Multiple sequence alignment - TraesCS7A01G488700

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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 TraesCS7A01G488700 chr7A 100.000 2306 0 0 1 2306 679005265 679002960 0.000000e+00 4259
1 TraesCS7A01G488700 chr7A 88.055 293 32 3 1674 1964 678974838 678974547 6.100000e-91 344
2 TraesCS7A01G488700 chr7A 88.055 293 32 3 1674 1964 678989047 678988756 6.100000e-91 344
3 TraesCS7A01G488700 chr7D 88.668 653 48 9 1328 1964 587149838 587149196 0.000000e+00 773
4 TraesCS7A01G488700 chr7D 84.688 640 53 19 1 600 587151087 587150453 4.240000e-167 597
5 TraesCS7A01G488700 chr7D 89.460 389 31 2 910 1298 587150216 587149838 1.240000e-132 483
6 TraesCS7A01G488700 chr7D 81.279 219 37 4 1963 2178 524920592 524920375 8.470000e-40 174
7 TraesCS7A01G488700 chr6D 80.877 1072 124 42 915 1960 37934032 37935048 0.000000e+00 769
8 TraesCS7A01G488700 chr6D 81.742 838 101 41 910 1722 38119818 38120628 0.000000e+00 652
9 TraesCS7A01G488700 chr6D 81.390 849 99 30 910 1731 37927783 37928599 2.500000e-179 638
10 TraesCS7A01G488700 chr6A 79.205 1183 134 56 842 1960 49483657 49484791 0.000000e+00 719
11 TraesCS7A01G488700 chr6A 79.263 1085 127 49 910 1959 49550837 49551858 0.000000e+00 667
12 TraesCS7A01G488700 chr6A 78.981 1080 123 47 915 1960 49196762 49197771 1.930000e-180 641
13 TraesCS7A01G488700 chr6A 79.803 1015 99 42 984 1960 49499800 49500746 1.930000e-180 641
14 TraesCS7A01G488700 chr6A 80.116 860 88 43 984 1826 49202091 49202884 4.300000e-157 564
15 TraesCS7A01G488700 chr7B 88.542 480 42 9 1493 1964 658243456 658242982 9.240000e-159 569
16 TraesCS7A01G488700 chr7B 87.500 488 32 4 910 1379 658268363 658267887 9.380000e-149 536
17 TraesCS7A01G488700 chr7B 85.882 255 18 9 445 686 658268904 658268655 2.940000e-64 255
18 TraesCS7A01G488700 chr7B 81.132 212 34 6 1963 2172 692617513 692617720 5.100000e-37 165
19 TraesCS7A01G488700 chr7B 87.500 88 8 2 828 912 658268479 658268392 5.240000e-17 99
20 TraesCS7A01G488700 chr6B 81.667 720 73 30 915 1604 88736078 88736768 5.600000e-151 544
21 TraesCS7A01G488700 chr6B 85.835 473 50 9 910 1379 88781303 88781761 9.580000e-134 486
22 TraesCS7A01G488700 chr6B 93.590 156 6 4 2151 2306 402275469 402275620 1.780000e-56 230
23 TraesCS7A01G488700 chr6B 80.000 220 39 5 1964 2180 642326053 642326270 8.530000e-35 158
24 TraesCS7A01G488700 chr3D 86.534 401 39 13 3 394 12193209 12193603 5.890000e-116 427
25 TraesCS7A01G488700 chr3D 99.242 132 0 1 2175 2306 224859134 224859004 1.060000e-58 237
26 TraesCS7A01G488700 chr3B 85.821 402 44 12 2 396 17564714 17565109 4.580000e-112 414
27 TraesCS7A01G488700 chr4D 82.524 412 57 11 1 399 34070315 34069906 4.720000e-92 348
28 TraesCS7A01G488700 chr4D 81.347 193 34 2 1963 2154 484745515 484745324 3.070000e-34 156
29 TraesCS7A01G488700 chr2D 84.401 359 44 9 51 399 400494127 400493771 2.190000e-90 342
30 TraesCS7A01G488700 chr2D 81.614 223 32 9 1962 2180 93650428 93650211 2.350000e-40 176
31 TraesCS7A01G488700 chr2D 80.905 199 30 4 1962 2159 394240953 394241144 1.430000e-32 150
32 TraesCS7A01G488700 chr5A 100.000 133 0 0 2174 2306 142759832 142759964 1.770000e-61 246
33 TraesCS7A01G488700 chr5A 100.000 125 0 0 2182 2306 3991870 3991746 4.950000e-57 231
34 TraesCS7A01G488700 chr2A 100.000 133 0 0 2174 2306 72796209 72796077 1.770000e-61 246
35 TraesCS7A01G488700 chr2A 93.333 120 7 1 708 827 263268940 263269058 2.350000e-40 176
36 TraesCS7A01G488700 chr1A 96.622 148 2 3 2161 2306 591541554 591541408 2.290000e-60 243
37 TraesCS7A01G488700 chr5B 97.183 142 2 2 2167 2306 437677426 437677285 2.960000e-59 239
38 TraesCS7A01G488700 chr5B 95.890 146 6 0 2161 2306 178150737 178150882 1.060000e-58 237
39 TraesCS7A01G488700 chr5B 78.995 219 44 2 1963 2180 687881378 687881595 5.130000e-32 148
40 TraesCS7A01G488700 chr5B 88.136 118 11 3 1 117 550237631 550237746 1.110000e-28 137
41 TraesCS7A01G488700 chr5D 97.163 141 2 2 2166 2306 433430191 433430329 1.060000e-58 237
42 TraesCS7A01G488700 chr5D 80.909 220 40 2 1962 2180 495372749 495372531 3.050000e-39 172
43 TraesCS7A01G488700 chr1D 73.953 645 104 40 1 616 77017455 77018064 3.880000e-48 202
44 TraesCS7A01G488700 chr1D 78.341 217 43 4 1962 2176 400121571 400121785 1.110000e-28 137
45 TraesCS7A01G488700 chr4A 79.710 276 47 8 2 273 568509708 568509978 8.410000e-45 191
46 TraesCS7A01G488700 chr4A 91.270 126 9 2 703 827 202595471 202595347 1.100000e-38 171
47 TraesCS7A01G488700 chr3A 80.137 146 24 4 4 147 728617720 728617862 1.130000e-18 104


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 TraesCS7A01G488700 chr7A 679002960 679005265 2305 True 4259.000000 4259 100.000000 1 2306 1 chr7A.!!$R3 2305
