Multiple sequence alignment - TraesCS7D01G006700

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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 TraesCS7D01G006700 chr7D 100.000 6162 0 0 1 6162 3437510 3443671 0.000000e+00 11380
1 TraesCS7D01G006700 chr7D 93.707 2304 138 5 2966 5268 3699359 3701656 0.000000e+00 3445
2 TraesCS7D01G006700 chr7D 92.681 1134 81 2 991 2123 3697384 3698516 0.000000e+00 1633
3 TraesCS7D01G006700 chr7D 89.922 1022 100 1 992 2010 3731273 3730252 0.000000e+00 1314
4 TraesCS7D01G006700 chr7D 95.015 341 13 3 2649 2985 3699000 3699340 3.270000e-147 532
5 TraesCS7D01G006700 chr7D 94.479 326 11 3 5263 5586 3593594 3593914 4.290000e-136 496
6 TraesCS7D01G006700 chr7D 93.333 330 6 2 2304 2617 3698673 3699002 2.010000e-129 473
7 TraesCS7D01G006700 chr7D 81.222 442 49 21 5708 6129 2432290 2432717 5.960000e-85 326
8 TraesCS7D01G006700 chr7D 90.099 202 20 0 5708 5909 3593911 3594112 4.740000e-66 263
9 TraesCS7D01G006700 chr7D 90.000 140 9 1 2169 2308 3698510 3698644 6.350000e-40 176
10 TraesCS7D01G006700 chr7D 80.597 201 21 10 41 232 3696895 3697086 8.330000e-29 139
11 TraesCS7D01G006700 chr7D 92.045 88 7 0 5771 5858 3692267 3692354 2.330000e-24 124
12 TraesCS7D01G006700 chr4A 95.708 2982 94 9 2304 5266 739807548 739810514 0.000000e+00 4767
13 TraesCS7D01G006700 chr4A 97.503 2443 57 4 2826 5266 740868264 740865824 0.000000e+00 4170
14 TraesCS7D01G006700 chr4A 93.455 2628 146 15 2969 5582 742270073 742267458 0.000000e+00 3877
15 TraesCS7D01G006700 chr4A 94.735 2298 120 1 2969 5266 739832932 739835228 0.000000e+00 3572
16 TraesCS7D01G006700 chr4A 94.015 2289 137 0 2980 5268 733927517 733925229 0.000000e+00 3469
17 TraesCS7D01G006700 chr4A 93.875 2302 133 6 2969 5268 740061679 740059384 0.000000e+00 3463
18 TraesCS7D01G006700 chr4A 92.840 2123 83 38 1 2067 739805164 739807273 0.000000e+00 3014
19 TraesCS7D01G006700 chr4A 92.134 2123 88 27 1 2067 740870580 740868481 0.000000e+00 2922
20 TraesCS7D01G006700 chr4A 83.207 1709 197 38 345 2022 742272288 742270639 0.000000e+00 1483
21 TraesCS7D01G006700 chr4A 83.139 1714 195 42 345 2026 739830718 739832369 0.000000e+00 1478
22 TraesCS7D01G006700 chr4A 90.646 1037 93 2 997 2029 740063272 740062236 0.000000e+00 1375
23 TraesCS7D01G006700 chr4A 95.950 321 13 0 5266 5586 739810553 739810873 7.080000e-144 521
24 TraesCS7D01G006700 chr4A 95.679 324 13 1 5263 5586 740865788 740865466 2.550000e-143 520
25 TraesCS7D01G006700 chr4A 94.872 312 15 1 5266 5576 733925192 733924881 2.580000e-133 486
26 TraesCS7D01G006700 chr4A 92.169 332 17 4 5263 5586 739835264 739835594 1.570000e-125 460
27 TraesCS7D01G006700 chr4A 86.139 404 42 8 5708 6109 739835591 739835982 2.050000e-114 424
28 TraesCS7D01G006700 chr4A 84.058 414 36 7 5710 6122 742267455 742267071 7.540000e-99 372
29 TraesCS7D01G006700 chr4A 92.636 258 15 3 5906 6162 739811105 739811359 9.760000e-98 368
30 TraesCS7D01G006700 chr4A 92.857 252 14 3 5906 6156 742078200 742078448 4.540000e-96 363
31 TraesCS7D01G006700 chr4A 92.095 253 15 3 5906 6156 739684218 739684467 9.830000e-93 351
