Multiple sequence alignment - TraesCS2A01G461500

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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 TraesCS2A01G461500 chr2A 100.000 2237 0 0 1 2237 707268543 707270779 0.000000e+00 4132.0
1 TraesCS2A01G461500 chr2A 90.118 678 33 12 768 1422 707234775 707235441 0.000000e+00 850.0
2 TraesCS2A01G461500 chr2A 88.660 97 10 1 535 631 707232959 707233054 1.400000e-22 117.0
3 TraesCS2A01G461500 chr2D 90.006 1661 112 27 2 1625 567966435 567968078 0.000000e+00 2098.0
4 TraesCS2A01G461500 chr2D 86.783 401 26 6 744 1117 567787029 567787429 2.660000e-114 422.0
5 TraesCS2A01G461500 chr2D 91.729 266 15 4 1175 1438 567787762 567788022 1.630000e-96 363.0
6 TraesCS2A01G461500 chr2D 79.389 393 44 24 1195 1581 568077799 568078160 2.220000e-60 243.0
7 TraesCS2A01G461500 chr2D 78.970 233 31 10 897 1115 568077474 568077702 2.320000e-30 143.0
8 TraesCS2A01G461500 chr2D 89.720 107 6 5 750 854 568076103 568076206 5.010000e-27 132.0
9 TraesCS2A01G461500 chr2D 85.345 116 14 3 1 115 519346843 519346730 1.400000e-22 117.0
10 TraesCS2A01G461500 chr2D 88.406 69 6 2 990 1056 567051591 567051659 5.120000e-12 82.4
11 TraesCS2A01G461500 chr2B 89.869 1066 50 19 740 1774 680521778 680522816 0.000000e+00 1317.0
12 TraesCS2A01G461500 chr2B 92.391 92 7 0 535 626 680519970 680520061 5.010000e-27 132.0
13 TraesCS2A01G461500 chr2B 85.088 114 11 5 1 113 406278611 406278503 6.530000e-21 111.0
14 TraesCS2A01G461500 chr2B 89.610 77 4 4 1320 1392 680573139 680573215 6.580000e-16 95.3
15 TraesCS2A01G461500 chr2B 93.220 59 4 0 1793 1851 680523350 680523408 1.100000e-13 87.9
16 TraesCS2A01G461500 chr6A 98.950 381 4 0 1857 2237 115969836 115970216 0.000000e+00 682.0
17 TraesCS2A01G461500 chr6A 97.238 362 9 1 1851 2212 537824283 537823923 1.470000e-171 612.0
18 TraesCS2A01G461500 chr5B 94.832 387 20 0 1851 2237 684055292 684054906 2.460000e-169 604.0
19 TraesCS2A01G461500 chr5B 94.057 387 23 0 1851 2237 649830743 649831129 2.470000e-164 588.0
20 TraesCS2A01G461500 chr5B 100.000 28 0 0 461 488 470437751 470437778 4.000000e-03 52.8
21 TraesCS2A01G461500 chr3A 95.699 372 16 0 1851 2222 693581528 693581157 1.140000e-167 599.0
22 TraesCS2A01G461500 chr3A 83.621 116 17 2 1 115 15316262 15316148 8.450000e-20 108.0
23 TraesCS2A01G461500 chr3B 94.560 386 21 0 1852 2237 756241892 756242277 4.110000e-167 597.0
24 TraesCS2A01G461500 chr3B 90.265 113 8 2 1 113 73801666 73801775 6.440000e-31 145.0
25 TraesCS2A01G461500 chr7A 94.315 387 22 0 1851 2237 552978284 552978670 5.320000e-166 593.0
26 TraesCS2A01G461500 chr6B 94.315 387 22 0 1851 2237 38966829 38966443 5.320000e-166 593.0
27 TraesCS2A01G461500 chr6B 94.737 380 20 0 1849 2228 49670154 49670533 1.910000e-165 592.0
28 TraesCS2A01G461500 chr3D 89.381 113 10 2 1 113 284858864 284858974 8.330000e-30 141.0
29 TraesCS2A01G461500 chr3D 88.288 111 10 2 3 113 85066921 85066814 1.800000e-26 130.0
30 TraesCS2A01G461500 chr5D 89.091 110 10 2 4 113 331369753 331369646 3.880000e-28 135.0
31 TraesCS2A01G461500 chr1B 90.196 102 10 0 1 102 488143643 488143542 1.390000e-27 134.0
32 TraesCS2A01G461500 chr4B 100.000 32 0 0 463 494 604295699 604295730 2.400000e-05 60.2
33 TraesCS2A01G461500 chr4A 97.059 34 1 0 461 494 603279980 603279947 8.630000e-05 58.4


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 TraesCS2A01G461500 chr2A 707268543 707270779 2236 False 4132.0 4132 100.000000 1 2237 1 chr2A.!!$F1 2236
1 TraesCS2A01G461500 chr2A 707232959 707235441 2482 False 483.5 850 89.389000 535 1422 2 chr2A.!!$F2 887
2 TraesCS2A01G461500 chr2D 567966435 567968078 1643 False 2098.0 2098 90.006000 2 1625 1 chr2D.!!$F2 1623
3 TraesCS2A01G461500 chr2D 567787029 567788022 993 False 392.5 422 89.256000 744 1438 2 chr2D.!!$F3 694
4 TraesCS2A01G461500 chr2B 680519970 680523408 3438 False 512.3 1317 91.826667 535 1851 3 chr2B.!!$F2 1316

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
677 2285 0.110104 ATAGCCTGCCTTCATGGAGC 59.89 55.0 0.0 0.0 38.35 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1952 4463 0.028902 TGACGTGATCTATGCCGACG 59.971 55.0 0.0 0.0 36.14 5.12 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
