Multiple sequence alignment - TraesCS6B01G048600

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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 TraesCS6B01G048600 chr6B 100.000 2538 0 0 1 2538 28518324 28515787 0.000000e+00 4687.0
1 TraesCS6B01G048600 chr6B 90.168 1607 122 25 2 1595 59231816 59233399 0.000000e+00 2060.0
2 TraesCS6B01G048600 chr6B 90.417 887 65 14 828 1709 59294778 59295649 0.000000e+00 1149.0
3 TraesCS6B01G048600 chr6B 92.830 795 47 9 828 1619 28713891 28714678 0.000000e+00 1144.0
4 TraesCS6B01G048600 chr6B 86.214 972 88 27 759 1707 28256874 28255926 0.000000e+00 1011.0
5 TraesCS6B01G048600 chr6B 91.483 681 49 6 876 1556 29068514 29067843 0.000000e+00 928.0
6 TraesCS6B01G048600 chr6B 85.479 365 52 1 4 368 324128469 324128106 1.840000e-101 379.0
7 TraesCS6B01G048600 chr6B 84.309 376 53 6 1 372 522876242 522875869 1.860000e-96 363.0
8 TraesCS6B01G048600 chr6B 81.070 243 29 9 2046 2282 59295942 59296173 7.220000e-41 178.0
9 TraesCS6B01G048600 chr6B 84.746 177 22 5 2265 2440 59296185 59296357 3.360000e-39 172.0
10 TraesCS6B01G048600 chr6B 87.023 131 14 1 366 496 28257761 28257634 7.320000e-31 145.0
11 TraesCS6B01G048600 chr6B 86.154 130 12 3 366 495 28924991 28925114 4.400000e-28 135.0
12 TraesCS6B01G048600 chr6B 89.610 77 6 2 1949 2024 28715041 28715116 2.080000e-16 97.1
13 TraesCS6B01G048600 chr6A 88.771 1131 93 18 604 1708 16659093 16657971 0.000000e+00 1354.0
14 TraesCS6B01G048600 chr6A 86.789 1090 97 24 498 1557 16594298 16593226 0.000000e+00 1171.0
15 TraesCS6B01G048600 chr6A 89.619 761 53 17 818 1556 16802221 16801465 0.000000e+00 944.0
16 TraesCS6B01G048600 chr6A 86.957 851 78 17 1161 1994 16663133 16662299 0.000000e+00 926.0
17 TraesCS6B01G048600 chr6A 77.848 316 41 14 1849 2147 16702262 16702565 4.340000e-38 169.0
18 TraesCS6B01G048600 chr6A 89.899 99 9 1 498 596 16660253 16660156 2.650000e-25 126.0
19 TraesCS6B01G048600 chr6D 89.102 835 60 17 759 1569 16307492 16306665 0.000000e+00 1009.0
20 TraesCS6B01G048600 chr6D 88.165 752 60 19 818 1554 16529698 16528961 0.000000e+00 869.0
21 TraesCS6B01G048600 chr6D 88.676 680 63 11 874 1540 24001448 24002126 0.000000e+00 817.0
22 TraesCS6B01G048600 chr6D 91.589 214 14 1 1833 2046 16389317 16389108 2.470000e-75 292.0
23 TraesCS6B01G048600 chr6D 87.975 158 12 1 1755 1912 16511621 16511771 2.010000e-41 180.0
24 TraesCS6B01G048600 chr6D 93.333 90 5 1 406 495 16366107 16366019 5.700000e-27 132.0
25 TraesCS6B01G048600 chr6D 92.308 91 6 1 498 588 16391541 16391452 7.370000e-26 128.0
26 TraesCS6B01G048600 chr6D 90.000 80 8 0 2291 2370 16388568 16388489 1.240000e-18 104.0
27 TraesCS6B01G048600 chr2D 88.556 367 42 0 1 367 313498417 313498051 1.790000e-121 446.0
28 TraesCS6B01G048600 chr5B 86.376 367 50 0 1 367 129712115 129712481 3.930000e-108 401.0
29 TraesCS6B01G048600 chr4B 86.104 367 51 0 1 367 161230105 161229739 1.830000e-106 396.0
30 TraesCS6B01G048600 chr5D 85.831 367 52 0 1 367 219497771 219497405 8.510000e-105 390.0
31 TraesCS6B01G048600 chr1B 84.718 373 49 4 1 367 82771316 82770946 1.430000e-97 366.0
32 TraesCS6B01G048600 chr3B 83.880 366 57 2 2 367 162943673 162944036 5.200000e-92 348.0
33 TraesCS6B01G048600 chr3A 79.529 425 49 24 1949 2354 66251017 66251422 4.160000e-68 268.0


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 TraesCS6B01G048600 chr6B 28515787 28518324 2537 True 4687.000000 4687 100.000000 1 2538 1 chr6B.!!$R1 2537
1 TraesCS6B01G048600 chr6B 59231816 59233399 1583 False 2060.000000 2060 90.168000 2 1595 1 chr6B.!!$F2 1593
2 TraesCS6B01G048600 chr6B 29067843 29068514 671 True 928.000000 928 91.483000 876 1556 1 chr6B.!!$R2 680
3 TraesCS6B01G048600 chr6B 28713891 28715116 1225 False 620.550000 1144 91.220000 828 2024 2 chr6B.!!$F3 1196
4 TraesCS6B01G048600 chr6B 28255926 28257761 1835 True 578.000000 1011 86.618500 366 1707 2 chr6B.!!$R5 1341
5 TraesCS6B01G048600 chr6B 59294778 59296357 1579 False 499.666667 1149 85.411000 828 2440 3 chr6B.!!$F4 1612
6 TraesCS6B01G048600 chr6A 16593226 16594298 1072 True 1171.000000 1171 86.789000 498 1557 1 chr6A.!!$R1 1059
7 TraesCS6B01G048600 chr6A 16801465 16802221 756 True 944.000000 944 89.619000 818 1556 1 chr6A.!!$R2 738
8 TraesCS6B01G048600 chr6A 16657971 16663133 5162 True 802.000000 1354 88.542333 498 1994 3 chr6A.!!$R3 1496
9 TraesCS6B01G048600 chr6D 16306665 16307492 827 True 1009.000000 1009 89.102000 759 1569 1 chr6D.!!$R1 810
10 TraesCS6B01G048600 chr6D 16528961 16529698 737 True 869.000000 869 88.165000 818 1554 1 chr6D.!!$R3 736