1 TraesCS7A01G488700 chr7D 587149196 587151087 1891 True 617.666667 773 87.605333 1 1964 3 chr7D.!!$R2 1963
2 TraesCS7A01G488700 chr6D 37934032 37935048 1016 False 769.000000 769 80.877000 915 1960 1 chr6D.!!$F2 1045
3 TraesCS7A01G488700 chr6D 38119818 38120628 810 False 652.000000 652 81.742000 910 1722 1 chr6D.!!$F3 812
4 TraesCS7A01G488700 chr6D 37927783 37928599 816 False 638.000000 638 81.390000 910 1731 1 chr6D.!!$F1 821
5 TraesCS7A01G488700 chr6A 49483657 49484791 1134 False 719.000000 719 79.205000 842 1960 1 chr6A.!!$F3 1118
6 TraesCS7A01G488700 chr6A 49550837 49551858 1021 False 667.000000 667 79.263000 910 1959 1 chr6A.!!$F5 1049
7 TraesCS7A01G488700 chr6A 49196762 49197771 1009 False 641.000000 641 78.981000 915 1960 1 chr6A.!!$F1 1045
8 TraesCS7A01G488700 chr6A 49499800 49500746 946 False 641.000000 641 79.803000 984 1960 1 chr6A.!!$F4 976
9 TraesCS7A01G488700 chr6A 49202091 49202884 793 False 564.000000 564 80.116000 984 1826 1 chr6A.!!$F2 842
10 TraesCS7A01G488700 chr7B 658267887 658268904 1017 True 296.666667 536 86.960667 445 1379 3 chr7B.!!$R2 934
11 TraesCS7A01G488700 chr6B 88736078 88736768 690 False 544.000000 544 81.667000 915 1604 1 chr6B.!!$F1 689
12 TraesCS7A01G488700 chr1D 77017455 77018064 609 False 202.000000 202 73.953000 1 616 1 chr1D.!!$F1 615

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
621 677 0.105408 TCTTCTTATTACCCGCCGGC 59.895 55.0 19.07 19.07 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2068 2358 0.037975 TTAGGCCGGACGTTTGAGAC 60.038 55.0 5.05 0.0 0.0 3.36 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
106 107 4.022068 ACAAGCATTCGGACAATGTTGAAT 60.022 37.500 8.40 8.40 0.00 2.57
117 118 7.768582 TCGGACAATGTTGAATGTGTATAGAAT 59.231 33.333 0.00 0.00 0.00 2.40
118 119 8.397906 CGGACAATGTTGAATGTGTATAGAATT 58.602 33.333 0.00 0.00 0.00 2.17
250 252 9.033481 CATTTCGGAAATGTTAAATGTGCATAT 57.967 29.630 27.42 0.00 42.53 1.78
582 638 5.601662 AGATTTCATCAATACGTCCGACAT 58.398 37.500 0.00 0.00 0.00 3.06
605 661 1.815003 GCACAATGGTTAGCTGCTCTT 59.185 47.619 4.91 0.00 0.00 2.85
619 675 1.202486 TGCTCTTCTTATTACCCGCCG 60.202 52.381 0.00 0.00 0.00 6.46
621 677 0.105408 TCTTCTTATTACCCGCCGGC 59.895 55.000 19.07 19.07 0.00 6.13
622 678 1.219522 CTTCTTATTACCCGCCGGCG 61.220 60.000 41.00 41.00 39.44 6.46
642 698 3.609103 GGGACGCAAATAGCAGTATTG 57.391 47.619 0.00 0.00 46.13 1.90
643 699 2.290641 GGGACGCAAATAGCAGTATTGG 59.709 50.000 0.00 0.00 46.13 3.16
644 700 2.287009 GGACGCAAATAGCAGTATTGGC 60.287 50.000 0.00 0.00 46.13 4.52
645 701 1.676006 ACGCAAATAGCAGTATTGGCC 59.324 47.619 0.00 0.00 41.11 5.36
646 702 1.949525 CGCAAATAGCAGTATTGGCCT 59.050 47.619 3.32 0.00 41.11 5.19
659 715 0.182299 TTGGCCTGTGTGATGTGTGA 59.818 50.000 3.32 0.00 0.00 3.58
665 721 3.120199 GCCTGTGTGATGTGTGAACATAC 60.120 47.826 0.00 0.00 0.00 2.39
686 742 1.207811 CCATTCACAAATTCAGGGGGC 59.792 52.381 0.00 0.00 0.00 5.80
688 744 0.897863 TTCACAAATTCAGGGGGCGG 60.898 55.000 0.00 0.00 0.00 6.13
707 774 2.350458 CCCATCACCTTTTGCCCCG 61.350 63.158 0.00 0.00 0.00 5.73
709 776 2.679996 ATCACCTTTTGCCCCGCC 60.680 61.111 0.00 0.00 0.00 6.13
711 778 4.994756 CACCTTTTGCCCCGCCCT 62.995 66.667 0.00 0.00 0.00 5.19
712 779 4.678743 ACCTTTTGCCCCGCCCTC 62.679 66.667 0.00 0.00 0.00 4.30
720 787 2.858974 CCCCGCCCTCCCCAATAT 60.859 66.667 0.00 0.00 0.00 1.28
721 788 2.469765 CCCCGCCCTCCCCAATATT 61.470 63.158 0.00 0.00 0.00 1.28
722 789 1.137594 CCCCGCCCTCCCCAATATTA 61.138 60.000 0.00 0.00 0.00 0.98
723 790 0.328258 CCCGCCCTCCCCAATATTAG 59.672 60.000 0.00 0.00 0.00 1.73
724 791 1.064825 CCGCCCTCCCCAATATTAGT 58.935 55.000 0.00 0.00 0.00 2.24
726 793 1.697432 CGCCCTCCCCAATATTAGTCA 59.303 52.381 0.00 0.00 0.00 3.41
729 796 3.138468 GCCCTCCCCAATATTAGTCACTT 59.862 47.826 0.00 0.00 0.00 3.16
733 800 6.353951 CCCTCCCCAATATTAGTCACTTCTTT 60.354 42.308 0.00 0.00 0.00 2.52
734 801 6.543831 CCTCCCCAATATTAGTCACTTCTTTG 59.456 42.308 0.00 0.00 0.00 2.77
735 802 7.027874 TCCCCAATATTAGTCACTTCTTTGT 57.972 36.000 0.00 0.00 0.00 2.83
736 803 8.153221 TCCCCAATATTAGTCACTTCTTTGTA 57.847 34.615 0.00 0.00 0.00 2.41
738 805 9.408648 CCCCAATATTAGTCACTTCTTTGTATT 57.591 33.333 0.00 0.00 0.00 1.89
745 812 6.300354 AGTCACTTCTTTGTATTTTGGACG 57.700 37.500 0.00 0.00 0.00 4.79
748 815 5.818336 TCACTTCTTTGTATTTTGGACGTGA 59.182 36.000 0.00 0.00 34.47 4.35
749 816 6.316640 TCACTTCTTTGTATTTTGGACGTGAA 59.683 34.615 0.00 0.00 34.13 3.18
750 817 6.413818 CACTTCTTTGTATTTTGGACGTGAAC 59.586 38.462 0.00 0.00 31.02 3.18
751 818 6.094325 ACTTCTTTGTATTTTGGACGTGAACA 59.906 34.615 0.00 0.00 0.00 3.18
753 820 5.587043 TCTTTGTATTTTGGACGTGAACAGT 59.413 36.000 0.00 0.00 0.00 3.55
