Multiple sequence alignment - TraesCS6B01G272100

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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 TraesCS6B01G272100 chr6B 100.000 3440 0 0 1 3440 491529805 491533244 0.000000e+00 6353.0
1 TraesCS6B01G272100 chr6B 95.000 600 28 2 2841 3440 483634680 483634083 0.000000e+00 941.0
2 TraesCS6B01G272100 chr6B 94.667 600 30 2 2842 3440 151662895 151662297 0.000000e+00 929.0
3 TraesCS6B01G272100 chr6B 94.509 601 32 1 2841 3440 366757431 366756831 0.000000e+00 926.0
4 TraesCS6B01G272100 chr6B 91.630 227 19 0 1 227 201752403 201752177 7.170000e-82 315.0
5 TraesCS6B01G272100 chr6B 90.541 74 5 2 2202 2274 429705657 429705729 2.830000e-16 97.1
6 TraesCS6B01G272100 chr6B 100.000 28 0 0 936 963 433707906 433707879 6.000000e-03 52.8
7 TraesCS6B01G272100 chr7B 92.047 943 69 6 1 942 217443289 217444226 0.000000e+00 1321.0
8 TraesCS6B01G272100 chr7B 94.658 599 31 1 2842 3440 388562197 388562794 0.000000e+00 928.0
9 TraesCS6B01G272100 chr7B 85.965 684 79 11 261 938 276324061 276324733 0.000000e+00 715.0
10 TraesCS6B01G272100 chr7B 92.070 227 17 1 1 226 380992611 380992837 5.540000e-83 318.0
11 TraesCS6B01G272100 chr6D 91.941 943 68 5 1 939 272125746 272124808 0.000000e+00 1314.0
12 TraesCS6B01G272100 chr6D 88.596 684 64 9 261 939 249291388 249292062 0.000000e+00 819.0
13 TraesCS6B01G272100 chr6D 91.981 212 17 0 1 212 249290742 249290953 7.220000e-77 298.0
14 TraesCS6B01G272100 chr1B 88.571 945 95 8 1 940 102959976 102960912 0.000000e+00 1134.0
15 TraesCS6B01G272100 chr1B 88.646 687 61 10 261 939 207041619 207042296 0.000000e+00 821.0
16 TraesCS6B01G272100 chr1B 93.571 140 7 2 2699 2836 33175474 33175335 1.250000e-49 207.0
17 TraesCS6B01G272100 chr1B 91.503 153 8 2 2474 2621 184986799 184986647 4.500000e-49 206.0
18 TraesCS6B01G272100 chr1B 89.431 123 10 3 2130 2251 296054221 296054341 5.950000e-33 152.0
19 TraesCS6B01G272100 chr1B 90.541 74 5 2 2202 2274 29338408 29338336 2.830000e-16 97.1
20 TraesCS6B01G272100 chr1B 90.541 74 5 2 2202 2274 610359878 610359806 2.830000e-16 97.1
21 TraesCS6B01G272100 chr1B 95.000 40 2 0 931 970 225804807 225804846 2.870000e-06 63.9
22 TraesCS6B01G272100 chr4A 90.762 866 48 7 1816 2672 12377978 12378820 0.000000e+00 1127.0
23 TraesCS6B01G272100 chr4A 88.322 882 82 4 939 1819 12376914 12377775 0.000000e+00 1038.0
24 TraesCS6B01G272100 chr4A 96.094 128 4 1 2709 2836 12378769 12378895 1.250000e-49 207.0
25 TraesCS6B01G272100 chr3A 89.787 891 66 11 1816 2695 433951998 433952874 0.000000e+00 1118.0
26 TraesCS6B01G272100 chr3A 86.489 903 94 9 942 1817 433950892 433951793 0.000000e+00 966.0
27 TraesCS6B01G272100 chr3A 88.741 675 60 9 261 927 414272440 414273106 0.000000e+00 811.0
28 TraesCS6B01G272100 chr3A 85.397 315 27 9 1925 2227 692497007 692496700 3.330000e-80 309.0
29 TraesCS6B01G272100 chr3A 91.509 212 15 2 1 212 414271801 414272009 4.340000e-74 289.0
30 TraesCS6B01G272100 chr3A 95.312 128 6 0 2709 2836 433952799 433952926 1.620000e-48 204.0
31 TraesCS6B01G272100 chr3A 90.541 74 5 2 2202 2274 450704433 450704361 2.830000e-16 97.1
32 TraesCS6B01G272100 chr3A 96.970 33 0 1 931 963 657946235 657946266 2.000000e-03 54.7
33 TraesCS6B01G272100 chr3A 100.000 28 0 0 936 963 91478339 91478312 6.000000e-03 52.8
34 TraesCS6B01G272100 chr3A 100.000 28 0 0 936 963 614468422 614468449 6.000000e-03 52.8
35 TraesCS6B01G272100 chr3B 94.842 601 29 2 2841 3440 228927378 228926779 0.000000e+00 937.0
36 TraesCS6B01G272100 chr3B 94.658 599 32 0 2842 3440 685812069 685812667 0.000000e+00 929.0
37 TraesCS6B01G272100 chr3B 93.571 140 7 2 2699 2836 758897942 758897803 1.250000e-49 207.0
38 TraesCS6B01G272100 chr3B 92.683 41 3 0 937 977 758894472 758894512 3.710000e-05 60.2
39 TraesCS6B01G272100 chr5B 94.482 598 33 0 2843 3440 439807781 439807184 0.000000e+00 922.0
40 TraesCS6B01G272100 chr5B 94.333 600 34 0 2841 3440 647105582 647104983 0.000000e+00 920.0
41 TraesCS6B01G272100 chr2B 94.215 605 33 2 2837 3440 42936670 42937273 0.000000e+00 922.0
42 TraesCS6B01G272100 chr2B 93.373 166 11 0 224 389 309840981 309840816 2.650000e-61 246.0
43 TraesCS6B01G272100 chr2B 95.349 129 6 0 2708 2836 285211957 285212085 4.500000e-49 206.0
44 TraesCS6B01G272100 chr2B 96.774 93 3 0 2744 2836 376112294 376112386 4.600000e-34 156.0
45 TraesCS6B01G272100 chr2B 80.117 171 32 2 936 1105 285210101 285210270 3.600000e-25 126.0
46 TraesCS6B01G272100 chr2A 91.358 648 34 5 2019 2655 245822741 245822105 0.000000e+00 867.0
47 TraesCS6B01G272100 chr2A 89.524 525 53 2 1297 1819 245823623 245823099 0.000000e+00 664.0
48 TraesCS6B01G272100 chr2A 93.396 212 13 1 1 212 314403230 314403440 2.580000e-81 313.0
49 TraesCS6B01G272100 chr2A 93.571 140 7 2 2699 2836 726292001 726292140 1.250000e-49 207.0
50 TraesCS6B01G272100 chr2A 96.970 33 1 0 931 963 39252254 39252222 4.800000e-04 56.5