11 TraesCS6B01G048600 chr6D 24001448 24002126 678 False 817.000000 817 88.676000 874 1540 1 chr6D.!!$F2 666

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
23 24 0.099968 CACGCCTAACAGTAGCGCTA 59.9 55.0 14.45 14.45 33.13 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1624 5431 0.665369 CGACGAAACTAACGGGCAGT 60.665 55.0 0.0 0.0 34.93 4.4 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
21 22 2.165301 CCACGCCTAACAGTAGCGC 61.165 63.158 0.00 0.00 33.13 5.92
23 24 0.099968 CACGCCTAACAGTAGCGCTA 59.900 55.000 14.45 14.45 33.13 4.26
44 45 1.045407 TTCCCAGACAACGCTACTGT 58.955 50.000 0.00 0.00 0.00 3.55
62 63 5.584253 ACTGTTATGGTGCTCAGTAGTAG 57.416 43.478 0.00 0.00 39.01 2.57
111 112 1.143401 GGGTCCCGTTAGCAGTAGC 59.857 63.158 0.00 0.00 42.56 3.58
112 113 1.610554 GGGTCCCGTTAGCAGTAGCA 61.611 60.000 0.00 0.00 45.49 3.49
129 130 3.089573 AGCAGAGTTTTCAAAGCAAGC 57.910 42.857 0.00 0.00 0.00 4.01
131 132 2.796032 GCAGAGTTTTCAAAGCAAGCGT 60.796 45.455 0.00 0.00 0.00 5.07
133 134 3.241322 CAGAGTTTTCAAAGCAAGCGTTG 59.759 43.478 13.35 13.35 36.89 4.10
224 225 3.134081 CGTTGGGTCCCACTTATCAGTAT 59.866 47.826 11.24 0.00 30.78 2.12
226 227 2.963101 TGGGTCCCACTTATCAGTATCG 59.037 50.000 6.47 0.00 0.00 2.92
259 260 2.170607 TCCAGGGCTACTGCTAAATCAC 59.829 50.000 3.80 0.00 46.14 3.06
269 270 6.199342 GCTACTGCTAAATCACTACTTGTAGC 59.801 42.308 7.62 0.00 41.06 3.58
276 277 0.108615 CACTACTTGTAGCGCTGCCT 60.109 55.000 22.90 6.42 0.00 4.75
292 293 1.729470 GCCTGAGAGCAGCGCTACTA 61.729 60.000 10.99 0.00 39.88 1.82
439 440 8.073768 CCGATTTGCTTAATACCGTTATTCATT 58.926 33.333 0.00 0.00 0.00 2.57
470 471 8.978539 GTTCTTCAAAAGTCACACTTTCTTTTT 58.021 29.630 2.19 0.00 46.78 1.94
638 4340 9.009327 CAATTAGCAATTTTATACACGACCAAG 57.991 33.333 0.00 0.00 0.00 3.61
642 4344 5.631512 GCAATTTTATACACGACCAAGCAAA 59.368 36.000 0.00 0.00 0.00 3.68
643 4345 6.144724 GCAATTTTATACACGACCAAGCAAAA 59.855 34.615 0.00 0.00 0.00 2.44
644 4346 7.306866 GCAATTTTATACACGACCAAGCAAAAA 60.307 33.333 0.00 0.00 0.00 1.94
706 4419 3.691049 ATTCGTGCCCATTTCAATACG 57.309 42.857 0.00 0.00 0.00 3.06
720 4434 7.415095 CCATTTCAATACGTAGGCTGATTTTGA 60.415 37.037 0.08 0.63 0.00 2.69
727 4441 5.942872 ACGTAGGCTGATTTTGATTTTGAG 58.057 37.500 0.00 0.00 0.00 3.02
728 4442 5.473504 ACGTAGGCTGATTTTGATTTTGAGT 59.526 36.000 0.00 0.00 0.00 3.41
730 4444 7.174253 ACGTAGGCTGATTTTGATTTTGAGTTA 59.826 33.333 0.00 0.00 0.00 2.24
731 4445 8.184192 CGTAGGCTGATTTTGATTTTGAGTTAT 58.816 33.333 0.00 0.00 0.00 1.89
732 4446 9.860898 GTAGGCTGATTTTGATTTTGAGTTATT 57.139 29.630 0.00 0.00 0.00 1.40
1214 4980 3.072476 TCCCGTCCTTCATTGTTCTTCTT 59.928 43.478 0.00 0.00 0.00 2.52
1217 4983 4.065088 CGTCCTTCATTGTTCTTCTTCCA 58.935 43.478 0.00 0.00 0.00 3.53
1265 5040 8.999431 GTAACTGACAGATTTGGTTTCTGAATA 58.001 33.333 10.08 0.00 42.63 1.75
1266 5041 8.641498 AACTGACAGATTTGGTTTCTGAATAT 57.359 30.769 10.08 0.00 42.63 1.28
1273 5048 6.438425 AGATTTGGTTTCTGAATATGCAGGTT 59.562 34.615 11.00 0.00 36.55 3.50
1318 5093 0.396811 AGGACAACAAGAAGACCCGG 59.603 55.000 0.00 0.00 0.00 5.73
1369 5144 2.282958 AACGACCAGGAGCTCGGA 60.283 61.111 13.94 0.00 34.07 4.55
1438 5213 3.241530 AACTCCGTGCTGCTCCCA 61.242 61.111 0.00 0.00 0.00 4.37
1576 5383 3.065925 GCCAGTGTTGCTTAGATCCATTC 59.934 47.826 0.00 0.00 0.00 2.67
1611 5418 6.931790 AGATGAGATCCTGTATGTAATGCT 57.068 37.500 0.00 0.00 0.00 3.79
1612 5419 6.934056 AGATGAGATCCTGTATGTAATGCTC 58.066 40.000 0.00 0.00 0.00 4.26
1619 5426 6.149129 TCCTGTATGTAATGCTCTGTAGTG 57.851 41.667 0.00 0.00 0.00 2.74
1620 5427 4.747108 CCTGTATGTAATGCTCTGTAGTGC 59.253 45.833 0.00 0.00 35.32 4.40
1621 5428 4.693283 TGTATGTAATGCTCTGTAGTGCC 58.307 43.478 3.77 0.00 33.96 5.01
1623 5430 1.134818 TGTAATGCTCTGTAGTGCCCG 60.135 52.381 3.77 0.00 33.96 6.13
1624 5431 1.136305 GTAATGCTCTGTAGTGCCCGA 59.864 52.381 3.77 0.00 33.96 5.14
1651 5458 2.669364 GTTAGTTTCGTCGAGCAAGGA 58.331 47.619 0.00 0.00 0.00 3.36
1674 5483 8.708378 AGGATGACATTGTATCTGTGATTTCTA 58.292 33.333 0.00 0.00 0.00 2.10
1714 5634 6.110543 TGCAATCATTTCAATCTCGTACTG 57.889 37.500 0.00 0.00 0.00 2.74
1715 5635 4.966366 GCAATCATTTCAATCTCGTACTGC 59.034 41.667 0.00 0.00 0.00 4.40
1716 5636 5.447683 GCAATCATTTCAATCTCGTACTGCA 60.448 40.000 0.00 0.00 0.00 4.41
1738 5664 5.298026 GCAAAATTCTCTCTTCTACCATCCC 59.702 44.000 0.00 0.00 0.00 3.85
1746 5672 7.470192 TCTCTCTTCTACCATCCCAAAATTTT 58.530 34.615 0.00 0.00 0.00 1.82