22 23 0.248289 GTGCTAACCTCGCTGGGTAA 59.752 55.000 0.00 0.00 37.59 2.85
23 24 1.134491 GTGCTAACCTCGCTGGGTAAT 60.134 52.381 0.00 0.00 37.59 1.89
31 32 0.460635 TCGCTGGGTAATACGTTGCC 60.461 55.000 0.00 0.00 39.17 4.52
57 58 1.990799 CGTTGTATCAGCCGTCTTGA 58.009 50.000 0.00 0.00 0.00 3.02
106 107 4.783036 CACATTTGTGCGTATTCGAAAGAG 59.217 41.667 0.00 0.00 39.49 2.85
108 109 5.178623 ACATTTGTGCGTATTCGAAAGAGAA 59.821 36.000 0.00 0.00 43.69 2.87
141 142 0.457851 AGTAATTCGCGAGCAGCTCT 59.542 50.000 20.39 2.82 45.59 4.09
142 143 0.574454 GTAATTCGCGAGCAGCTCTG 59.426 55.000 20.39 14.22 45.59 3.35
148 149 1.886777 GCGAGCAGCTCTGATTCCC 60.887 63.158 20.39 0.00 44.04 3.97
188 189 2.659063 CGGTGTGCAGGGGAGATGA 61.659 63.158 0.00 0.00 0.00 2.92
196 197 1.467920 CAGGGGAGATGAAGCAAACC 58.532 55.000 0.00 0.00 0.00 3.27
204 205 1.852067 ATGAAGCAAACCGTGGTCGC 61.852 55.000 5.50 5.50 36.79 5.19
217 218 4.047059 GTCGCCGTCGTTCTCCCA 62.047 66.667 0.00 0.00 36.96 4.37
239 240 0.468958 TCACAACAATGGTGGGTGGG 60.469 55.000 0.00 0.00 35.81 4.61
272 273 0.398381 ATGGGAGCTCTGTCCTCTCC 60.398 60.000 14.64 3.98 44.28 3.71
273 274 3.948702 GGAGCTCTGTCCTCTCCC 58.051 66.667 14.64 0.00 40.29 4.30
274 275 1.309688 GGAGCTCTGTCCTCTCCCT 59.690 63.158 14.64 0.00 40.29 4.20
275 276 0.755327 GGAGCTCTGTCCTCTCCCTC 60.755 65.000 14.64 0.00 40.29 4.30
298 299 1.685765 CATGAGGACCGGAGTGGGA 60.686 63.158 9.46 0.00 44.64 4.37
316 317 3.053395 TGGGAAGGGGAAAGAGATGAATG 60.053 47.826 0.00 0.00 0.00 2.67
338 341 0.572590 CGATAGCTCGTGCGAAAAGG 59.427 55.000 3.48 0.00 45.42 3.11
341 344 0.669318 TAGCTCGTGCGAAAAGGTGG 60.669 55.000 3.48 0.00 45.42 4.61
361 364 1.485066 GGGAGATAAGCCTTGACCGAA 59.515 52.381 0.00 0.00 0.00 4.30
433 436 3.514645 CAGGCTTGCATTTGGATGTTAC 58.485 45.455 0.00 0.00 35.63 2.50
437 440 4.506758 GCTTGCATTTGGATGTTACCATT 58.493 39.130 0.00 0.00 39.82 3.16
441 444 4.644234 TGCATTTGGATGTTACCATTCGAT 59.356 37.500 0.00 0.00 39.82 3.59
676 2284 3.996921 ATATAGCCTGCCTTCATGGAG 57.003 47.619 0.00 0.00 38.35 3.86
677 2285 0.110104 ATAGCCTGCCTTCATGGAGC 59.890 55.000 0.00 0.00 38.35 4.70
680 2288 1.153005 CCTGCCTTCATGGAGCTCC 60.153 63.158 26.78 26.78 38.35 4.70
681 2289 1.153005 CTGCCTTCATGGAGCTCCC 60.153 63.158 29.95 12.91 38.35 4.30
705 2339 9.898152 CCCAATTTAATAAGCTCCCAATTTTTA 57.102 29.630 0.00 0.00 0.00 1.52
814 2461 3.591979 GCAGCTGATTTGTTTGCCA 57.408 47.368 20.43 0.00 0.00 4.92
872 2527 4.935495 CACCCAGTGCACCTGCGT 62.935 66.667 14.63 6.98 45.83 5.24
911 2566 0.738389 GGCGCCTATAAAAAGCAGCA 59.262 50.000 22.15 0.00 0.00 4.41
976 2648 2.433446 CCAGTGGCCAGCAACTCT 59.567 61.111 5.11 0.00 0.00 3.24
1224 3192 1.257055 CCAAATCCACCGCCACCAAT 61.257 55.000 0.00 0.00 0.00 3.16
1272 3241 0.677731 ACGTGCTGGCTAACATGCAT 60.678 50.000 0.00 0.00 36.26 3.96
1273 3242 0.248336 CGTGCTGGCTAACATGCATG 60.248 55.000 25.09 25.09 36.26 4.06
1283 3252 0.815734 AACATGCATGGCTGAAGCTC 59.184 50.000 29.41 0.00 41.70 4.09
1375 3354 2.481449 GCGTCTGTACCAACTATCCTGG 60.481 54.545 0.00 0.00 40.05 4.45
1456 3447 7.362802 AGTATGTTCTCCCTACTTAATGACC 57.637 40.000 0.00 0.00 0.00 4.02
1508 3502 7.691158 ACGGAATAAATAAAGGATTTGTCGAC 58.309 34.615 9.11 9.11 39.63 4.20
1727 3723 1.192146 TGACACAGCCAGGTCCTACC 61.192 60.000 0.00 0.00 38.99 3.18
1744 3740 7.931275 GGTCCTACCTCATTAGCAATAAAAAG 58.069 38.462 0.00 0.00 34.73 2.27
1790 3786 2.363147 GGAGACCTCCCGCTCACT 60.363 66.667 4.72 0.00 43.94 3.41
1791 3787 1.985116 GGAGACCTCCCGCTCACTT 60.985 63.158 4.72 0.00 43.94 3.16
1801 4312 1.608717 CCGCTCACTTAGACTGGCCT 61.609 60.000 3.32 0.00 0.00 5.19
1803 4314 1.202313 CGCTCACTTAGACTGGCCTAC 60.202 57.143 3.32 0.00 0.00 3.18
1815 4326 3.898123 GACTGGCCTACTGGATCTCATTA 59.102 47.826 3.32 0.00 34.57 1.90
1862 4373 8.575649 AAAAATATTCAATTCACTACCGGACT 57.424 30.769 9.46 0.00 0.00 3.85
1863 4374 7.787725 AAATATTCAATTCACTACCGGACTC 57.212 36.000 9.46 0.00 0.00 3.36
1864 4375 2.933495 TCAATTCACTACCGGACTCG 57.067 50.000 9.46 0.00 0.00 4.18
1865 4376 1.135199 TCAATTCACTACCGGACTCGC 60.135 52.381 9.46 0.00 34.56 5.03
