Multiple sequence alignment - TraesCS2B01G029400

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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 TraesCS2B01G029400 chr2B 100.000 2825 0 0 1 2825 13481288 13478464 0.000000e+00 5217.0
1 TraesCS2B01G029400 chr2B 79.576 1131 192 29 430 1525 13494334 13493208 0.000000e+00 773.0
2 TraesCS2B01G029400 chr2B 86.059 373 52 0 1 373 13494730 13494358 4.380000e-108 401.0
3 TraesCS2B01G029400 chr2B 82.161 398 52 11 2409 2789 5475057 5475452 9.760000e-85 324.0
4 TraesCS2B01G029400 chr2B 79.310 435 67 15 2409 2824 91208687 91209117 1.660000e-72 283.0
5 TraesCS2B01G029400 chr2A 83.921 1561 211 20 1 1551 10373968 10375498 0.000000e+00 1456.0
6 TraesCS2B01G029400 chr2A 82.821 1106 157 20 427 1509 40341721 40340626 0.000000e+00 959.0
7 TraesCS2B01G029400 chr2A 83.819 927 128 12 427 1343 9777860 9778774 0.000000e+00 861.0
8 TraesCS2B01G029400 chr2A 83.469 859 127 7 484 1332 9201955 9201102 0.000000e+00 785.0
9 TraesCS2B01G029400 chr2A 79.467 1125 198 22 432 1524 10198896 10200019 0.000000e+00 767.0
10 TraesCS2B01G029400 chr2A 85.612 556 48 14 1550 2077 10375572 10376123 3.180000e-154 555.0
11 TraesCS2B01G029400 chr2A 86.253 451 45 10 2383 2825 10379955 10379514 9.160000e-130 473.0
12 TraesCS2B01G029400 chr2A 88.679 371 42 0 1 371 20502789 20503159 1.190000e-123 453.0
13 TraesCS2B01G029400 chr2A 84.409 372 58 0 1 372 10198498 10198869 1.600000e-97 366.0
14 TraesCS2B01G029400 chr2A 94.191 241 12 1 2081 2321 10376172 10376410 1.600000e-97 366.0
15 TraesCS2B01G029400 chr2A 76.952 525 81 27 1550 2046 9779197 9779709 2.160000e-66 263.0
16 TraesCS2B01G029400 chr2A 82.132 319 44 8 1601 1909 10382528 10382213 7.760000e-66 261.0
17 TraesCS2B01G029400 chr2A 82.353 306 36 10 1237 1524 10382988 10382683 1.680000e-62 250.0
18 TraesCS2B01G029400 chr2A 75.967 491 78 23 1550 2005 40340507 40340022 1.700000e-52 217.0
19 TraesCS2B01G029400 chr2A 89.216 102 9 1 2234 2335 10381555 10381456 2.950000e-25 126.0
20 TraesCS2B01G029400 chr2D 83.558 1113 156 18 427 1522 36434850 36433748 0.000000e+00 1016.0
21 TraesCS2B01G029400 chr2D 79.574 1126 195 25 432 1524 10097477 10098600 0.000000e+00 773.0
22 TraesCS2B01G029400 chr2D 78.433 1136 208 19 427 1528 19462748 19463880 0.000000e+00 706.0
23 TraesCS2B01G029400 chr2D 88.410 371 43 0 1 371 19462355 19462725 5.550000e-122 448.0
24 TraesCS2B01G029400 chr2D 85.753 372 53 0 1 372 10097079 10097450 7.340000e-106 394.0
25 TraesCS2B01G029400 chr2D 83.333 432 52 13 2409 2823 429081838 429082266 5.710000e-102 381.0
26 TraesCS2B01G029400 chr2D 75.962 520 90 20 1550 2041 36433642 36433130 4.700000e-58 235.0
27 TraesCS2B01G029400 chr1D 82.110 436 48 21 2409 2825 234749476 234749052 2.080000e-91 346.0
28 TraesCS2B01G029400 chr1D 82.258 186 19 7 2409 2580 381063430 381063245 6.310000e-32 148.0
29 TraesCS2B01G029400 chr4A 80.778 437 61 16 2409 2825 80853352 80852919 1.260000e-83 320.0
30 TraesCS2B01G029400 chr7A 80.275 436 65 14 2409 2825 718520904 718521337 2.730000e-80 309.0
31 TraesCS2B01G029400 chr7A 79.767 430 66 11 2413 2824 146869241 146868815 2.750000e-75 292.0
32 TraesCS2B01G029400 chr7A 77.694 399 70 12 2409 2789 30088755 30089152 2.830000e-55 226.0
33 TraesCS2B01G029400 chr5B 81.491 389 55 10 2410 2782 54508136 54507749 1.270000e-78 303.0
34 TraesCS2B01G029400 chr5B 81.570 293 42 8 2539 2824 691939103 691938816 6.090000e-57 231.0
35 TraesCS2B01G029400 chr1A 79.176 437 68 14 2409 2825 563184662 563185095 5.960000e-72 281.0
36 TraesCS2B01G029400 chr7D 76.142 394 74 18 2409 2789 615407500 615407114 3.720000e-44 189.0
37 TraesCS2B01G029400 chr7B 86.466 133 14 4 2409 2538 380055571 380055440 2.930000e-30 143.0
38 TraesCS2B01G029400 chr7B 86.667 90 12 0 99 188 709750916 709750827 1.790000e-17 100.0
39 TraesCS2B01G029400 chr7B 78.231 147 32 0 99 245 710545344 710545198 8.330000e-16 95.3
40 TraesCS2B01G029400 chr5D 85.606 132 16 3 2409 2537 494791680 494791549 4.910000e-28 135.0