32 TraesCS7D01G006700 chr4A 90.698 258 17 4 5906 6162 733924641 733924390 2.750000e-88 337
33 TraesCS7D01G006700 chr4A 88.557 201 23 0 5709 5909 739810871 739811071 1.720000e-60 244
34 TraesCS7D01G006700 chr4A 90.000 140 9 3 2169 2308 739807385 739807519 6.350000e-40 176
35 TraesCS7D01G006700 chr4A 78.439 269 24 18 345 607 733929681 733929441 1.790000e-30 145
36 TraesCS7D01G006700 chr7A 91.453 2305 194 3 2966 5268 3582959 3585262 0.000000e+00 3162
37 TraesCS7D01G006700 chr7A 92.625 2183 97 24 1 2126 3005405 3003230 0.000000e+00 3081
38 TraesCS7D01G006700 chr7A 89.759 2324 206 18 2972 5266 3381222 3383542 0.000000e+00 2944
39 TraesCS7D01G006700 chr7A 91.022 1047 90 2 987 2033 3379595 3380637 0.000000e+00 1410
40 TraesCS7D01G006700 chr7A 87.022 732 42 15 2304 2985 3003085 3002357 0.000000e+00 776
41 TraesCS7D01G006700 chr7A 96.855 318 9 1 5263 5580 3383578 3383894 1.180000e-146 531
42 TraesCS7D01G006700 chr7A 96.262 321 11 1 5266 5586 2550442 2550123 5.470000e-145 525
43 TraesCS7D01G006700 chr7A 93.558 326 18 2 5263 5586 3000043 2999719 3.340000e-132 483
44 TraesCS7D01G006700 chr7A 88.315 368 43 0 2974 3341 2552749 2552382 5.670000e-120 442
45 TraesCS7D01G006700 chr7A 93.548 248 12 3 5906 6153 2549891 2549648 3.510000e-97 366
46 TraesCS7D01G006700 chr7A 89.960 249 14 5 5906 6146 3384126 3384371 1.670000e-80 311
47 TraesCS7D01G006700 chr7A 90.099 202 20 0 5708 5909 2999722 2999521 4.740000e-66 263
48 TraesCS7D01G006700 chr7A 88.614 202 23 0 5708 5909 2847989 2847788 4.770000e-61 246
49 TraesCS7D01G006700 chr7A 88.060 201 24 0 5709 5909 2550125 2549925 7.980000e-59 239
50 TraesCS7D01G006700 chr7A 79.167 264 39 10 5906 6158 2999010 2998752 1.060000e-37 169
51 TraesCS7D01G006700 chr7A 85.455 110 10 6 2203 2312 3003213 3003110 6.530000e-20 110
52 TraesCS7D01G006700 chr3B 98.473 131 2 0 5580 5710 206185505 206185635 1.340000e-56 231
53 TraesCS7D01G006700 chr6B 96.377 138 5 0 5581 5718 277700316 277700179 1.730000e-55 228
54 TraesCS7D01G006700 chr5B 95.775 142 5 1 5584 5725 555175729 555175589 1.730000e-55 228
55 TraesCS7D01G006700 chr5B 94.366 142 8 0 5584 5725 412342028 412341887 1.040000e-52 219
56 TraesCS7D01G006700 chr1A 98.438 128 2 0 5584 5711 505092393 505092520 6.210000e-55 226
57 TraesCS7D01G006700 chr4B 95.683 139 5 1 5581 5718 601197184 601197322 8.040000e-54 222
58 TraesCS7D01G006700 chr7B 94.444 144 6 2 5584 5725 182718803 182718946 2.890000e-53 220
59 TraesCS7D01G006700 chr2B 94.444 144 6 2 5581 5722 620596674 620596817 2.890000e-53 220
60 TraesCS7D01G006700 chr1B 94.444 144 6 2 5584 5725 106655895 106656038 2.890000e-53 220


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 TraesCS7D01G006700 chr7D 3437510 3443671 6161 False 11380.000000 11380 100.000000 1 6162 1 chr7D.!!$F2 6161
1 TraesCS7D01G006700 chr7D 3730252 3731273 1021 True 1314.000000 1314 89.922000 992 2010 1 chr7D.!!$R1 1018
2 TraesCS7D01G006700 chr7D 3696895 3701656 4761 False 1066.333333 3445 90.888833 41 5268 6 chr7D.!!$F5 5227