760 856 9.240159 GTATTTTGGACGTGAACAGTAATTTTT 57.760 29.630 0.00 0.00 0.00 1.94
784 880 8.825667 TTTTGTTATGTTTTCTTAATCAGGCC 57.174 30.769 0.00 0.00 0.00 5.19
785 881 6.524101 TGTTATGTTTTCTTAATCAGGCCC 57.476 37.500 0.00 0.00 0.00 5.80
819 915 7.765695 TCATAAATTTATGATTCCTGCCTCC 57.234 36.000 28.93 0.00 43.25 4.30
820 916 6.430925 TCATAAATTTATGATTCCTGCCTCCG 59.569 38.462 28.93 6.47 43.25 4.63
821 917 1.967319 TTTATGATTCCTGCCTCCGC 58.033 50.000 0.00 0.00 0.00 5.54
822 918 0.108585 TTATGATTCCTGCCTCCGCC 59.891 55.000 0.00 0.00 0.00 6.13
823 919 1.053835 TATGATTCCTGCCTCCGCCA 61.054 55.000 0.00 0.00 0.00 5.69
824 920 2.514824 GATTCCTGCCTCCGCCAC 60.515 66.667 0.00 0.00 0.00 5.01
825 921 3.011517 ATTCCTGCCTCCGCCACT 61.012 61.111 0.00 0.00 0.00 4.00
837 934 4.767255 GCCACTGCTCCCTCCACG 62.767 72.222 0.00 0.00 33.53 4.94
945 1094 0.322975 CCGCCTAGGCATAGCTCATT 59.677 55.000 32.47 0.00 42.06 2.57
1041 1193 1.221840 GGAGAATCTGCCGCCTTCA 59.778 57.895 0.00 0.00 33.73 3.02
1067 1219 4.129737 CGTCGCCCGTCCTCATGT 62.130 66.667 0.00 0.00 0.00 3.21
1241 1402 2.586792 GGAGCTGGCCGTGAAGAT 59.413 61.111 0.00 0.00 0.00 2.40
1242 1403 1.078143 GGAGCTGGCCGTGAAGATT 60.078 57.895 0.00 0.00 0.00 2.40
1453 1672 2.723124 ATGCCAAATTGGTGAACGTC 57.277 45.000 14.17 0.00 40.46 4.34
1483 1704 4.098654 TCTGAATCGGAATCTGGAACTCTC 59.901 45.833 0.00 0.00 0.00 3.20
1486 1712 3.876274 TCGGAATCTGGAACTCTCAAG 57.124 47.619 0.00 0.00 0.00 3.02
1520 1770 7.939039 TGAGAAATTGTAGTTGGACTTGAGATT 59.061 33.333 0.00 0.00 0.00 2.40
1557 1814 7.834068 TCTCTAGCTGACATTCACAAAATAC 57.166 36.000 0.00 0.00 0.00 1.89
1563 1820 3.190327 TGACATTCACAAAATACTGCCCG 59.810 43.478 0.00 0.00 0.00 6.13
1616 1881 1.820906 CTGCTGGCAGTGTGTGTGT 60.821 57.895 17.16 0.00 39.10 3.72
1617 1882 1.378382 TGCTGGCAGTGTGTGTGTT 60.378 52.632 17.16 0.00 0.00 3.32
1665 1930 8.771766 CATCTGGTCTTTGTGTCATATTATGAG 58.228 37.037 6.61 0.00 40.53 2.90
1666 1931 7.851228 TCTGGTCTTTGTGTCATATTATGAGT 58.149 34.615 6.61 0.00 40.53 3.41
1667 1932 7.765819 TCTGGTCTTTGTGTCATATTATGAGTG 59.234 37.037 6.61 0.00 40.53 3.51
1668 1933 6.823182 TGGTCTTTGTGTCATATTATGAGTGG 59.177 38.462 6.61 0.00 40.53 4.00
1722 1997 7.636259 TGTTCTTTTATTTGATTGCCTTTCG 57.364 32.000 0.00 0.00 0.00 3.46
1724 1999 5.719173 TCTTTTATTTGATTGCCTTTCGGG 58.281 37.500 0.00 0.00 38.36 5.14
1739 2014 5.450826 GCCTTTCGGGTTTCAGTTCTTTTTA 60.451 40.000 0.00 0.00 37.43 1.52
1742 2017 3.566742 TCGGGTTTCAGTTCTTTTTAGCC 59.433 43.478 0.00 0.00 0.00 3.93
1748 2023 7.011109 GGGTTTCAGTTCTTTTTAGCCTTTTTC 59.989 37.037 0.00 0.00 0.00 2.29
1751 2026 8.926715 TTCAGTTCTTTTTAGCCTTTTTCTTC 57.073 30.769 0.00 0.00 0.00 2.87
1808 2092 1.270839 TGGAGTCAGTAGTTGCCAAGC 60.271 52.381 0.00 0.00 0.00 4.01
1906 2191 5.479724 TCCATGAATTTACAGCCACATTTCA 59.520 36.000 0.00 0.00 0.00 2.69
1907 2192 6.154877 TCCATGAATTTACAGCCACATTTCAT 59.845 34.615 0.00 0.00 33.80 2.57
1914 2200 4.877378 ACAGCCACATTTCATTGACAAT 57.123 36.364 0.00 0.00 0.00 2.71
1930 2220 2.920490 GACAATCGTGCTCAAGAGACTC 59.080 50.000 0.32 0.00 0.00 3.36
1960 2250 4.579340 TGTCAGGATTGTCCGAGTCTATAC 59.421 45.833 0.00 0.00 42.75 1.47
1964 2254 6.042897 TCAGGATTGTCCGAGTCTATACTAGA 59.957 42.308 0.00 0.00 42.75 2.43
1965 2255 6.370442 CAGGATTGTCCGAGTCTATACTAGAG 59.630 46.154 0.00 0.00 42.75 2.43
1966 2256 5.122711 GGATTGTCCGAGTCTATACTAGAGC 59.877 48.000 0.00 0.00 35.56 4.09
1967 2257 4.684484 TGTCCGAGTCTATACTAGAGCA 57.316 45.455 0.00 0.00 35.56 4.26
1968 2258 5.230323 TGTCCGAGTCTATACTAGAGCAT 57.770 43.478 0.00 0.00 35.56 3.79
1969 2259 5.239351 TGTCCGAGTCTATACTAGAGCATC 58.761 45.833 0.00 0.00 35.56 3.91
1980 2270 4.126524 GAGCATCTACAACCGGGC 57.873 61.111 6.32 0.00 0.00 6.13
1981 2271 1.522569 GAGCATCTACAACCGGGCT 59.477 57.895 6.32 0.81 0.00 5.19
1982 2272 0.530870 GAGCATCTACAACCGGGCTC 60.531 60.000 6.32 7.94 40.63 4.70
1983 2273 1.523938 GCATCTACAACCGGGCTCC 60.524 63.158 6.32 0.00 0.00 4.70
1984 2274 1.146263 CATCTACAACCGGGCTCCC 59.854 63.158 6.32 0.00 0.00 4.30
1985 2275 2.070650 ATCTACAACCGGGCTCCCC 61.071 63.158 6.32 0.00 41.09 4.81
1986 2276 2.833151 ATCTACAACCGGGCTCCCCA 62.833 60.000 6.32 0.00 45.83 4.96
1987 2277 2.529643 TACAACCGGGCTCCCCAA 60.530 61.111 6.32 0.00 45.83 4.12
1988 2278 2.132089 CTACAACCGGGCTCCCCAAA 62.132 60.000 6.32 0.00 45.83 3.28
1989 2279 2.414658 TACAACCGGGCTCCCCAAAC 62.415 60.000 6.32 0.00 45.83 2.93
1990 2280 3.182996 AACCGGGCTCCCCAAACT 61.183 61.111 6.32 0.00 45.83 2.66
1991 2281 3.507377 AACCGGGCTCCCCAAACTG 62.507 63.158 6.32 0.00 45.83 3.16
1995 2285 3.984732 GGCTCCCCAAACTGCCCT 61.985 66.667 0.00 0.00 39.49 5.19
1996 2286 2.361737 GCTCCCCAAACTGCCCTC 60.362 66.667 0.00 0.00 0.00 4.30