41 TraesCS2B01G029400 chr5A 85.556 90 13 0 99 188 480788202 480788113 8.330000e-16 95.3
42 TraesCS2B01G029400 chr6B 83.516 91 14 1 1421 1511 695440703 695440614 1.800000e-12 84.2
43 TraesCS2B01G029400 chr6B 81.250 96 18 0 1396 1491 695784821 695784916 8.390000e-11 78.7


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 TraesCS2B01G029400 chr2B 13478464 13481288 2824 True 5217.000000 5217 100.0000 1 2825 1 chr2B.!!$R1 2824
1 TraesCS2B01G029400 chr2B 13493208 13494730 1522 True 587.000000 773 82.8175 1 1525 2 chr2B.!!$R2 1524
2 TraesCS2B01G029400 chr2A 10373968 10376410 2442 False 792.333333 1456 87.9080 1 2321 3 chr2A.!!$F4 2320
3 TraesCS2B01G029400 chr2A 9201102 9201955 853 True 785.000000 785 83.4690 484 1332 1 chr2A.!!$R1 848
4 TraesCS2B01G029400 chr2A 40340022 40341721 1699 True 588.000000 959 79.3940 427 2005 2 chr2A.!!$R3 1578
5 TraesCS2B01G029400 chr2A 10198498 10200019 1521 False 566.500000 767 81.9380 1 1524 2 chr2A.!!$F3 1523
6 TraesCS2B01G029400 chr2A 9777860 9779709 1849 False 562.000000 861 80.3855 427 2046 2 chr2A.!!$F2 1619
7 TraesCS2B01G029400 chr2A 10379514 10382988 3474 True 277.500000 473 84.9885 1237 2825 4 chr2A.!!$R2 1588
8 TraesCS2B01G029400 chr2D 36433130 36434850 1720 True 625.500000 1016 79.7600 427 2041 2 chr2D.!!$R1 1614
9 TraesCS2B01G029400 chr2D 10097079 10098600 1521 False 583.500000 773 82.6635 1 1524 2 chr2D.!!$F2 1523
10 TraesCS2B01G029400 chr2D 19462355 19463880 1525 False 577.000000 706 83.4215 1 1528 2 chr2D.!!$F3 1527

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
385 386 0.26023 TCAAGGTTGCCTCCCACAAA 59.740 50.0 0.0 0.0 30.89 2.83 F
1120 1125 0.17910 CGGCGATCTGTCCAAGATGT 60.179 55.0 0.0 0.0 46.12 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1534 1701 0.252103 TCCTTGCTAGGAGAACCGGT 60.252 55.0 13.28 0.0 45.82 5.28 R
2385 3044 0.250989 TCCCCGGCTTCGTTGAAAAT 60.251 50.0 0.00 0.0 0.00 1.82 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
52 53 1.823470 GACATATGCTGCCGGCCAA 60.823 57.895 26.77 9.98 40.92 4.52
172 173 4.401022 CATATGCCCTTGAGGATAGCAAA 58.599 43.478 0.00 0.00 38.24 3.68
180 181 3.895232 TGAGGATAGCAAACTCTGGAC 57.105 47.619 0.00 0.00 32.58 4.02
190 191 1.812686 AACTCTGGACGCGCCACTTA 61.813 55.000 16.62 6.34 43.33 2.24
193 194 1.805945 CTGGACGCGCCACTTACTC 60.806 63.158 16.62 0.00 43.33 2.59
211 212 1.073025 CAGCCTTGTGGTGCAGGTA 59.927 57.895 0.00 0.00 35.35 3.08
213 214 1.073199 GCCTTGTGGTGCAGGTAGT 59.927 57.895 0.00 0.00 35.27 2.73
214 215 0.537371 GCCTTGTGGTGCAGGTAGTT 60.537 55.000 0.00 0.00 35.27 2.24
229 230 2.104281 GGTAGTTGGAGCCGGATATGTT 59.896 50.000 5.05 0.00 0.00 2.71
253 254 1.447838 CAAGTACATCGCCGGCAGT 60.448 57.895 28.98 22.92 0.00 4.40
260 261 2.426406 ATCGCCGGCAGTGAGATCA 61.426 57.895 28.98 1.65 38.70 2.92
373 374 2.178580 CTCCAGAGCTCTCTCAAGGTT 58.821 52.381 14.96 0.00 41.81 3.50
374 375 1.898472 TCCAGAGCTCTCTCAAGGTTG 59.102 52.381 14.96 0.00 41.81 3.77
377 378 0.612744 GAGCTCTCTCAAGGTTGCCT 59.387 55.000 6.43 0.00 39.16 4.75
379 380 0.392327 GCTCTCTCAAGGTTGCCTCC 60.392 60.000 0.00 0.00 30.89 4.30
385 386 0.260230 TCAAGGTTGCCTCCCACAAA 59.740 50.000 0.00 0.00 30.89 2.83
424 425 1.822990 TCTCTTAAGGTACCACGGCAG 59.177 52.381 15.94 4.29 0.00 4.85
425 426 1.549170 CTCTTAAGGTACCACGGCAGT 59.451 52.381 15.94 0.00 0.00 4.40
480 481 3.611674 TGACTTGGCGGACGAGCA 61.612 61.111 0.00 0.00 39.27 4.26
482 483 4.681978 ACTTGGCGGACGAGCACC 62.682 66.667 0.00 0.00 39.27 5.01
517 518 4.383552 GCTCACTCCCTGTTTCATATCTGT 60.384 45.833 0.00 0.00 0.00 3.41
532 533 3.735237 ATCTGTAAGCGTGGGATAGTG 57.265 47.619 0.00 0.00 0.00 2.74
538 539 1.794714 AGCGTGGGATAGTGGATTCT 58.205 50.000 0.00 0.00 0.00 2.40
555 559 3.981071 TTCTGTGATCGAGGTGGATTT 57.019 42.857 0.00 0.00 0.00 2.17
558 562 3.126831 CTGTGATCGAGGTGGATTTAGC 58.873 50.000 0.00 0.00 0.00 3.09
561 565 4.404394 TGTGATCGAGGTGGATTTAGCTAA 59.596 41.667 0.86 0.86 0.00 3.09
576 580 1.542187 GCTAACCCGAGTGAGGTGGT 61.542 60.000 0.00 0.00 37.78 4.16