51 TraesCS6B01G272100 chr2D 88.889 684 63 8 261 939 340133840 340134515 0.000000e+00 830.0
52 TraesCS6B01G272100 chr4D 88.450 684 63 11 261 939 205840353 205841025 0.000000e+00 811.0
53 TraesCS6B01G272100 chr4D 90.521 211 19 1 1 211 161043908 161044117 9.400000e-71 278.0
54 TraesCS6B01G272100 chr3D 87.160 405 47 5 1417 1819 555333483 555333082 4.050000e-124 455.0
55 TraesCS6B01G272100 chr3D 86.590 261 18 7 1979 2227 555332896 555332641 4.370000e-69 272.0
56 TraesCS6B01G272100 chr3D 92.958 71 5 0 1926 1996 555332981 555332911 1.690000e-18 104.0
57 TraesCS6B01G272100 chr3D 94.595 37 1 1 927 963 570146915 570146950 4.800000e-04 56.5
58 TraesCS6B01G272100 chr3D 96.970 33 0 1 930 962 487231533 487231564 2.000000e-03 54.7
59 TraesCS6B01G272100 chr5A 91.503 153 8 2 2474 2621 584460967 584460815 4.500000e-49 206.0
60 TraesCS6B01G272100 chr5A 77.238 391 59 21 937 1310 584489773 584489396 5.820000e-48 202.0
61 TraesCS6B01G272100 chr5A 90.541 74 5 2 2202 2274 101252503 101252575 2.830000e-16 97.1
62 TraesCS6B01G272100 chr7D 92.908 141 8 2 2697 2836 277757347 277757486 1.620000e-48 204.0
63 TraesCS6B01G272100 chr1A 92.857 140 8 2 2699 2836 71838168 71838029 5.820000e-48 202.0
64 TraesCS6B01G272100 chr1A 80.695 259 32 12 2474 2727 360162598 360162353 5.860000e-43 185.0
65 TraesCS6B01G272100 chr6A 100.000 28 0 0 936 963 479996401 479996428 6.000000e-03 52.8


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 TraesCS6B01G272100 chr6B 491529805 491533244 3439 False 6353.000000 6353 100.000000 1 3440 1 chr6B.!!$F2 3439
1 TraesCS6B01G272100 chr6B 483634083 483634680 597 True 941.000000 941 95.000000 2841 3440 1 chr6B.!!$R5 599
2 TraesCS6B01G272100 chr6B 151662297 151662895 598 True 929.000000 929 94.667000 2842 3440 1 chr6B.!!$R1 598
3 TraesCS6B01G272100 chr6B 366756831 366757431 600 True 926.000000 926 94.509000 2841 3440 1 chr6B.!!$R3 599
4 TraesCS6B01G272100 chr7B 217443289 217444226 937 False 1321.000000 1321 92.047000 1 942 1 chr7B.!!$F1 941
5 TraesCS6B01G272100 chr7B 388562197 388562794 597 False 928.000000 928 94.658000 2842 3440 1 chr7B.!!$F4 598
6 TraesCS6B01G272100 chr7B 276324061 276324733 672 False 715.000000 715 85.965000 261 938 1 chr7B.!!$F2 677
7 TraesCS6B01G272100 chr6D 272124808 272125746 938 True 1314.000000 1314 91.941000 1 939 1 chr6D.!!$R1 938
8 TraesCS6B01G272100 chr6D 249290742 249292062 1320 False 558.500000 819 90.288500 1 939 2 chr6D.!!$F1 938
9 TraesCS6B01G272100 chr1B 102959976 102960912 936 False 1134.000000 1134 88.571000 1 940 1 chr1B.!!$F1 939
10 TraesCS6B01G272100 chr1B 207041619 207042296 677 False 821.000000 821 88.646000 261 939 1 chr1B.!!$F2 678
11 TraesCS6B01G272100 chr4A 12376914 12378895 1981 False 790.666667 1127 91.726000 939 2836 3 chr4A.!!$F1 1897
12 TraesCS6B01G272100 chr3A 433950892 433952926 2034 False 762.666667 1118 90.529333 942 2836 3 chr3A.!!$F4 1894
13 TraesCS6B01G272100 chr3A 414271801 414273106 1305 False 550.000000 811 90.125000 1 927 2 chr3A.!!$F3 926
14 TraesCS6B01G272100 chr3B 228926779 228927378 599 True 937.000000 937 94.842000 2841 3440 1 chr3B.!!$R1 599
15 TraesCS6B01G272100 chr3B 685812069 685812667 598 False 929.000000 929 94.658000 2842 3440 1 chr3B.!!$F1 598
16 TraesCS6B01G272100 chr5B 439807184 439807781 597 True 922.000000 922 94.482000 2843 3440 1 chr5B.!!$R1 597
17 TraesCS6B01G272100 chr5B 647104983 647105582 599 True 920.000000 920 94.333000 2841 3440 1 chr5B.!!$R2 599
18 TraesCS6B01G272100 chr2B 42936670 42937273 603 False 922.000000 922 94.215000 2837 3440 1 chr2B.!!$F1 603
19 TraesCS6B01G272100 chr2A 245822105 245823623 1518 True 765.500000 867 90.441000 1297 2655 2 chr2A.!!$R2 1358
20 TraesCS6B01G272100 chr2D 340133840 340134515 675 False 830.000000 830 88.889000 261 939 1 chr2D.!!$F1 678
21 TraesCS6B01G272100 chr4D 205840353 205841025 672 False 811.000000 811 88.450000 261 939 1 chr4D.!!$F2 678
22 TraesCS6B01G272100 chr3D 555332641 555333483 842 True 277.000000 455 88.902667 1417 2227 3 chr3D.!!$R1 810

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
824 1232 0.409092 TTGGTGCATGGAAGGTGGAT 59.591 50.0 0.0 0.0 0.0 3.41 F
1058 1466 0.033781 TCGGGGACACGGTAACAAAG 59.966 55.0 0.0 0.0 0.0 2.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1742 2179 0.821711 CGTAGAGAGGGAGCCTGAGG 60.822 65.0 0.0 0.0 31.76 3.86 R
3031 3752 0.034186 GCACACTCCAATCCCATCCA 60.034 55.0 0.0 0.0 0.00 3.41 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
108 109 1.302033 CTCTGAAACACGGCAGCCT 60.302 57.895 10.54 0.00 32.27 4.58
163 164 5.052693 TGCTATCACCATATTTCTTGGCT 57.947 39.130 0.00 0.00 37.81 4.75
178 179 3.414700 GCTTCCGTGCGACACCTG 61.415 66.667 4.73 0.00 0.00 4.00
185 186 1.292223 GTGCGACACCTGGCTCTAA 59.708 57.895 0.00 0.00 0.00 2.10
212 213 1.736586 CAGCCCGTATCGCTTCTCT 59.263 57.895 0.00 0.00 33.17 3.10