1753 5679 8.200024 TCTACCATCCCAAAATTTTCATTGAA 57.800 30.769 0.00 0.00 0.00 2.69
1771 5697 7.243487 TCATTGAACTGTAATTTTCAGCGATC 58.757 34.615 3.22 1.50 36.50 3.69
1781 5707 9.042008 TGTAATTTTCAGCGATCTATCTTTACC 57.958 33.333 0.00 0.00 0.00 2.85
1787 5713 6.304624 TCAGCGATCTATCTTTACCTCCTTA 58.695 40.000 0.00 0.00 0.00 2.69
1812 5738 4.640771 AGTTCACTTCCAGCTTATTCCA 57.359 40.909 0.00 0.00 0.00 3.53
1824 5750 2.363359 GCTTATTCCAATCAAGCTGGGG 59.637 50.000 0.00 0.00 41.14 4.96
1825 5751 2.754012 TATTCCAATCAAGCTGGGGG 57.246 50.000 0.00 0.00 34.46 5.40
1852 5778 8.558973 AACTGGAAACTGAATCTATGAAGAAG 57.441 34.615 0.00 0.00 34.73 2.85
1856 5782 8.260818 TGGAAACTGAATCTATGAAGAAGTAGG 58.739 37.037 0.00 0.00 34.73 3.18
1858 5784 9.308318 GAAACTGAATCTATGAAGAAGTAGGAC 57.692 37.037 0.00 0.00 34.73 3.85
1859 5785 8.602472 AACTGAATCTATGAAGAAGTAGGACT 57.398 34.615 0.00 0.00 34.73 3.85
1863 5789 9.137459 TGAATCTATGAAGAAGTAGGACTTAGG 57.863 37.037 0.00 0.00 38.80 2.69
1864 5790 9.357161 GAATCTATGAAGAAGTAGGACTTAGGA 57.643 37.037 0.00 0.00 38.80 2.94
1865 5791 9.890915 AATCTATGAAGAAGTAGGACTTAGGAT 57.109 33.333 0.00 0.00 38.80 3.24
1866 5792 9.890915 ATCTATGAAGAAGTAGGACTTAGGATT 57.109 33.333 0.00 0.00 38.80 3.01
1867 5793 9.357161 TCTATGAAGAAGTAGGACTTAGGATTC 57.643 37.037 0.00 0.00 38.80 2.52
1868 5794 6.793505 TGAAGAAGTAGGACTTAGGATTCC 57.206 41.667 0.00 0.00 38.80 3.01
1869 5795 5.661759 TGAAGAAGTAGGACTTAGGATTCCC 59.338 44.000 0.00 0.00 38.80 3.97
1879 5805 5.513962 GGACTTAGGATTCCCAATCATCCTC 60.514 48.000 3.93 0.00 45.40 3.71
1891 5817 1.620515 TCATCCTCCACCTCTCCCTA 58.379 55.000 0.00 0.00 0.00 3.53
2030 5957 3.619038 GCAGACAATGTAACCTCTGTAGC 59.381 47.826 0.00 0.00 33.92 3.58
2031 5958 4.621747 GCAGACAATGTAACCTCTGTAGCT 60.622 45.833 0.00 0.00 33.92 3.32
2032 5959 4.867047 CAGACAATGTAACCTCTGTAGCTG 59.133 45.833 0.00 0.00 0.00 4.24
2033 5960 4.772624 AGACAATGTAACCTCTGTAGCTGA 59.227 41.667 0.00 0.00 0.00 4.26
2034 5961 5.078411 ACAATGTAACCTCTGTAGCTGAG 57.922 43.478 0.00 0.00 0.00 3.35
2035 5962 3.810310 ATGTAACCTCTGTAGCTGAGC 57.190 47.619 0.00 0.00 0.00 4.26
2036 5963 2.808919 TGTAACCTCTGTAGCTGAGCT 58.191 47.619 13.25 13.25 43.41 4.09
2037 5964 2.493675 TGTAACCTCTGTAGCTGAGCTG 59.506 50.000 18.79 0.00 40.10 4.24
2038 5965 0.901124 AACCTCTGTAGCTGAGCTGG 59.099 55.000 18.79 11.83 40.10 4.85
2039 5966 0.252012 ACCTCTGTAGCTGAGCTGGT 60.252 55.000 18.79 12.55 40.10 4.00
2040 5967 0.901124 CCTCTGTAGCTGAGCTGGTT 59.099 55.000 18.79 0.00 40.10 3.67
2041 5968 2.103373 CCTCTGTAGCTGAGCTGGTTA 58.897 52.381 18.79 0.00 40.10 2.85
2042 5969 2.159170 CCTCTGTAGCTGAGCTGGTTAC 60.159 54.545 18.79 7.74 40.10 2.50
2043 5970 2.493675 CTCTGTAGCTGAGCTGGTTACA 59.506 50.000 18.79 12.35 40.10 2.41
2044 5971 3.099905 TCTGTAGCTGAGCTGGTTACAT 58.900 45.455 18.79 0.00 40.10 2.29
2045 5972 3.118992 TCTGTAGCTGAGCTGGTTACATG 60.119 47.826 18.79 7.54 40.10 3.21
2055 5982 2.554032 GCTGGTTACATGTTGCTCTGTT 59.446 45.455 2.30 0.00 0.00 3.16
2057 5984 4.539870 CTGGTTACATGTTGCTCTGTTTG 58.460 43.478 2.30 0.00 0.00 2.93
2064 5991 5.104374 ACATGTTGCTCTGTTTGACAAAAG 58.896 37.500 1.27 3.39 0.00 2.27
2072 5999 7.417612 TGCTCTGTTTGACAAAAGAATACTTC 58.582 34.615 1.27 0.00 35.05 3.01
2079 6006 6.072112 TGACAAAAGAATACTTCCAGTTGC 57.928 37.500 0.00 0.00 35.05 4.17
2080 6007 5.009610 TGACAAAAGAATACTTCCAGTTGCC 59.990 40.000 0.00 0.00 35.05 4.52
2081 6008 4.892934 ACAAAAGAATACTTCCAGTTGCCA 59.107 37.500 0.00 0.00 35.05 4.92
2082 6009 5.010012 ACAAAAGAATACTTCCAGTTGCCAG 59.990 40.000 0.00 0.00 35.05 4.85
2083 6010 4.373156 AAGAATACTTCCAGTTGCCAGT 57.627 40.909 0.00 0.00 0.00 4.00
2084 6011 4.373156 AGAATACTTCCAGTTGCCAGTT 57.627 40.909 0.00 0.00 0.00 3.16
2085 6012 4.074970 AGAATACTTCCAGTTGCCAGTTG 58.925 43.478 0.00 0.00 0.00 3.16
2095 6022 0.823356 TTGCCAGTTGGAGTTGAGCC 60.823 55.000 1.45 0.00 37.39 4.70
2098 6025 0.951040 CCAGTTGGAGTTGAGCCGAC 60.951 60.000 0.00 0.00 39.64 4.79
2099 6026 2.442056 AGTTGGAGTTGAGCCGACT 58.558 52.632 0.00 0.00 43.73 4.18
2100 6027 1.272490 CAGTTGGAGTTGAGCCGACTA 59.728 52.381 0.00 0.00 46.14 2.59
2131 6058 7.065085 CGATCTGAAGTTTGGATAGTTTGATGT 59.935 37.037 0.00 0.00 0.00 3.06
2132 6059 9.383519 GATCTGAAGTTTGGATAGTTTGATGTA 57.616 33.333 0.00 0.00 0.00 2.29
2133 6060 8.777865 TCTGAAGTTTGGATAGTTTGATGTAG 57.222 34.615 0.00 0.00 0.00 2.74
2135 6062 7.458397 TGAAGTTTGGATAGTTTGATGTAGGT 58.542 34.615 0.00 0.00 0.00 3.08
2136 6063 8.598916 TGAAGTTTGGATAGTTTGATGTAGGTA 58.401 33.333 0.00 0.00 0.00 3.08