623 627 1.889170 GCCTTTTGGAAGACCCTGAAG 59.111 52.381 0.00 0.00 44.07 3.02
655 659 2.318908 GTGATGGAGATGGAGCTCTCT 58.681 52.381 14.64 9.59 41.23 3.10
722 726 1.090052 GGTTGGCTACTGCATCCGTC 61.090 60.000 0.00 0.00 41.91 4.79
724 728 0.613260 TTGGCTACTGCATCCGTCTT 59.387 50.000 0.00 0.00 41.91 3.01
734 738 0.387367 CATCCGTCTTATCTCGCCGG 60.387 60.000 0.00 0.00 39.98 6.13
739 743 2.116533 TCTTATCTCGCCGGTCGCA 61.117 57.895 12.56 3.45 37.30 5.10
766 770 0.670546 CCTCGCTCGTGTTGTTCCAT 60.671 55.000 0.00 0.00 0.00 3.41
810 814 1.399440 CCAAGTCGATGTTGCCATCAG 59.601 52.381 5.22 0.00 46.54 2.90
811 815 2.079158 CAAGTCGATGTTGCCATCAGT 58.921 47.619 4.20 0.00 46.54 3.41
883 887 1.229658 ACTAGGGTCAAGCTGGGCT 60.230 57.895 0.00 0.00 42.56 5.19
905 909 1.667236 TGCCTTCTTGTGTGTCACAG 58.333 50.000 5.74 0.00 45.39 3.66
921 926 1.285280 ACAGAATGGGATTGGTCCGA 58.715 50.000 0.00 0.00 46.09 4.55
945 950 1.895798 TCAGCTCTGTGTACTGGAAGG 59.104 52.381 0.00 0.00 39.30 3.46
979 984 1.065551 GGCGTGCACTTGTTTCTCTTT 59.934 47.619 16.19 0.00 0.00 2.52
981 986 2.223249 GCGTGCACTTGTTTCTCTTTGA 60.223 45.455 16.19 0.00 0.00 2.69
991 996 1.712056 TTCTCTTTGACGGTCCTGGA 58.288 50.000 5.55 0.00 0.00 3.86
992 997 1.938585 TCTCTTTGACGGTCCTGGAT 58.061 50.000 5.55 0.00 0.00 3.41
993 998 3.095912 TCTCTTTGACGGTCCTGGATA 57.904 47.619 5.55 0.00 0.00 2.59
998 1003 1.043116 TGACGGTCCTGGATAGGCAG 61.043 60.000 5.55 0.00 44.22 4.85
1037 1042 2.985456 GAGGAGGTGGTCAGGCAG 59.015 66.667 0.00 0.00 0.00 4.85
1085 1090 1.892819 CGTGCCAGACAGGTGGATCT 61.893 60.000 0.00 0.00 40.44 2.75
1120 1125 0.179100 CGGCGATCTGTCCAAGATGT 60.179 55.000 0.00 0.00 46.12 3.06
1146 1151 2.852075 GGTGGGTGGTGGGACAGA 60.852 66.667 0.00 0.00 41.80 3.41
1153 1158 2.358737 GGTGGGACAGAAGGCACG 60.359 66.667 0.00 0.00 41.80 5.34
1188 1196 5.565637 CGATGTCTCTGAGAAGGTCAAGAAA 60.566 44.000 9.31 0.00 33.60 2.52
1200 1208 2.485814 GGTCAAGAAATGTGCAGAGGAC 59.514 50.000 0.00 0.00 0.00 3.85
1204 1212 1.980765 AGAAATGTGCAGAGGACTGGA 59.019 47.619 0.00 0.00 43.62 3.86
1215 1232 1.208293 GAGGACTGGATGGTCTCAACC 59.792 57.143 0.00 0.00 46.66 3.77
1259 1276 0.180406 CGGAGGACTAAATGGGGTGG 59.820 60.000 0.00 0.00 0.00 4.61
1268 1285 3.567579 AATGGGGTGGACTGGCACG 62.568 63.158 0.00 0.00 0.00 5.34
1298 1321 1.610102 CCCTGAGCTGTTGAAGGAGTG 60.610 57.143 0.00 0.00 30.92 3.51
1347 1496 1.523258 GAGCGTCATCTGCTGGCAT 60.523 57.895 0.00 0.00 44.18 4.40
1391 1555 4.828939 TGCTAAAATAGATCAATGGGGCAG 59.171 41.667 0.00 0.00 0.00 4.85
1416 1580 0.397941 ATGTGGAGGTGGTCAGTGTG 59.602 55.000 0.00 0.00 0.00 3.82
1452 1616 1.801242 TGTTCCTCCTTGTGGACTCA 58.199 50.000 0.00 0.00 37.46 3.41
1467 1631 1.144057 CTCACCCGACATGCTACCC 59.856 63.158 0.00 0.00 0.00 3.69
1546 1713 5.221682 TGTGAACAATTTACCGGTTCTCCTA 60.222 40.000 15.04 0.00 41.07 2.94
1566 1808 1.378882 GCAAGGAGATCGCCAATGCA 61.379 55.000 28.79 0.00 40.58 3.96
1576 1818 1.401552 TCGCCAATGCAATACTGAAGC 59.598 47.619 0.00 0.00 37.32 3.86
1580 1822 2.100252 CCAATGCAATACTGAAGCAGGG 59.900 50.000 0.00 0.00 42.14 4.45
1621 1863 1.123077 TCCTCGGCTCAGTTATGCAT 58.877 50.000 3.79 3.79 0.00 3.96
1636 1878 0.522626 TGCATGTGTCATTGCGGAAG 59.477 50.000 0.00 0.00 41.80 3.46
1638 1880 1.402968 GCATGTGTCATTGCGGAAGAT 59.597 47.619 0.00 0.00 0.00 2.40
1639 1881 2.613595 GCATGTGTCATTGCGGAAGATA 59.386 45.455 0.00 0.00 0.00 1.98
1645 1887 3.947196 TGTCATTGCGGAAGATATGCTTT 59.053 39.130 0.00 0.00 36.83 3.51
1653 1898 6.166279 TGCGGAAGATATGCTTTATAAGGAG 58.834 40.000 0.00 0.00 36.83 3.69
1655 1900 6.109359 CGGAAGATATGCTTTATAAGGAGGG 58.891 44.000 0.00 0.00 36.83 4.30
1664 1909 4.880120 GCTTTATAAGGAGGGTGTGGTTAC 59.120 45.833 0.00 0.00 0.00 2.50
1668 1913 0.473886 AGGAGGGTGTGGTTACTGCT 60.474 55.000 0.00 0.00 0.00 4.24
1672 1917 0.685097 GGGTGTGGTTACTGCTCTGA 59.315 55.000 0.00 0.00 0.00 3.27
1785 2030 5.178996 GCTGACTATCATGTGGCTTTATCTG 59.821 44.000 0.00 0.00 0.00 2.90
1826 2092 0.033699 GAAGGCAGAAGGGGCTGAAT 60.034 55.000 0.00 0.00 43.71 2.57