1866 4377 0.175073 AATTCACTACCGGACTCGCC 59.825 55.000 9.46 0.00 34.56 5.54
1867 4378 0.968901 ATTCACTACCGGACTCGCCA 60.969 55.000 9.46 0.00 35.94 5.69
1868 4379 1.870055 TTCACTACCGGACTCGCCAC 61.870 60.000 9.46 0.00 35.94 5.01
1869 4380 3.066814 ACTACCGGACTCGCCACC 61.067 66.667 9.46 0.00 35.94 4.61
1870 4381 2.754658 CTACCGGACTCGCCACCT 60.755 66.667 9.46 0.00 35.94 4.00
1871 4382 1.452651 CTACCGGACTCGCCACCTA 60.453 63.158 9.46 0.00 35.94 3.08
1872 4383 0.822532 CTACCGGACTCGCCACCTAT 60.823 60.000 9.46 0.00 35.94 2.57
1873 4384 1.105167 TACCGGACTCGCCACCTATG 61.105 60.000 9.46 0.00 35.94 2.23
1874 4385 2.279517 CGGACTCGCCACCTATGC 60.280 66.667 0.00 0.00 35.94 3.14
1875 4386 2.109181 GGACTCGCCACCTATGCC 59.891 66.667 0.00 0.00 36.34 4.40
1876 4387 2.279517 GACTCGCCACCTATGCCG 60.280 66.667 0.00 0.00 0.00 5.69
1877 4388 2.758327 ACTCGCCACCTATGCCGA 60.758 61.111 0.00 0.00 0.00 5.54
1878 4389 2.279517 CTCGCCACCTATGCCGAC 60.280 66.667 0.00 0.00 0.00 4.79
1879 4390 4.201679 TCGCCACCTATGCCGACG 62.202 66.667 0.00 0.00 0.00 5.12
1911 4422 4.579127 GCATAGGCCATTTCCCGT 57.421 55.556 5.01 0.00 0.00 5.28
1912 4423 2.331265 GCATAGGCCATTTCCCGTC 58.669 57.895 5.01 0.00 0.00 4.79
1913 4424 1.507141 GCATAGGCCATTTCCCGTCG 61.507 60.000 5.01 0.00 0.00 5.12
1914 4425 0.884704 CATAGGCCATTTCCCGTCGG 60.885 60.000 5.01 3.60 0.00 4.79
1915 4426 2.676163 ATAGGCCATTTCCCGTCGGC 62.676 60.000 5.01 0.00 44.10 5.54
1917 4428 2.828549 GCCATTTCCCGTCGGCAT 60.829 61.111 5.50 0.00 44.25 4.40
1918 4429 1.525077 GCCATTTCCCGTCGGCATA 60.525 57.895 5.50 0.00 44.25 3.14
1919 4430 1.782028 GCCATTTCCCGTCGGCATAC 61.782 60.000 5.50 0.00 44.25 2.39
1920 4431 0.462937 CCATTTCCCGTCGGCATACA 60.463 55.000 5.50 0.00 0.00 2.29
1921 4432 1.593196 CATTTCCCGTCGGCATACAT 58.407 50.000 5.50 0.00 0.00 2.29
1922 4433 1.531149 CATTTCCCGTCGGCATACATC 59.469 52.381 5.50 0.00 0.00 3.06
1923 4434 0.828022 TTTCCCGTCGGCATACATCT 59.172 50.000 5.50 0.00 0.00 2.90
1924 4435 1.694844 TTCCCGTCGGCATACATCTA 58.305 50.000 5.50 0.00 0.00 1.98
1925 4436 1.919240 TCCCGTCGGCATACATCTAT 58.081 50.000 5.50 0.00 0.00 1.98
1926 4437 1.544246 TCCCGTCGGCATACATCTATG 59.456 52.381 5.50 0.00 33.92 2.23
1934 4445 2.271800 GCATACATCTATGCCTACGGC 58.728 52.381 1.74 0.00 46.80 5.68
1966 4477 3.455152 CCCCGTCGGCATAGATCA 58.545 61.111 5.50 0.00 0.00 2.92
1967 4478 1.006102 CCCCGTCGGCATAGATCAC 60.006 63.158 5.50 0.00 0.00 3.06
1968 4479 1.371758 CCCGTCGGCATAGATCACG 60.372 63.158 5.50 0.00 0.00 4.35
1969 4480 1.359117 CCGTCGGCATAGATCACGT 59.641 57.895 0.00 0.00 0.00 4.49
1970 4481 0.660595 CCGTCGGCATAGATCACGTC 60.661 60.000 0.00 0.00 0.00 4.34
1971 4482 0.028902 CGTCGGCATAGATCACGTCA 59.971 55.000 0.00 0.00 0.00 4.35
1972 4483 1.759994 GTCGGCATAGATCACGTCAG 58.240 55.000 0.00 0.00 0.00 3.51
1973 4484 0.030773 TCGGCATAGATCACGTCAGC 59.969 55.000 0.00 0.00 0.00 4.26
1974 4485 1.271446 CGGCATAGATCACGTCAGCG 61.271 60.000 0.00 0.00 44.93 5.18
1985 4496 3.767287 CGTCAGCGTAGTCTTGTCA 57.233 52.632 0.00 0.00 0.00 3.58
1986 4497 1.607713 CGTCAGCGTAGTCTTGTCAG 58.392 55.000 0.00 0.00 0.00 3.51
1987 4498 1.197036 CGTCAGCGTAGTCTTGTCAGA 59.803 52.381 0.00 0.00 0.00 3.27
1994 4505 4.554163 GTCTTGTCAGACCGTCGG 57.446 61.111 10.48 10.48 43.50 4.79
1995 4506 1.733399 GTCTTGTCAGACCGTCGGC 60.733 63.158 12.28 4.24 43.50 5.54
1996 4507 2.197605 TCTTGTCAGACCGTCGGCA 61.198 57.895 12.28 0.00 0.00 5.69
1997 4508 1.079819 CTTGTCAGACCGTCGGCAT 60.080 57.895 12.28 0.00 0.00 4.40
1998 4509 0.172578 CTTGTCAGACCGTCGGCATA 59.827 55.000 12.28 0.00 0.00 3.14
1999 4510 0.172578 TTGTCAGACCGTCGGCATAG 59.827 55.000 12.28 0.00 0.00 2.23
2000 4511 0.963856 TGTCAGACCGTCGGCATAGT 60.964 55.000 12.28 0.00 0.00 2.12
2001 4512 0.172803 GTCAGACCGTCGGCATAGTT 59.827 55.000 12.28 0.00 0.00 2.24
2002 4513 0.892755 TCAGACCGTCGGCATAGTTT 59.107 50.000 12.28 0.00 0.00 2.66
2003 4514 2.093890 TCAGACCGTCGGCATAGTTTA 58.906 47.619 12.28 0.00 0.00 2.01
2004 4515 2.098607 TCAGACCGTCGGCATAGTTTAG 59.901 50.000 12.28 0.00 0.00 1.85
2005 4516 1.202382 AGACCGTCGGCATAGTTTAGC 60.202 52.381 12.28 0.00 0.00 3.09