3 TraesCS7D01G006700 chr7D 3593594 3594112 518 False 379.500000 496 92.289000 5263 5909 2 chr7D.!!$F4 646
4 TraesCS7D01G006700 chr4A 740865466 740870580 5114 True 2537.333333 4170 95.105333 1 5586 3 chr4A.!!$R3 5585
5 TraesCS7D01G006700 chr4A 740059384 740063272 3888 True 2419.000000 3463 92.260500 997 5268 2 chr4A.!!$R2 4271
6 TraesCS7D01G006700 chr4A 742267071 742272288 5217 True 1910.666667 3877 86.906667 345 6122 3 chr4A.!!$R4 5777
7 TraesCS7D01G006700 chr4A 739805164 739811359 6195 False 1515.000000 4767 92.615167 1 6162 6 chr4A.!!$F3 6161
8 TraesCS7D01G006700 chr4A 739830718 739835982 5264 False 1483.500000 3572 89.045500 345 6109 4 chr4A.!!$F4 5764
9 TraesCS7D01G006700 chr4A 733924390 733929681 5291 True 1109.250000 3469 89.506000 345 6162 4 chr4A.!!$R1 5817
10 TraesCS7D01G006700 chr7A 3582959 3585262 2303 False 3162.000000 3162 91.453000 2966 5268 1 chr7A.!!$F1 2302
11 TraesCS7D01G006700 chr7A 3379595 3384371 4776 False 1299.000000 2944 91.899000 987 6146 4 chr7A.!!$F2 5159
12 TraesCS7D01G006700 chr7A 2998752 3005405 6653 True 813.666667 3081 87.987667 1 6158 6 chr7A.!!$R3 6157
13 TraesCS7D01G006700 chr7A 2549648 2552749 3101 True 393.000000 525 91.546250 2974 6153 4 chr7A.!!$R2 3179

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
419 492 0.689623 CCTATGCTCCCCATCTCCAC 59.310 60.000 0.0 0.0 35.34 4.02 F
1880 2025 0.179094 TCGGTGAAGCGAGTTGTGTT 60.179 50.000 0.0 0.0 0.00 3.32 F
2824 3398 1.001181 GTCTAGCCCGTTACACCAACA 59.999 52.381 0.0 0.0 36.92 3.33 F
3403 4062 1.159285 CACAAGGCAGCAAAGATCGA 58.841 50.000 0.0 0.0 0.00 3.59 F
3628 4289 1.273759 TGCCAGCAGATCTCAAGACT 58.726 50.000 0.0 0.0 0.00 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1896 2041 0.740149 CATCATTGCTTTGCGGCCTA 59.260 50.000 0.00 0.00 0.00 3.93 R
3222 3869 1.101331 GCTGCTTGGGGATTCAGAAG 58.899 55.000 0.00 0.00 0.00 2.85 R
4294 4964 0.975556 TCCCTCCAAGCATGCTACGA 60.976 55.000 23.00 17.66 0.00 3.43 R
4918 5594 1.466558 GTAACTGCAAAGCTCAGCCTC 59.533 52.381 7.76 0.00 35.04 4.70 R
5586 6318 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20 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
34 35 8.087982 TCATGTTCTGACTTGACTGTATTTTC 57.912 34.615 0.00 0.00 35.67 2.29
90 92 5.454966 TGACTTGTCTATATGGGTCTAGCA 58.545 41.667 2.35 0.00 0.00 3.49
232 243 3.748083 TGCTTGATCTGAACTTTCTGCT 58.252 40.909 0.00 0.00 0.00 4.24
235 246 4.142859 GCTTGATCTGAACTTTCTGCTGAG 60.143 45.833 0.00 0.00 0.00 3.35
238 249 3.674528 TCTGAACTTTCTGCTGAGGAG 57.325 47.619 0.00 0.00 0.00 3.69
239 250 2.301296 TCTGAACTTTCTGCTGAGGAGG 59.699 50.000 0.00 0.00 0.00 4.30
307 346 1.956477 GACTCTTTTTGGCAAGCTGGA 59.044 47.619 0.00 0.00 0.00 3.86
311 350 1.541147 CTTTTTGGCAAGCTGGATCGA 59.459 47.619 0.00 0.00 0.00 3.59
419 492 0.689623 CCTATGCTCCCCATCTCCAC 59.310 60.000 0.00 0.00 35.34 4.02
441 514 6.458342 CCACTTTCTGTTGTCTGGTAGTTTTC 60.458 42.308 0.00 0.00 0.00 2.29
647 724 9.796120 TGAGAAACTTTAGGTATTGTTTGTTTG 57.204 29.630 0.00 0.00 33.49 2.93
661 738 5.338365 TGTTTGTTTGCATTTCATTTTGGC 58.662 33.333 0.00 0.00 0.00 4.52