1835 2101 4.820716 CAGAAGGGGCTGAATCTTGAATAG 59.179 45.833 0.00 0.00 38.14 1.73
1890 2162 6.281848 TCTTCACTTTGTACTTTGTAAGCG 57.718 37.500 0.00 0.00 0.00 4.68
1904 2176 8.997621 ACTTTGTAAGCGTATCTTTCTTCATA 57.002 30.769 0.00 0.00 36.25 2.15
1959 2253 3.525537 ACATTGGAGCATAGAACGTCAG 58.474 45.455 0.00 0.00 0.00 3.51
1970 2264 2.408050 AGAACGTCAGTTGACATGCTC 58.592 47.619 12.33 3.30 44.99 4.26
1971 2265 2.135139 GAACGTCAGTTGACATGCTCA 58.865 47.619 12.33 0.00 44.99 4.26
1984 2278 3.896479 GCTCACTAGCCCAGCAAC 58.104 61.111 3.81 0.00 43.40 4.17
1998 2292 3.120199 CCCAGCAACGATTTAGTGAACAG 60.120 47.826 0.00 0.00 0.00 3.16
2120 2575 2.943033 GTTGGTGTTGTGTGAAGTAGCT 59.057 45.455 0.00 0.00 0.00 3.32
2160 2615 0.691078 ACTGACAGCGATGGGGGTAT 60.691 55.000 5.32 0.00 0.00 2.73
2176 2631 1.269831 GGTATAGGAGCTTCAGGTGCG 60.270 57.143 0.00 0.00 38.92 5.34
2194 2649 1.392589 CGGGCAATGCATAGGAGTTT 58.607 50.000 7.79 0.00 0.00 2.66
2216 2671 1.227645 GATGGCATCGGCTACAGCA 60.228 57.895 12.40 0.00 44.36 4.41
2266 2890 0.543749 GAATGCTGACCCTAGGTGCT 59.456 55.000 8.29 0.00 35.25 4.40
2321 2945 9.631452 GAATGCTTCTCTTGCTATTAACTTTTT 57.369 29.630 0.00 0.00 0.00 1.94
2344 3003 7.458409 TTTAGAGCTGCTTTGATCTGAAAAT 57.542 32.000 2.53 0.00 34.33 1.82
2349 3008 6.985117 AGCTGCTTTGATCTGAAAATTAACA 58.015 32.000 0.00 0.00 0.00 2.41
2351 3010 7.758528 AGCTGCTTTGATCTGAAAATTAACATC 59.241 33.333 0.00 0.00 0.00 3.06
2352 3011 7.009907 GCTGCTTTGATCTGAAAATTAACATCC 59.990 37.037 0.00 0.00 0.00 3.51
2359 3018 9.519191 TGATCTGAAAATTAACATCCAGAAGAA 57.481 29.630 0.00 0.00 34.80 2.52
2361 3020 8.690203 TCTGAAAATTAACATCCAGAAGAACA 57.310 30.769 0.00 0.00 0.00 3.18
2364 3023 9.912634 TGAAAATTAACATCCAGAAGAACATTC 57.087 29.630 0.00 0.00 0.00 2.67
2370 3029 6.310764 ACATCCAGAAGAACATTCTCTGAT 57.689 37.500 16.29 6.21 36.28 2.90
2373 3032 4.533707 TCCAGAAGAACATTCTCTGATGGT 59.466 41.667 16.29 0.00 36.28 3.55
2374 3033 5.013495 TCCAGAAGAACATTCTCTGATGGTT 59.987 40.000 16.29 0.00 36.28 3.67
2375 3034 6.213397 TCCAGAAGAACATTCTCTGATGGTTA 59.787 38.462 16.29 0.48 36.28 2.85
2380 3039 7.192852 AGAACATTCTCTGATGGTTAGATGT 57.807 36.000 0.00 0.00 29.94 3.06
2381 3040 7.046652 AGAACATTCTCTGATGGTTAGATGTG 58.953 38.462 0.00 0.00 29.94 3.21
2382 3041 6.550938 ACATTCTCTGATGGTTAGATGTGA 57.449 37.500 0.00 0.00 0.00 3.58
2383 3042 6.950842 ACATTCTCTGATGGTTAGATGTGAA 58.049 36.000 0.00 0.00 0.00 3.18
2384 3043 7.397221 ACATTCTCTGATGGTTAGATGTGAAA 58.603 34.615 0.00 0.00 0.00 2.69
2385 3044 7.884877 ACATTCTCTGATGGTTAGATGTGAAAA 59.115 33.333 0.00 0.00 0.00 2.29
2386 3045 8.900781 CATTCTCTGATGGTTAGATGTGAAAAT 58.099 33.333 0.00 0.00 0.00 1.82
2403 4478 0.601057 AATTTTCAACGAAGCCGGGG 59.399 50.000 2.18 0.00 40.78 5.73
2404 4479 0.250989 ATTTTCAACGAAGCCGGGGA 60.251 50.000 2.18 0.00 40.78 4.81
2427 4502 0.741221 GACCTTGTCGATGACAGCCC 60.741 60.000 0.00 0.00 43.69 5.19
2430 4505 2.225791 CTTGTCGATGACAGCCCGGA 62.226 60.000 0.73 0.00 43.69 5.14
2431 4506 1.822114 TTGTCGATGACAGCCCGGAA 61.822 55.000 0.73 0.00 43.69 4.30
2432 4507 1.519455 GTCGATGACAGCCCGGAAG 60.519 63.158 0.73 0.00 32.09 3.46
2433 4508 1.982395 TCGATGACAGCCCGGAAGT 60.982 57.895 0.73 0.00 0.00 3.01
2434 4509 1.519455 CGATGACAGCCCGGAAGTC 60.519 63.158 0.73 8.57 0.00 3.01
2435 4510 1.901085 GATGACAGCCCGGAAGTCT 59.099 57.895 0.73 0.00 33.56 3.24
2437 4512 0.250513 ATGACAGCCCGGAAGTCTTC 59.749 55.000 0.73 3.80 33.56 2.87
2438 4513 1.446272 GACAGCCCGGAAGTCTTCG 60.446 63.158 0.73 2.54 0.00 3.79
2439 4514 2.156051 GACAGCCCGGAAGTCTTCGT 62.156 60.000 0.73 0.00 0.00 3.85
2440 4515 1.738099 CAGCCCGGAAGTCTTCGTG 60.738 63.158 0.73 1.94 0.00 4.35
2441 4516 3.119096 GCCCGGAAGTCTTCGTGC 61.119 66.667 0.73 5.37 0.00 5.34
2442 4517 2.342279 CCCGGAAGTCTTCGTGCA 59.658 61.111 0.73 0.00 0.00 4.57
2443 4518 1.079127 CCCGGAAGTCTTCGTGCAT 60.079 57.895 0.73 0.00 0.00 3.96
2444 4519 1.361668 CCCGGAAGTCTTCGTGCATG 61.362 60.000 0.73 0.00 0.00 4.06
2445 4520 0.670546 CCGGAAGTCTTCGTGCATGT 60.671 55.000 5.68 0.00 0.00 3.21