2011 4522 2.601562 GGCATAGTTTAGCCGTCGG 58.398 57.895 6.99 6.99 41.70 4.79
2042 4553 2.892425 GCCGATGGCTTCCGTCTG 60.892 66.667 0.00 0.00 46.69 3.51
2043 4554 2.202932 CCGATGGCTTCCGTCTGG 60.203 66.667 3.85 3.40 37.40 3.86
2044 4555 2.892425 CGATGGCTTCCGTCTGGC 60.892 66.667 3.85 0.00 37.40 4.85
2045 4556 2.514824 GATGGCTTCCGTCTGGCC 60.515 66.667 0.00 0.00 45.45 5.36
2049 4560 4.373116 GCTTCCGTCTGGCCGTCA 62.373 66.667 0.00 0.00 34.14 4.35
2050 4561 2.125912 CTTCCGTCTGGCCGTCAG 60.126 66.667 0.00 0.00 44.68 3.51
2051 4562 4.373116 TTCCGTCTGGCCGTCAGC 62.373 66.667 0.00 0.00 43.06 4.26
2053 4564 4.457496 CCGTCTGGCCGTCAGCAT 62.457 66.667 0.00 0.00 46.50 3.79
2054 4565 2.494445 CGTCTGGCCGTCAGCATA 59.506 61.111 0.00 0.00 46.50 3.14
2055 4566 1.589993 CGTCTGGCCGTCAGCATAG 60.590 63.158 0.00 0.00 46.50 2.23
2056 4567 1.517832 GTCTGGCCGTCAGCATAGT 59.482 57.895 0.00 0.00 46.50 2.12
2057 4568 0.108138 GTCTGGCCGTCAGCATAGTT 60.108 55.000 0.00 0.00 46.50 2.24
2058 4569 0.613260 TCTGGCCGTCAGCATAGTTT 59.387 50.000 0.00 0.00 46.50 2.66
2059 4570 1.828595 TCTGGCCGTCAGCATAGTTTA 59.171 47.619 0.00 0.00 46.50 2.01
2060 4571 2.159099 TCTGGCCGTCAGCATAGTTTAG 60.159 50.000 0.00 0.00 46.50 1.85
2061 4572 0.938008 GGCCGTCAGCATAGTTTAGC 59.062 55.000 0.00 0.00 46.50 3.09
2062 4573 0.938008 GCCGTCAGCATAGTTTAGCC 59.062 55.000 0.00 0.00 42.97 3.93
2063 4574 1.209128 CCGTCAGCATAGTTTAGCCG 58.791 55.000 0.00 0.00 0.00 5.52
2064 4575 1.470979 CCGTCAGCATAGTTTAGCCGT 60.471 52.381 0.00 0.00 0.00 5.68
2065 4576 1.852895 CGTCAGCATAGTTTAGCCGTC 59.147 52.381 0.00 0.00 0.00 4.79
2066 4577 1.852895 GTCAGCATAGTTTAGCCGTCG 59.147 52.381 0.00 0.00 0.00 5.12
2067 4578 1.202371 TCAGCATAGTTTAGCCGTCGG 60.202 52.381 6.99 6.99 0.00 4.79
2079 4590 2.539003 CCGTCGGCAGTGATTTTCA 58.461 52.632 0.00 0.00 0.00 2.69
2089 4600 1.234821 GTGATTTTCACCTGACGGCA 58.765 50.000 0.00 0.00 41.37 5.69
2090 4601 1.606668 GTGATTTTCACCTGACGGCAA 59.393 47.619 0.00 0.00 41.37 4.52
2091 4602 2.228822 GTGATTTTCACCTGACGGCAAT 59.771 45.455 0.00 0.00 41.37 3.56
2092 4603 2.228582 TGATTTTCACCTGACGGCAATG 59.771 45.455 0.00 0.00 0.00 2.82
2093 4604 0.958091 TTTTCACCTGACGGCAATGG 59.042 50.000 0.00 0.00 0.00 3.16
2094 4605 0.109532 TTTCACCTGACGGCAATGGA 59.890 50.000 3.05 0.00 0.00 3.41
2095 4606 0.605319 TTCACCTGACGGCAATGGAC 60.605 55.000 3.05 0.00 0.00 4.02
2104 4615 4.166011 GCAATGGACGGCGCTGTC 62.166 66.667 36.05 36.05 38.17 3.51
2105 4616 2.741985 CAATGGACGGCGCTGTCA 60.742 61.111 41.25 29.87 40.72 3.58
2106 4617 2.031919 AATGGACGGCGCTGTCAA 59.968 55.556 41.25 35.41 40.72 3.18
2107 4618 1.599518 AATGGACGGCGCTGTCAAA 60.600 52.632 41.25 31.50 40.72 2.69
2108 4619 1.169661 AATGGACGGCGCTGTCAAAA 61.170 50.000 41.25 29.28 40.72 2.44
2109 4620 1.577328 ATGGACGGCGCTGTCAAAAG 61.577 55.000 41.25 12.18 40.72 2.27
2110 4621 2.127232 GACGGCGCTGTCAAAAGC 60.127 61.111 37.93 15.54 38.75 3.51
2118 4629 2.399396 GCTGTCAAAAGCGCTAACAA 57.601 45.000 12.05 0.00 32.56 2.83
2119 4630 2.726633 GCTGTCAAAAGCGCTAACAAA 58.273 42.857 12.05 0.00 32.56 2.83
2120 4631 3.308530 GCTGTCAAAAGCGCTAACAAAT 58.691 40.909 12.05 0.00 32.56 2.32
2121 4632 3.361940 GCTGTCAAAAGCGCTAACAAATC 59.638 43.478 12.05 0.00 32.56 2.17
2122 4633 4.536065 CTGTCAAAAGCGCTAACAAATCA 58.464 39.130 12.05 3.93 0.00 2.57
2123 4634 4.286910 TGTCAAAAGCGCTAACAAATCAC 58.713 39.130 12.05 0.11 0.00 3.06
2124 4635 4.201960 TGTCAAAAGCGCTAACAAATCACA 60.202 37.500 12.05 3.02 0.00 3.58
2125 4636 4.379793 GTCAAAAGCGCTAACAAATCACAG 59.620 41.667 12.05 0.00 0.00 3.66
2126 4637 3.559238 AAAGCGCTAACAAATCACAGG 57.441 42.857 12.05 0.00 0.00 4.00
2127 4638 0.804989 AGCGCTAACAAATCACAGGC 59.195 50.000 8.99 0.00 0.00 4.85
2128 4639 0.179163 GCGCTAACAAATCACAGGCC 60.179 55.000 0.00 0.00 0.00 5.19
2129 4640 0.096976 CGCTAACAAATCACAGGCCG 59.903 55.000 0.00 0.00 0.00 6.13
2130 4641 0.179163 GCTAACAAATCACAGGCCGC 60.179 55.000 0.00 0.00 0.00 6.53
2131 4642 0.451783 CTAACAAATCACAGGCCGCC 59.548 55.000 0.00 0.00 0.00 6.13
2132 4643 1.302383 TAACAAATCACAGGCCGCCG 61.302 55.000 3.05 1.53 0.00 6.46
2133 4644 4.481112 CAAATCACAGGCCGCCGC 62.481 66.667 3.05 0.00 0.00 6.53