2137 6064 9.444600 GAAGTTTGGATAGTTTGATGTAGGTAA 57.555 33.333 0.00 0.00 0.00 2.85
2157 6090 1.270839 ACAAACCACAGACCCGATGAG 60.271 52.381 0.00 0.00 0.00 2.90
2165 6098 1.153549 GACCCGATGAGGTGCTGAC 60.154 63.158 0.00 0.00 41.42 3.51
2166 6099 1.888436 GACCCGATGAGGTGCTGACA 61.888 60.000 0.00 0.00 41.42 3.58
2171 6104 1.395954 CGATGAGGTGCTGACATTGTG 59.604 52.381 0.00 0.00 0.00 3.33
2172 6105 2.430465 GATGAGGTGCTGACATTGTGT 58.570 47.619 0.00 0.00 0.00 3.72
2173 6106 3.599343 GATGAGGTGCTGACATTGTGTA 58.401 45.455 0.00 0.00 0.00 2.90
2177 6110 5.555966 TGAGGTGCTGACATTGTGTAATAA 58.444 37.500 0.00 0.00 0.00 1.40
2187 6120 9.102757 CTGACATTGTGTAATAATCAGCTAAGT 57.897 33.333 0.00 0.00 34.54 2.24
2204 6137 8.314021 TCAGCTAAGTCAGAAACAGATATTGAA 58.686 33.333 0.00 0.00 0.00 2.69
2235 6168 1.482593 AGGATTAGTCACGCCCTTCAG 59.517 52.381 0.00 0.00 0.00 3.02
2248 6181 2.383855 CCCTTCAGAGAGTCCAGTAGG 58.616 57.143 0.00 0.00 0.00 3.18
2249 6182 2.024846 CCCTTCAGAGAGTCCAGTAGGA 60.025 54.545 0.00 0.00 43.21 2.94
2259 6192 0.611714 TCCAGTAGGAAAACGGCCTC 59.388 55.000 0.00 0.00 42.23 4.70
2263 6196 0.323957 GTAGGAAAACGGCCTCCACT 59.676 55.000 11.14 0.00 36.96 4.00
2276 6209 0.107456 CTCCACTGGAGTGCACAAGT 59.893 55.000 21.04 16.07 44.25 3.16
2282 6215 1.876156 CTGGAGTGCACAAGTTTCCTC 59.124 52.381 21.04 4.69 0.00 3.71
2318 6280 0.240945 GATGTTGCACGGTGGGAAAG 59.759 55.000 10.60 0.00 0.00 2.62
2330 6292 4.881850 ACGGTGGGAAAGATAATAAGCAAG 59.118 41.667 0.00 0.00 0.00 4.01
2332 6294 5.588648 CGGTGGGAAAGATAATAAGCAAGAA 59.411 40.000 0.00 0.00 0.00 2.52
2337 6299 9.253832 TGGGAAAGATAATAAGCAAGAATTTCA 57.746 29.630 0.00 0.00 0.00 2.69
2378 6340 4.986054 TGATAATAGGTTACCCCGCAAT 57.014 40.909 0.00 0.00 38.74 3.56
2379 6341 5.313280 TGATAATAGGTTACCCCGCAATT 57.687 39.130 0.00 0.00 38.74 2.32
2380 6342 5.697067 TGATAATAGGTTACCCCGCAATTT 58.303 37.500 0.00 0.00 38.74 1.82
2381 6343 6.130569 TGATAATAGGTTACCCCGCAATTTT 58.869 36.000 0.00 0.00 38.74 1.82
2406 6368 5.654901 TGGGTAAATGCAGAATGGGTATA 57.345 39.130 0.00 0.00 35.86 1.47
2407 6369 5.381757 TGGGTAAATGCAGAATGGGTATAC 58.618 41.667 0.00 0.00 35.86 1.47
2408 6370 5.103898 TGGGTAAATGCAGAATGGGTATACA 60.104 40.000 5.01 0.00 35.86 2.29
2445 6407 8.665685 TCGAGGAATGAGTTTCTTTTTATTAGC 58.334 33.333 0.00 0.00 34.56 3.09
2446 6408 8.450964 CGAGGAATGAGTTTCTTTTTATTAGCA 58.549 33.333 0.00 0.00 34.56 3.49
2461 6423 9.846248 TTTTTATTAGCATCTTTTCTCTCTTGC 57.154 29.630 0.00 0.00 0.00 4.01
2462 6424 7.559590 TTATTAGCATCTTTTCTCTCTTGCC 57.440 36.000 0.00 0.00 0.00 4.52
2463 6425 3.430042 AGCATCTTTTCTCTCTTGCCA 57.570 42.857 0.00 0.00 0.00 4.92
2464 6426 3.965694 AGCATCTTTTCTCTCTTGCCAT 58.034 40.909 0.00 0.00 0.00 4.40
2465 6427 4.342359 AGCATCTTTTCTCTCTTGCCATT 58.658 39.130 0.00 0.00 0.00 3.16
2466 6428 4.158025 AGCATCTTTTCTCTCTTGCCATTG 59.842 41.667 0.00 0.00 0.00 2.82
2467 6429 4.677250 GCATCTTTTCTCTCTTGCCATTGG 60.677 45.833 0.00 0.00 0.00 3.16
2468 6430 3.424703 TCTTTTCTCTCTTGCCATTGGG 58.575 45.455 4.53 0.00 37.18 4.12
2481 6443 3.131709 CCATTGGGCCTCTAGTATGTG 57.868 52.381 4.53 0.00 0.00 3.21
2482 6444 2.498167 CATTGGGCCTCTAGTATGTGC 58.502 52.381 4.53 0.00 0.00 4.57
2483 6445 1.578897 TTGGGCCTCTAGTATGTGCA 58.421 50.000 4.53 0.00 0.00 4.57
2484 6446 1.806496 TGGGCCTCTAGTATGTGCAT 58.194 50.000 4.53 0.00 0.00 3.96
2485 6447 2.970987 TGGGCCTCTAGTATGTGCATA 58.029 47.619 4.53 0.00 0.00 3.14
2486 6448 3.520696 TGGGCCTCTAGTATGTGCATAT 58.479 45.455 4.53 0.31 0.00 1.78
2487 6449 3.909995 TGGGCCTCTAGTATGTGCATATT 59.090 43.478 4.53 0.00 0.00 1.28
2488 6450 4.256920 GGGCCTCTAGTATGTGCATATTG 58.743 47.826 0.84 0.00 0.00 1.90
2489 6451 4.256920 GGCCTCTAGTATGTGCATATTGG 58.743 47.826 0.00 0.00 0.00 3.16
2490 6452 4.256920 GCCTCTAGTATGTGCATATTGGG 58.743 47.826 0.00 0.00 0.00 4.12
2491 6453 4.836825 CCTCTAGTATGTGCATATTGGGG 58.163 47.826 0.00 0.00 0.00 4.96
2492 6454 4.323792 CCTCTAGTATGTGCATATTGGGGG 60.324 50.000 0.00 3.37 28.70 5.40
2493 6455 2.292828 AGTATGTGCATATTGGGGGC 57.707 50.000 0.00 0.00 0.00 5.80
2494 6456 1.782752 AGTATGTGCATATTGGGGGCT 59.217 47.619 0.00 0.00 0.00 5.19
2495 6457 2.177669 AGTATGTGCATATTGGGGGCTT 59.822 45.455 0.00 0.00 0.00 4.35
2496 6458 1.708341 ATGTGCATATTGGGGGCTTC 58.292 50.000 0.00 0.00 0.00 3.86
2497 6459 0.630673 TGTGCATATTGGGGGCTTCT 59.369 50.000 0.00 0.00 0.00 2.85
2498 6460 1.849692 TGTGCATATTGGGGGCTTCTA 59.150 47.619 0.00 0.00 0.00 2.10
2499 6461 2.158623 TGTGCATATTGGGGGCTTCTAG 60.159 50.000 0.00 0.00 0.00 2.43
2500 6462 2.135189 TGCATATTGGGGGCTTCTAGT 58.865 47.619 0.00 0.00 0.00 2.57