2446 4521 0.439985 CGGAAGTCTTCGTGCATGTG 59.560 55.000 5.68 0.68 0.00 3.21
2450 4525 2.359850 TCTTCGTGCATGTGCCCC 60.360 61.111 5.68 0.00 41.18 5.80
2451 4526 3.803082 CTTCGTGCATGTGCCCCG 61.803 66.667 5.68 5.30 41.18 5.73
2471 4546 0.182775 AAGGAACAACGCCCTGAACT 59.817 50.000 0.00 0.00 32.12 3.01
2473 4548 0.818040 GGAACAACGCCCTGAACTGT 60.818 55.000 0.00 0.00 0.00 3.55
2478 4553 1.045407 AACGCCCTGAACTGTAGTCA 58.955 50.000 0.00 0.00 0.00 3.41
2481 4556 1.373570 GCCCTGAACTGTAGTCATGC 58.626 55.000 0.00 0.00 0.00 4.06
2488 4564 2.370281 ACTGTAGTCATGCCGTTGAG 57.630 50.000 0.00 0.00 0.00 3.02
2491 4567 1.067142 TGTAGTCATGCCGTTGAGTCC 60.067 52.381 0.00 0.00 31.77 3.85
2529 4605 1.280710 ACCTGACACCAAATATCGCCA 59.719 47.619 0.00 0.00 0.00 5.69
2552 4628 1.067354 CGTACAAACCCTAACCTCGCT 60.067 52.381 0.00 0.00 0.00 4.93
2558 4634 3.399181 CCTAACCTCGCTGCCCCA 61.399 66.667 0.00 0.00 0.00 4.96
2577 4655 2.559440 CAAGAGCTGGCAGGAATCTAC 58.441 52.381 17.64 0.00 0.00 2.59
2580 4658 1.889573 GCTGGCAGGAATCTACGCC 60.890 63.158 17.64 0.00 45.11 5.68
2582 4660 4.445699 GGCAGGAATCTACGCCAG 57.554 61.111 0.00 0.00 44.25 4.85
2585 4663 0.878086 GCAGGAATCTACGCCAGAGC 60.878 60.000 0.00 0.00 36.48 4.09
2589 4667 1.137086 GGAATCTACGCCAGAGCTTCA 59.863 52.381 0.00 0.00 36.48 3.02
2595 4673 3.891977 TCTACGCCAGAGCTTCATCTAAT 59.108 43.478 0.00 0.00 36.60 1.73
2605 4683 7.041508 CCAGAGCTTCATCTAATACATTCCAAC 60.042 40.741 0.00 0.00 0.00 3.77
2606 4684 7.496920 CAGAGCTTCATCTAATACATTCCAACA 59.503 37.037 0.00 0.00 0.00 3.33
2617 4695 3.804036 ACATTCCAACAGACGAACTTGA 58.196 40.909 0.00 0.00 0.00 3.02
2626 4704 2.493675 CAGACGAACTTGAGGAGGATCA 59.506 50.000 0.00 0.00 36.25 2.92
2627 4705 3.056536 CAGACGAACTTGAGGAGGATCAA 60.057 47.826 0.00 0.00 37.60 2.57
2632 4710 4.561530 CGAACTTGAGGAGGATCAAAGACA 60.562 45.833 0.00 0.00 38.66 3.41
2641 4719 4.502962 GAGGATCAAAGACAGGAAGACTG 58.497 47.826 0.00 0.00 44.24 3.51
2644 4722 7.976078 GAGGATCAAAGACAGGAAGACTGACT 61.976 46.154 0.80 0.00 43.82 3.41
2716 4796 2.899900 TCGTACCTATCTACTAGCGGGA 59.100 50.000 0.00 0.00 0.00 5.14
2717 4797 3.517100 TCGTACCTATCTACTAGCGGGAT 59.483 47.826 0.00 0.00 0.00 3.85
2727 4807 0.030908 CTAGCGGGATTCGAGACACC 59.969 60.000 0.00 0.00 42.43 4.16
2744 4824 1.383248 CCAGGATTCTCCTCCCCGT 60.383 63.158 0.00 0.00 45.66 5.28
2782 4863 3.157949 GGCGGAGGGGAGGAGAAG 61.158 72.222 0.00 0.00 0.00 2.85
2784 4865 2.042435 CGGAGGGGAGGAGAAGCT 60.042 66.667 0.00 0.00 0.00 3.74
2807 4889 1.521450 GATCGTCCGCGGGGATAGAA 61.521 60.000 27.83 10.67 46.14 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 2.159057 AGCATATGTCGCAGTCATGTCA 60.159 45.455 4.29 0.00 36.84 3.58
52 53 1.001406 GTGTTGCTGCTGTAGAGGAGT 59.999 52.381 10.16 0.00 39.80 3.85
180 181 3.188786 GGCTGAGTAAGTGGCGCG 61.189 66.667 0.00 0.00 0.00 6.86
190 191 1.228063 CTGCACCACAAGGCTGAGT 60.228 57.895 0.00 0.00 39.06 3.41
193 194 0.957395 CTACCTGCACCACAAGGCTG 60.957 60.000 0.00 0.00 39.06 4.85
211 212 2.103263 GAGAACATATCCGGCTCCAACT 59.897 50.000 0.00 0.00 0.00 3.16
213 214 2.398588 AGAGAACATATCCGGCTCCAA 58.601 47.619 0.00 0.00 0.00 3.53
214 215 2.088104 AGAGAACATATCCGGCTCCA 57.912 50.000 0.00 0.00 0.00 3.86
229 230 1.674441 CCGGCGATGTACTTGTAGAGA 59.326 52.381 9.30 0.00 0.00 3.10
253 254 1.406477 GCCAGTGTGAGCATGATCTCA 60.406 52.381 12.92 12.13 40.50 3.27
260 261 2.360852 GGCAGCCAGTGTGAGCAT 60.361 61.111 6.55 0.00 0.00 3.79
317 318 3.544651 CAAACAATAGCGCACATATCCG 58.455 45.455 11.47 0.00 0.00 4.18
321 322 2.087646 TGGCAAACAATAGCGCACATA 58.912 42.857 11.47 0.00 0.00 2.29
331 332 2.804212 GCTGCTGAAGTTGGCAAACAAT 60.804 45.455 6.76 0.00 41.95 2.71
333 334 0.102844 GCTGCTGAAGTTGGCAAACA 59.897 50.000 6.76 2.15 38.88 2.83
388 389 6.425417 CCTTAAGAGAGCTCTTTTCGTTCTTT 59.575 38.462 21.78 0.00 46.95 2.52
391 392 5.231702 ACCTTAAGAGAGCTCTTTTCGTTC 58.768 41.667 21.78 5.80 46.95 3.95
393 394 4.875561 ACCTTAAGAGAGCTCTTTTCGT 57.124 40.909 21.78 13.82 46.95 3.85