2147 4658 2.586079 CCGCGTGGCAGAGGTATG 60.586 66.667 0.00 0.00 0.00 2.39
2148 4659 3.264897 CGCGTGGCAGAGGTATGC 61.265 66.667 0.00 0.00 45.74 3.14
2177 4688 4.924019 CCGTCGGCATAGGTGAAA 57.076 55.556 0.00 0.00 0.00 2.69
2178 4689 3.146783 CCGTCGGCATAGGTGAAAA 57.853 52.632 0.00 0.00 0.00 2.29
2179 4690 1.663695 CCGTCGGCATAGGTGAAAAT 58.336 50.000 0.00 0.00 0.00 1.82
2180 4691 1.597663 CCGTCGGCATAGGTGAAAATC 59.402 52.381 0.00 0.00 0.00 2.17
2181 4692 2.550978 CGTCGGCATAGGTGAAAATCT 58.449 47.619 0.00 0.00 0.00 2.40
2182 4693 3.491964 CCGTCGGCATAGGTGAAAATCTA 60.492 47.826 0.00 0.00 0.00 1.98
2183 4694 4.307432 CGTCGGCATAGGTGAAAATCTAT 58.693 43.478 0.00 0.00 0.00 1.98
2184 4695 4.150627 CGTCGGCATAGGTGAAAATCTATG 59.849 45.833 2.27 2.27 43.26 2.23
2189 4700 5.597813 CATAGGTGAAAATCTATGCCGAC 57.402 43.478 0.00 0.00 37.22 4.79
2190 4701 2.550978 AGGTGAAAATCTATGCCGACG 58.449 47.619 0.00 0.00 0.00 5.12
2191 4702 1.597663 GGTGAAAATCTATGCCGACGG 59.402 52.381 10.29 10.29 0.00 4.79
2220 4731 3.799753 GCATACCTCTGCCACGTG 58.200 61.111 9.08 9.08 36.10 4.49
2221 4732 1.815421 GCATACCTCTGCCACGTGG 60.815 63.158 30.66 30.66 36.10 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.662596 CAGCGAGGTTAGCACCCA 59.337 61.111 0.00 0.00 45.63 4.51
31 32 0.373716 GGCTGATACAACGCCTTTCG 59.626 55.000 0.00 0.00 40.62 3.46
87 88 5.660629 TTTCTCTTTCGAATACGCACAAA 57.339 34.783 0.00 0.00 39.58 2.83
89 90 5.660629 TTTTTCTCTTTCGAATACGCACA 57.339 34.783 0.00 0.00 39.58 4.57
116 117 0.442310 GCTCGCGAATTACTGCAACA 59.558 50.000 11.33 0.00 0.00 3.33
130 131 1.886777 GGGAATCAGAGCTGCTCGC 60.887 63.158 22.77 11.40 35.36 5.03
141 142 1.698506 AACAAGCAAACCGGGAATCA 58.301 45.000 6.32 0.00 0.00 2.57
142 143 2.554893 TGTAACAAGCAAACCGGGAATC 59.445 45.455 6.32 0.00 0.00 2.52
148 149 1.069568 TGCGATGTAACAAGCAAACCG 60.070 47.619 0.00 0.00 36.60 4.44
178 179 0.035056 CGGTTTGCTTCATCTCCCCT 60.035 55.000 0.00 0.00 0.00 4.79
183 184 1.523758 GACCACGGTTTGCTTCATCT 58.476 50.000 0.00 0.00 0.00 2.90
188 189 3.284449 GGCGACCACGGTTTGCTT 61.284 61.111 12.38 0.00 40.15 3.91
196 197 4.695231 AGAACGACGGCGACCACG 62.695 66.667 22.49 15.64 41.64 4.94
204 205 0.666577 GTGAAGTGGGAGAACGACGG 60.667 60.000 0.00 0.00 32.45 4.79
217 218 2.031120 CACCCACCATTGTTGTGAAGT 58.969 47.619 0.00 0.00 35.74 3.01
248 249 2.685017 ACAGAGCTCCCATGGCGA 60.685 61.111 10.93 4.39 34.52 5.54
273 274 2.503061 CGGTCCTCATGCTGGGAG 59.497 66.667 5.03 0.00 31.66 4.30
274 275 3.083349 CCGGTCCTCATGCTGGGA 61.083 66.667 0.00 2.07 0.00 4.37
275 276 3.083349 TCCGGTCCTCATGCTGGG 61.083 66.667 0.00 0.00 0.00 4.45
298 299 3.370953 CGTCCATTCATCTCTTTCCCCTT 60.371 47.826 0.00 0.00 0.00 3.95
334 337 1.987080 AGGCTTATCTCCCCACCTTT 58.013 50.000 0.00 0.00 0.00 3.11
338 341 1.134068 GGTCAAGGCTTATCTCCCCAC 60.134 57.143 0.00 0.00 0.00 4.61
341 344 1.120530 TCGGTCAAGGCTTATCTCCC 58.879 55.000 0.00 0.00 0.00 4.30
377 380 1.001020 GTGCCATGTGGACCCATCA 60.001 57.895 2.55 0.00 37.39 3.07
412 415 2.754946 AACATCCAAATGCAAGCCTG 57.245 45.000 0.00 0.00 36.26 4.85
415 418 3.591196 TGGTAACATCCAAATGCAAGC 57.409 42.857 0.00 0.00 46.17 4.01
507 510 7.038048 TCTGATGCATAGACTGAAAACTGTAG 58.962 38.462 0.00 0.00 0.00 2.74
517 520 6.645827 CCACTAAGATTCTGATGCATAGACTG 59.354 42.308 0.00 0.00 0.00 3.51
644 2252 5.663556 AGGCAGGCTATATATTTCTAGACCC 59.336 44.000 0.00 0.00 0.00 4.46
676 2284 4.215109 TGGGAGCTTATTAAATTGGGAGC 58.785 43.478 0.00 0.00 0.00 4.70
677 2285 6.983906 ATTGGGAGCTTATTAAATTGGGAG 57.016 37.500 0.00 0.00 0.00 4.30
722 2357 3.230976 TGATACGCTGATACCCACTGAT 58.769 45.455 0.00 0.00 0.00 2.90
730 2365 0.969894 AGCCCCTGATACGCTGATAC 59.030 55.000 0.00 0.00 0.00 2.24
731 2366 1.618837 GAAGCCCCTGATACGCTGATA 59.381 52.381 0.00 0.00 31.92 2.15
732 2367 0.394565 GAAGCCCCTGATACGCTGAT 59.605 55.000 0.00 0.00 31.92 2.90
733 2368 0.687757 AGAAGCCCCTGATACGCTGA 60.688 55.000 0.00 0.00 31.92 4.26
734 2369 0.179000 AAGAAGCCCCTGATACGCTG 59.821 55.000 0.00 0.00 31.92 5.18
735 2370 0.912486 AAAGAAGCCCCTGATACGCT 59.088 50.000 0.00 0.00 0.00 5.07
736 2371 1.671328 GAAAAGAAGCCCCTGATACGC 59.329 52.381 0.00 0.00 0.00 4.42