2501 6463 2.158623 TGCATATTGGGGGCTTCTAGTG 60.159 50.000 0.00 0.00 0.00 2.74
2502 6464 2.815589 GCATATTGGGGGCTTCTAGTGG 60.816 54.545 0.00 0.00 0.00 4.00
2503 6465 1.518367 TATTGGGGGCTTCTAGTGGG 58.482 55.000 0.00 0.00 0.00 4.61
2504 6466 0.253630 ATTGGGGGCTTCTAGTGGGA 60.254 55.000 0.00 0.00 0.00 4.37
2505 6467 0.914417 TTGGGGGCTTCTAGTGGGAG 60.914 60.000 0.00 0.00 0.00 4.30
2506 6468 2.747443 GGGGGCTTCTAGTGGGAGC 61.747 68.421 0.00 0.00 0.00 4.70
2507 6469 2.747443 GGGGCTTCTAGTGGGAGCC 61.747 68.421 17.56 17.56 44.31 4.70
2508 6470 2.501610 GGCTTCTAGTGGGAGCCG 59.498 66.667 10.53 0.00 35.86 5.52
2509 6471 2.058595 GGCTTCTAGTGGGAGCCGA 61.059 63.158 10.53 0.00 35.86 5.54
2510 6472 1.142097 GCTTCTAGTGGGAGCCGAC 59.858 63.158 0.00 0.00 0.00 4.79
2511 6473 1.817209 CTTCTAGTGGGAGCCGACC 59.183 63.158 0.00 0.00 0.00 4.79
2512 6474 0.970937 CTTCTAGTGGGAGCCGACCA 60.971 60.000 0.00 0.00 35.14 4.02
2513 6475 0.325296 TTCTAGTGGGAGCCGACCAT 60.325 55.000 0.00 0.00 40.70 3.55
2514 6476 0.554305 TCTAGTGGGAGCCGACCATA 59.446 55.000 0.00 0.00 40.70 2.74
2515 6477 1.147191 TCTAGTGGGAGCCGACCATAT 59.853 52.381 0.00 0.00 40.70 1.78
2516 6478 1.971357 CTAGTGGGAGCCGACCATATT 59.029 52.381 0.00 0.00 40.70 1.28
2517 6479 0.469917 AGTGGGAGCCGACCATATTG 59.530 55.000 0.00 0.00 40.70 1.90
2518 6480 0.535102 GTGGGAGCCGACCATATTGG 60.535 60.000 0.00 0.00 45.02 3.16
2519 6481 1.073199 GGGAGCCGACCATATTGGG 59.927 63.158 0.00 0.00 43.37 4.12
2520 6482 1.600916 GGAGCCGACCATATTGGGC 60.601 63.158 0.00 0.00 44.03 5.36
2525 6487 2.194597 GACCATATTGGGCGCCCA 59.805 61.111 44.23 44.23 43.37 5.36
2533 6495 4.059304 TGGGCGCCCACCATCATT 62.059 61.111 44.23 0.00 41.89 2.57
2534 6496 2.759560 GGGCGCCCACCATCATTT 60.760 61.111 40.73 0.00 35.81 2.32
2535 6497 2.358372 GGGCGCCCACCATCATTTT 61.358 57.895 40.73 0.00 35.81 1.82
2536 6498 1.141665 GGCGCCCACCATCATTTTC 59.858 57.895 18.11 0.00 0.00 2.29
2537 6499 1.322538 GGCGCCCACCATCATTTTCT 61.323 55.000 18.11 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.801111 GGAAATAGCGCTACTGTTAGGC 59.199 50.000 21.49 4.04 0.00 3.93
12 13 2.108168 TCTGGGAAATAGCGCTACTGT 58.892 47.619 21.49 7.73 0.00 3.55
21 22 3.865745 CAGTAGCGTTGTCTGGGAAATAG 59.134 47.826 0.00 0.00 0.00 1.73
23 24 2.038557 ACAGTAGCGTTGTCTGGGAAAT 59.961 45.455 9.94 0.00 34.02 2.17
62 63 0.444260 GCGCTTCTCCTAACAAGTGC 59.556 55.000 0.00 1.78 45.91 4.40
64 65 2.826725 AGTAGCGCTTCTCCTAACAAGT 59.173 45.455 18.68 0.00 0.00 3.16
70 71 4.815308 CACTTAGTAGTAGCGCTTCTCCTA 59.185 45.833 20.53 15.55 31.96 2.94
111 112 3.070429 ACGCTTGCTTTGAAAACTCTG 57.930 42.857 0.00 0.00 0.00 3.35
112 113 3.438360 CAACGCTTGCTTTGAAAACTCT 58.562 40.909 6.03 0.00 0.00 3.24
129 130 2.550606 TGCTAAGGTTTTACCAGCAACG 59.449 45.455 8.04 0.00 42.21 4.10
131 132 3.827722 ACTGCTAAGGTTTTACCAGCAA 58.172 40.909 10.80 0.00 43.78 3.91
133 134 3.374367 GCTACTGCTAAGGTTTTACCAGC 59.626 47.826 0.00 0.35 37.68 4.85
187 188 0.384309 CAACGAGCCTACCGATGCTA 59.616 55.000 0.00 0.00 38.11 3.49
189 190 1.883084 CCAACGAGCCTACCGATGC 60.883 63.158 0.00 0.00 0.00 3.91
191 192 1.673808 GACCCAACGAGCCTACCGAT 61.674 60.000 0.00 0.00 0.00 4.18
197 198 3.637273 GTGGGACCCAACGAGCCT 61.637 66.667 16.98 0.00 34.18 4.58
259 260 0.173481 TCAGGCAGCGCTACAAGTAG 59.827 55.000 10.99 0.00 36.29 2.57
276 277 2.327200 TAGTAGTAGCGCTGCTCTCA 57.673 50.000 31.69 12.11 40.64 3.27
292 293 3.074412 ACAAGCGTTGCTGCTAATTAGT 58.926 40.909 13.91 0.00 46.60 2.24
439 440 5.657474 AGTGTGACTTTTGAAGAACTCGTA 58.343 37.500 0.00 0.00 0.00 3.43
503 2887 8.321353 TGGTTCACATCAACTATGTCTATCTTT 58.679 33.333 0.00 0.00 46.15 2.52
543 3182 1.678635 GTGCATTGCAGTAGGGGCA 60.679 57.895 12.53 0.00 40.08 5.36
550 3189 4.400251 AGCTAATTGTATGTGCATTGCAGT 59.600 37.500 12.53 6.64 40.08 4.40
551 3190 4.928601 AGCTAATTGTATGTGCATTGCAG 58.071 39.130 12.53 0.00 40.08 4.41
644 4346 6.616237 AGATGGGCTTCAATTCTGATTTTT 57.384 33.333 0.00 0.00 0.00 1.94
690 4403 2.032924 GCCTACGTATTGAAATGGGCAC 59.967 50.000 11.96 0.00 38.35 5.01
706 4419 9.860898 AATAACTCAAAATCAAAATCAGCCTAC 57.139 29.630 0.00 0.00 0.00 3.18
745 4459 7.388224 CAGAGAGCAGAGATTTGCAATACATAT 59.612 37.037 0.00 0.00 46.47 1.78
748 4462 4.874396 CAGAGAGCAGAGATTTGCAATACA 59.126 41.667 0.00 0.00 46.47 2.29
815 4530 1.330655 TTGGATCTGAGGGGAGCGTC 61.331 60.000 0.00 0.00 0.00 5.19
1214 4980 1.402852 CGAGCACGAGAAGAACATGGA 60.403 52.381 0.00 0.00 42.66 3.41
1265 5040 0.964358 GCAAGCTCCAGAACCTGCAT 60.964 55.000 0.00 0.00 0.00 3.96