686 763 4.080526 AGGGGATAACATAGTGGTGTTGAC 60.081 45.833 2.76 0.00 42.02 3.18
716 794 3.126343 GTGGTTACCAATTCTGTAAGCCG 59.874 47.826 5.33 0.00 42.89 5.52
755 834 7.589958 AAATTGGGTGTATTGTTCAACAGTA 57.410 32.000 0.00 0.00 0.00 2.74
790 870 9.856162 AACTTAAGTTTACATAGGTTCCTTGAA 57.144 29.630 15.22 0.00 33.93 2.69
939 1063 4.141287 CAACAACAACAGGGGACAGATTA 58.859 43.478 0.00 0.00 0.00 1.75
942 1066 5.497474 ACAACAACAGGGGACAGATTATAC 58.503 41.667 0.00 0.00 0.00 1.47
946 1070 5.070580 ACAACAGGGGACAGATTATACTAGC 59.929 44.000 0.00 0.00 0.00 3.42
1398 1540 1.502690 AGGTCCGGGCACAATACATA 58.497 50.000 9.07 0.00 0.00 2.29
1578 1720 4.351054 AAGCTCGGGGGTTGGCTG 62.351 66.667 0.00 0.00 35.08 4.85
1658 1800 1.000843 GGGAAAGACAACCATTGCCAC 59.999 52.381 0.00 0.00 34.96 5.01
1660 1802 1.606668 GAAAGACAACCATTGCCACGA 59.393 47.619 0.00 0.00 0.00 4.35
1880 2025 0.179094 TCGGTGAAGCGAGTTGTGTT 60.179 50.000 0.00 0.00 0.00 3.32
1883 2028 2.285756 CGGTGAAGCGAGTTGTGTTAAA 59.714 45.455 0.00 0.00 0.00 1.52
1896 2041 4.623932 TGTGTTAAAGCTCTCTGGTCAT 57.376 40.909 0.00 0.00 0.00 3.06
2239 2706 9.770097 TTTGTTGAAATTGCACAAGGAATATTA 57.230 25.926 0.00 0.00 34.42 0.98
2240 2707 9.770097 TTGTTGAAATTGCACAAGGAATATTAA 57.230 25.926 0.00 0.00 34.42 1.40
2241 2708 9.941325 TGTTGAAATTGCACAAGGAATATTAAT 57.059 25.926 0.00 0.00 34.42 1.40
2299 2766 7.823310 TGTTACCAATAGCAAATTTAGTACCGA 59.177 33.333 0.00 0.00 0.00 4.69
2524 3064 4.713824 TTGGACATAGGTCAGTTCGTAG 57.286 45.455 10.08 0.00 46.17 3.51
2637 3190 4.278419 GTGGCCTGAACATTTTCACTAACT 59.722 41.667 3.32 0.00 36.79 2.24
2673 3226 7.750903 CGTGCATCGAATGATTATAGTAAGAGA 59.249 37.037 0.00 0.00 42.86 3.10
2694 3247 2.250924 AGTTAAGCAAAAGCCCAGCAT 58.749 42.857 0.00 0.00 0.00 3.79
2714 3267 1.318576 AAAGGGCGAACAACCAGAAG 58.681 50.000 0.00 0.00 0.00 2.85
2824 3398 1.001181 GTCTAGCCCGTTACACCAACA 59.999 52.381 0.00 0.00 36.92 3.33
2913 3491 5.962433 ACTGTGTATTGTATCACTAACGCT 58.038 37.500 0.00 0.00 35.82 5.07
2994 3615 7.712797 TCTTTCTCACTTGTATTTTGTTTCCC 58.287 34.615 0.00 0.00 0.00 3.97
3018 3639 3.914426 TCTTGGCAGGTATTTCCTCTC 57.086 47.619 0.00 0.00 46.24 3.20
3222 3869 5.066505 CCAAAAGTCTATATCAACAGGGTGC 59.933 44.000 0.00 0.00 0.00 5.01
3317 3976 5.459536 CGAAGGAGATGGAAGTGATCATA 57.540 43.478 0.00 0.00 0.00 2.15
3345 4004 5.745312 TCAACTGATGTTCCTAGTGATGT 57.255 39.130 0.00 0.00 33.52 3.06
3351 4010 4.644685 TGATGTTCCTAGTGATGTCGATGA 59.355 41.667 0.00 0.00 0.00 2.92
3403 4062 1.159285 CACAAGGCAGCAAAGATCGA 58.841 50.000 0.00 0.00 0.00 3.59
3444 4104 4.021104 TGAGGAGATATGGAAATACTGCGG 60.021 45.833 0.00 0.00 0.00 5.69
3504 4165 1.400142 GGCTTGCAACCCAACAAAAAC 59.600 47.619 5.88 0.00 0.00 2.43
3628 4289 1.273759 TGCCAGCAGATCTCAAGACT 58.726 50.000 0.00 0.00 0.00 3.24
4591 5261 9.762933 GATGAGAGCTCTAATTTTATCAACTCT 57.237 33.333 18.25 0.00 34.81 3.24
4677 5353 1.560505 CCCCCAAAGTGGATCAAAGG 58.439 55.000 0.00 0.00 40.96 3.11
4912 5588 2.480419 GCTTCGCTTCTTTGCAACTCTA 59.520 45.455 0.00 0.00 0.00 2.43
4918 5594 1.795768 TCTTTGCAACTCTAGTGCCG 58.204 50.000 0.00 0.00 0.00 5.69