737 2372 3.268023 AGAAAAGAAGCCCCTGATACG 57.732 47.619 0.00 0.00 0.00 3.06
814 2461 0.321653 GCAGGGACGTGTTTGGAGAT 60.322 55.000 0.00 0.00 0.00 2.75
872 2527 3.294493 GCTTTGGTGGCGCTTCCA 61.294 61.111 17.21 17.21 44.18 3.53
893 2548 2.654987 GATGCTGCTTTTTATAGGCGC 58.345 47.619 0.00 0.00 0.00 6.53
1224 3192 5.241728 CACCATAGACGATCATGGAGACTTA 59.758 44.000 14.93 0.00 43.80 2.24
1272 3241 2.104792 ACAAGTAGTTGAGCTTCAGCCA 59.895 45.455 17.23 0.00 38.29 4.75
1273 3242 2.481952 CACAAGTAGTTGAGCTTCAGCC 59.518 50.000 17.23 0.00 38.29 4.85
1283 3252 5.277828 GCAAGTCTAAACCCACAAGTAGTTG 60.278 44.000 8.81 8.81 39.82 3.16
1318 3289 0.958382 TGATTTTCTTCCGGCCGGTG 60.958 55.000 41.57 32.85 36.47 4.94
1375 3354 2.480845 ACTGAAAGGAAGTACACACGC 58.519 47.619 0.00 0.00 39.30 5.34
1422 3413 3.429960 GGGAGAACATACTTACGTGGACC 60.430 52.174 0.00 0.00 0.00 4.46
1452 3443 2.256306 TGTAGCACATCAAGGAGGTCA 58.744 47.619 0.00 0.00 0.00 4.02
1508 3502 1.438651 TCCAAAAGAAGGCGATCACG 58.561 50.000 0.00 0.00 42.93 4.35
1555 3549 9.586435 TGTGATCAATGTGACAAAGTAGTATAG 57.414 33.333 0.00 0.00 0.00 1.31
1628 3624 8.488651 AATCTTAACCATTCGTTTTCTATCGT 57.511 30.769 0.00 0.00 35.79 3.73
1657 3653 9.010029 ACGGTTAAATATCTGAATTTTCTGTGT 57.990 29.630 0.00 0.00 31.63 3.72
1658 3654 9.840427 AACGGTTAAATATCTGAATTTTCTGTG 57.160 29.630 0.00 0.00 31.63 3.66
1666 3662 8.765219 CGAATCTCAACGGTTAAATATCTGAAT 58.235 33.333 0.00 0.00 0.00 2.57
1674 3670 6.548441 TTTGACGAATCTCAACGGTTAAAT 57.452 33.333 0.00 0.00 29.62 1.40
1681 3677 7.796660 TGAGTTTTTATTTGACGAATCTCAACG 59.203 33.333 0.00 0.00 29.62 4.10
1691 3687 6.086765 GCTGTGTCATGAGTTTTTATTTGACG 59.913 38.462 0.00 0.00 37.01 4.35
1727 3723 7.276438 GGGCAAACTCTTTTTATTGCTAATGAG 59.724 37.037 8.94 0.00 45.60 2.90
1744 3740 3.643159 AAGTTTCAATCGGGCAAACTC 57.357 42.857 0.00 0.00 39.02 3.01
1778 3774 0.457851 CAGTCTAAGTGAGCGGGAGG 59.542 60.000 0.00 0.00 0.00 4.30
1779 3775 0.457851 CCAGTCTAAGTGAGCGGGAG 59.542 60.000 0.00 0.00 0.00 4.30
1780 3776 1.605058 GCCAGTCTAAGTGAGCGGGA 61.605 60.000 0.00 0.00 0.00 5.14
1781 3777 1.153549 GCCAGTCTAAGTGAGCGGG 60.154 63.158 0.00 0.00 0.00 6.13
1783 3779 1.103803 TAGGCCAGTCTAAGTGAGCG 58.896 55.000 5.01 0.00 0.00 5.03
1784 3780 2.104170 AGTAGGCCAGTCTAAGTGAGC 58.896 52.381 5.01 0.00 0.00 4.26
1785 3781 2.428890 CCAGTAGGCCAGTCTAAGTGAG 59.571 54.545 5.01 0.00 0.00 3.51
1786 3782 2.042569 TCCAGTAGGCCAGTCTAAGTGA 59.957 50.000 5.01 0.00 33.74 3.41
1787 3783 2.457598 TCCAGTAGGCCAGTCTAAGTG 58.542 52.381 5.01 0.00 33.74 3.16
1788 3784 2.921834 TCCAGTAGGCCAGTCTAAGT 57.078 50.000 5.01 0.00 33.74 2.24
1789 3785 3.571590 AGATCCAGTAGGCCAGTCTAAG 58.428 50.000 5.01 0.00 33.74 2.18
1790 3786 3.052869 TGAGATCCAGTAGGCCAGTCTAA 60.053 47.826 5.01 0.00 33.74 2.10
1791 3787 2.514160 TGAGATCCAGTAGGCCAGTCTA 59.486 50.000 5.01 0.00 33.74 2.59
1846 4357 1.278238 GCGAGTCCGGTAGTGAATTG 58.722 55.000 0.00 0.00 36.06 2.32
1851 4362 2.181021 GTGGCGAGTCCGGTAGTG 59.819 66.667 0.00 0.00 37.80 2.74
1852 4363 2.202236 TAGGTGGCGAGTCCGGTAGT 62.202 60.000 0.00 0.00 37.80 2.73
1853 4364 0.822532 ATAGGTGGCGAGTCCGGTAG 60.823 60.000 0.00 0.00 37.80 3.18
1854 4365 1.105167 CATAGGTGGCGAGTCCGGTA 61.105 60.000 0.00 0.00 37.80 4.02
1855 4366 2.043248 ATAGGTGGCGAGTCCGGT 60.043 61.111 0.00 0.00 37.80 5.28
1856 4367 2.417516 CATAGGTGGCGAGTCCGG 59.582 66.667 0.00 0.00 37.80 5.14
1857 4368 2.279517 GCATAGGTGGCGAGTCCG 60.280 66.667 0.00 0.00 37.80 4.79
1858 4369 2.109181 GGCATAGGTGGCGAGTCC 59.891 66.667 0.00 0.00 41.35 3.85
1894 4405 1.507141 CGACGGGAAATGGCCTATGC 61.507 60.000 3.32 0.00 0.00 3.14
1895 4406 0.884704 CCGACGGGAAATGGCCTATG 60.885 60.000 5.81 0.00 34.06 2.23
1896 4407 1.450211 CCGACGGGAAATGGCCTAT 59.550 57.895 5.81 0.00 34.06 2.57
1897 4408 2.904905 CCGACGGGAAATGGCCTA 59.095 61.111 5.81 0.00 34.06 3.93
1898 4409 4.796495 GCCGACGGGAAATGGCCT 62.796 66.667 17.22 0.00 41.70 5.19
1901 4412 0.462937 TGTATGCCGACGGGAAATGG 60.463 55.000 13.59 0.00 34.06 3.16
1902 4413 1.531149 GATGTATGCCGACGGGAAATG 59.469 52.381 13.59 0.00 34.06 2.32
1903 4414 1.416401 AGATGTATGCCGACGGGAAAT 59.584 47.619 13.59 6.74 34.06 2.17