227 235 5.123186 TCGCTTCTCTTCTCTCTCAAAGTAG 59.877 44.000 0.00 0.00 0.00 2.57
231 622 7.627726 GCTTCTCTTCTCTCTCAAAGTAGTACC 60.628 44.444 0.00 0.00 0.00 3.34
345 736 5.716094 TCATTCGAAGATCCTTTCACGTAA 58.284 37.500 3.35 0.00 35.04 3.18
485 879 6.833041 TCTAGTAGTTCATTGGTTGGTTTCA 58.167 36.000 0.00 0.00 0.00 2.69
492 886 7.984391 AGTTCATTGGTTGGTTTCAATTTTTC 58.016 30.769 0.00 0.00 35.10 2.29
546 940 1.145803 GCTACCGTCCAATATTCGCC 58.854 55.000 0.00 0.00 0.00 5.54
550 944 1.217882 CCGTCCAATATTCGCCTGTC 58.782 55.000 0.00 0.00 0.00 3.51
554 948 1.206132 TCCAATATTCGCCTGTCGTGT 59.794 47.619 0.00 0.00 39.67 4.49
557 951 3.485216 CCAATATTCGCCTGTCGTGTTTC 60.485 47.826 0.00 0.00 39.67 2.78
558 952 2.736144 TATTCGCCTGTCGTGTTTCT 57.264 45.000 0.00 0.00 39.67 2.52
559 953 2.736144 ATTCGCCTGTCGTGTTTCTA 57.264 45.000 0.00 0.00 39.67 2.10
560 954 2.060326 TTCGCCTGTCGTGTTTCTAG 57.940 50.000 0.00 0.00 39.67 2.43
563 957 2.230508 TCGCCTGTCGTGTTTCTAGAAT 59.769 45.455 5.89 0.00 39.67 2.40
613 1009 3.222603 GGAAAGGTGAAGTGATGGTTGT 58.777 45.455 0.00 0.00 0.00 3.32
640 1039 2.866762 CCGAGCAACTTATTACTCTGGC 59.133 50.000 0.00 0.00 0.00 4.85
695 1095 5.125097 AGTGAAATGATGGTTGCTTCATCTC 59.875 40.000 12.91 6.00 41.01 2.75
782 1184 1.882352 GCAACGACCAGGGTGAATCTT 60.882 52.381 0.00 0.00 0.00 2.40
785 1187 0.460284 CGACCAGGGTGAATCTTCCG 60.460 60.000 0.00 0.00 0.00 4.30
804 1212 4.141883 GCAGTTGTGCGCTCAATG 57.858 55.556 25.67 22.50 40.71 2.82
824 1232 0.409092 TTGGTGCATGGAAGGTGGAT 59.591 50.000 0.00 0.00 0.00 3.41
881 1289 6.653320 ACGAAGTTGAATGGTTTCTAGCATTA 59.347 34.615 2.90 0.00 45.47 1.90
958 1366 2.256117 ACTCCCTCCGTTCACTTTTG 57.744 50.000 0.00 0.00 0.00 2.44
965 1373 2.875933 CTCCGTTCACTTTTGTAAGGCA 59.124 45.455 0.00 0.00 35.61 4.75
990 1398 5.637810 CGGAGCAAAATCTAGTACAAACTCA 59.362 40.000 0.00 0.00 37.15 3.41
1000 1408 0.038892 TACAAACTCACTCGGTCGCC 60.039 55.000 0.00 0.00 0.00 5.54
1032 1440 3.307059 CGCATTTTCCATTTTTACCCCCA 60.307 43.478 0.00 0.00 0.00 4.96
1053 1461 3.372730 CGGTCGGGGACACGGTAA 61.373 66.667 0.00 0.00 33.68 2.85
1058 1466 0.033781 TCGGGGACACGGTAACAAAG 59.966 55.000 0.00 0.00 0.00 2.77
1063 1471 1.944709 GGACACGGTAACAAAGCACTT 59.055 47.619 0.00 0.00 0.00 3.16
1072 1480 2.584835 ACAAAGCACTTGCATCCCTA 57.415 45.000 3.62 0.00 45.16 3.53
1082 1490 2.364972 TGCATCCCTATCTCACTCGA 57.635 50.000 0.00 0.00 0.00 4.04
1112 1520 0.749049 CATCTCTCCCTCACGCATCA 59.251 55.000 0.00 0.00 0.00 3.07
1224 1632 3.490759 CGCGTCGCCAATGCTCTT 61.491 61.111 12.44 0.00 37.78 2.85
1240 1674 6.999705 ATGCTCTTTTCCTCTCATATCTCT 57.000 37.500 0.00 0.00 0.00 3.10
1370 1804 1.209019 CCTGAATCTGGTAGCTGCACT 59.791 52.381 3.61 0.00 0.00 4.40
1372 1806 1.625315 TGAATCTGGTAGCTGCACTGT 59.375 47.619 3.61 0.00 0.00 3.55
1410 1845 0.822121 GGGACCGCTTGTTGGTTTCT 60.822 55.000 0.00 0.00 40.63 2.52
1415 1850 1.069227 CCGCTTGTTGGTTTCTGCTAC 60.069 52.381 0.00 0.00 0.00 3.58
1478 1914 1.077357 GAGGAGAGGCGACTGGAGA 60.077 63.158 0.00 0.00 44.43 3.71
1484 1920 1.954362 GAGGCGACTGGAGATGCACT 61.954 60.000 0.00 0.00 44.43 4.40
1513 1949 0.244721 TGCGTGTGTCTCATCCTCAG 59.755 55.000 0.00 0.00 0.00 3.35
1515 1951 0.244721 CGTGTGTCTCATCCTCAGCA 59.755 55.000 0.00 0.00 0.00 4.41
1561 1997 2.993471 GCCACACCCTCGCCATTTG 61.993 63.158 0.00 0.00 0.00 2.32
1563 1999 1.973281 CACACCCTCGCCATTTGCT 60.973 57.895 0.00 0.00 38.05 3.91
1624 2061 2.744202 GCAGAGGTATGTGTTCCACTTG 59.256 50.000 0.00 0.00 35.11 3.16
1679 2116 4.154195 TCCGATTAAGCAAGCAAGTTCTTC 59.846 41.667 0.00 0.00 0.00 2.87
1681 2118 5.084722 CGATTAAGCAAGCAAGTTCTTCTG 58.915 41.667 0.00 0.00 0.00 3.02
1698 2135 4.580167 TCTTCTGTGTTCCATTCTTTGTGG 59.420 41.667 0.00 0.00 38.11 4.17
1702 2139 5.004922 TGTGTTCCATTCTTTGTGGTTTC 57.995 39.130 0.00 0.00 37.96 2.78
1713 2150 3.500448 TTGTGGTTTCCAGATACAGCA 57.500 42.857 0.00 0.00 32.34 4.41
1742 2179 2.093341 TCCCAGCTCCACGTAAATTACC 60.093 50.000 0.00 0.00 0.00 2.85
1744 2181 2.093128 CCAGCTCCACGTAAATTACCCT 60.093 50.000 0.00 0.00 0.00 4.34
1746 2183 2.835764 AGCTCCACGTAAATTACCCTCA 59.164 45.455 0.00 0.00 0.00 3.86
1754 2192 1.987080 AAATTACCCTCAGGCTCCCT 58.013 50.000 0.00 0.00 36.11 4.20
1782 2221 8.742777 TCTACGTAATTCTTCTTGCTTAACCTA 58.257 33.333 0.00 0.00 0.00 3.08
1831 2476 1.170442 TACTGAATGAGACGGCGACA 58.830 50.000 16.62 11.31 0.00 4.35
1838 2483 3.509137 GAGACGGCGACACCACCAA 62.509 63.158 16.62 0.00 39.03 3.67
1862 2507 1.195442 TGAATCACCGCCCACCACTA 61.195 55.000 0.00 0.00 0.00 2.74
1878 2523 2.354203 CCACTACCACAAGAGGCTTCTC 60.354 54.545 0.00 0.00 37.79 2.87
1902 2547 2.503356 CCCAGGTTGCTATCTTCTCACT 59.497 50.000 0.00 0.00 0.00 3.41
1903 2548 3.054802 CCCAGGTTGCTATCTTCTCACTT 60.055 47.826 0.00 0.00 0.00 3.16
1921 2566 1.000938 CTTCACCTGCACCTGCTTTTC 60.001 52.381 0.00 0.00 42.66 2.29
1959 2604 9.998106 ATAAATTGGTCGATATAAAGTGTAGCT 57.002 29.630 0.00 0.00 0.00 3.32