5588 6320 2.835156 AGGAACTCCTGCTTTCTACTCC 59.165 50.000 0.00 0.00 46.55 3.85
5589 6321 2.093394 GGAACTCCTGCTTTCTACTCCC 60.093 54.545 0.00 0.00 0.00 4.30
5590 6322 2.632763 ACTCCTGCTTTCTACTCCCT 57.367 50.000 0.00 0.00 0.00 4.20
5591 6323 2.462723 ACTCCTGCTTTCTACTCCCTC 58.537 52.381 0.00 0.00 0.00 4.30
5592 6324 1.760029 CTCCTGCTTTCTACTCCCTCC 59.240 57.143 0.00 0.00 0.00 4.30
5593 6325 0.461961 CCTGCTTTCTACTCCCTCCG 59.538 60.000 0.00 0.00 0.00 4.63
5594 6326 1.187087 CTGCTTTCTACTCCCTCCGT 58.813 55.000 0.00 0.00 0.00 4.69
5595 6327 1.135333 CTGCTTTCTACTCCCTCCGTC 59.865 57.143 0.00 0.00 0.00 4.79
5596 6328 0.460722 GCTTTCTACTCCCTCCGTCC 59.539 60.000 0.00 0.00 0.00 4.79
5597 6329 0.739561 CTTTCTACTCCCTCCGTCCG 59.260 60.000 0.00 0.00 0.00 4.79
5598 6330 0.682209 TTTCTACTCCCTCCGTCCGG 60.682 60.000 0.00 0.00 0.00 5.14
5599 6331 1.565390 TTCTACTCCCTCCGTCCGGA 61.565 60.000 0.00 0.00 42.90 5.14
5600 6332 1.077212 CTACTCCCTCCGTCCGGAA 60.077 63.158 5.23 0.00 44.66 4.30
5601 6333 0.682209 CTACTCCCTCCGTCCGGAAA 60.682 60.000 5.23 0.00 44.66 3.13
5602 6334 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
5603 6335 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
5604 6336 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
5605 6337 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
5606 6338 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
5607 6339 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
5608 6340 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
5609 6341 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
5610 6342 1.894466 TCCGTCCGGAAATACTTGTCA 59.106 47.619 5.23 0.00 42.05 3.58
5611 6343 2.498481 TCCGTCCGGAAATACTTGTCAT 59.502 45.455 5.23 0.00 42.05 3.06
5612 6344 2.864343 CCGTCCGGAAATACTTGTCATC 59.136 50.000 5.23 0.00 37.50 2.92
5613 6345 3.517602 CGTCCGGAAATACTTGTCATCA 58.482 45.455 5.23 0.00 0.00 3.07
5614 6346 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
5615 6347 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
5616 6348 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
5617 6349 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
5618 6350 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
5619 6351 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
5620 6352 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
5621 6353 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
5629 6361 8.096414 ACTTGTCATCAAAATGAATAAAAGGGG 58.904 33.333 0.00 0.00 43.42 4.79
5630 6362 7.789202 TGTCATCAAAATGAATAAAAGGGGA 57.211 32.000 0.00 0.00 43.42 4.81
5631 6363 8.378115 TGTCATCAAAATGAATAAAAGGGGAT 57.622 30.769 0.00 0.00 43.42 3.85
5632 6364 8.259411 TGTCATCAAAATGAATAAAAGGGGATG 58.741 33.333 0.00 0.00 43.42 3.51
5633 6365 8.260114 GTCATCAAAATGAATAAAAGGGGATGT 58.740 33.333 0.00 0.00 43.42 3.06
5634 6366 9.486123 TCATCAAAATGAATAAAAGGGGATGTA 57.514 29.630 0.00 0.00 38.97 2.29
5637 6369 9.713684 TCAAAATGAATAAAAGGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