1997 2287 3.170362 CTCCCCAAACTGCCCTCA 58.830 61.111 0.00 0.00 0.00 3.86
1998 2288 1.460255 CTCCCCAAACTGCCCTCAA 59.540 57.895 0.00 0.00 0.00 3.02
1999 2289 0.178964 CTCCCCAAACTGCCCTCAAA 60.179 55.000 0.00 0.00 0.00 2.69
2000 2290 0.469144 TCCCCAAACTGCCCTCAAAC 60.469 55.000 0.00 0.00 0.00 2.93
2001 2291 1.659794 CCCAAACTGCCCTCAAACG 59.340 57.895 0.00 0.00 0.00 3.60
2002 2292 1.007387 CCAAACTGCCCTCAAACGC 60.007 57.895 0.00 0.00 0.00 4.84
2003 2293 1.007387 CAAACTGCCCTCAAACGCC 60.007 57.895 0.00 0.00 0.00 5.68
2004 2294 1.152756 AAACTGCCCTCAAACGCCT 60.153 52.632 0.00 0.00 0.00 5.52
2005 2295 1.455383 AAACTGCCCTCAAACGCCTG 61.455 55.000 0.00 0.00 0.00 4.85
2006 2296 3.058160 CTGCCCTCAAACGCCTGG 61.058 66.667 0.00 0.00 0.00 4.45
2007 2297 4.659172 TGCCCTCAAACGCCTGGG 62.659 66.667 0.00 0.00 42.41 4.45
2026 2316 3.708210 GGGATGACCGGTCAGTGA 58.292 61.111 37.98 18.68 43.61 3.41
2027 2317 2.212327 GGGATGACCGGTCAGTGAT 58.788 57.895 37.98 24.35 43.61 3.06
2028 2318 0.541863 GGGATGACCGGTCAGTGATT 59.458 55.000 37.98 23.96 43.61 2.57
2029 2319 1.656652 GGATGACCGGTCAGTGATTG 58.343 55.000 37.98 0.00 43.61 2.67
2030 2320 1.207089 GGATGACCGGTCAGTGATTGA 59.793 52.381 37.98 16.01 43.61 2.57
2031 2321 2.158900 GGATGACCGGTCAGTGATTGAT 60.159 50.000 37.98 21.73 43.61 2.57
2032 2322 2.672961 TGACCGGTCAGTGATTGATC 57.327 50.000 33.23 3.65 38.29 2.92
2033 2323 1.899142 TGACCGGTCAGTGATTGATCA 59.101 47.619 33.23 6.65 36.69 2.92
2056 2346 0.603065 AAAAATCAACCCAGCCGAGC 59.397 50.000 0.00 0.00 0.00 5.03
2057 2347 1.586154 AAAATCAACCCAGCCGAGCG 61.586 55.000 0.00 0.00 0.00 5.03
2065 2355 3.793144 CAGCCGAGCGCCTCAAAC 61.793 66.667 2.29 0.00 38.78 2.93
2068 2358 3.181967 CCGAGCGCCTCAAACGAG 61.182 66.667 2.29 0.00 0.00 4.18
2069 2359 2.430921 CGAGCGCCTCAAACGAGT 60.431 61.111 2.29 0.00 0.00 4.18
2070 2360 2.437343 CGAGCGCCTCAAACGAGTC 61.437 63.158 2.29 0.00 0.00 3.36
2071 2361 1.080434 GAGCGCCTCAAACGAGTCT 60.080 57.895 2.29 0.00 0.00 3.24
2072 2362 1.073768 GAGCGCCTCAAACGAGTCTC 61.074 60.000 2.29 0.00 0.00 3.36
2073 2363 1.372997 GCGCCTCAAACGAGTCTCA 60.373 57.895 0.00 0.00 0.00 3.27
2074 2364 0.944311 GCGCCTCAAACGAGTCTCAA 60.944 55.000 0.00 0.00 0.00 3.02
2075 2365 1.497991 CGCCTCAAACGAGTCTCAAA 58.502 50.000 0.00 0.00 0.00 2.69
2076 2366 1.192534 CGCCTCAAACGAGTCTCAAAC 59.807 52.381 0.00 0.00 0.00 2.93
2077 2367 1.192534 GCCTCAAACGAGTCTCAAACG 59.807 52.381 0.00 0.00 0.00 3.60
2078 2368 2.470821 CCTCAAACGAGTCTCAAACGT 58.529 47.619 0.00 0.00 41.97 3.99
2079 2369 2.471743 CCTCAAACGAGTCTCAAACGTC 59.528 50.000 0.00 0.00 39.31 4.34
2080 2370 2.466846 TCAAACGAGTCTCAAACGTCC 58.533 47.619 0.00 0.00 39.31 4.79
2081 2371 1.189446 CAAACGAGTCTCAAACGTCCG 59.811 52.381 0.00 0.00 39.31 4.79
2082 2372 0.318445 AACGAGTCTCAAACGTCCGG 60.318 55.000 0.00 0.00 39.31 5.14
2083 2373 2.087009 CGAGTCTCAAACGTCCGGC 61.087 63.158 0.00 0.00 0.00 6.13
2084 2374 1.737008 GAGTCTCAAACGTCCGGCC 60.737 63.158 0.00 0.00 0.00 6.13
2085 2375 2.156051 GAGTCTCAAACGTCCGGCCT 62.156 60.000 0.00 0.00 0.00 5.19
2086 2376 0.896940 AGTCTCAAACGTCCGGCCTA 60.897 55.000 0.00 0.00 0.00 3.93
2087 2377 0.037975 GTCTCAAACGTCCGGCCTAA 60.038 55.000 0.00 0.00 0.00 2.69
2088 2378 0.037975 TCTCAAACGTCCGGCCTAAC 60.038 55.000 0.00 0.00 0.00 2.34
2089 2379 1.004679 TCAAACGTCCGGCCTAACC 60.005 57.895 0.00 0.00 0.00 2.85
2100 2390 3.006728 CCTAACCGGCACCCCTCA 61.007 66.667 0.00 0.00 0.00 3.86
2101 2391 2.375345 CCTAACCGGCACCCCTCAT 61.375 63.158 0.00 0.00 0.00 2.90
2102 2392 1.052124 CCTAACCGGCACCCCTCATA 61.052 60.000 0.00 0.00 0.00 2.15
2103 2393 1.056660 CTAACCGGCACCCCTCATAT 58.943 55.000 0.00 0.00 0.00 1.78
2104 2394 1.002087 CTAACCGGCACCCCTCATATC 59.998 57.143 0.00 0.00 0.00 1.63
2105 2395 1.705997 AACCGGCACCCCTCATATCC 61.706 60.000 0.00 0.00 0.00 2.59
2106 2396 2.146724 CCGGCACCCCTCATATCCA 61.147 63.158 0.00 0.00 0.00 3.41
2107 2397 1.372683 CGGCACCCCTCATATCCAG 59.627 63.158 0.00 0.00 0.00 3.86
2108 2398 1.073897 GGCACCCCTCATATCCAGC 59.926 63.158 0.00 0.00 0.00 4.85
2109 2399 1.073897 GCACCCCTCATATCCAGCC 59.926 63.158 0.00 0.00 0.00 4.85
2110 2400 1.763770 CACCCCTCATATCCAGCCC 59.236 63.158 0.00 0.00 0.00 5.19
2111 2401 1.061905 CACCCCTCATATCCAGCCCA 61.062 60.000 0.00 0.00 0.00 5.36
2112 2402 0.328450 ACCCCTCATATCCAGCCCAA 60.328 55.000 0.00 0.00 0.00 4.12
2113 2403 0.852842 CCCCTCATATCCAGCCCAAA 59.147 55.000 0.00 0.00 0.00 3.28
2114 2404 1.430464 CCCCTCATATCCAGCCCAAAT 59.570 52.381 0.00 0.00 0.00 2.32
2115 2405 2.649312 CCCCTCATATCCAGCCCAAATA 59.351 50.000 0.00 0.00 0.00 1.40
2116 2406 3.270433 CCCCTCATATCCAGCCCAAATAT 59.730 47.826 0.00 0.00 0.00 1.28
2117 2407 4.275810 CCCTCATATCCAGCCCAAATATG 58.724 47.826 0.00 0.00 35.58 1.78