1266 5041 1.601759 GCAAGCTCCAGAACCTGCA 60.602 57.895 0.00 0.00 0.00 4.41
1273 5048 3.952508 TTGCCGGCAAGCTCCAGA 61.953 61.111 37.30 14.05 0.00 3.86
1318 5093 1.592669 CAGGTGTCGCGGGATGATC 60.593 63.158 6.13 0.00 0.00 2.92
1438 5213 4.717313 GCGGCGGGGGACTTCTTT 62.717 66.667 9.78 0.00 0.00 2.52
1576 5383 5.047164 CAGGATCTCATCTTAGTCCATGAGG 60.047 48.000 8.66 0.00 44.29 3.86
1611 5418 2.646175 GGCAGTCGGGCACTACAGA 61.646 63.158 0.00 0.00 42.77 3.41
1612 5419 2.125512 GGCAGTCGGGCACTACAG 60.126 66.667 0.00 0.00 42.77 2.74
1619 5426 3.600898 AACTAACGGGCAGTCGGGC 62.601 63.158 0.00 0.00 42.44 6.13
1620 5427 1.004200 AAACTAACGGGCAGTCGGG 60.004 57.895 0.00 0.00 0.00 5.14
1621 5428 1.349259 CGAAACTAACGGGCAGTCGG 61.349 60.000 0.00 0.00 0.00 4.79
1623 5430 1.066136 GACGAAACTAACGGGCAGTC 58.934 55.000 0.00 0.00 34.93 3.51
1624 5431 0.665369 CGACGAAACTAACGGGCAGT 60.665 55.000 0.00 0.00 34.93 4.40
1633 5440 2.490509 TCATCCTTGCTCGACGAAACTA 59.509 45.455 0.00 0.00 0.00 2.24
1674 5483 2.093890 TGCATCTTTCGCCATTGTCAT 58.906 42.857 0.00 0.00 0.00 3.06
1709 5568 6.874134 TGGTAGAAGAGAGAATTTTGCAGTAC 59.126 38.462 0.00 0.00 0.00 2.73
1714 5634 5.298026 GGGATGGTAGAAGAGAGAATTTTGC 59.702 44.000 0.00 0.00 0.00 3.68
1715 5635 6.418101 TGGGATGGTAGAAGAGAGAATTTTG 58.582 40.000 0.00 0.00 0.00 2.44
1716 5636 6.642733 TGGGATGGTAGAAGAGAGAATTTT 57.357 37.500 0.00 0.00 0.00 1.82
1746 5672 6.552859 TCGCTGAAAATTACAGTTCAATGA 57.447 33.333 12.13 2.50 37.64 2.57
1753 5679 8.723942 AAAGATAGATCGCTGAAAATTACAGT 57.276 30.769 12.13 0.00 37.64 3.55
1771 5697 9.535878 GTGAACTTCATAAGGAGGTAAAGATAG 57.464 37.037 0.00 0.00 34.25 2.08
1822 5748 2.041755 AGATTCAGTTTCCAGTTCCCCC 59.958 50.000 0.00 0.00 0.00 5.40
1824 5750 5.745227 TCATAGATTCAGTTTCCAGTTCCC 58.255 41.667 0.00 0.00 0.00 3.97
1825 5751 7.106239 TCTTCATAGATTCAGTTTCCAGTTCC 58.894 38.462 0.00 0.00 0.00 3.62
1826 5752 8.553459 TTCTTCATAGATTCAGTTTCCAGTTC 57.447 34.615 0.00 0.00 0.00 3.01
1827 5753 8.160106 ACTTCTTCATAGATTCAGTTTCCAGTT 58.840 33.333 0.00 0.00 0.00 3.16
1828 5754 7.684529 ACTTCTTCATAGATTCAGTTTCCAGT 58.315 34.615 0.00 0.00 0.00 4.00
1829 5755 9.311916 CTACTTCTTCATAGATTCAGTTTCCAG 57.688 37.037 0.00 0.00 0.00 3.86
1830 5756 8.260818 CCTACTTCTTCATAGATTCAGTTTCCA 58.739 37.037 0.00 0.00 0.00 3.53
1852 5778 5.888982 TGATTGGGAATCCTAAGTCCTAC 57.111 43.478 4.06 0.00 39.65 3.18
1862 5788 2.489802 GGTGGAGGATGATTGGGAATCC 60.490 54.545 0.00 0.00 42.39 3.01
1863 5789 2.444766 AGGTGGAGGATGATTGGGAATC 59.555 50.000 0.00 0.00 38.40 2.52
1864 5790 2.444766 GAGGTGGAGGATGATTGGGAAT 59.555 50.000 0.00 0.00 0.00 3.01
1865 5791 1.846439 GAGGTGGAGGATGATTGGGAA 59.154 52.381 0.00 0.00 0.00 3.97
1866 5792 1.010046 AGAGGTGGAGGATGATTGGGA 59.990 52.381 0.00 0.00 0.00 4.37
1867 5793 1.419387 GAGAGGTGGAGGATGATTGGG 59.581 57.143 0.00 0.00 0.00 4.12
1868 5794 1.419387 GGAGAGGTGGAGGATGATTGG 59.581 57.143 0.00 0.00 0.00 3.16
1869 5795 1.419387 GGGAGAGGTGGAGGATGATTG 59.581 57.143 0.00 0.00 0.00 2.67
1879 5805 3.617368 CCACGTAGGGAGAGGTGG 58.383 66.667 1.28 1.28 45.90 4.61
1891 5817 5.356751 TCAATCAATTTATAAGCTGCCACGT 59.643 36.000 0.00 0.00 0.00 4.49
1926 5852 7.607615 AGCATCTTGCCTATCCAATTTAATT 57.392 32.000 0.00 0.00 46.52 1.40
1927 5853 7.288389 TGAAGCATCTTGCCTATCCAATTTAAT 59.712 33.333 0.00 0.00 46.52 1.40
1928 5854 6.606796 TGAAGCATCTTGCCTATCCAATTTAA 59.393 34.615 0.00 0.00 46.52 1.52
1929 5855 6.128486 TGAAGCATCTTGCCTATCCAATTTA 58.872 36.000 0.00 0.00 46.52 1.40
1930 5856 4.957954 TGAAGCATCTTGCCTATCCAATTT 59.042 37.500 0.00 0.00 46.52 1.82
1931 5857 4.539726 TGAAGCATCTTGCCTATCCAATT 58.460 39.130 0.00 0.00 46.52 2.32
1932 5858 4.141321 TCTGAAGCATCTTGCCTATCCAAT 60.141 41.667 0.00 0.00 46.52 3.16
1933 5859 3.200605 TCTGAAGCATCTTGCCTATCCAA 59.799 43.478 0.00 0.00 46.52 3.53
1940 5866 1.742268 GGACTTCTGAAGCATCTTGCC 59.258 52.381 17.00 4.37 46.52 4.52
2005 5932 4.067896 ACAGAGGTTACATTGTCTGCAAG 58.932 43.478 0.00 0.00 40.14 4.01
2009 5936 4.867047 CAGCTACAGAGGTTACATTGTCTG 59.133 45.833 0.00 0.00 41.88 3.51
2013 5940 3.868077 GCTCAGCTACAGAGGTTACATTG 59.132 47.826 0.00 0.00 33.72 2.82
2030 5957 2.417933 GAGCAACATGTAACCAGCTCAG 59.582 50.000 21.78 0.00 45.67 3.35
2031 5958 2.426522 GAGCAACATGTAACCAGCTCA 58.573 47.619 21.78 0.00 45.67 4.26
2032 5959 2.417933 CAGAGCAACATGTAACCAGCTC 59.582 50.000 20.32 20.32 46.47 4.09
2033 5960 2.224621 ACAGAGCAACATGTAACCAGCT 60.225 45.455 0.00 4.03 34.61 4.24
2034 5961 2.154462 ACAGAGCAACATGTAACCAGC 58.846 47.619 0.00 0.00 0.00 4.85