5643 6375 9.170890 TGAATAAAAGGGGATGTATCTAGATGT 57.829 33.333 15.79 1.25 0.00 3.06
5651 6383 9.845214 AGGGGATGTATCTAGATGTATTTTAGT 57.155 33.333 15.79 0.00 0.00 2.24
5673 6405 9.886132 TTAGTTCTAGATACATCCCTTTTTGTC 57.114 33.333 0.00 0.00 0.00 3.18
5674 6406 7.339482 AGTTCTAGATACATCCCTTTTTGTCC 58.661 38.462 0.00 0.00 0.00 4.02
5675 6407 6.884472 TCTAGATACATCCCTTTTTGTCCA 57.116 37.500 0.00 0.00 0.00 4.02
5676 6408 7.451731 TCTAGATACATCCCTTTTTGTCCAT 57.548 36.000 0.00 0.00 0.00 3.41
5677 6409 7.872138 TCTAGATACATCCCTTTTTGTCCATT 58.128 34.615 0.00 0.00 0.00 3.16
5678 6410 8.336235 TCTAGATACATCCCTTTTTGTCCATTT 58.664 33.333 0.00 0.00 0.00 2.32
5679 6411 7.797121 AGATACATCCCTTTTTGTCCATTTT 57.203 32.000 0.00 0.00 0.00 1.82
5680 6412 7.614494 AGATACATCCCTTTTTGTCCATTTTG 58.386 34.615 0.00 0.00 0.00 2.44
5681 6413 5.885449 ACATCCCTTTTTGTCCATTTTGA 57.115 34.783 0.00 0.00 0.00 2.69
5682 6414 6.438186 ACATCCCTTTTTGTCCATTTTGAT 57.562 33.333 0.00 0.00 0.00 2.57
5683 6415 6.232692 ACATCCCTTTTTGTCCATTTTGATG 58.767 36.000 0.00 0.00 33.80 3.07
5684 6416 6.043012 ACATCCCTTTTTGTCCATTTTGATGA 59.957 34.615 0.00 0.00 32.39 2.92
5685 6417 5.852827 TCCCTTTTTGTCCATTTTGATGAC 58.147 37.500 0.00 0.00 0.00 3.06
5686 6418 5.365025 TCCCTTTTTGTCCATTTTGATGACA 59.635 36.000 0.00 0.00 0.00 3.58
5687 6419 6.054295 CCCTTTTTGTCCATTTTGATGACAA 58.946 36.000 0.00 0.00 34.47 3.18
5688 6420 6.203338 CCCTTTTTGTCCATTTTGATGACAAG 59.797 38.462 0.00 0.00 37.13 3.16
5689 6421 6.762661 CCTTTTTGTCCATTTTGATGACAAGT 59.237 34.615 0.00 0.00 37.13 3.16
5690 6422 7.925483 CCTTTTTGTCCATTTTGATGACAAGTA 59.075 33.333 0.00 0.00 37.13 2.24
5691 6423 9.480053 CTTTTTGTCCATTTTGATGACAAGTAT 57.520 29.630 0.00 0.00 37.13 2.12
5692 6424 9.829507 TTTTTGTCCATTTTGATGACAAGTATT 57.170 25.926 0.00 0.00 37.13 1.89
5693 6425 9.829507 TTTTGTCCATTTTGATGACAAGTATTT 57.170 25.926 0.00 0.00 37.13 1.40
5694 6426 9.829507 TTTGTCCATTTTGATGACAAGTATTTT 57.170 25.926 0.00 0.00 37.13 1.82
5695 6427 9.474920 TTGTCCATTTTGATGACAAGTATTTTC 57.525 29.630 0.00 0.00 37.32 2.29
5696 6428 7.807433 TGTCCATTTTGATGACAAGTATTTTCG 59.193 33.333 0.00 0.00 37.32 3.46
5697 6429 7.273381 GTCCATTTTGATGACAAGTATTTTCGG 59.727 37.037 0.00 0.00 37.32 4.30
5698 6430 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
5699 6431 7.975616 CCATTTTGATGACAAGTATTTTCGGAT 59.024 33.333 0.00 0.00 37.32 4.18
5700 6432 8.800972 CATTTTGATGACAAGTATTTTCGGATG 58.199 33.333 0.00 0.00 37.32 3.51
5701 6433 6.435430 TTGATGACAAGTATTTTCGGATGG 57.565 37.500 0.00 0.00 0.00 3.51
5702 6434 5.739959 TGATGACAAGTATTTTCGGATGGA 58.260 37.500 0.00 0.00 0.00 3.41
5703 6435 5.817296 TGATGACAAGTATTTTCGGATGGAG 59.183 40.000 0.00 0.00 0.00 3.86
5704 6436 5.160607 TGACAAGTATTTTCGGATGGAGT 57.839 39.130 0.00 0.00 0.00 3.85
5705 6437 4.935205 TGACAAGTATTTTCGGATGGAGTG 59.065 41.667 0.00 0.00 0.00 3.51
5706 6438 5.160607 ACAAGTATTTTCGGATGGAGTGA 57.839 39.130 0.00 0.00 0.00 3.41
5755 6487 2.740506 AGAAGAAACCCCCGTTTTGA 57.259 45.000 0.00 0.00 42.34 2.69
5768 6500 4.321601 CCCCGTTTTGAATAACAATGCTCA 60.322 41.667 0.00 0.00 38.36 4.26