1904 4415 0.828022 AGATGTATGCCGACGGGAAA 59.172 50.000 13.59 1.24 34.06 3.13
1905 4416 1.694844 TAGATGTATGCCGACGGGAA 58.305 50.000 13.59 0.00 34.06 3.97
1906 4417 1.544246 CATAGATGTATGCCGACGGGA 59.456 52.381 17.22 14.58 34.06 5.14
1907 4418 1.996292 CATAGATGTATGCCGACGGG 58.004 55.000 17.22 0.00 29.82 5.28
1949 4460 1.006102 GTGATCTATGCCGACGGGG 60.006 63.158 17.22 0.00 39.58 5.73
1950 4461 1.371758 CGTGATCTATGCCGACGGG 60.372 63.158 17.22 0.00 0.00 5.28
1951 4462 0.660595 GACGTGATCTATGCCGACGG 60.661 60.000 10.29 10.29 34.36 4.79
1952 4463 0.028902 TGACGTGATCTATGCCGACG 59.971 55.000 0.00 0.00 36.14 5.12
1953 4464 1.759994 CTGACGTGATCTATGCCGAC 58.240 55.000 0.00 0.00 0.00 4.79
1954 4465 0.030773 GCTGACGTGATCTATGCCGA 59.969 55.000 0.00 0.00 0.00 5.54
1955 4466 1.271446 CGCTGACGTGATCTATGCCG 61.271 60.000 0.00 0.00 33.53 5.69
1956 4467 2.510948 CGCTGACGTGATCTATGCC 58.489 57.895 0.00 0.00 33.53 4.40
1968 4479 2.991434 TCTGACAAGACTACGCTGAC 57.009 50.000 0.00 0.00 0.00 3.51
1978 4489 1.532604 ATGCCGACGGTCTGACAAGA 61.533 55.000 16.73 0.00 0.00 3.02
1979 4490 0.172578 TATGCCGACGGTCTGACAAG 59.827 55.000 16.73 5.60 0.00 3.16
1980 4491 0.172578 CTATGCCGACGGTCTGACAA 59.827 55.000 16.73 0.00 0.00 3.18
1981 4492 0.963856 ACTATGCCGACGGTCTGACA 60.964 55.000 16.73 4.55 0.00 3.58
1982 4493 0.172803 AACTATGCCGACGGTCTGAC 59.827 55.000 16.73 0.00 0.00 3.51
1983 4494 0.892755 AAACTATGCCGACGGTCTGA 59.107 50.000 16.73 0.00 0.00 3.27
1984 4495 2.460918 CTAAACTATGCCGACGGTCTG 58.539 52.381 16.73 6.28 0.00 3.51
1985 4496 1.202382 GCTAAACTATGCCGACGGTCT 60.202 52.381 16.73 5.65 0.00 3.85
1986 4497 1.206523 GCTAAACTATGCCGACGGTC 58.793 55.000 16.73 8.54 0.00 4.79
1987 4498 0.179092 GGCTAAACTATGCCGACGGT 60.179 55.000 16.73 0.00 39.71 4.83
1988 4499 2.601562 GGCTAAACTATGCCGACGG 58.398 57.895 10.29 10.29 39.71 4.79
1993 4504 1.496403 GCCGACGGCTAAACTATGCC 61.496 60.000 31.30 0.00 46.69 4.40
1994 4505 1.932277 GCCGACGGCTAAACTATGC 59.068 57.895 31.30 0.14 46.69 3.14
2026 4537 2.202932 CCAGACGGAAGCCATCGG 60.203 66.667 0.00 0.00 34.70 4.18
2027 4538 2.892425 GCCAGACGGAAGCCATCG 60.892 66.667 0.00 0.00 0.00 3.84
2028 4539 2.514824 GGCCAGACGGAAGCCATC 60.515 66.667 0.00 0.00 46.34 3.51
2032 4543 4.373116 TGACGGCCAGACGGAAGC 62.373 66.667 2.24 0.00 38.39 3.86
2033 4544 2.125912 CTGACGGCCAGACGGAAG 60.126 66.667 2.24 0.00 45.78 3.46
2034 4545 4.373116 GCTGACGGCCAGACGGAA 62.373 66.667 2.24 0.00 45.78 4.30
2036 4547 2.960957 CTATGCTGACGGCCAGACGG 62.961 65.000 2.24 2.46 45.78 4.79
2037 4548 1.589993 CTATGCTGACGGCCAGACG 60.590 63.158 2.24 0.00 45.78 4.18
2038 4549 0.108138 AACTATGCTGACGGCCAGAC 60.108 55.000 2.24 0.00 45.78 3.51
2039 4550 0.613260 AAACTATGCTGACGGCCAGA 59.387 50.000 2.24 0.00 45.78 3.86
2040 4551 2.205074 CTAAACTATGCTGACGGCCAG 58.795 52.381 2.24 3.65 45.67 4.85
2041 4552 1.742411 GCTAAACTATGCTGACGGCCA 60.742 52.381 2.24 0.00 40.92 5.36
2042 4553 0.938008 GCTAAACTATGCTGACGGCC 59.062 55.000 3.22 0.00 40.92 6.13
2043 4554 0.938008 GGCTAAACTATGCTGACGGC 59.062 55.000 0.00 0.00 42.22 5.68
2044 4555 1.209128 CGGCTAAACTATGCTGACGG 58.791 55.000 0.00 0.00 37.75 4.79
2045 4556 1.852895 GACGGCTAAACTATGCTGACG 59.147 52.381 0.00 0.00 38.78 4.35
2046 4557 1.852895 CGACGGCTAAACTATGCTGAC 59.147 52.381 0.00 0.00 38.78 3.51
2047 4558 1.202371 CCGACGGCTAAACTATGCTGA 60.202 52.381 0.00 0.00 38.78 4.26
2048 4559 1.209128 CCGACGGCTAAACTATGCTG 58.791 55.000 0.00 0.00 41.02 4.41
2049 4560 0.529992 GCCGACGGCTAAACTATGCT 60.530 55.000 31.30 0.00 46.69 3.79
2050 4561 1.932277 GCCGACGGCTAAACTATGC 59.068 57.895 31.30 0.14 46.69 3.14
2060 4571 3.695506 GTGAAAATCACTGCCGACGGC 62.696 57.143 31.85 31.85 43.73 5.68
2061 4572 0.165944 GTGAAAATCACTGCCGACGG 59.834 55.000 10.29 10.29 43.73 4.79
2062 4573 0.165944 GGTGAAAATCACTGCCGACG 59.834 55.000 10.06 0.00 46.19 5.12
2063 4574 1.197721 CAGGTGAAAATCACTGCCGAC 59.802 52.381 10.06 0.00 46.19 4.79
2064 4575 1.071542 TCAGGTGAAAATCACTGCCGA 59.928 47.619 10.06 0.52 46.19 5.54
2065 4576 1.197721 GTCAGGTGAAAATCACTGCCG 59.802 52.381 10.06 0.00 46.19 5.69
2066 4577 1.197721 CGTCAGGTGAAAATCACTGCC 59.802 52.381 10.06 0.00 46.19 4.85