394 395 5.103687 GGTACCTTAAGAGAGCTCTTTTCG 58.896 45.833 21.78 14.14 46.95 3.46
395 396 5.870433 GTGGTACCTTAAGAGAGCTCTTTTC 59.130 44.000 21.78 8.04 46.95 2.29
396 397 5.567025 CGTGGTACCTTAAGAGAGCTCTTTT 60.567 44.000 21.82 21.82 46.95 2.27
424 425 8.352201 TGATGCTCAATATAAAAATGCTGGTAC 58.648 33.333 0.00 0.00 0.00 3.34
425 426 8.462589 TGATGCTCAATATAAAAATGCTGGTA 57.537 30.769 0.00 0.00 0.00 3.25
517 518 3.069586 CAGAATCCACTATCCCACGCTTA 59.930 47.826 0.00 0.00 0.00 3.09
532 533 1.757118 TCCACCTCGATCACAGAATCC 59.243 52.381 0.00 0.00 0.00 3.01
538 539 2.766263 AGCTAAATCCACCTCGATCACA 59.234 45.455 0.00 0.00 0.00 3.58
555 559 1.471119 CACCTCACTCGGGTTAGCTA 58.529 55.000 0.00 0.00 34.44 3.32
558 562 0.974383 AACCACCTCACTCGGGTTAG 59.026 55.000 0.00 0.00 41.61 2.34
561 565 0.763223 AGAAACCACCTCACTCGGGT 60.763 55.000 0.00 0.00 37.59 5.28
576 580 7.831691 TGGATTGTTTTGTTATCCAGAGAAA 57.168 32.000 0.00 0.00 42.10 2.52
623 627 0.911769 TCCATCACCCTCCACATGTC 59.088 55.000 0.00 0.00 0.00 3.06
655 659 7.010160 TGGTGTACAGGATATCATACATGAGA 58.990 38.462 13.64 0.00 40.64 3.27
734 738 3.414700 CGAGGTGGCAACTGCGAC 61.415 66.667 11.28 8.19 46.89 5.19
739 743 3.616721 ACGAGCGAGGTGGCAACT 61.617 61.111 3.75 3.75 34.64 3.16
779 783 3.196901 ACATCGACTTGGCTGTAACCATA 59.803 43.478 0.00 0.00 40.13 2.74
883 887 2.288666 GTGACACACAAGAAGGCAAGA 58.711 47.619 0.00 0.00 34.08 3.02
905 909 2.348411 ATGTCGGACCAATCCCATTC 57.652 50.000 5.55 0.00 42.83 2.67
921 926 2.899900 TCCAGTACACAGAGCTGAATGT 59.100 45.455 4.21 2.01 32.39 2.71
963 968 2.354510 CCGTCAAAGAGAAACAAGTGCA 59.645 45.455 0.00 0.00 0.00 4.57
979 984 1.001120 TGCCTATCCAGGACCGTCA 59.999 57.895 0.00 0.00 45.91 4.35
981 986 3.956377 CTGCCTATCCAGGACCGT 58.044 61.111 0.00 0.00 45.91 4.83
991 996 3.263681 CCTGTCATGATCATCCTGCCTAT 59.736 47.826 4.86 0.00 0.00 2.57
992 997 2.636403 CCTGTCATGATCATCCTGCCTA 59.364 50.000 4.86 0.00 0.00 3.93
993 998 1.420514 CCTGTCATGATCATCCTGCCT 59.579 52.381 4.86 0.00 0.00 4.75
998 1003 3.401182 GAGCTTCCTGTCATGATCATCC 58.599 50.000 4.86 0.00 0.00 3.51
1037 1042 2.652095 ATGTTGTGCTGCCCCATGC 61.652 57.895 0.00 0.00 41.77 4.06
1105 1110 5.083533 AGTCTCAACATCTTGGACAGATC 57.916 43.478 0.00 0.00 40.67 2.75
1120 1125 1.458777 ACCACCCACCGAGTCTCAA 60.459 57.895 0.00 0.00 0.00 3.02
1146 1151 0.179084 CGATGGTCCATACGTGCCTT 60.179 55.000 3.72 0.00 0.00 4.35
1153 1158 3.570125 TCAGAGACATCGATGGTCCATAC 59.430 47.826 28.09 12.18 35.89 2.39
1188 1196 0.545171 CCATCCAGTCCTCTGCACAT 59.455 55.000 0.00 0.00 40.09 3.21
1200 1208 0.391661 CACCGGTTGAGACCATCCAG 60.392 60.000 2.97 0.00 46.91 3.86
1204 1212 3.038280 TCATATCACCGGTTGAGACCAT 58.962 45.455 2.97 0.00 46.91 3.55
1215 1232 2.033299 GCCCATTGTGTTCATATCACCG 59.967 50.000 0.00 0.00 35.25 4.94
1268 1285 2.202946 GCTCAGGGTAGCGCTTCC 60.203 66.667 23.71 23.71 31.76 3.46
1298 1321 7.932491 GGAAGTCAACTAACTTATAATCCTCCC 59.068 40.741 0.00 0.00 39.55 4.30
1347 1496 4.196193 CAAGGATTAAGTTGGTGGCGATA 58.804 43.478 0.00 0.00 0.00 2.92
1391 1555 2.509336 CCACCTCCACATCGTCGC 60.509 66.667 0.00 0.00 0.00 5.19
1416 1580 3.375299 GGAACATCATGTAGTTGGACAGC 59.625 47.826 9.62 0.00 31.51 4.40
1452 1616 3.467226 CCGGGTAGCATGTCGGGT 61.467 66.667 0.00 0.00 38.93 5.28
1467 1631 2.275380 CCAGTTTTGGGGAAGGCCG 61.275 63.158 0.00 0.00 41.05 6.13
1510 1674 6.567687 AAATTGTTCACATATCGTGTCCAA 57.432 33.333 5.56 8.71 46.44 3.53
1530 1697 3.118371 CCTTGCTAGGAGAACCGGTAAAT 60.118 47.826 8.00 0.00 45.05 1.40
1531 1698 2.235402 CCTTGCTAGGAGAACCGGTAAA 59.765 50.000 8.00 0.00 45.05 2.01
1534 1701 0.252103 TCCTTGCTAGGAGAACCGGT 60.252 55.000 13.28 0.00 45.82 5.28
1546 1713 1.099879 GCATTGGCGATCTCCTTGCT 61.100 55.000 17.65 0.00 34.95 3.91
1562 1804 1.410648 CCCCCTGCTTCAGTATTGCAT 60.411 52.381 0.00 0.00 36.07 3.96
1580 1822 1.875488 TTCAGAGTTAGTAGGCCCCC 58.125 55.000 0.00 0.00 0.00 5.40
1584 1826 5.044558 CGAGGATTTTCAGAGTTAGTAGGC 58.955 45.833 0.00 0.00 0.00 3.93
1621 1863 2.613595 GCATATCTTCCGCAATGACACA 59.386 45.455 0.00 0.00 0.00 3.72