2035 5962 4.275689 TCAAACAGAGCAACATGTAACCAG 59.724 41.667 0.00 0.00 0.00 4.00
2036 5963 4.036262 GTCAAACAGAGCAACATGTAACCA 59.964 41.667 0.00 0.00 0.00 3.67
2037 5964 4.036262 TGTCAAACAGAGCAACATGTAACC 59.964 41.667 0.00 0.00 0.00 2.85
2038 5965 5.168526 TGTCAAACAGAGCAACATGTAAC 57.831 39.130 0.00 0.00 0.00 2.50
2039 5966 5.826601 TTGTCAAACAGAGCAACATGTAA 57.173 34.783 0.00 0.00 0.00 2.41
2040 5967 5.826601 TTTGTCAAACAGAGCAACATGTA 57.173 34.783 0.00 0.00 0.00 2.29
2041 5968 4.717233 TTTGTCAAACAGAGCAACATGT 57.283 36.364 0.00 0.00 0.00 3.21
2042 5969 5.342433 TCTTTTGTCAAACAGAGCAACATG 58.658 37.500 0.00 0.00 0.00 3.21
2043 5970 5.581126 TCTTTTGTCAAACAGAGCAACAT 57.419 34.783 0.00 0.00 0.00 2.71
2044 5971 5.384063 TTCTTTTGTCAAACAGAGCAACA 57.616 34.783 0.00 0.00 0.00 3.33
2045 5972 7.196331 AGTATTCTTTTGTCAAACAGAGCAAC 58.804 34.615 0.00 4.90 0.00 4.17
2064 5991 5.047107 TCCAACTGGCAACTGGAAGTATTC 61.047 45.833 13.39 0.00 40.51 1.75
2072 5999 0.670162 CAACTCCAACTGGCAACTGG 59.330 55.000 7.98 7.98 40.36 4.00
2079 6006 0.951040 GTCGGCTCAACTCCAACTGG 60.951 60.000 0.00 0.00 0.00 4.00
2080 6007 0.034059 AGTCGGCTCAACTCCAACTG 59.966 55.000 0.00 0.00 0.00 3.16
2081 6008 1.272769 GTAGTCGGCTCAACTCCAACT 59.727 52.381 0.00 0.00 0.00 3.16
2082 6009 1.000506 TGTAGTCGGCTCAACTCCAAC 59.999 52.381 0.00 0.00 0.00 3.77
2083 6010 1.334160 TGTAGTCGGCTCAACTCCAA 58.666 50.000 0.00 0.00 0.00 3.53
2084 6011 1.204704 CATGTAGTCGGCTCAACTCCA 59.795 52.381 0.00 0.00 0.00 3.86
2085 6012 1.927895 CATGTAGTCGGCTCAACTCC 58.072 55.000 0.00 0.00 0.00 3.85
2095 6022 3.071786 ACTTCAGATCGCATGTAGTCG 57.928 47.619 0.00 0.00 0.00 4.18
2098 6025 4.183865 TCCAAACTTCAGATCGCATGTAG 58.816 43.478 0.00 0.00 0.00 2.74
2099 6026 4.200838 TCCAAACTTCAGATCGCATGTA 57.799 40.909 0.00 0.00 0.00 2.29
2100 6027 3.057969 TCCAAACTTCAGATCGCATGT 57.942 42.857 0.00 0.00 0.00 3.21
2135 6062 2.369203 TCATCGGGTCTGTGGTTTGTTA 59.631 45.455 0.00 0.00 0.00 2.41
2136 6063 1.142060 TCATCGGGTCTGTGGTTTGTT 59.858 47.619 0.00 0.00 0.00 2.83
2137 6064 0.762418 TCATCGGGTCTGTGGTTTGT 59.238 50.000 0.00 0.00 0.00 2.83
2143 6076 1.448540 GCACCTCATCGGGTCTGTG 60.449 63.158 0.00 0.00 37.52 3.66
2148 6081 1.267574 ATGTCAGCACCTCATCGGGT 61.268 55.000 0.00 0.00 40.73 5.28
2151 6084 1.395954 CACAATGTCAGCACCTCATCG 59.604 52.381 0.00 0.00 0.00 3.84
2157 6090 6.435430 TGATTATTACACAATGTCAGCACC 57.565 37.500 0.00 0.00 0.00 5.01
2165 6098 9.317936 TCTGACTTAGCTGATTATTACACAATG 57.682 33.333 0.00 0.00 0.00 2.82
2166 6099 9.890629 TTCTGACTTAGCTGATTATTACACAAT 57.109 29.630 0.00 0.00 0.00 2.71
2171 6104 9.587772 TCTGTTTCTGACTTAGCTGATTATTAC 57.412 33.333 0.00 0.00 0.00 1.89
2177 6110 8.481314 TCAATATCTGTTTCTGACTTAGCTGAT 58.519 33.333 0.00 0.00 0.00 2.90
2204 6137 7.444487 GGGCGTGACTAATCCTATCTAAAATTT 59.556 37.037 0.00 0.00 0.00 1.82
2207 6140 5.601313 AGGGCGTGACTAATCCTATCTAAAA 59.399 40.000 0.00 0.00 0.00 1.52
2221 6154 0.540830 ACTCTCTGAAGGGCGTGACT 60.541 55.000 0.00 0.00 0.00 3.41
2222 6155 0.109039 GACTCTCTGAAGGGCGTGAC 60.109 60.000 0.00 0.00 0.00 3.67
2226 6159 1.254284 ACTGGACTCTCTGAAGGGCG 61.254 60.000 0.00 0.00 0.00 6.13
2235 6168 2.674462 GCCGTTTTCCTACTGGACTCTC 60.674 54.545 0.00 0.00 43.06 3.20
2248 6181 0.955919 CTCCAGTGGAGGCCGTTTTC 60.956 60.000 28.94 0.00 45.43 2.29
2249 6182 1.073199 CTCCAGTGGAGGCCGTTTT 59.927 57.895 28.94 0.00 45.43 2.43
2259 6192 1.334869 GAAACTTGTGCACTCCAGTGG 59.665 52.381 19.41 1.40 45.72 4.00
2263 6196 1.810031 CGAGGAAACTTGTGCACTCCA 60.810 52.381 19.41 0.87 44.43 3.86
2276 6209 5.998981 TCAACTTGCTTATTTACCGAGGAAA 59.001 36.000 0.00 0.00 0.00 3.13
2282 6215 5.286082 GCAACATCAACTTGCTTATTTACCG 59.714 40.000 0.00 0.00 40.79 4.02
2380 6342 4.349342 ACCCATTCTGCATTTACCCAAAAA 59.651 37.500 0.00 0.00 0.00 1.94
2381 6343 3.906846 ACCCATTCTGCATTTACCCAAAA 59.093 39.130 0.00 0.00 0.00 2.44
2383 6345 3.182887 ACCCATTCTGCATTTACCCAA 57.817 42.857 0.00 0.00 0.00 4.12
2384 6346 2.917713 ACCCATTCTGCATTTACCCA 57.082 45.000 0.00 0.00 0.00 4.51
2385 6347 5.381757 TGTATACCCATTCTGCATTTACCC 58.618 41.667 0.00 0.00 0.00 3.69
2386 6348 7.524717 AATGTATACCCATTCTGCATTTACC 57.475 36.000 0.00 0.00 29.02 2.85
2387 6349 9.816354 AAAAATGTATACCCATTCTGCATTTAC 57.184 29.630 0.00 0.00 35.05 2.01
2440 6402 5.503927 TGGCAAGAGAGAAAAGATGCTAAT 58.496 37.500 0.00 0.00 34.37 1.73
2441 6403 4.910195 TGGCAAGAGAGAAAAGATGCTAA 58.090 39.130 0.00 0.00 34.37 3.09
2442 6404 4.558226 TGGCAAGAGAGAAAAGATGCTA 57.442 40.909 0.00 0.00 34.37 3.49
2443 6405 3.430042 TGGCAAGAGAGAAAAGATGCT 57.570 42.857 0.00 0.00 34.37 3.79
