 GGGTGTTTGTTTTCAGGGACTTAT 59.413 41.667 0.00 0.00 34.60 1.73
2077 4584 3.955551 GGGTGTTTGTTTTCAGGGACTTA 59.044 43.478 0.00 0.00 34.60 2.24
2078 4585 2.764010 GGGTGTTTGTTTTCAGGGACTT 59.236 45.455 0.00 0.00 34.60 3.01
2079 4586 2.024369 AGGGTGTTTGTTTTCAGGGACT 60.024 45.455 0.00 0.00 43.88 3.85
2080 4587 2.361119 GAGGGTGTTTGTTTTCAGGGAC 59.639 50.000 0.00 0.00 0.00 4.46
2081 4588 2.243736 AGAGGGTGTTTGTTTTCAGGGA 59.756 45.455 0.00 0.00 0.00 4.20
2082 4589 2.666317 AGAGGGTGTTTGTTTTCAGGG 58.334 47.619 0.00 0.00 0.00 4.45
2083 4590 3.250040 CGTAGAGGGTGTTTGTTTTCAGG 59.750 47.826 0.00 0.00 0.00 3.86
2084 4591 3.875134 ACGTAGAGGGTGTTTGTTTTCAG 59.125 43.478 0.00 0.00 0.00 3.02
2085 4592 3.872771 GACGTAGAGGGTGTTTGTTTTCA 59.127 43.478 0.00 0.00 0.00 2.69
2086 4593 4.124970 AGACGTAGAGGGTGTTTGTTTTC 58.875 43.478 0.00 0.00 0.00 2.29
2087 4594 4.124970 GAGACGTAGAGGGTGTTTGTTTT 58.875 43.478 0.00 0.00 0.00 2.43
2088 4595 3.725490 GAGACGTAGAGGGTGTTTGTTT 58.275 45.455 0.00 0.00 0.00 2.83
2089 4596 2.288030 CGAGACGTAGAGGGTGTTTGTT 60.288 50.000 0.00 0.00 0.00 2.83
2090 4597 1.268899 CGAGACGTAGAGGGTGTTTGT 59.731 52.381 0.00 0.00 0.00 2.83
2091 4598 1.538512 TCGAGACGTAGAGGGTGTTTG 59.461 52.381 0.00 0.00 0.00 2.93
2092 4599 1.901591 TCGAGACGTAGAGGGTGTTT 58.098 50.000 0.00 0.00 0.00 2.83
2093 4600 2.125773 ATCGAGACGTAGAGGGTGTT 57.874 50.000 0.00 0.00 0.00 3.32
2094 4601 2.996249 TATCGAGACGTAGAGGGTGT 57.004 50.000 0.00 0.00 0.00 4.16
2095 4602 3.666274 AGATATCGAGACGTAGAGGGTG 58.334 50.000 0.00 0.00 0.00 4.61
2096 4603 4.354893 AAGATATCGAGACGTAGAGGGT 57.645 45.455 0.00 0.00 0.00 4.34
2097 4604 5.692613 AAAAGATATCGAGACGTAGAGGG 57.307 43.478 0.00 0.00 0.00 4.30
2098 4605 6.633634 GTCAAAAAGATATCGAGACGTAGAGG 59.366 42.308 0.00 0.00 0.00 3.69
2099 4606 6.633634 GGTCAAAAAGATATCGAGACGTAGAG 59.366 42.308 0.00 0.00 0.00 2.43
2100 4607 6.094464 TGGTCAAAAAGATATCGAGACGTAGA 59.906 38.462 0.00 0.00 0.00 2.59
2101 4608 6.196724 GTGGTCAAAAAGATATCGAGACGTAG 59.803 42.308 0.00 0.00 0.00 3.51
2102 4609 6.032094 GTGGTCAAAAAGATATCGAGACGTA 58.968 40.000 0.00 0.00 0.00 3.57
2103 4610 4.863131 GTGGTCAAAAAGATATCGAGACGT 59.137 41.667 0.00 0.00 0.00 4.34
2104 4611 4.862574 TGTGGTCAAAAAGATATCGAGACG 59.137 41.667 0.00 0.00 0.00 4.18
2105 4612 5.869888 AGTGTGGTCAAAAAGATATCGAGAC 59.130 40.000 0.00 2.88 0.00 3.36
2106 4613 6.037786 AGTGTGGTCAAAAAGATATCGAGA 57.962 37.500 0.00 0.00 0.00 4.04
2107 4614 7.827819 TTAGTGTGGTCAAAAAGATATCGAG 57.172 36.000 0.00 0.00 0.00 4.04
2108 4615 8.664798 CAATTAGTGTGGTCAAAAAGATATCGA 58.335 33.333 0.00 0.00 0.00 3.59
2109 4616 8.450964 ACAATTAGTGTGGTCAAAAAGATATCG 58.549 33.333 0.00 0.00 39.72 2.92
2150 4660 7.110043 TGCAAATATAACCTGAAATGCATCA 57.890 32.000 0.00 0.00 37.61 3.07
2238 4763 3.146066 CAAAACATTGGAAGTCGGAGGA 58.854 45.455 0.00 0.00 0.00 3.71