2131 2421 4.609301 CCAAATATGGGGTGTATATGGGG 58.391 47.826 0.00 0.00 43.51 4.96
2132 2422 4.023291 CAAATATGGGGTGTATATGGGGC 58.977 47.826 0.00 0.00 0.00 5.80
2133 2423 1.281419 TATGGGGTGTATATGGGGCG 58.719 55.000 0.00 0.00 0.00 6.13
2134 2424 2.033602 GGGGTGTATATGGGGCGC 59.966 66.667 0.00 0.00 0.00 6.53
2135 2425 2.033602 GGGTGTATATGGGGCGCC 59.966 66.667 21.18 21.18 0.00 6.53
2136 2426 2.033602 GGTGTATATGGGGCGCCC 59.966 66.667 38.57 38.57 45.71 6.13
2162 2452 4.849329 CCGCCGCGTAGGACTGAC 62.849 72.222 12.58 0.00 45.00 3.51
2164 2454 3.807538 GCCGCGTAGGACTGACGA 61.808 66.667 4.92 0.00 45.00 4.20
2165 2455 3.108343 CCGCGTAGGACTGACGAT 58.892 61.111 4.92 0.00 45.00 3.73
2166 2456 1.298413 CCGCGTAGGACTGACGATG 60.298 63.158 4.92 0.00 45.00 3.84
2167 2457 1.298413 CGCGTAGGACTGACGATGG 60.298 63.158 0.00 0.00 42.98 3.51
2168 2458 1.065928 GCGTAGGACTGACGATGGG 59.934 63.158 0.00 0.00 42.98 4.00
2169 2459 1.734137 CGTAGGACTGACGATGGGG 59.266 63.158 0.00 0.00 42.98 4.96
2170 2460 1.035932 CGTAGGACTGACGATGGGGT 61.036 60.000 0.00 0.00 42.98 4.95
2171 2461 0.745468 GTAGGACTGACGATGGGGTC 59.255 60.000 0.00 0.00 37.45 4.46
2193 2483 1.663695 ACGCGGGTGAAGGAAATATG 58.336 50.000 12.47 0.00 0.00 1.78
2194 2484 0.307760 CGCGGGTGAAGGAAATATGC 59.692 55.000 0.00 0.00 0.00 3.14
2195 2485 0.668535 GCGGGTGAAGGAAATATGCC 59.331 55.000 0.00 0.00 0.00 4.40
2196 2486 1.318576 CGGGTGAAGGAAATATGCCC 58.681 55.000 0.00 0.00 0.00 5.36
2197 2487 1.133792 CGGGTGAAGGAAATATGCCCT 60.134 52.381 0.00 0.00 32.79 5.19
2198 2488 2.105821 CGGGTGAAGGAAATATGCCCTA 59.894 50.000 0.00 0.00 32.79 3.53
2199 2489 3.756117 GGGTGAAGGAAATATGCCCTAG 58.244 50.000 0.00 0.00 31.36 3.02
2200 2490 3.394606 GGGTGAAGGAAATATGCCCTAGA 59.605 47.826 0.00 0.00 31.36 2.43
2201 2491 4.505742 GGGTGAAGGAAATATGCCCTAGAG 60.506 50.000 0.00 0.00 31.36 2.43
2202 2492 4.505742 GGTGAAGGAAATATGCCCTAGAGG 60.506 50.000 0.00 0.00 39.47 3.69
2277 2567 7.490962 TTCATGCTAGAATTGTATTAACCGG 57.509 36.000 0.00 0.00 0.00 5.28
2278 2568 6.822442 TCATGCTAGAATTGTATTAACCGGA 58.178 36.000 9.46 0.00 0.00 5.14
2279 2569 7.276658 TCATGCTAGAATTGTATTAACCGGAA 58.723 34.615 9.46 0.00 0.00 4.30
2280 2570 7.771361 TCATGCTAGAATTGTATTAACCGGAAA 59.229 33.333 9.46 1.61 0.00 3.13
2281 2571 7.311364 TGCTAGAATTGTATTAACCGGAAAC 57.689 36.000 9.46 0.00 0.00 2.78
2282 2572 6.879993 TGCTAGAATTGTATTAACCGGAAACA 59.120 34.615 9.46 1.34 0.00 2.83
2283 2573 7.554835 TGCTAGAATTGTATTAACCGGAAACAT 59.445 33.333 9.46 0.00 0.00 2.71
2284 2574 9.048446 GCTAGAATTGTATTAACCGGAAACATA 57.952 33.333 9.46 0.00 0.00 2.29
2292 2582 9.616156 TGTATTAACCGGAAACATAATACATGT 57.384 29.630 22.31 2.69 42.13 3.21
2293 2583 9.872757 GTATTAACCGGAAACATAATACATGTG 57.127 33.333 9.46 0.00 39.40 3.21
2294 2584 7.925043 TTAACCGGAAACATAATACATGTGT 57.075 32.000 9.46 0.00 31.80 3.72
2295 2585 5.811399 ACCGGAAACATAATACATGTGTG 57.189 39.130 9.46 4.81 31.80 3.82
2296 2586 5.492895 ACCGGAAACATAATACATGTGTGA 58.507 37.500 9.46 0.00 31.80 3.58
2297 2587 5.941058 ACCGGAAACATAATACATGTGTGAA 59.059 36.000 9.46 0.00 31.80 3.18
2298 2588 6.601613 ACCGGAAACATAATACATGTGTGAAT 59.398 34.615 9.46 0.00 31.80 2.57
2299 2589 7.771361 ACCGGAAACATAATACATGTGTGAATA 59.229 33.333 9.46 0.00 31.80 1.75
2300 2590 8.067784 CCGGAAACATAATACATGTGTGAATAC 58.932 37.037 9.11 0.00 31.80 1.89
2301 2591 8.608317 CGGAAACATAATACATGTGTGAATACA 58.392 33.333 9.11 0.00 34.63 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
326 331 9.623350 CATTTTTCAAACACCTTTTCAACATTT 57.377 25.926 0.00 0.00 0.00 2.32
458 491 9.862585 CAAGTTTTACTGGTTTATGAAAAATGC 57.137 29.630 0.00 0.00 0.00 3.56
582 638 1.167851 GCAGCTAACCATTGTGCTCA 58.832 50.000 0.00 0.00 33.03 4.26
605 661 2.418356 CGCCGGCGGGTAATAAGA 59.582 61.111 40.50 0.00 34.97 2.10
621 677 1.865865 ATACTGCTATTTGCGTCCCG 58.134 50.000 0.00 0.00 46.63 5.14
622 678 2.290641 CCAATACTGCTATTTGCGTCCC 59.709 50.000 0.00 0.00 46.63 4.46
623 679 2.287009 GCCAATACTGCTATTTGCGTCC 60.287 50.000 0.00 0.00 46.63 4.79
624 680 2.287009 GGCCAATACTGCTATTTGCGTC 60.287 50.000 0.00 0.00 46.63 5.19
635 691 2.421073 CACATCACACAGGCCAATACTG 59.579 50.000 5.01 0.00 41.64 2.74
637 693 2.162208 CACACATCACACAGGCCAATAC 59.838 50.000 5.01 0.00 0.00 1.89
639 695 1.202915 TCACACATCACACAGGCCAAT 60.203 47.619 5.01 0.00 0.00 3.16
640 696 0.182299 TCACACATCACACAGGCCAA 59.818 50.000 5.01 0.00 0.00 4.52
641 697 0.182299 TTCACACATCACACAGGCCA 59.818 50.000 5.01 0.00 0.00 5.36
642 698 0.593128 GTTCACACATCACACAGGCC 59.407 55.000 0.00 0.00 0.00 5.19
643 699 1.308047 TGTTCACACATCACACAGGC 58.692 50.000 0.00 0.00 0.00 4.85
644 700 3.436704 GGTATGTTCACACATCACACAGG 59.563 47.826 0.00 0.00 43.06 4.00