5802 6535 2.616960 TGCGACCATACTGTAGCAAAG 58.383 47.619 0.00 0.00 42.63 2.77
5806 6539 4.740268 CGACCATACTGTAGCAAAGTACA 58.260 43.478 0.00 0.00 33.11 2.90
5809 6542 5.348986 ACCATACTGTAGCAAAGTACATCG 58.651 41.667 0.00 0.00 33.11 3.84
5810 6543 4.209288 CCATACTGTAGCAAAGTACATCGC 59.791 45.833 0.00 0.00 33.11 4.58
5841 6574 5.474876 TGTTTGGAAACAGCCAATTTTTGTT 59.525 32.000 0.70 0.00 46.59 2.83
5858 6591 5.769967 TTTGTTTTTGGACATTGACAACG 57.230 34.783 0.00 0.00 0.00 4.10
5862 6595 3.347958 TTTGGACATTGACAACGAAGC 57.652 42.857 0.00 0.00 0.00 3.86
5898 6631 7.194607 TCAGAGGAATTTTCGAATGCATATC 57.805 36.000 0.00 0.00 0.00 1.63
5956 6729 4.687494 GCTCAGGAGAGTAGATCCTACACA 60.687 50.000 0.00 0.00 45.67 3.72
5957 6730 5.630121 CTCAGGAGAGTAGATCCTACACAT 58.370 45.833 6.86 0.00 45.67 3.21
6027 6800 1.308216 ATGGGGGAGAGAACAGGGG 60.308 63.158 0.00 0.00 0.00 4.79
6050 6824 1.066573 CCTCATCTCAGCCGACAAAGT 60.067 52.381 0.00 0.00 0.00 2.66
6114 6888 5.979288 AACAGAGTAGTTACTACCACTGG 57.021 43.478 30.43 20.71 41.40 4.00
6132 7423 0.786581 GGATGCATAGCGTGTCGATG 59.213 55.000 0.00 0.00 0.00 3.84
6137 7428 1.453524 GCATAGCGTGTCGATGTGATC 59.546 52.381 8.14 0.00 36.56 2.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 3.944015 CAGAATACCCAGGCTTCAGAAAG 59.056 47.826 0.00 0.00 35.47 2.62
109 111 5.885352 TGTCATCATTCCATAAATCGTGGTT 59.115 36.000 0.00 0.00 37.96 3.67
232 243 4.053009 TCATCTTCTTCTCACCTCCTCA 57.947 45.455 0.00 0.00 0.00 3.86
235 246 4.817318 ACTTCATCTTCTTCTCACCTCC 57.183 45.455 0.00 0.00 0.00 4.30
238 249 5.049129 CCACAAACTTCATCTTCTTCTCACC 60.049 44.000 0.00 0.00 0.00 4.02
239 250 5.529060 ACCACAAACTTCATCTTCTTCTCAC 59.471 40.000 0.00 0.00 0.00 3.51
311 350 4.003788 CACACCCTCGAAGGCCGT 62.004 66.667 0.00 0.00 39.75 5.68
331 370 2.047844 CACTGACTCACTGGCGGG 60.048 66.667 0.00 0.00 33.23 6.13
337 376 1.697284 TGAGCAGTCACTGACTCACT 58.303 50.000 21.18 9.49 41.37 3.41
341 380 2.295909 GAGTCTTGAGCAGTCACTGACT 59.704 50.000 9.70 5.82 43.74 3.41
342 381 2.609244 GGAGTCTTGAGCAGTCACTGAC 60.609 54.545 9.70 1.98 36.99 3.51
343 382 1.615883 GGAGTCTTGAGCAGTCACTGA 59.384 52.381 9.70 0.00 32.44 3.41
419 492 5.293569 ACGAAAACTACCAGACAACAGAAAG 59.706 40.000 0.00 0.00 0.00 2.62
531 607 8.538701 ACTGAATGGCATTTTCCAATTTATACA 58.461 29.630 14.93 1.96 39.96 2.29
610 687 6.125029 CCTAAAGTTTCTCATCCCATGTCAT 58.875 40.000 0.00 0.00 0.00 3.06
611 688 5.014123 ACCTAAAGTTTCTCATCCCATGTCA 59.986 40.000 0.00 0.00 0.00 3.58
647 724 1.679640 CCCCTGGCCAAAATGAAATGC 60.680 52.381 7.01 0.00 0.00 3.56
661 738 2.777692 ACACCACTATGTTATCCCCTGG 59.222 50.000 0.00 0.00 0.00 4.45
686 763 7.156876 ACAGAATTGGTAACCACAACATATG 57.843 36.000 0.00 0.00 30.78 1.78
790 870 8.408043 TTCTTGTGAATGTCAAATTGTCCTAT 57.592 30.769 0.00 0.00 0.00 2.57
821 902 6.736110 TCCACATGTCTAATCAGATCATGA 57.264 37.500 14.03 0.00 39.79 3.07
973 1097 8.918202 TTCTCCTTCTCTGCTGTTTAATAAAA 57.082 30.769 0.00 0.00 0.00 1.52
983 1107 2.765135 TCCATCTTCTCCTTCTCTGCTG 59.235 50.000 0.00 0.00 0.00 4.41
984 1108 3.033184 CTCCATCTTCTCCTTCTCTGCT 58.967 50.000 0.00 0.00 0.00 4.24