2354 4883 8.141268 TGACAGGACTGAAATAAATCCAAAAAC 58.859 33.333 6.29 0.00 33.33 2.43
2389 4918 3.576982 ACAGGAACATCTACTCCAAACGA 59.423 43.478 0.00 0.00 33.83 3.85
2409 4938 4.692155 TCATAGACGTCTTTGTAGTCGACA 59.308 41.667 27.85 9.89 39.65 4.35
2410 4939 5.020758 GTCATAGACGTCTTTGTAGTCGAC 58.979 45.833 27.85 17.42 39.65 4.20
2448 4977 1.931841 CTGAGACGGCACATCATCTTG 59.068 52.381 0.00 0.00 0.00 3.02
2451 4980 1.135915 AGACTGAGACGGCACATCATC 59.864 52.381 0.00 0.00 0.00 2.92
2454 4983 0.814457 AGAGACTGAGACGGCACATC 59.186 55.000 0.00 0.00 0.00 3.06
2457 4986 0.598562 TTGAGAGACTGAGACGGCAC 59.401 55.000 0.00 0.00 0.00 5.01
2460 4989 2.479389 GCATCTTGAGAGACTGAGACGG 60.479 54.545 0.00 0.00 33.99 4.79
2480 5009 3.686016 TCCACAACCTATCCTTTTGAGC 58.314 45.455 0.00 0.00 0.00 4.26
2483 5012 3.763360 TGCATCCACAACCTATCCTTTTG 59.237 43.478 0.00 0.00 0.00 2.44
2489 5018 2.579873 AGCATGCATCCACAACCTATC 58.420 47.619 21.98 0.00 0.00 2.08
2490 5019 2.742428 AGCATGCATCCACAACCTAT 57.258 45.000 21.98 0.00 0.00 2.57
2494 5023 2.728690 TGAAAGCATGCATCCACAAC 57.271 45.000 21.98 2.87 0.00 3.32
2495 5024 4.271661 TCTATGAAAGCATGCATCCACAA 58.728 39.130 21.98 2.25 35.94 3.33
2496 5025 3.881089 CTCTATGAAAGCATGCATCCACA 59.119 43.478 21.98 12.37 35.94 4.17
2497 5026 3.252701 CCTCTATGAAAGCATGCATCCAC 59.747 47.826 21.98 6.93 35.94 4.02
2500 5029 4.132336 TCACCTCTATGAAAGCATGCATC 58.868 43.478 21.98 17.70 35.94 3.91
2504 5033 7.741027 ATACATTCACCTCTATGAAAGCATG 57.259 36.000 0.00 0.00 41.78 4.06
2505 5034 9.445878 CATATACATTCACCTCTATGAAAGCAT 57.554 33.333 0.00 0.00 41.78 3.79
2508 5037 7.600375 ACGCATATACATTCACCTCTATGAAAG 59.400 37.037 0.00 0.00 41.78 2.62
2509 5038 7.384932 CACGCATATACATTCACCTCTATGAAA 59.615 37.037 0.00 0.00 41.78 2.69
2512 5041 6.389906 TCACGCATATACATTCACCTCTATG 58.610 40.000 0.00 0.00 0.00 2.23
2514 5043 5.564848 GCTCACGCATATACATTCACCTCTA 60.565 44.000 0.00 0.00 35.78 2.43
2519 5048 3.393800 AGGCTCACGCATATACATTCAC 58.606 45.455 0.00 0.00 38.10 3.18
2531 5060 1.611519 ATAGAGACCTAGGCTCACGC 58.388 55.000 25.54 11.74 34.85 5.34
2532 5061 2.952978 ACAATAGAGACCTAGGCTCACG 59.047 50.000 25.54 16.41 34.85 4.35
2533 5062 6.658188 ATTACAATAGAGACCTAGGCTCAC 57.342 41.667 25.54 14.73 34.85 3.51
2536 5065 8.989131 TGTTTTATTACAATAGAGACCTAGGCT 58.011 33.333 9.30 7.09 0.00 4.58
2537 5066 9.609346 TTGTTTTATTACAATAGAGACCTAGGC 57.391 33.333 9.30 1.39 33.31 3.93
2601 5132 2.816087 ACACTTGGCTAACATGCAGAAG 59.184 45.455 0.00 0.00 33.14 2.85
2602 5133 2.862541 ACACTTGGCTAACATGCAGAA 58.137 42.857 0.00 0.00 34.04 3.02
2603 5134 2.566833 ACACTTGGCTAACATGCAGA 57.433 45.000 0.00 0.00 34.04 4.26
2631 5162 4.446385 CGACTTACACCATTTCGAGAACAA 59.554 41.667 0.00 0.00 0.00 2.83
2660 5191 3.247411 TGTTACTGTGTGTGCTTTGATCG 59.753 43.478 0.00 0.00 0.00 3.69
2676 5207 3.805207 AGCCGAGTTCACTTTTGTTACT 58.195 40.909 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.