645 701 3.436704 GGGTATGTTCACACATCACACAG 59.563 47.826 0.00 0.00 43.06 3.66
646 702 3.181450 TGGGTATGTTCACACATCACACA 60.181 43.478 0.00 0.00 43.06 3.72
659 715 5.187576 CCCTGAATTTGTGAATGGGTATGTT 59.812 40.000 0.00 0.00 0.00 2.71
665 721 1.832998 CCCCCTGAATTTGTGAATGGG 59.167 52.381 0.00 0.00 0.00 4.00
686 742 2.573340 GCAAAAGGTGATGGGCCG 59.427 61.111 0.00 0.00 0.00 6.13
688 744 2.659063 GGGGCAAAAGGTGATGGGC 61.659 63.158 0.00 0.00 0.00 5.36
692 759 2.679996 GGCGGGGCAAAAGGTGAT 60.680 61.111 0.00 0.00 0.00 3.06
693 760 4.986708 GGGCGGGGCAAAAGGTGA 62.987 66.667 0.00 0.00 0.00 4.02
695 762 4.678743 GAGGGCGGGGCAAAAGGT 62.679 66.667 0.00 0.00 0.00 3.50
707 774 2.711547 AGTGACTAATATTGGGGAGGGC 59.288 50.000 3.68 0.00 0.00 5.19
709 776 5.896073 AGAAGTGACTAATATTGGGGAGG 57.104 43.478 3.68 0.00 0.00 4.30
711 778 7.027874 ACAAAGAAGTGACTAATATTGGGGA 57.972 36.000 3.68 0.00 0.00 4.81
712 779 8.980481 ATACAAAGAAGTGACTAATATTGGGG 57.020 34.615 3.68 0.00 0.00 4.96
719 786 8.504005 CGTCCAAAATACAAAGAAGTGACTAAT 58.496 33.333 0.00 0.00 0.00 1.73
720 787 7.496591 ACGTCCAAAATACAAAGAAGTGACTAA 59.503 33.333 0.00 0.00 0.00 2.24
721 788 6.987992 ACGTCCAAAATACAAAGAAGTGACTA 59.012 34.615 0.00 0.00 0.00 2.59
722 789 5.820947 ACGTCCAAAATACAAAGAAGTGACT 59.179 36.000 0.00 0.00 0.00 3.41
723 790 5.907391 CACGTCCAAAATACAAAGAAGTGAC 59.093 40.000 0.00 0.00 38.64 3.67
724 791 5.818336 TCACGTCCAAAATACAAAGAAGTGA 59.182 36.000 3.52 3.52 41.47 3.41
726 793 6.094325 TGTTCACGTCCAAAATACAAAGAAGT 59.906 34.615 0.00 0.00 0.00 3.01
729 796 5.587043 ACTGTTCACGTCCAAAATACAAAGA 59.413 36.000 0.00 0.00 0.00 2.52
733 800 7.499321 AATTACTGTTCACGTCCAAAATACA 57.501 32.000 0.00 0.00 0.00 2.29
734 801 8.791355 AAAATTACTGTTCACGTCCAAAATAC 57.209 30.769 0.00 0.00 0.00 1.89
760 856 7.382898 GGGCCTGATTAAGAAAACATAACAAA 58.617 34.615 0.84 0.00 0.00 2.83
761 857 6.071051 GGGGCCTGATTAAGAAAACATAACAA 60.071 38.462 0.84 0.00 0.00 2.83
762 858 5.420739 GGGGCCTGATTAAGAAAACATAACA 59.579 40.000 0.84 0.00 0.00 2.41
764 860 4.959839 GGGGGCCTGATTAAGAAAACATAA 59.040 41.667 0.84 0.00 0.00 1.90
766 862 3.374764 GGGGGCCTGATTAAGAAAACAT 58.625 45.455 0.84 0.00 0.00 2.71
795 891 8.916757 GCGGAGGCAGGAATCATAAATTTATGA 61.917 40.741 32.55 32.55 44.77 2.15
796 892 6.615088 CGGAGGCAGGAATCATAAATTTATG 58.385 40.000 25.89 25.89 41.41 1.90
798 894 4.518970 GCGGAGGCAGGAATCATAAATTTA 59.481 41.667 0.00 0.00 39.62 1.40
799 895 3.319122 GCGGAGGCAGGAATCATAAATTT 59.681 43.478 0.00 0.00 39.62 1.82
800 896 2.887152 GCGGAGGCAGGAATCATAAATT 59.113 45.455 0.00 0.00 39.62 1.82
802 898 1.967319 GCGGAGGCAGGAATCATAAA 58.033 50.000 0.00 0.00 39.62 1.40
803 899 3.706055 GCGGAGGCAGGAATCATAA 57.294 52.632 0.00 0.00 39.62 1.90
820 916 4.767255 CGTGGAGGGAGCAGTGGC 62.767 72.222 0.00 0.00 41.61 5.01
821 917 4.767255 GCGTGGAGGGAGCAGTGG 62.767 72.222 0.00 0.00 0.00 4.00
822 918 4.767255 GGCGTGGAGGGAGCAGTG 62.767 72.222 0.00 0.00 0.00 3.66
824 920 4.154347 GAGGCGTGGAGGGAGCAG 62.154 72.222 0.00 0.00 0.00 4.24
825 921 4.704103 AGAGGCGTGGAGGGAGCA 62.704 66.667 0.00 0.00 0.00 4.26
837 934 1.448717 GAGTTTCGGCTGGAGAGGC 60.449 63.158 0.00 0.00 41.46 4.70
849 946 6.350528 GGGAGGGATGAAAAGATTTGAGTTTC 60.351 42.308 0.00 0.00 32.92 2.78
970 1122 5.954150 AGAAGAGAAGAGAAGAGAAGAGCAT 59.046 40.000 0.00 0.00 0.00 3.79
971 1123 5.324409 AGAAGAGAAGAGAAGAGAAGAGCA 58.676 41.667 0.00 0.00 0.00 4.26
973 1125 5.065218 CGGAGAAGAGAAGAGAAGAGAAGAG 59.935 48.000 0.00 0.00 0.00 2.85
974 1126 4.941263 CGGAGAAGAGAAGAGAAGAGAAGA 59.059 45.833 0.00 0.00 0.00 2.87
975 1127 4.941263 TCGGAGAAGAGAAGAGAAGAGAAG 59.059 45.833 0.00 0.00 0.00 2.85
976 1128 4.912586 TCGGAGAAGAGAAGAGAAGAGAA 58.087 43.478 0.00 0.00 0.00 2.87
977 1129 4.224147 TCTCGGAGAAGAGAAGAGAAGAGA 59.776 45.833 4.96 0.00 43.56 3.10
978 1130 4.513442 TCTCGGAGAAGAGAAGAGAAGAG 58.487 47.826 4.96 0.00 43.56 2.85
979 1131 4.561500 TCTCGGAGAAGAGAAGAGAAGA 57.438 45.455 4.96 0.00 43.56 2.87
1333 1540 3.562973 CGAATCATTGGACAAGGAGATGG 59.437 47.826 5.62 0.00 34.44 3.51
1483 1704 7.935338 ACTACAATTTCTCAAAACATGCTTG 57.065 32.000 0.00 0.00 0.00 4.01
1486 1712 6.922957 TCCAACTACAATTTCTCAAAACATGC 59.077 34.615 0.00 0.00 0.00 4.06
1503 1735 5.703130 AGAAGCAAATCTCAAGTCCAACTAC 59.297 40.000 0.00 0.00 0.00 2.73
1520 1770 3.056250 CAGCTAGAGAAGTGGAGAAGCAA 60.056 47.826 0.00 0.00 0.00 3.91
1557 1814 4.876107 ACAAGACATAGAAAATACGGGCAG 59.124 41.667 0.00 0.00 0.00 4.85
1563 1820 6.252015 TCGCGTACACAAGACATAGAAAATAC 59.748 38.462 5.77 0.00 0.00 1.89
1617 1882 9.745018 AGATGATGACAAATCTAGAAGGAAAAA 57.255 29.630 0.00 0.00 31.31 1.94
1722 1997 5.531122 AAGGCTAAAAAGAACTGAAACCC 57.469 39.130 0.00 0.00 0.00 4.11