2067 4578 1.197721 CCGTCAGGTGAAAATCACTGC 59.802 52.381 10.06 0.00 46.19 4.40
2068 4579 1.197721 GCCGTCAGGTGAAAATCACTG 59.802 52.381 10.06 6.93 46.19 3.66
2069 4580 1.202758 TGCCGTCAGGTGAAAATCACT 60.203 47.619 10.06 0.00 46.19 3.41
2070 4581 1.234821 TGCCGTCAGGTGAAAATCAC 58.765 50.000 1.88 1.88 46.23 3.06
2071 4582 1.974265 TTGCCGTCAGGTGAAAATCA 58.026 45.000 0.00 0.00 40.50 2.57
2072 4583 2.415893 CCATTGCCGTCAGGTGAAAATC 60.416 50.000 0.00 0.00 40.50 2.17
2073 4584 1.545582 CCATTGCCGTCAGGTGAAAAT 59.454 47.619 0.00 0.00 40.50 1.82
2074 4585 0.958091 CCATTGCCGTCAGGTGAAAA 59.042 50.000 0.00 0.00 40.50 2.29
2075 4586 0.109532 TCCATTGCCGTCAGGTGAAA 59.890 50.000 0.00 0.00 40.50 2.69
2076 4587 0.605319 GTCCATTGCCGTCAGGTGAA 60.605 55.000 0.00 0.00 40.50 3.18
2077 4588 1.003839 GTCCATTGCCGTCAGGTGA 60.004 57.895 0.00 0.00 40.50 4.02
2078 4589 2.390599 CGTCCATTGCCGTCAGGTG 61.391 63.158 0.00 0.00 40.50 4.00
2079 4590 2.047274 CGTCCATTGCCGTCAGGT 60.047 61.111 0.00 0.00 40.50 4.00
2080 4591 2.819595 CCGTCCATTGCCGTCAGG 60.820 66.667 0.00 0.00 41.62 3.86
2081 4592 3.499737 GCCGTCCATTGCCGTCAG 61.500 66.667 0.00 0.00 0.00 3.51
2087 4598 4.166011 GACAGCGCCGTCCATTGC 62.166 66.667 12.88 0.00 0.00 3.56
2088 4599 1.851021 TTTGACAGCGCCGTCCATTG 61.851 55.000 20.53 5.12 34.88 2.82
2089 4600 1.169661 TTTTGACAGCGCCGTCCATT 61.170 50.000 20.53 0.00 34.88 3.16
2090 4601 1.577328 CTTTTGACAGCGCCGTCCAT 61.577 55.000 20.53 0.00 34.88 3.41
2091 4602 2.203084 TTTTGACAGCGCCGTCCA 60.203 55.556 20.53 7.41 34.88 4.02
2092 4603 2.556287 CTTTTGACAGCGCCGTCC 59.444 61.111 20.53 3.99 34.88 4.79
2093 4604 2.127232 GCTTTTGACAGCGCCGTC 60.127 61.111 16.89 16.89 36.40 4.79
2099 4610 2.399396 TTGTTAGCGCTTTTGACAGC 57.601 45.000 18.68 0.00 36.33 4.40
2100 4611 4.379793 GTGATTTGTTAGCGCTTTTGACAG 59.620 41.667 18.68 0.00 0.00 3.51
2101 4612 4.201960 TGTGATTTGTTAGCGCTTTTGACA 60.202 37.500 18.68 13.24 0.00 3.58
2102 4613 4.286910 TGTGATTTGTTAGCGCTTTTGAC 58.713 39.130 18.68 10.57 0.00 3.18
2103 4614 4.536065 CTGTGATTTGTTAGCGCTTTTGA 58.464 39.130 18.68 0.00 0.00 2.69
2104 4615 3.670055 CCTGTGATTTGTTAGCGCTTTTG 59.330 43.478 18.68 0.00 0.00 2.44
2105 4616 3.857010 GCCTGTGATTTGTTAGCGCTTTT 60.857 43.478 18.68 0.00 0.00 2.27
2106 4617 2.351738 GCCTGTGATTTGTTAGCGCTTT 60.352 45.455 18.68 0.00 0.00 3.51
2107 4618 1.200020 GCCTGTGATTTGTTAGCGCTT 59.800 47.619 18.68 0.00 0.00 4.68
2108 4619 0.804989 GCCTGTGATTTGTTAGCGCT 59.195 50.000 17.26 17.26 0.00 5.92
2109 4620 0.179163 GGCCTGTGATTTGTTAGCGC 60.179 55.000 0.00 0.00 0.00 5.92
2110 4621 0.096976 CGGCCTGTGATTTGTTAGCG 59.903 55.000 0.00 0.00 0.00 4.26
2111 4622 0.179163 GCGGCCTGTGATTTGTTAGC 60.179 55.000 0.00 0.00 0.00 3.09
2112 4623 0.451783 GGCGGCCTGTGATTTGTTAG 59.548 55.000 12.87 0.00 0.00 2.34
2113 4624 1.302383 CGGCGGCCTGTGATTTGTTA 61.302 55.000 18.34 0.00 0.00 2.41
2114 4625 2.625823 CGGCGGCCTGTGATTTGTT 61.626 57.895 18.34 0.00 0.00 2.83
2115 4626 3.055719 CGGCGGCCTGTGATTTGT 61.056 61.111 18.34 0.00 0.00 2.83
2116 4627 4.481112 GCGGCGGCCTGTGATTTG 62.481 66.667 18.34 0.00 0.00 2.32
2130 4641 2.586079 CATACCTCTGCCACGCGG 60.586 66.667 12.47 0.00 36.06 6.46
2131 4642 3.264897 GCATACCTCTGCCACGCG 61.265 66.667 3.53 3.53 36.10 6.01
2160 4671 1.597663 GATTTTCACCTATGCCGACGG 59.402 52.381 10.29 10.29 0.00 4.79
2161 4672 2.550978 AGATTTTCACCTATGCCGACG 58.449 47.619 0.00 0.00 0.00 5.12
2162 4673 5.597813 CATAGATTTTCACCTATGCCGAC 57.402 43.478 0.00 0.00 36.81 4.79
2167 4678 4.150627 CGTCGGCATAGATTTTCACCTATG 59.849 45.833 0.00 0.00 42.99 2.23
2168 4679 4.307432 CGTCGGCATAGATTTTCACCTAT 58.693 43.478 0.00 0.00 0.00 2.57
2169 4680 3.491964 CCGTCGGCATAGATTTTCACCTA 60.492 47.826 0.00 0.00 0.00 3.08
2170 4681 2.550978 CGTCGGCATAGATTTTCACCT 58.449 47.619 0.00 0.00 0.00 4.00
2171 4682 1.597663 CCGTCGGCATAGATTTTCACC 59.402 52.381 0.00 0.00 0.00 4.02
2203 4714 1.815421 CCACGTGGCAGAGGTATGC 60.815 63.158 24.02 0.00 45.74 3.14
2204 4715 4.521075 CCACGTGGCAGAGGTATG 57.479 61.111 24.02 0.00 0.00 2.39


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

AutoCloner maintained by Alex Coulton.