1991 2668 7.766278 AGTTGCTTGATATAAAGTGTACTCCAG 59.234 37.037 1.65 0.00 0.00 3.86
2091 2772 5.439721 TGTTTTGCATAGCCTAGATGTGAT 58.560 37.500 0.00 0.00 0.00 3.06
2123 2810 9.152327 TGGCATTCCATAACCAATTGAATAATA 57.848 29.630 7.12 0.00 37.47 0.98
2258 2958 8.281212 TCCTATTCTTGGAGTAAAAATTCAGC 57.719 34.615 0.00 0.00 0.00 4.26
2259 2959 8.109634 TCCTATTCTTGGAGTAAAAATTCAGCT 58.890 33.333 0.00 0.00 0.00 4.24
2260 2960 9.396022 CCTATTCTTGGAGTAAAAATTCAGCTA 57.604 33.333 0.00 0.00 0.00 3.32
2297 2997 9.578439 AAAGAGCTTTGCATCTATGTTTTATTC 57.422 29.630 0.00 0.00 0.00 1.75
2307 3019 7.761249 GCATCTATGTTTTATTCCAAGCAAGTT 59.239 33.333 0.00 0.00 0.00 2.66
2308 3020 9.643693 CATCTATGTTTTATTCCAAGCAAGTTT 57.356 29.630 0.00 0.00 0.00 2.66
2309 3021 9.643693 ATCTATGTTTTATTCCAAGCAAGTTTG 57.356 29.630 0.00 0.00 0.00 2.93
2334 3046 6.587226 GCATCTCTGTTTGCATCACATTTTTA 59.413 34.615 0.00 0.00 38.72 1.52
2471 3183 8.212259 ACTGGAGTATATATTCTTTGCCTCAT 57.788 34.615 5.35 0.00 0.00 2.90
2620 3337 4.695455 AGCACACACATAAACACATACTCC 59.305 41.667 0.00 0.00 0.00 3.85
2621 3338 4.454161 GCACACACATAAACACATACTCCA 59.546 41.667 0.00 0.00 0.00 3.86
2622 3339 5.390885 GCACACACATAAACACATACTCCAG 60.391 44.000 0.00 0.00 0.00 3.86
2623 3340 4.695455 ACACACATAAACACATACTCCAGC 59.305 41.667 0.00 0.00 0.00 4.85
2624 3341 4.694982 CACACATAAACACATACTCCAGCA 59.305 41.667 0.00 0.00 0.00 4.41
2625 3342 5.181056 CACACATAAACACATACTCCAGCAA 59.819 40.000 0.00 0.00 0.00 3.91
2626 3343 5.767665 ACACATAAACACATACTCCAGCAAA 59.232 36.000 0.00 0.00 0.00 3.68
2627 3344 6.086222 CACATAAACACATACTCCAGCAAAC 58.914 40.000 0.00 0.00 0.00 2.93
2628 3345 5.767665 ACATAAACACATACTCCAGCAAACA 59.232 36.000 0.00 0.00 0.00 2.83
2629 3346 6.264292 ACATAAACACATACTCCAGCAAACAA 59.736 34.615 0.00 0.00 0.00 2.83
2630 3347 4.836125 AACACATACTCCAGCAAACAAG 57.164 40.909 0.00 0.00 0.00 3.16
2631 3348 4.085357 ACACATACTCCAGCAAACAAGA 57.915 40.909 0.00 0.00 0.00 3.02
2632 3349 4.067896 ACACATACTCCAGCAAACAAGAG 58.932 43.478 0.00 0.00 0.00 2.85
2633 3350 4.067896 CACATACTCCAGCAAACAAGAGT 58.932 43.478 0.00 0.00 42.13 3.24
2634 3351 5.221641 ACACATACTCCAGCAAACAAGAGTA 60.222 40.000 1.57 1.57 43.80 2.59
2635 3352 5.349817 CACATACTCCAGCAAACAAGAGTAG 59.650 44.000 5.15 1.27 43.14 2.57
2636 3353 5.246203 ACATACTCCAGCAAACAAGAGTAGA 59.754 40.000 5.15 0.00 43.14 2.59
2637 3354 4.689612 ACTCCAGCAAACAAGAGTAGAA 57.310 40.909 0.00 0.00 37.81 2.10
2638 3355 5.234466 ACTCCAGCAAACAAGAGTAGAAT 57.766 39.130 0.00 0.00 37.81 2.40
2639 3356 6.360370 ACTCCAGCAAACAAGAGTAGAATA 57.640 37.500 0.00 0.00 37.81 1.75
2640 3357 6.166982 ACTCCAGCAAACAAGAGTAGAATAC 58.833 40.000 0.00 0.00 43.47 1.89
2641 3358 6.109156 TCCAGCAAACAAGAGTAGAATACA 57.891 37.500 0.00 0.00 46.26 2.29
2642 3359 5.932303 TCCAGCAAACAAGAGTAGAATACAC 59.068 40.000 0.00 0.00 46.26 2.90
2643 3360 5.700832 CCAGCAAACAAGAGTAGAATACACA 59.299 40.000 0.00 0.00 46.26 3.72
2644 3361 6.204688 CCAGCAAACAAGAGTAGAATACACAA 59.795 38.462 0.00 0.00 46.26 3.33
2645 3362 7.072030 CAGCAAACAAGAGTAGAATACACAAC 58.928 38.462 0.00 0.00 46.26 3.32
2646 3363 6.765989 AGCAAACAAGAGTAGAATACACAACA 59.234 34.615 0.00 0.00 46.26 3.33
2647 3364 7.282224 AGCAAACAAGAGTAGAATACACAACAA 59.718 33.333 0.00 0.00 46.26 2.83
2648 3365 7.587757 GCAAACAAGAGTAGAATACACAACAAG 59.412 37.037 0.00 0.00 46.26 3.16
2649 3366 8.612619 CAAACAAGAGTAGAATACACAACAAGT 58.387 33.333 0.00 0.00 46.26 3.16
2650 3367 9.826574 AAACAAGAGTAGAATACACAACAAGTA 57.173 29.630 0.00 0.00 46.26 2.24
2651 3368 8.813643 ACAAGAGTAGAATACACAACAAGTAC 57.186 34.615 0.00 0.00 46.26 2.73
2652 3369 8.418662 ACAAGAGTAGAATACACAACAAGTACA 58.581 33.333 0.00 0.00 46.26 2.90
2653 3370 8.700644 CAAGAGTAGAATACACAACAAGTACAC 58.299 37.037 0.00 0.00 46.26 2.90
2654 3371 7.948357 AGAGTAGAATACACAACAAGTACACA 58.052 34.615 0.00 0.00 46.26 3.72
2655 3372 8.585881 AGAGTAGAATACACAACAAGTACACAT 58.414 33.333 0.00 0.00 46.26 3.21
2656 3373 9.850628 GAGTAGAATACACAACAAGTACACATA 57.149 33.333 0.00 0.00 46.26 2.29
2657 3374 9.856488 AGTAGAATACACAACAAGTACACATAG 57.144 33.333 0.00 0.00 46.26 2.23
2658 3375 9.850628 GTAGAATACACAACAAGTACACATAGA 57.149 33.333 0.00 0.00 42.43 1.98
2660 3377 9.424319 AGAATACACAACAAGTACACATAGAAG 57.576 33.333 0.00 0.00 0.00 2.85
2661 3378 9.419297 GAATACACAACAAGTACACATAGAAGA 57.581 33.333 0.00 0.00 0.00 2.87
2662 3379 8.758633 ATACACAACAAGTACACATAGAAGAC 57.241 34.615 0.00 0.00 0.00 3.01
2663 3380 6.578944 ACACAACAAGTACACATAGAAGACA 58.421 36.000 0.00 0.00 0.00 3.41
2664 3381 6.479001 ACACAACAAGTACACATAGAAGACAC 59.521 38.462 0.00 0.00 0.00 3.67
2665 3382 6.478673 CACAACAAGTACACATAGAAGACACA 59.521 38.462 0.00 0.00 0.00 3.72
2666 3383 7.011016 CACAACAAGTACACATAGAAGACACAA 59.989 37.037 0.00 0.00 0.00 3.33
2667 3384 7.011109 ACAACAAGTACACATAGAAGACACAAC 59.989 37.037 0.00 0.00 0.00 3.32
2668 3385 6.578944 ACAAGTACACATAGAAGACACAACA 58.421 36.000 0.00 0.00 0.00 3.33