2444 6406 4.421948 CAATGGCAAGAGAGAAAAGATGC 58.578 43.478 0.00 0.00 0.00 3.91
2445 6407 4.142227 CCCAATGGCAAGAGAGAAAAGATG 60.142 45.833 0.00 0.00 0.00 2.90
2446 6408 4.021916 CCCAATGGCAAGAGAGAAAAGAT 58.978 43.478 0.00 0.00 0.00 2.40
2447 6409 3.424703 CCCAATGGCAAGAGAGAAAAGA 58.575 45.455 0.00 0.00 0.00 2.52
2448 6410 3.863142 CCCAATGGCAAGAGAGAAAAG 57.137 47.619 0.00 0.00 0.00 2.27
2461 6423 2.811873 GCACATACTAGAGGCCCAATGG 60.812 54.545 0.00 0.00 0.00 3.16
2462 6424 2.158769 TGCACATACTAGAGGCCCAATG 60.159 50.000 0.00 0.00 0.00 2.82
2463 6425 2.126882 TGCACATACTAGAGGCCCAAT 58.873 47.619 0.00 0.00 0.00 3.16
2464 6426 1.578897 TGCACATACTAGAGGCCCAA 58.421 50.000 0.00 0.00 0.00 4.12
2465 6427 1.806496 ATGCACATACTAGAGGCCCA 58.194 50.000 0.00 0.00 0.00 5.36
2466 6428 4.256920 CAATATGCACATACTAGAGGCCC 58.743 47.826 0.00 0.00 0.00 5.80
2467 6429 4.256920 CCAATATGCACATACTAGAGGCC 58.743 47.826 0.00 0.00 0.00 5.19
2468 6430 4.256920 CCCAATATGCACATACTAGAGGC 58.743 47.826 0.00 0.00 0.00 4.70
2469 6431 4.323792 CCCCCAATATGCACATACTAGAGG 60.324 50.000 0.00 0.00 0.00 3.69
2470 6432 4.836825 CCCCCAATATGCACATACTAGAG 58.163 47.826 0.00 0.00 0.00 2.43
2471 6433 3.009033 GCCCCCAATATGCACATACTAGA 59.991 47.826 0.00 0.00 0.00 2.43
2472 6434 3.009473 AGCCCCCAATATGCACATACTAG 59.991 47.826 0.00 0.00 0.00 2.57
2473 6435 2.986019 AGCCCCCAATATGCACATACTA 59.014 45.455 0.00 0.00 0.00 1.82
2474 6436 1.782752 AGCCCCCAATATGCACATACT 59.217 47.619 0.00 0.00 0.00 2.12
2475 6437 2.292828 AGCCCCCAATATGCACATAC 57.707 50.000 0.00 0.00 0.00 2.39
2476 6438 2.446666 AGAAGCCCCCAATATGCACATA 59.553 45.455 0.00 0.00 0.00 2.29
2477 6439 1.218704 AGAAGCCCCCAATATGCACAT 59.781 47.619 0.00 0.00 0.00 3.21
2478 6440 0.630673 AGAAGCCCCCAATATGCACA 59.369 50.000 0.00 0.00 0.00 4.57
2479 6441 2.158608 ACTAGAAGCCCCCAATATGCAC 60.159 50.000 0.00 0.00 0.00 4.57
2480 6442 2.135189 ACTAGAAGCCCCCAATATGCA 58.865 47.619 0.00 0.00 0.00 3.96
2481 6443 2.508526 CACTAGAAGCCCCCAATATGC 58.491 52.381 0.00 0.00 0.00 3.14
2482 6444 2.224867 CCCACTAGAAGCCCCCAATATG 60.225 54.545 0.00 0.00 0.00 1.78
2483 6445 2.065799 CCCACTAGAAGCCCCCAATAT 58.934 52.381 0.00 0.00 0.00 1.28
2484 6446 1.010294 TCCCACTAGAAGCCCCCAATA 59.990 52.381 0.00 0.00 0.00 1.90
2485 6447 0.253630 TCCCACTAGAAGCCCCCAAT 60.254 55.000 0.00 0.00 0.00 3.16
2486 6448 0.914417 CTCCCACTAGAAGCCCCCAA 60.914 60.000 0.00 0.00 0.00 4.12
2487 6449 1.306997 CTCCCACTAGAAGCCCCCA 60.307 63.158 0.00 0.00 0.00 4.96
2488 6450 2.747443 GCTCCCACTAGAAGCCCCC 61.747 68.421 0.00 0.00 0.00 5.40
2489 6451 2.747443 GGCTCCCACTAGAAGCCCC 61.747 68.421 14.97 0.00 39.57 5.80
2490 6452 2.911928 GGCTCCCACTAGAAGCCC 59.088 66.667 14.97 3.15 39.57 5.19
2491 6453 2.058595 TCGGCTCCCACTAGAAGCC 61.059 63.158 15.55 15.55 41.84 4.35
2492 6454 1.142097 GTCGGCTCCCACTAGAAGC 59.858 63.158 0.00 0.00 0.00 3.86
2493 6455 0.970937 TGGTCGGCTCCCACTAGAAG 60.971 60.000 0.00 0.00 0.00 2.85
2494 6456 0.325296 ATGGTCGGCTCCCACTAGAA 60.325 55.000 0.00 0.00 34.07 2.10
2495 6457 0.554305 TATGGTCGGCTCCCACTAGA 59.446 55.000 0.00 0.00 34.07 2.43
2496 6458 1.633774 ATATGGTCGGCTCCCACTAG 58.366 55.000 0.00 0.00 34.07 2.57
2497 6459 1.691976 CAATATGGTCGGCTCCCACTA 59.308 52.381 0.00 0.00 34.07 2.74
2498 6460 0.469917 CAATATGGTCGGCTCCCACT 59.530 55.000 0.00 0.00 34.07 4.00
2499 6461 0.535102 CCAATATGGTCGGCTCCCAC 60.535 60.000 0.00 0.00 34.07 4.61
2500 6462 1.705002 CCCAATATGGTCGGCTCCCA 61.705 60.000 0.00 0.00 35.17 4.37
2501 6463 1.073199 CCCAATATGGTCGGCTCCC 59.927 63.158 0.00 0.00 35.17 4.30
2502 6464 1.600916 GCCCAATATGGTCGGCTCC 60.601 63.158 0.00 0.00 38.41 4.70
2503 6465 1.961277 CGCCCAATATGGTCGGCTC 60.961 63.158 0.00 0.00 39.34 4.70
2504 6466 2.111043 CGCCCAATATGGTCGGCT 59.889 61.111 0.00 0.00 39.34 5.52
2505 6467 3.660111 GCGCCCAATATGGTCGGC 61.660 66.667 0.00 0.00 35.17 5.54
2506 6468 2.978010 GGCGCCCAATATGGTCGG 60.978 66.667 18.11 0.00 35.17 4.79
2507 6469 2.978010 GGGCGCCCAATATGGTCG 60.978 66.667 40.73 0.00 35.17 4.79
2508 6470 2.194597 TGGGCGCCCAATATGGTC 59.805 61.111 45.50 16.54 44.12 4.02
2516 6478 3.598747 AAATGATGGTGGGCGCCCA 62.599 57.895 44.23 44.23 45.02 5.36
2517 6479 2.296814 GAAAATGATGGTGGGCGCCC 62.297 60.000 39.40 39.40 0.00 6.13
2518 6480 1.141665 GAAAATGATGGTGGGCGCC 59.858 57.895 21.18 21.18 0.00 6.53
2519 6481 2.192605 AGAAAATGATGGTGGGCGC 58.807 52.632 0.00 0.00 0.00 6.53


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

AutoCloner maintained by Alex Coulton.