1724 1999 8.703604 AGAAAAAGGCTAAAAAGAACTGAAAC 57.296 30.769 0.00 0.00 0.00 2.78
1739 2014 7.285401 TCACTGTAAAATCTGAAGAAAAAGGCT 59.715 33.333 0.00 0.00 0.00 4.58
1742 2017 9.657121 GAGTCACTGTAAAATCTGAAGAAAAAG 57.343 33.333 0.00 0.00 0.00 2.27
1748 2023 4.627467 CGGGAGTCACTGTAAAATCTGAAG 59.373 45.833 0.00 0.00 0.00 3.02
1751 2026 3.262420 CCGGGAGTCACTGTAAAATCTG 58.738 50.000 0.00 0.00 0.00 2.90
1891 2176 5.781210 TTGTCAATGAAATGTGGCTGTAA 57.219 34.783 0.00 0.00 0.00 2.41
1893 2178 4.616604 CGATTGTCAATGAAATGTGGCTGT 60.617 41.667 1.88 0.00 0.00 4.40
1906 2191 3.681897 GTCTCTTGAGCACGATTGTCAAT 59.318 43.478 0.00 0.00 30.03 2.57
1907 2192 3.059884 GTCTCTTGAGCACGATTGTCAA 58.940 45.455 0.00 0.00 0.00 3.18
1914 2200 1.328279 TTGGAGTCTCTTGAGCACGA 58.672 50.000 0.00 0.00 0.00 4.35
1930 2220 2.679837 CGGACAATCCTGACATCTTTGG 59.320 50.000 0.00 0.00 33.30 3.28
1960 2250 1.269831 GCCCGGTTGTAGATGCTCTAG 60.270 57.143 0.00 0.00 28.01 2.43
1964 2254 1.522569 GAGCCCGGTTGTAGATGCT 59.477 57.895 0.00 0.00 0.00 3.79
1965 2255 1.523938 GGAGCCCGGTTGTAGATGC 60.524 63.158 0.00 0.00 0.00 3.91
1966 2256 1.146263 GGGAGCCCGGTTGTAGATG 59.854 63.158 0.00 0.00 0.00 2.90
1967 2257 2.070650 GGGGAGCCCGGTTGTAGAT 61.071 63.158 0.00 0.00 36.85 1.98
1968 2258 2.686106 GGGGAGCCCGGTTGTAGA 60.686 66.667 0.00 0.00 36.85 2.59
1978 2268 3.946126 GAGGGCAGTTTGGGGAGCC 62.946 68.421 0.00 0.00 46.28 4.70
1979 2269 2.361737 GAGGGCAGTTTGGGGAGC 60.362 66.667 0.00 0.00 0.00 4.70
1980 2270 0.178964 TTTGAGGGCAGTTTGGGGAG 60.179 55.000 0.00 0.00 0.00 4.30
1981 2271 0.469144 GTTTGAGGGCAGTTTGGGGA 60.469 55.000 0.00 0.00 0.00 4.81
1982 2272 1.805428 CGTTTGAGGGCAGTTTGGGG 61.805 60.000 0.00 0.00 0.00 4.96
1983 2273 1.659794 CGTTTGAGGGCAGTTTGGG 59.340 57.895 0.00 0.00 0.00 4.12
1984 2274 1.007387 GCGTTTGAGGGCAGTTTGG 60.007 57.895 0.00 0.00 0.00 3.28
1985 2275 1.007387 GGCGTTTGAGGGCAGTTTG 60.007 57.895 0.00 0.00 0.00 2.93
1986 2276 1.152756 AGGCGTTTGAGGGCAGTTT 60.153 52.632 0.00 0.00 0.00 2.66
1987 2277 1.898574 CAGGCGTTTGAGGGCAGTT 60.899 57.895 0.00 0.00 0.00 3.16
1988 2278 2.281761 CAGGCGTTTGAGGGCAGT 60.282 61.111 0.00 0.00 0.00 4.40
1989 2279 3.058160 CCAGGCGTTTGAGGGCAG 61.058 66.667 0.00 0.00 0.00 4.85
1990 2280 4.659172 CCCAGGCGTTTGAGGGCA 62.659 66.667 0.00 0.00 33.91 5.36
2009 2299 0.541863 AATCACTGACCGGTCATCCC 59.458 55.000 36.21 10.78 39.13 3.85
2010 2300 1.207089 TCAATCACTGACCGGTCATCC 59.793 52.381 36.21 11.21 39.13 3.51
2011 2301 2.672961 TCAATCACTGACCGGTCATC 57.327 50.000 36.21 11.62 39.13 2.92
2012 2302 2.501316 TGATCAATCACTGACCGGTCAT 59.499 45.455 36.21 22.96 39.13 3.06
2013 2303 1.899142 TGATCAATCACTGACCGGTCA 59.101 47.619 34.13 34.13 36.69 4.02
2014 2304 2.672961 TGATCAATCACTGACCGGTC 57.327 50.000 28.17 28.17 36.69 4.79
2037 2327 0.603065 GCTCGGCTGGGTTGATTTTT 59.397 50.000 0.00 0.00 0.00 1.94
2038 2328 1.586154 CGCTCGGCTGGGTTGATTTT 61.586 55.000 0.00 0.00 0.00 1.82
2039 2329 2.040544 CGCTCGGCTGGGTTGATTT 61.041 57.895 0.00 0.00 0.00 2.17
2040 2330 2.436646 CGCTCGGCTGGGTTGATT 60.437 61.111 0.00 0.00 0.00 2.57
2051 2341 3.181967 CTCGTTTGAGGCGCTCGG 61.182 66.667 7.64 0.00 38.65 4.63
2060 2350 2.466846 GGACGTTTGAGACTCGTTTGA 58.533 47.619 0.00 0.00 37.92 2.69
2061 2351 1.189446 CGGACGTTTGAGACTCGTTTG 59.811 52.381 0.00 0.00 37.92 2.93
2062 2352 1.484356 CGGACGTTTGAGACTCGTTT 58.516 50.000 0.00 0.00 37.92 3.60
2063 2353 0.318445 CCGGACGTTTGAGACTCGTT 60.318 55.000 0.00 0.00 37.92 3.85
2064 2354 1.285023 CCGGACGTTTGAGACTCGT 59.715 57.895 0.00 0.00 40.49 4.18
2065 2355 2.087009 GCCGGACGTTTGAGACTCG 61.087 63.158 5.05 0.00 0.00 4.18
2066 2356 1.737008 GGCCGGACGTTTGAGACTC 60.737 63.158 5.05 0.00 0.00 3.36
2067 2357 0.896940 TAGGCCGGACGTTTGAGACT 60.897 55.000 5.05 0.00 0.00 3.24
2068 2358 0.037975 TTAGGCCGGACGTTTGAGAC 60.038 55.000 5.05 0.00 0.00 3.36
2069 2359 0.037975 GTTAGGCCGGACGTTTGAGA 60.038 55.000 5.05 0.00 0.00 3.27
2070 2360 1.017701 GGTTAGGCCGGACGTTTGAG 61.018 60.000 5.05 0.00 0.00 3.02
2071 2361 1.004679 GGTTAGGCCGGACGTTTGA 60.005 57.895 5.05 0.00 0.00 2.69
2072 2362 3.569902 GGTTAGGCCGGACGTTTG 58.430 61.111 5.05 0.00 0.00 2.93
2083 2373 1.052124 TATGAGGGGTGCCGGTTAGG 61.052 60.000 1.90 0.00 44.97 2.69
2084 2374 1.002087 GATATGAGGGGTGCCGGTTAG 59.998 57.143 1.90 0.00 0.00 2.34
2085 2375 1.053424 GATATGAGGGGTGCCGGTTA 58.947 55.000 1.90 0.00 0.00 2.85
2086 2376 1.705997 GGATATGAGGGGTGCCGGTT 61.706 60.000 1.90 0.00 0.00 4.44
2087 2377 2.147387 GGATATGAGGGGTGCCGGT 61.147 63.158 1.90 0.00 0.00 5.28
2088 2378 2.116983 CTGGATATGAGGGGTGCCGG 62.117 65.000 0.00 0.00 0.00 6.13
2089 2379 1.372683 CTGGATATGAGGGGTGCCG 59.627 63.158 0.00 0.00 0.00 5.69
2090 2380 1.073897 GCTGGATATGAGGGGTGCC 59.926 63.158 0.00 0.00 0.00 5.01