2669 3386 7.045416 ACAAGTACACATAGAAGACACAACAA 58.955 34.615 0.00 0.00 0.00 2.83
2670 3387 7.551262 ACAAGTACACATAGAAGACACAACAAA 59.449 33.333 0.00 0.00 0.00 2.83
2671 3388 7.478520 AGTACACATAGAAGACACAACAAAC 57.521 36.000 0.00 0.00 0.00 2.93
2672 3389 5.751243 ACACATAGAAGACACAACAAACC 57.249 39.130 0.00 0.00 0.00 3.27
2673 3390 4.272504 ACACATAGAAGACACAACAAACCG 59.727 41.667 0.00 0.00 0.00 4.44
2674 3391 4.509970 CACATAGAAGACACAACAAACCGA 59.490 41.667 0.00 0.00 0.00 4.69
2675 3392 5.007234 CACATAGAAGACACAACAAACCGAA 59.993 40.000 0.00 0.00 0.00 4.30
2676 3393 5.236478 ACATAGAAGACACAACAAACCGAAG 59.764 40.000 0.00 0.00 0.00 3.79
2677 3394 3.606687 AGAAGACACAACAAACCGAAGT 58.393 40.909 0.00 0.00 0.00 3.01
2678 3395 4.761975 AGAAGACACAACAAACCGAAGTA 58.238 39.130 0.00 0.00 0.00 2.24
2679 3396 5.180271 AGAAGACACAACAAACCGAAGTAA 58.820 37.500 0.00 0.00 0.00 2.24
2680 3397 5.644636 AGAAGACACAACAAACCGAAGTAAA 59.355 36.000 0.00 0.00 0.00 2.01
2681 3398 5.883503 AGACACAACAAACCGAAGTAAAA 57.116 34.783 0.00 0.00 0.00 1.52
2682 3399 6.445357 AGACACAACAAACCGAAGTAAAAT 57.555 33.333 0.00 0.00 0.00 1.82
2683 3400 7.556733 AGACACAACAAACCGAAGTAAAATA 57.443 32.000 0.00 0.00 0.00 1.40
2684 3401 7.987649 AGACACAACAAACCGAAGTAAAATAA 58.012 30.769 0.00 0.00 0.00 1.40
2685 3402 8.460428 AGACACAACAAACCGAAGTAAAATAAA 58.540 29.630 0.00 0.00 0.00 1.40
2686 3403 8.397215 ACACAACAAACCGAAGTAAAATAAAC 57.603 30.769 0.00 0.00 0.00 2.01
2687 3404 8.027771 ACACAACAAACCGAAGTAAAATAAACA 58.972 29.630 0.00 0.00 0.00 2.83
2688 3405 8.861101 CACAACAAACCGAAGTAAAATAAACAA 58.139 29.630 0.00 0.00 0.00 2.83
2689 3406 8.862074 ACAACAAACCGAAGTAAAATAAACAAC 58.138 29.630 0.00 0.00 0.00 3.32
2690 3407 8.861101 CAACAAACCGAAGTAAAATAAACAACA 58.139 29.630 0.00 0.00 0.00 3.33
2691 3408 8.983307 ACAAACCGAAGTAAAATAAACAACAA 57.017 26.923 0.00 0.00 0.00 2.83
2692 3409 9.078753 ACAAACCGAAGTAAAATAAACAACAAG 57.921 29.630 0.00 0.00 0.00 3.16
2693 3410 7.688478 AACCGAAGTAAAATAAACAACAAGC 57.312 32.000 0.00 0.00 0.00 4.01
2694 3411 6.797454 ACCGAAGTAAAATAAACAACAAGCA 58.203 32.000 0.00 0.00 0.00 3.91
2695 3412 6.693978 ACCGAAGTAAAATAAACAACAAGCAC 59.306 34.615 0.00 0.00 0.00 4.40
2696 3413 6.693545 CCGAAGTAAAATAAACAACAAGCACA 59.306 34.615 0.00 0.00 0.00 4.57
2697 3414 7.305763 CCGAAGTAAAATAAACAACAAGCACAC 60.306 37.037 0.00 0.00 0.00 3.82
2698 3415 7.219154 CGAAGTAAAATAAACAACAAGCACACA 59.781 33.333 0.00 0.00 0.00 3.72
2699 3416 7.749539 AGTAAAATAAACAACAAGCACACAC 57.250 32.000 0.00 0.00 0.00 3.82
2700 3417 7.316640 AGTAAAATAAACAACAAGCACACACA 58.683 30.769 0.00 0.00 0.00 3.72
2701 3418 6.645700 AAAATAAACAACAAGCACACACAG 57.354 33.333 0.00 0.00 0.00 3.66
2702 3419 5.574891 AATAAACAACAAGCACACACAGA 57.425 34.783 0.00 0.00 0.00 3.41
2703 3420 3.932545 AAACAACAAGCACACACAGAA 57.067 38.095 0.00 0.00 0.00 3.02
2704 3421 3.492421 AACAACAAGCACACACAGAAG 57.508 42.857 0.00 0.00 0.00 2.85
2705 3422 2.710377 ACAACAAGCACACACAGAAGA 58.290 42.857 0.00 0.00 0.00 2.87
2706 3423 2.420022 ACAACAAGCACACACAGAAGAC 59.580 45.455 0.00 0.00 0.00 3.01
2707 3424 2.401583 ACAAGCACACACAGAAGACA 57.598 45.000 0.00 0.00 0.00 3.41
2743 3460 7.817962 GGAGTAGAATACACAACAAGTACACAT 59.182 37.037 0.00 0.00 46.26 3.21
2847 3564 1.505425 GGCGGTAGACGTTTGAAAGT 58.495 50.000 0.00 0.00 46.52 2.66
2870 3587 2.838813 TCGAGAAGAGGTGTCTAGAGGA 59.161 50.000 0.00 0.00 30.45 3.71
2871 3588 3.456644 TCGAGAAGAGGTGTCTAGAGGAT 59.543 47.826 0.00 0.00 30.45 3.24
2875 3593 1.044611 GAGGTGTCTAGAGGATGGGC 58.955 60.000 0.00 0.00 0.00 5.36
2941 3661 5.869649 AAGTTTAAGTGGAGTTTTGGCAT 57.130 34.783 0.00 0.00 0.00 4.40
2993 3713 5.998553 CAAGCATGCAAAGAGTATATGAGG 58.001 41.667 21.98 0.00 0.00 3.86
2996 3716 5.071519 AGCATGCAAAGAGTATATGAGGAGT 59.928 40.000 21.98 0.00 0.00 3.85
3061 3782 1.268999 TGGAGTGTGCAAACGCAATTC 60.269 47.619 13.11 0.00 42.17 2.17
3109 3830 4.663334 TCTGATAGGTGGTGCTATCGTAT 58.337 43.478 0.00 0.00 35.84 3.06
3123 3844 5.182380 TGCTATCGTATATCCACGTTGATGA 59.818 40.000 12.15 1.56 42.51 2.92
3264 3987 4.537751 CCTCACTAGGGTAGATCTTCACA 58.462 47.826 0.00 0.00 39.48 3.58
3377 4100 4.841246 AGACACCACTCTCCAAGAAGTAAT 59.159 41.667 0.00 0.00 0.00 1.89
3413 4136 4.090761 TGATGAACTCCTTGCTCTTGTT 57.909 40.909 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
69 70 4.798882 AGGTCTACTAGATGTGGAGAAGG 58.201 47.826 0.00 0.00 36.83 3.46
108 109 7.214381 GGCCATGTATGATGTAAACTACACTA 58.786 38.462 0.00 0.00 42.23 2.74
163 164 4.980805 GCCAGGTGTCGCACGGAA 62.981 66.667 7.65 0.00 34.83 4.30
178 179 2.553247 GGGCTGGTGGATTATTAGAGCC 60.553 54.545 0.00 0.00 43.19 4.70
185 186 1.275291 CGATACGGGCTGGTGGATTAT 59.725 52.381 0.00 0.00 0.00 1.28
212 213 4.045590 AGGGGGTACTACTTTGAGAGAGAA 59.954 45.833 0.00 0.00 0.00 2.87
227 235 2.044758 ACGTATGGATGAAGGGGGTAC 58.955 52.381 0.00 0.00 0.00 3.34
231 622 7.178628 CCCTATATATACGTATGGATGAAGGGG 59.821 44.444 18.37 13.61 0.00 4.79