1636 1878 5.940470 CCACACCCTCCTTATAAAGCATATC 59.060 44.000 0.00 0.00 0.00 1.63
1638 1880 4.724798 ACCACACCCTCCTTATAAAGCATA 59.275 41.667 0.00 0.00 0.00 3.14
1639 1881 3.527665 ACCACACCCTCCTTATAAAGCAT 59.472 43.478 0.00 0.00 0.00 3.79
1645 1887 3.453353 GCAGTAACCACACCCTCCTTATA 59.547 47.826 0.00 0.00 0.00 0.98
1653 1898 0.685097 TCAGAGCAGTAACCACACCC 59.315 55.000 0.00 0.00 0.00 4.61
1655 1900 4.275936 ACATTTTCAGAGCAGTAACCACAC 59.724 41.667 0.00 0.00 0.00 3.82
1664 1909 3.996150 ACCACAACATTTTCAGAGCAG 57.004 42.857 0.00 0.00 0.00 4.24
1668 1913 4.277476 AGTCCAACCACAACATTTTCAGA 58.723 39.130 0.00 0.00 0.00 3.27
1672 1917 4.030216 AGGAAGTCCAACCACAACATTTT 58.970 39.130 0.00 0.00 38.89 1.82
1785 2030 2.943036 TTACTTGGTGGAGGTGTTCC 57.057 50.000 0.00 0.00 46.98 3.62
1890 2162 8.885494 AGAAGTGCTGATATGAAGAAAGATAC 57.115 34.615 0.00 0.00 0.00 2.24
1929 2223 7.041848 CGTTCTATGCTCCAATGTATTCATCAA 60.042 37.037 0.00 0.00 32.56 2.57
1970 2264 1.453155 AAATCGTTGCTGGGCTAGTG 58.547 50.000 0.00 0.00 0.00 2.74
1971 2265 2.236395 ACTAAATCGTTGCTGGGCTAGT 59.764 45.455 0.00 0.00 0.00 2.57
1984 2278 8.560576 AAAAACACAATCTGTTCACTAAATCG 57.439 30.769 0.00 0.00 42.70 3.34
2060 2468 0.492276 ACTAAGACCCCTGGACCTGT 59.508 55.000 0.00 0.00 0.00 4.00
2120 2575 3.143010 AGGAACTCCGTCAGAACCA 57.857 52.632 0.00 0.00 42.08 3.67
2160 2615 2.359169 CCCGCACCTGAAGCTCCTA 61.359 63.158 0.00 0.00 0.00 2.94
2176 2631 2.294512 GCTAAACTCCTATGCATTGCCC 59.705 50.000 3.54 0.00 0.00 5.36
2266 2890 1.140312 AGGTCCTCCAAAGACTTGCA 58.860 50.000 0.00 0.00 34.56 4.08
2321 2945 7.458409 AATTTTCAGATCAAAGCAGCTCTAA 57.542 32.000 0.00 0.00 0.00 2.10
2322 2946 8.454106 GTTAATTTTCAGATCAAAGCAGCTCTA 58.546 33.333 0.00 0.00 0.00 2.43
2324 2948 7.086376 TGTTAATTTTCAGATCAAAGCAGCTC 58.914 34.615 0.00 0.00 0.00 4.09
2325 2949 6.985117 TGTTAATTTTCAGATCAAAGCAGCT 58.015 32.000 0.00 0.00 0.00 4.24
2326 2950 7.009907 GGATGTTAATTTTCAGATCAAAGCAGC 59.990 37.037 0.00 0.00 0.00 5.25
2327 2951 8.030692 TGGATGTTAATTTTCAGATCAAAGCAG 58.969 33.333 0.00 0.00 0.00 4.24
2328 2952 7.894708 TGGATGTTAATTTTCAGATCAAAGCA 58.105 30.769 0.00 0.00 0.00 3.91
2329 2953 8.246180 TCTGGATGTTAATTTTCAGATCAAAGC 58.754 33.333 0.00 0.00 0.00 3.51
2344 3003 7.679783 TCAGAGAATGTTCTTCTGGATGTTAA 58.320 34.615 15.61 0.00 37.73 2.01
2349 3008 5.191323 ACCATCAGAGAATGTTCTTCTGGAT 59.809 40.000 15.61 7.45 37.73 3.41
2351 3010 4.841422 ACCATCAGAGAATGTTCTTCTGG 58.159 43.478 15.61 12.87 37.73 3.86
2352 3011 7.326454 TCTAACCATCAGAGAATGTTCTTCTG 58.674 38.462 12.20 12.20 37.73 3.02
2356 3015 7.046652 CACATCTAACCATCAGAGAATGTTCT 58.953 38.462 0.00 0.00 41.00 3.01
2359 3018 6.550938 TCACATCTAACCATCAGAGAATGT 57.449 37.500 0.00 0.00 0.00 2.71
2361 3020 9.471702 AATTTTCACATCTAACCATCAGAGAAT 57.528 29.630 0.00 0.00 0.00 2.40
2364 3023 9.565213 GAAAATTTTCACATCTAACCATCAGAG 57.435 33.333 23.06 0.00 37.15 3.35
2370 3029 7.708051 TCGTTGAAAATTTTCACATCTAACCA 58.292 30.769 28.78 12.36 45.99 3.67
2373 3032 7.381139 GGCTTCGTTGAAAATTTTCACATCTAA 59.619 33.333 28.78 18.63 45.99 2.10
2374 3033 6.861055 GGCTTCGTTGAAAATTTTCACATCTA 59.139 34.615 28.78 14.27 45.99 1.98
2375 3034 5.691754 GGCTTCGTTGAAAATTTTCACATCT 59.308 36.000 28.78 0.00 45.99 2.90
2380 3039 3.376540 CCGGCTTCGTTGAAAATTTTCA 58.623 40.909 26.01 26.01 44.78 2.69
2381 3040 2.729360 CCCGGCTTCGTTGAAAATTTTC 59.271 45.455 21.60 21.60 37.69 2.29
2382 3041 2.547007 CCCCGGCTTCGTTGAAAATTTT 60.547 45.455 2.28 2.28 0.00 1.82
2383 3042 1.000394 CCCCGGCTTCGTTGAAAATTT 60.000 47.619 0.00 0.00 0.00 1.82
2384 3043 0.601057 CCCCGGCTTCGTTGAAAATT 59.399 50.000 0.00 0.00 0.00 1.82
2385 3044 0.250989 TCCCCGGCTTCGTTGAAAAT 60.251 50.000 0.00 0.00 0.00 1.82
2386 3045 0.887387 CTCCCCGGCTTCGTTGAAAA 60.887 55.000 0.00 0.00 0.00 2.29
2403 4478 1.819288 TGTCATCGACAAGGTCTCCTC 59.181 52.381 0.00 0.00 39.78 3.71
2404 4479 1.821753 CTGTCATCGACAAGGTCTCCT 59.178 52.381 0.00 0.00 42.26 3.69
2427 4502 0.439985 CACATGCACGAAGACTTCCG 59.560 55.000 9.63 7.43 0.00 4.30