2091 2381 1.073897 GGCTGGATATGAGGGGTGC 59.926 63.158 0.00 0.00 0.00 5.01
2092 2382 1.061905 TGGGCTGGATATGAGGGGTG 61.062 60.000 0.00 0.00 0.00 4.61
2093 2383 0.328450 TTGGGCTGGATATGAGGGGT 60.328 55.000 0.00 0.00 0.00 4.95
2094 2384 0.852842 TTTGGGCTGGATATGAGGGG 59.147 55.000 0.00 0.00 0.00 4.79
2095 2385 2.986534 ATTTGGGCTGGATATGAGGG 57.013 50.000 0.00 0.00 0.00 4.30
2096 2386 4.275810 CCATATTTGGGCTGGATATGAGG 58.724 47.826 12.68 0.00 39.56 3.86
2109 2399 4.609301 CCCCATATACACCCCATATTTGG 58.391 47.826 0.00 0.00 43.23 3.28
2110 2400 4.023291 GCCCCATATACACCCCATATTTG 58.977 47.826 0.00 0.00 0.00 2.32
2111 2401 3.308832 CGCCCCATATACACCCCATATTT 60.309 47.826 0.00 0.00 0.00 1.40
2112 2402 2.241176 CGCCCCATATACACCCCATATT 59.759 50.000 0.00 0.00 0.00 1.28
2113 2403 1.843851 CGCCCCATATACACCCCATAT 59.156 52.381 0.00 0.00 0.00 1.78
2114 2404 1.281419 CGCCCCATATACACCCCATA 58.719 55.000 0.00 0.00 0.00 2.74
2115 2405 2.074967 CGCCCCATATACACCCCAT 58.925 57.895 0.00 0.00 0.00 4.00
2116 2406 2.824880 GCGCCCCATATACACCCCA 61.825 63.158 0.00 0.00 0.00 4.96
2117 2407 2.033602 GCGCCCCATATACACCCC 59.966 66.667 0.00 0.00 0.00 4.95
2118 2408 2.033602 GGCGCCCCATATACACCC 59.966 66.667 18.11 0.00 0.00 4.61
2119 2409 2.033602 GGGCGCCCCATATACACC 59.966 66.667 36.64 5.01 44.65 4.16
2120 2410 2.358247 CGGGCGCCCCATATACAC 60.358 66.667 39.24 11.89 45.83 2.90
2121 2411 3.632080 CCGGGCGCCCCATATACA 61.632 66.667 39.24 0.00 45.83 2.29
2122 2412 4.404098 CCCGGGCGCCCCATATAC 62.404 72.222 39.24 13.53 45.83 1.47
2145 2435 4.849329 GTCAGTCCTACGCGGCGG 62.849 72.222 27.37 10.67 0.00 6.13
2147 2437 3.122250 ATCGTCAGTCCTACGCGGC 62.122 63.158 12.47 0.00 40.12 6.53
2148 2438 1.298413 CATCGTCAGTCCTACGCGG 60.298 63.158 12.47 0.00 40.12 6.46
2149 2439 1.298413 CCATCGTCAGTCCTACGCG 60.298 63.158 3.53 3.53 40.12 6.01
2150 2440 1.065928 CCCATCGTCAGTCCTACGC 59.934 63.158 0.00 0.00 40.12 4.42
2151 2441 1.035932 ACCCCATCGTCAGTCCTACG 61.036 60.000 0.00 0.00 41.64 3.51
2152 2442 0.745468 GACCCCATCGTCAGTCCTAC 59.255 60.000 0.00 0.00 32.74 3.18
2153 2443 0.750546 CGACCCCATCGTCAGTCCTA 60.751 60.000 0.00 0.00 46.25 2.94
2154 2444 2.052690 CGACCCCATCGTCAGTCCT 61.053 63.158 0.00 0.00 46.25 3.85
2155 2445 2.494918 CGACCCCATCGTCAGTCC 59.505 66.667 0.00 0.00 46.25 3.85
2172 2462 1.022451 TATTTCCTTCACCCGCGTGC 61.022 55.000 4.92 0.00 40.04 5.34
2173 2463 1.330521 CATATTTCCTTCACCCGCGTG 59.669 52.381 4.92 0.00 41.72 5.34
2174 2464 1.663695 CATATTTCCTTCACCCGCGT 58.336 50.000 4.92 0.00 0.00 6.01
2175 2465 0.307760 GCATATTTCCTTCACCCGCG 59.692 55.000 0.00 0.00 0.00 6.46
2176 2466 0.668535 GGCATATTTCCTTCACCCGC 59.331 55.000 0.00 0.00 0.00 6.13
2177 2467 1.133792 AGGGCATATTTCCTTCACCCG 60.134 52.381 0.00 0.00 40.94 5.28
2178 2468 2.755952 AGGGCATATTTCCTTCACCC 57.244 50.000 0.00 0.00 36.04 4.61
2179 2469 4.505742 CCTCTAGGGCATATTTCCTTCACC 60.506 50.000 0.00 0.00 34.75 4.02
2180 2470 4.646572 CCTCTAGGGCATATTTCCTTCAC 58.353 47.826 0.00 0.00 34.75 3.18
2181 2471 4.982241 CCTCTAGGGCATATTTCCTTCA 57.018 45.455 0.00 0.00 34.75 3.02
2193 2483 8.637196 AATAACTTTATTATTGCCTCTAGGGC 57.363 34.615 13.60 13.60 44.71 5.19
2251 2541 9.214957 CCGGTTAATACAATTCTAGCATGAATA 57.785 33.333 0.00 0.00 35.82 1.75
2252 2542 7.936847 TCCGGTTAATACAATTCTAGCATGAAT 59.063 33.333 0.00 0.00 38.19 2.57
2253 2543 7.276658 TCCGGTTAATACAATTCTAGCATGAA 58.723 34.615 0.00 0.00 0.00 2.57
2254 2544 6.822442 TCCGGTTAATACAATTCTAGCATGA 58.178 36.000 0.00 0.00 0.00 3.07
2255 2545 7.490962 TTCCGGTTAATACAATTCTAGCATG 57.509 36.000 0.00 0.00 0.00 4.06
2256 2546 7.554835 TGTTTCCGGTTAATACAATTCTAGCAT 59.445 33.333 0.00 0.00 0.00 3.79
2257 2547 6.879993 TGTTTCCGGTTAATACAATTCTAGCA 59.120 34.615 0.00 0.00 0.00 3.49
2258 2548 7.311364 TGTTTCCGGTTAATACAATTCTAGC 57.689 36.000 0.00 0.00 0.00 3.42
2266 2556 9.616156 ACATGTATTATGTTTCCGGTTAATACA 57.384 29.630 22.83 22.83 44.85 2.29
2267 2557 9.872757 CACATGTATTATGTTTCCGGTTAATAC 57.127 33.333 0.00 12.47 37.73 1.89
2268 2558 9.616156 ACACATGTATTATGTTTCCGGTTAATA 57.384 29.630 0.00 0.00 0.00 0.98
2269 2559 8.402472 CACACATGTATTATGTTTCCGGTTAAT 58.598 33.333 0.00 1.95 0.00 1.40
2270 2560 7.606839 TCACACATGTATTATGTTTCCGGTTAA 59.393 33.333 0.00 0.00 0.00 2.01
2271 2561 7.104290 TCACACATGTATTATGTTTCCGGTTA 58.896 34.615 0.00 0.00 0.00 2.85
2272 2562 5.941058 TCACACATGTATTATGTTTCCGGTT 59.059 36.000 0.00 0.00 0.00 4.44
2273 2563 5.492895 TCACACATGTATTATGTTTCCGGT 58.507 37.500 0.00 0.00 0.00 5.28
2274 2564 6.429791 TTCACACATGTATTATGTTTCCGG 57.570 37.500 0.00 0.00 0.00 5.14
2275 2565 8.608317 TGTATTCACACATGTATTATGTTTCCG 58.392 33.333 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.