345 736 4.614535 GCTCAAAGCATGTCGTCAATTTCT 60.615 41.667 0.00 0.00 41.89 2.52
580 976 7.042335 CACTTCACCTTTCCCATAGTAAGTAG 58.958 42.308 0.00 0.00 0.00 2.57
613 1009 4.813027 AGTAATAAGTTGCTCGGACGAAA 58.187 39.130 0.00 0.00 0.00 3.46
640 1039 3.469008 TCCGCTGGTACTCCAATATTG 57.531 47.619 8.58 8.58 43.81 1.90
695 1095 2.549754 CCTTCACCACAGTAAGTTGCTG 59.450 50.000 18.20 18.20 39.67 4.41
782 1184 4.908687 AGCGCACAACTGCACGGA 62.909 61.111 11.47 0.00 44.50 4.69
785 1187 1.000233 CATTGAGCGCACAACTGCAC 61.000 55.000 22.45 0.00 44.50 4.57
797 1203 0.889994 TCCATGCACCAACATTGAGC 59.110 50.000 0.00 0.00 0.00 4.26
804 1212 0.539438 TCCACCTTCCATGCACCAAC 60.539 55.000 0.00 0.00 0.00 3.77
824 1232 0.326143 TGGGACATCCTTCATCCGGA 60.326 55.000 6.61 6.61 36.20 5.14
958 1366 2.084546 AGATTTTGCTCCGTGCCTTAC 58.915 47.619 0.00 0.00 42.00 2.34
965 1373 5.548406 AGTTTGTACTAGATTTTGCTCCGT 58.452 37.500 0.00 0.00 31.21 4.69
1000 1408 2.208431 TGGAAAATGCGCTTTTTGTGG 58.792 42.857 31.21 0.00 37.18 4.17
1013 1421 5.337975 CGACATGGGGGTAAAAATGGAAAAT 60.338 40.000 0.00 0.00 0.00 1.82
1032 1440 3.755628 CGTGTCCCCGACCGACAT 61.756 66.667 3.11 0.00 41.99 3.06
1053 1461 2.584835 TAGGGATGCAAGTGCTTTGT 57.415 45.000 4.69 0.00 42.66 2.83
1058 1466 2.158842 AGTGAGATAGGGATGCAAGTGC 60.159 50.000 0.00 0.00 42.50 4.40
1063 1471 2.158608 TCTCGAGTGAGATAGGGATGCA 60.159 50.000 13.13 0.00 46.25 3.96
1082 1490 1.040339 GGAGAGATGCGGGTGAGTCT 61.040 60.000 0.00 0.00 0.00 3.24
1129 1537 3.071206 TGAGAGAGGGCGAGGCAC 61.071 66.667 0.00 0.00 0.00 5.01
1131 1539 3.844090 GGTGAGAGAGGGCGAGGC 61.844 72.222 0.00 0.00 0.00 4.70
1213 1621 2.440409 TGAGAGGAAAAGAGCATTGGC 58.560 47.619 0.00 0.00 41.61 4.52
1216 1624 7.147514 ACAGAGATATGAGAGGAAAAGAGCATT 60.148 37.037 0.00 0.00 0.00 3.56
1217 1625 6.327104 ACAGAGATATGAGAGGAAAAGAGCAT 59.673 38.462 0.00 0.00 0.00 3.79
1218 1626 5.660417 ACAGAGATATGAGAGGAAAAGAGCA 59.340 40.000 0.00 0.00 0.00 4.26
1224 1632 4.958581 TGCAGACAGAGATATGAGAGGAAA 59.041 41.667 0.00 0.00 0.00 3.13
1240 1674 9.956640 AAAATCCCATTTTTAAATATGCAGACA 57.043 25.926 11.81 0.00 39.28 3.41
1292 1726 2.581354 GCAGATCGAGCACCACCT 59.419 61.111 2.38 0.00 0.00 4.00
1311 1745 1.293498 CGACCACCAGTAGCAGCTT 59.707 57.895 0.00 0.00 0.00 3.74
1352 1786 1.625315 ACAGTGCAGCTACCAGATTCA 59.375 47.619 0.00 0.00 0.00 2.57
1354 1788 3.099905 TCTACAGTGCAGCTACCAGATT 58.900 45.455 0.00 0.00 0.00 2.40
1370 1804 4.323028 CCCAGCTCAAGAAGAACATCTACA 60.323 45.833 0.00 0.00 0.00 2.74
1372 1806 4.081420 GTCCCAGCTCAAGAAGAACATCTA 60.081 45.833 0.00 0.00 0.00 1.98
1410 1845 0.978146 GCCTCCTCCCTCTTGTAGCA 60.978 60.000 0.00 0.00 0.00 3.49
1415 1850 1.333636 ACATCGCCTCCTCCCTCTTG 61.334 60.000 0.00 0.00 0.00 3.02
1473 1909 2.265739 GACGCCAGTGCATCTCCA 59.734 61.111 0.00 0.00 37.32 3.86
1478 1914 2.433145 CAGTCGACGCCAGTGCAT 60.433 61.111 10.46 0.00 37.32 3.96
1498 1934 1.928868 TCTGCTGAGGATGAGACACA 58.071 50.000 0.00 0.00 0.00 3.72
1502 1938 1.895798 ACGTTTCTGCTGAGGATGAGA 59.104 47.619 0.00 0.00 0.00 3.27
1513 1949 2.556287 CGAAGGGCACGTTTCTGC 59.444 61.111 0.00 0.00 36.18 4.26
1561 1997 1.228552 TTGCAGACCTTGGGGAAGC 60.229 57.895 0.00 0.00 36.25 3.86
1563 1999 0.110486 GACTTGCAGACCTTGGGGAA 59.890 55.000 0.00 0.00 36.25 3.97
1624 2061 4.560128 GTTCCCTGAAAAGAAATTGCTCC 58.440 43.478 0.00 0.00 0.00 4.70
1655 2092 4.072131 AGAACTTGCTTGCTTAATCGGAA 58.928 39.130 0.00 0.00 0.00 4.30
1698 2135 1.804151 TGCGTTGCTGTATCTGGAAAC 59.196 47.619 0.00 0.00 0.00 2.78
1702 2139 2.223340 GGATTTGCGTTGCTGTATCTGG 60.223 50.000 0.00 0.00 0.00 3.86
1713 2150 1.074775 TGGAGCTGGGATTTGCGTT 59.925 52.632 0.00 0.00 0.00 4.84
1742 2179 0.821711 CGTAGAGAGGGAGCCTGAGG 60.822 65.000 0.00 0.00 31.76 3.86
1744 2181 1.210538 TACGTAGAGAGGGAGCCTGA 58.789 55.000 0.00 0.00 31.76 3.86
1746 2183 3.117436 AGAATTACGTAGAGAGGGAGCCT 60.117 47.826 0.00 0.00 36.03 4.58
1754 2192 7.758528 GGTTAAGCAAGAAGAATTACGTAGAGA 59.241 37.037 0.00 0.00 0.00 3.10
1782 2221 2.158682 TCACTTGTACAATGGCAGTGGT 60.159 45.455 19.96 3.90 0.00 4.16
1831 2476 1.314730 GTGATTCAACCGTTGGTGGT 58.685 50.000 11.35 0.00 46.67 4.16
1862 2507 1.492993 GGGGAGAAGCCTCTTGTGGT 61.493 60.000 0.00 0.00 39.38 4.16
1902 2547 1.032014 GAAAAGCAGGTGCAGGTGAA 58.968 50.000 4.48 0.00 45.16 3.18
1903 2548 0.823356 GGAAAAGCAGGTGCAGGTGA 60.823 55.000 4.48 0.00 45.16 4.02
1921 2566 4.273480 CGACCAATTTATACTCCAGCAAGG 59.727 45.833 0.00 0.00 39.47 3.61
1958 2603 9.113838 ACACTTTATATCAAGCAACTATCCAAG 57.886 33.333 0.00 0.00 0.00 3.61
1991 2668 4.370364 TTTGCAGAACCAGAGTTTGTTC 57.630 40.909 0.00 0.00 40.88 3.18
2044 2725 4.827284 TCACAACCTTCCTCCTTCATTTTC 59.173 41.667 0.00 0.00 0.00 2.29
2123 2810 9.566432 TTTTAGTTGGGTTAAATGATGCAAAAT 57.434 25.926 0.00 0.00 0.00 1.82
2146 2833 7.206981 ACAATTCATGTCGATCAACTCTTTT 57.793 32.000 0.00 0.00 37.96 2.27