2430 4505 1.237285 GGGCACATGCACGAAGACTT 61.237 55.000 6.15 0.00 44.36 3.01
2431 4506 1.672356 GGGCACATGCACGAAGACT 60.672 57.895 6.15 0.00 44.36 3.24
2432 4507 2.870372 GGGCACATGCACGAAGAC 59.130 61.111 6.15 0.00 44.36 3.01
2438 4513 3.443045 CCTTCGGGGCACATGCAC 61.443 66.667 6.15 0.93 45.53 4.57
2439 4514 3.203086 TTCCTTCGGGGCACATGCA 62.203 57.895 6.15 0.00 44.36 3.96
2440 4515 2.361104 TTCCTTCGGGGCACATGC 60.361 61.111 0.00 0.00 41.14 4.06
2441 4516 0.893270 TTGTTCCTTCGGGGCACATG 60.893 55.000 0.00 0.00 35.37 3.21
2442 4517 0.893727 GTTGTTCCTTCGGGGCACAT 60.894 55.000 0.00 0.00 35.37 3.21
2443 4518 1.527380 GTTGTTCCTTCGGGGCACA 60.527 57.895 0.00 0.00 35.37 4.57
2444 4519 2.613506 CGTTGTTCCTTCGGGGCAC 61.614 63.158 0.00 0.00 35.37 5.01
2445 4520 2.281208 CGTTGTTCCTTCGGGGCA 60.281 61.111 0.00 0.00 35.37 5.36
2446 4521 3.733960 GCGTTGTTCCTTCGGGGC 61.734 66.667 0.00 0.00 35.37 5.80
2450 4525 0.882927 TTCAGGGCGTTGTTCCTTCG 60.883 55.000 0.00 0.00 0.00 3.79
2451 4526 0.591659 GTTCAGGGCGTTGTTCCTTC 59.408 55.000 0.00 0.00 0.00 3.46
2457 4532 0.756903 ACTACAGTTCAGGGCGTTGT 59.243 50.000 0.00 0.00 0.00 3.32
2460 4535 1.066858 CATGACTACAGTTCAGGGCGT 60.067 52.381 0.00 0.00 0.00 5.68
2471 4546 1.067142 GGACTCAACGGCATGACTACA 60.067 52.381 0.00 0.00 0.00 2.74
2473 4548 1.557099 AGGACTCAACGGCATGACTA 58.443 50.000 0.00 0.00 0.00 2.59
2478 4553 2.359900 GATTCAAGGACTCAACGGCAT 58.640 47.619 0.00 0.00 0.00 4.40
2481 4556 2.363788 TCGATTCAAGGACTCAACGG 57.636 50.000 0.00 0.00 0.00 4.44
2488 4564 4.568760 GGTTCTTCAGATCGATTCAAGGAC 59.431 45.833 0.00 7.04 0.00 3.85
2491 4567 5.290643 GTCAGGTTCTTCAGATCGATTCAAG 59.709 44.000 0.00 2.58 0.00 3.02
2529 4605 2.675889 CGAGGTTAGGGTTTGTACGCAT 60.676 50.000 0.00 0.00 39.53 4.73
2542 4618 1.450312 CTTGGGGCAGCGAGGTTAG 60.450 63.158 0.00 0.00 0.00 2.34
2558 4634 1.137872 CGTAGATTCCTGCCAGCTCTT 59.862 52.381 0.00 0.00 0.00 2.85
2577 4655 3.982475 TGTATTAGATGAAGCTCTGGCG 58.018 45.455 0.00 0.00 44.37 5.69
2580 4658 7.496920 TGTTGGAATGTATTAGATGAAGCTCTG 59.503 37.037 0.00 0.00 0.00 3.35
2582 4660 7.712639 TCTGTTGGAATGTATTAGATGAAGCTC 59.287 37.037 0.00 0.00 0.00 4.09
2585 4663 7.706607 TCGTCTGTTGGAATGTATTAGATGAAG 59.293 37.037 0.00 0.00 0.00 3.02
2589 4667 7.556844 AGTTCGTCTGTTGGAATGTATTAGAT 58.443 34.615 0.00 0.00 0.00 1.98
2595 4673 4.951254 TCAAGTTCGTCTGTTGGAATGTA 58.049 39.130 0.00 0.00 0.00 2.29
2605 4683 2.493675 TGATCCTCCTCAAGTTCGTCTG 59.506 50.000 0.00 0.00 0.00 3.51
2606 4684 2.808919 TGATCCTCCTCAAGTTCGTCT 58.191 47.619 0.00 0.00 0.00 4.18
2617 4695 3.517500 GTCTTCCTGTCTTTGATCCTCCT 59.482 47.826 0.00 0.00 0.00 3.69
2626 4704 5.129485 TCTTTGAGTCAGTCTTCCTGTCTTT 59.871 40.000 0.00 0.00 39.28 2.52
2627 4705 4.651503 TCTTTGAGTCAGTCTTCCTGTCTT 59.348 41.667 0.00 0.00 39.28 3.01
2632 4710 3.970640 ACCTTCTTTGAGTCAGTCTTCCT 59.029 43.478 0.00 0.00 0.00 3.36
2641 4719 1.869690 GGCGCACCTTCTTTGAGTC 59.130 57.895 10.83 0.00 0.00 3.36
2644 4722 3.353836 GCGGCGCACCTTCTTTGA 61.354 61.111 29.21 0.00 0.00 2.69
2682 4760 7.287512 AGATAGGTACGATTTTAGTCCTTCC 57.712 40.000 0.00 0.00 0.00 3.46
2683 4761 9.065798 AGTAGATAGGTACGATTTTAGTCCTTC 57.934 37.037 0.00 0.00 0.00 3.46
2684 4762 8.993404 AGTAGATAGGTACGATTTTAGTCCTT 57.007 34.615 0.00 0.00 0.00 3.36
2695 4775 2.899900 TCCCGCTAGTAGATAGGTACGA 59.100 50.000 0.00 0.00 31.55 3.43
2697 4777 4.332268 CGAATCCCGCTAGTAGATAGGTAC 59.668 50.000 0.00 0.00 31.55 3.34
2716 4796 3.810310 GAGAATCCTGGTGTCTCGAAT 57.190 47.619 11.70 0.00 0.00 3.34
2771 4852 0.470268 ATCCGTAGCTTCTCCTCCCC 60.470 60.000 0.00 0.00 0.00 4.81
2772 4853 0.963225 GATCCGTAGCTTCTCCTCCC 59.037 60.000 0.00 0.00 0.00 4.30
2796 4878 1.696097 TTGCTCCCTTCTATCCCCGC 61.696 60.000 0.00 0.00 0.00 6.13
2800 4882 1.135960 AGCCTTGCTCCCTTCTATCC 58.864 55.000 0.00 0.00 30.62 2.59
2807 4889 2.766660 GGGAAAGCCTTGCTCCCT 59.233 61.111 6.92 0.00 38.98 4.20


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

AutoCloner maintained by Alex Coulton.