2256 2956 9.411801 GCAAAGCTCTTTAACTAAATTTTAGCT 57.588 29.630 14.67 6.68 39.34 3.32
2257 2957 9.191995 TGCAAAGCTCTTTAACTAAATTTTAGC 57.808 29.630 14.67 2.72 0.00 3.09
2260 2960 9.987272 AGATGCAAAGCTCTTTAACTAAATTTT 57.013 25.926 0.00 0.00 0.00 1.82
2264 2964 9.231297 ACATAGATGCAAAGCTCTTTAACTAAA 57.769 29.630 0.00 0.00 0.00 1.85
2265 2965 8.792830 ACATAGATGCAAAGCTCTTTAACTAA 57.207 30.769 0.00 0.00 0.00 2.24
2266 2966 8.792830 AACATAGATGCAAAGCTCTTTAACTA 57.207 30.769 0.00 0.00 0.00 2.24
2309 3021 3.777465 ATGTGATGCAAACAGAGATGC 57.223 42.857 10.85 0.00 42.86 3.91
2310 3022 8.697846 ATAAAAATGTGATGCAAACAGAGATG 57.302 30.769 10.85 0.00 0.00 2.90
2311 3023 9.146984 CAATAAAAATGTGATGCAAACAGAGAT 57.853 29.630 10.85 2.03 0.00 2.75
2312 3024 7.116662 GCAATAAAAATGTGATGCAAACAGAGA 59.883 33.333 10.85 0.00 34.10 3.10
2313 3025 7.095565 TGCAATAAAAATGTGATGCAAACAGAG 60.096 33.333 10.85 0.00 40.47 3.35
2314 3026 6.704937 TGCAATAAAAATGTGATGCAAACAGA 59.295 30.769 10.85 4.48 40.47 3.41
2315 3027 6.889494 TGCAATAAAAATGTGATGCAAACAG 58.111 32.000 10.85 0.00 40.47 3.16
2316 3028 6.856135 TGCAATAAAAATGTGATGCAAACA 57.144 29.167 7.92 7.92 40.47 2.83
2467 3179 7.684937 ATTGTTGGAAAAGAAGAGAGATGAG 57.315 36.000 0.00 0.00 0.00 2.90
2620 3337 6.785488 TGTGTATTCTACTCTTGTTTGCTG 57.215 37.500 0.00 0.00 0.00 4.41
2621 3338 6.765989 TGTTGTGTATTCTACTCTTGTTTGCT 59.234 34.615 0.00 0.00 0.00 3.91
2622 3339 6.954944 TGTTGTGTATTCTACTCTTGTTTGC 58.045 36.000 0.00 0.00 0.00 3.68
2623 3340 8.612619 ACTTGTTGTGTATTCTACTCTTGTTTG 58.387 33.333 0.00 0.00 0.00 2.93
2624 3341 8.732746 ACTTGTTGTGTATTCTACTCTTGTTT 57.267 30.769 0.00 0.00 0.00 2.83
2625 3342 9.257651 GTACTTGTTGTGTATTCTACTCTTGTT 57.742 33.333 0.00 0.00 0.00 2.83
2626 3343 8.418662 TGTACTTGTTGTGTATTCTACTCTTGT 58.581 33.333 0.00 0.00 0.00 3.16
2627 3344 8.700644 GTGTACTTGTTGTGTATTCTACTCTTG 58.299 37.037 0.00 0.00 0.00 3.02
2628 3345 8.418662 TGTGTACTTGTTGTGTATTCTACTCTT 58.581 33.333 0.00 0.00 0.00 2.85
2629 3346 7.948357 TGTGTACTTGTTGTGTATTCTACTCT 58.052 34.615 0.00 0.00 0.00 3.24
2630 3347 8.758633 ATGTGTACTTGTTGTGTATTCTACTC 57.241 34.615 0.00 0.00 0.00 2.59
2631 3348 9.856488 CTATGTGTACTTGTTGTGTATTCTACT 57.144 33.333 0.00 0.00 0.00 2.57
2632 3349 9.850628 TCTATGTGTACTTGTTGTGTATTCTAC 57.149 33.333 0.00 0.00 0.00 2.59
2634 3351 9.424319 CTTCTATGTGTACTTGTTGTGTATTCT 57.576 33.333 0.00 0.00 0.00 2.40
2635 3352 9.419297 TCTTCTATGTGTACTTGTTGTGTATTC 57.581 33.333 0.00 0.00 0.00 1.75
2636 3353 9.204570 GTCTTCTATGTGTACTTGTTGTGTATT 57.795 33.333 0.00 0.00 0.00 1.89
2637 3354 8.364894 TGTCTTCTATGTGTACTTGTTGTGTAT 58.635 33.333 0.00 0.00 0.00 2.29
2638 3355 7.650504 GTGTCTTCTATGTGTACTTGTTGTGTA 59.349 37.037 0.00 0.00 0.00 2.90
2639 3356 6.479001 GTGTCTTCTATGTGTACTTGTTGTGT 59.521 38.462 0.00 0.00 0.00 3.72
2640 3357 6.478673 TGTGTCTTCTATGTGTACTTGTTGTG 59.521 38.462 0.00 0.00 0.00 3.33
2641 3358 6.578944 TGTGTCTTCTATGTGTACTTGTTGT 58.421 36.000 0.00 0.00 0.00 3.32
2642 3359 7.011016 TGTTGTGTCTTCTATGTGTACTTGTTG 59.989 37.037 0.00 0.00 0.00 3.33
2643 3360 7.045416 TGTTGTGTCTTCTATGTGTACTTGTT 58.955 34.615 0.00 0.00 0.00 2.83
2644 3361 6.578944 TGTTGTGTCTTCTATGTGTACTTGT 58.421 36.000 0.00 0.00 0.00 3.16
2645 3362 7.477144 TTGTTGTGTCTTCTATGTGTACTTG 57.523 36.000 0.00 0.00 0.00 3.16
2646 3363 7.012044 GGTTTGTTGTGTCTTCTATGTGTACTT 59.988 37.037 0.00 0.00 0.00 2.24
2647 3364 6.482308 GGTTTGTTGTGTCTTCTATGTGTACT 59.518 38.462 0.00 0.00 0.00 2.73
2648 3365 6.563381 CGGTTTGTTGTGTCTTCTATGTGTAC 60.563 42.308 0.00 0.00 0.00 2.90
2649 3366 5.464057 CGGTTTGTTGTGTCTTCTATGTGTA 59.536 40.000 0.00 0.00 0.00 2.90
2650 3367 4.272504 CGGTTTGTTGTGTCTTCTATGTGT 59.727 41.667 0.00 0.00 0.00 3.72
2651 3368 4.509970 TCGGTTTGTTGTGTCTTCTATGTG 59.490 41.667 0.00 0.00 0.00 3.21
2652 3369 4.699637 TCGGTTTGTTGTGTCTTCTATGT 58.300 39.130 0.00 0.00 0.00 2.29
2653 3370 5.236478 ACTTCGGTTTGTTGTGTCTTCTATG 59.764 40.000 0.00 0.00 0.00 2.23
2654 3371 5.365619 ACTTCGGTTTGTTGTGTCTTCTAT 58.634 37.500 0.00 0.00 0.00 1.98
2655 3372 4.761975 ACTTCGGTTTGTTGTGTCTTCTA 58.238 39.130 0.00 0.00 0.00 2.10
2656 3373 3.606687 ACTTCGGTTTGTTGTGTCTTCT 58.393 40.909 0.00 0.00 0.00 2.85
2657 3374 5.473796 TTACTTCGGTTTGTTGTGTCTTC 57.526 39.130 0.00 0.00 0.00 2.87
2658 3375 5.883503 TTTACTTCGGTTTGTTGTGTCTT 57.116 34.783 0.00 0.00 0.00 3.01
2659 3376 5.883503 TTTTACTTCGGTTTGTTGTGTCT 57.116 34.783 0.00 0.00 0.00 3.41
2660 3377 8.525876 GTTTATTTTACTTCGGTTTGTTGTGTC 58.474 33.333 0.00 0.00 0.00 3.67
2661 3378 8.027771 TGTTTATTTTACTTCGGTTTGTTGTGT 58.972 29.630 0.00 0.00 0.00 3.72
2662 3379 8.395940 TGTTTATTTTACTTCGGTTTGTTGTG 57.604 30.769 0.00 0.00 0.00 3.33
2663 3380 8.862074 GTTGTTTATTTTACTTCGGTTTGTTGT 58.138 29.630 0.00 0.00 0.00 3.32
2664 3381 8.861101 TGTTGTTTATTTTACTTCGGTTTGTTG 58.139 29.630 0.00 0.00 0.00 3.33
2665 3382 8.983307 TGTTGTTTATTTTACTTCGGTTTGTT 57.017 26.923 0.00 0.00 0.00 2.83
2666 3383 8.983307 TTGTTGTTTATTTTACTTCGGTTTGT 57.017 26.923 0.00 0.00 0.00 2.83
2667 3384 8.053653 GCTTGTTGTTTATTTTACTTCGGTTTG 58.946 33.333 0.00 0.00 0.00 2.93
2668 3385 7.760340 TGCTTGTTGTTTATTTTACTTCGGTTT 59.240 29.630 0.00 0.00 0.00 3.27
2669 3386 7.221259 GTGCTTGTTGTTTATTTTACTTCGGTT 59.779 33.333 0.00 0.00 0.00 4.44
2670 3387 6.693978 GTGCTTGTTGTTTATTTTACTTCGGT 59.306 34.615 0.00 0.00 0.00 4.69
2671 3388 6.693545 TGTGCTTGTTGTTTATTTTACTTCGG 59.306 34.615 0.00 0.00 0.00 4.30
2672 3389 7.219154 TGTGTGCTTGTTGTTTATTTTACTTCG 59.781 33.333 0.00 0.00 0.00 3.79
2673 3390 8.318167 GTGTGTGCTTGTTGTTTATTTTACTTC 58.682 33.333 0.00 0.00 0.00 3.01
2674 3391 7.815068 TGTGTGTGCTTGTTGTTTATTTTACTT 59.185 29.630 0.00 0.00 0.00 2.24
2675 3392 7.316640 TGTGTGTGCTTGTTGTTTATTTTACT 58.683 30.769 0.00 0.00 0.00 2.24
2676 3393 7.486551 TCTGTGTGTGCTTGTTGTTTATTTTAC 59.513 33.333 0.00 0.00 0.00 2.01
2677 3394 7.539436 TCTGTGTGTGCTTGTTGTTTATTTTA 58.461 30.769 0.00 0.00 0.00 1.52
2678 3395 6.393990 TCTGTGTGTGCTTGTTGTTTATTTT 58.606 32.000 0.00 0.00 0.00 1.82
2679 3396 5.960113 TCTGTGTGTGCTTGTTGTTTATTT 58.040 33.333 0.00 0.00 0.00 1.40
2680 3397 5.574891 TCTGTGTGTGCTTGTTGTTTATT 57.425 34.783 0.00 0.00 0.00 1.40
2681 3398 5.356751 TCTTCTGTGTGTGCTTGTTGTTTAT 59.643 36.000 0.00 0.00 0.00 1.40
2682 3399 4.697828 TCTTCTGTGTGTGCTTGTTGTTTA 59.302 37.500 0.00 0.00 0.00 2.01
2683 3400 3.505680 TCTTCTGTGTGTGCTTGTTGTTT 59.494 39.130 0.00 0.00 0.00 2.83
2684 3401 3.081061 TCTTCTGTGTGTGCTTGTTGTT 58.919 40.909 0.00 0.00 0.00 2.83
2685 3402 2.420022 GTCTTCTGTGTGTGCTTGTTGT 59.580 45.455 0.00 0.00 0.00 3.32
2686 3403 2.419673 TGTCTTCTGTGTGTGCTTGTTG 59.580 45.455 0.00 0.00 0.00 3.33
2687 3404 2.420022 GTGTCTTCTGTGTGTGCTTGTT 59.580 45.455 0.00 0.00 0.00 2.83
2688 3405 2.009774 GTGTCTTCTGTGTGTGCTTGT 58.990 47.619 0.00 0.00 0.00 3.16
2689 3406 2.009051 TGTGTCTTCTGTGTGTGCTTG 58.991 47.619 0.00 0.00 0.00 4.01
2690 3407 2.401583 TGTGTCTTCTGTGTGTGCTT 57.598 45.000 0.00 0.00 0.00 3.91
2691 3408 2.009774 GTTGTGTCTTCTGTGTGTGCT 58.990 47.619 0.00 0.00 0.00 4.40
2692 3409 1.737236 TGTTGTGTCTTCTGTGTGTGC 59.263 47.619 0.00 0.00 0.00 4.57
2693 3410 4.083324 AGTTTGTTGTGTCTTCTGTGTGTG 60.083 41.667 0.00 0.00 0.00 3.82
2694 3411 4.072131 AGTTTGTTGTGTCTTCTGTGTGT 58.928 39.130 0.00 0.00 0.00 3.72
2695 3412 4.406069 CAGTTTGTTGTGTCTTCTGTGTG 58.594 43.478 0.00 0.00 0.00 3.82
2696 3413 3.440173 CCAGTTTGTTGTGTCTTCTGTGT 59.560 43.478 0.00 0.00 0.00 3.72
2697 3414 3.689161 TCCAGTTTGTTGTGTCTTCTGTG 59.311 43.478 0.00 0.00 0.00 3.66
2698 3415 3.941483 CTCCAGTTTGTTGTGTCTTCTGT 59.059 43.478 0.00 0.00 0.00 3.41
2699 3416 3.941483 ACTCCAGTTTGTTGTGTCTTCTG 59.059 43.478 0.00 0.00 0.00 3.02
2700 3417 4.222124 ACTCCAGTTTGTTGTGTCTTCT 57.778 40.909 0.00 0.00 0.00 2.85
2701 3418 5.357257 TCTACTCCAGTTTGTTGTGTCTTC 58.643 41.667 0.00 0.00 0.00 2.87
2702 3419 5.353394 TCTACTCCAGTTTGTTGTGTCTT 57.647 39.130 0.00 0.00 0.00 3.01
2703 3420 5.353394 TTCTACTCCAGTTTGTTGTGTCT 57.647 39.130 0.00 0.00 0.00 3.41
2704 3421 6.704493 TGTATTCTACTCCAGTTTGTTGTGTC 59.296 38.462 0.00 0.00 0.00 3.67
2705 3422 6.482308 GTGTATTCTACTCCAGTTTGTTGTGT 59.518 38.462 0.00 0.00 0.00 3.72
2706 3423 6.481976 TGTGTATTCTACTCCAGTTTGTTGTG 59.518 38.462 0.00 0.00 0.00 3.33
2707 3424 6.588204 TGTGTATTCTACTCCAGTTTGTTGT 58.412 36.000 0.00 0.00 0.00 3.32
2743 3460 9.524496 TCCTACTCTAGTTTGTTGTGTATTCTA 57.476 33.333 0.00 0.00 0.00 2.10
2761 3478 2.166664 GCTTGGACGTTGATCCTACTCT 59.833 50.000 0.00 0.00 39.75 3.24
2825 3542 0.322322 TTCAAACGTCTACCGCCCAT 59.678 50.000 0.00 0.00 41.42 4.00
2838 3555 5.927115 ACACCTCTTCTCGATACTTTCAAAC 59.073 40.000 0.00 0.00 0.00 2.93
2847 3564 4.654724 TCCTCTAGACACCTCTTCTCGATA 59.345 45.833 0.00 0.00 0.00 2.92
2870 3587 3.704566 TCACTTAGTGTCTAATCGCCCAT 59.295 43.478 12.41 0.00 34.79 4.00
2871 3588 3.093814 TCACTTAGTGTCTAATCGCCCA 58.906 45.455 12.41 0.00 34.79 5.36
2875 3593 8.428536 CAACTTTTCTCACTTAGTGTCTAATCG 58.571 37.037 12.41 0.44 34.79 3.34
2993 3713 4.022849 AGTTGCATGCTTTACTTTCCACTC 60.023 41.667 20.33 0.00 0.00 3.51
2996 3716 4.619973 CAAGTTGCATGCTTTACTTTCCA 58.380 39.130 20.33 0.00 0.00 3.53
3022 3742 6.098695 CACTCCAATCCCATCCATTTACATTT 59.901 38.462 0.00 0.00 0.00 2.32
3031 3752 0.034186 GCACACTCCAATCCCATCCA 60.034 55.000 0.00 0.00 0.00 3.41
3061 3782 2.409752 CGACAAAAACATCCGTGTCTCG 60.410 50.000 0.00 0.00 37.67 4.04
3109 3830 5.400066 TGAAGTCTTCATCAACGTGGATA 57.600 39.130 11.36 0.00 34.08 2.59
3123 3844 2.256117 CCTTCGTGGGTTGAAGTCTT 57.744 50.000 2.47 0.00 40.96 3.01
3264 3987 1.134371 GGCAAGGAGATCGCCTACTTT 60.134 52.381 19.20 0.00 43.53 2.66
3377 4100 6.150976 GGAGTTCATCATCAACACACCATTTA 59.849 38.462 0.00 0.00 0.00 1.40
3413 4136 7.054124 GTGTTGGGGATACTATCATTTGAAGA 58.946 38.462 0.00 0.00 0.00 2.87


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

AutoCloner maintained by Alex Coulton.