985 1109 2.765699 ACTCCATCTTCTCCTTCTCTGC 59.234 50.000 0.00 0.00 0.00 4.26
988 1112 5.159273 ACAAACTCCATCTTCTCCTTCTC 57.841 43.478 0.00 0.00 0.00 2.87
1134 1276 0.319083 CAAGAAAGGCCTGCATGCAA 59.681 50.000 22.88 5.74 0.00 4.08
1398 1540 2.498291 ATCTGTTGCGTCGCTCAGCT 62.498 55.000 26.06 19.09 33.92 4.24
1545 1687 1.707427 AGCTTCTCCATGTCCACCTTT 59.293 47.619 0.00 0.00 0.00 3.11
1578 1720 3.335579 AGAGCCTTTATCACGTTTGGTC 58.664 45.455 0.00 0.00 0.00 4.02
1658 1800 3.172050 CTGAAATCTCGGTACAGTGTCG 58.828 50.000 0.00 0.00 0.00 4.35
1660 1802 3.162666 TCCTGAAATCTCGGTACAGTGT 58.837 45.455 0.00 0.00 0.00 3.55
1828 1973 4.693095 GTCTTCCACTAGGCTTTTCTTCTG 59.307 45.833 0.00 0.00 33.74 3.02
1880 2025 2.700897 GGCCTATGACCAGAGAGCTTTA 59.299 50.000 0.00 0.00 0.00 1.85
1883 2028 1.112315 CGGCCTATGACCAGAGAGCT 61.112 60.000 0.00 0.00 0.00 4.09
1896 2041 0.740149 CATCATTGCTTTGCGGCCTA 59.260 50.000 0.00 0.00 0.00 3.93
2067 2440 1.335872 CCCATTTTCAGTCACCGTTGC 60.336 52.381 0.00 0.00 0.00 4.17
2071 2506 2.185004 ACTCCCATTTTCAGTCACCG 57.815 50.000 0.00 0.00 0.00 4.94
2168 2605 9.488762 AGTTAGCAAGGCACCACTATATATATA 57.511 33.333 2.49 2.49 0.00 0.86
2169 2606 8.380742 AGTTAGCAAGGCACCACTATATATAT 57.619 34.615 0.00 0.00 0.00 0.86
2170 2607 7.792364 AGTTAGCAAGGCACCACTATATATA 57.208 36.000 0.00 0.00 0.00 0.86
2171 2608 6.688073 AGTTAGCAAGGCACCACTATATAT 57.312 37.500 0.00 0.00 0.00 0.86
2172 2609 7.606135 TTAGTTAGCAAGGCACCACTATATA 57.394 36.000 0.00 0.00 0.00 0.86
2173 2610 6.494666 TTAGTTAGCAAGGCACCACTATAT 57.505 37.500 0.00 0.00 0.00 0.86
2174 2611 5.943349 TTAGTTAGCAAGGCACCACTATA 57.057 39.130 0.00 0.00 0.00 1.31
2175 2612 4.837093 TTAGTTAGCAAGGCACCACTAT 57.163 40.909 0.00 0.00 0.00 2.12
2425 2928 3.347958 TGTTACTTGCTGCCTTTTTCG 57.652 42.857 0.00 0.00 0.00 3.46
2524 3064 6.882072 TCAAATTCAACACAAACACAACAAC 58.118 32.000 0.00 0.00 0.00 3.32
2673 3226 2.038659 TGCTGGGCTTTTGCTTAACTT 58.961 42.857 0.00 0.00 46.54 2.66
2694 3247 2.500229 CTTCTGGTTGTTCGCCCTTTA 58.500 47.619 0.00 0.00 0.00 1.85
2714 3267 2.802816 CGATTGTACTATTGCTCAGGCC 59.197 50.000 0.00 0.00 37.74 5.19
2970 3589 7.716612 AGGGAAACAAAATACAAGTGAGAAAG 58.283 34.615 0.00 0.00 0.00 2.62
2971 3590 7.654022 AGGGAAACAAAATACAAGTGAGAAA 57.346 32.000 0.00 0.00 0.00 2.52
3018 3639 7.158099 TCTACAGACCATATATCATCAACCG 57.842 40.000 0.00 0.00 0.00 4.44
3222 3869 1.101331 GCTGCTTGGGGATTCAGAAG 58.899 55.000 0.00 0.00 0.00 2.85
3317 3976 5.356190 CACTAGGAACATCAGTTGAATGCAT 59.644 40.000 0.00 0.00 38.30 3.96
3345 4004 3.245518 TGAGCCGATCTTTTTCATCGA 57.754 42.857 3.68 0.00 44.95 3.59
3351 4010 3.941483 ACGATCATTGAGCCGATCTTTTT 59.059 39.130 15.26 0.00 36.66 1.94
3403 4062 1.902508 TCATGGACCGCTTCTTTCTCT 59.097 47.619 0.00 0.00 0.00 3.10
3458 4118 1.683943 CCAGCCATGGTGACTATTGG 58.316 55.000 14.67 6.49 42.17 3.16
4294 4964 0.975556 TCCCTCCAAGCATGCTACGA 60.976 55.000 23.00 17.66 0.00 3.43
4591 5261 2.043115 AGGAGTGGTCATGGTGTCTAGA 59.957 50.000 0.00 0.00 0.00 2.43
4650 5326 2.117423 ACTTTGGGGGCCTTTCCG 59.883 61.111 0.84 0.00 34.94 4.30
4699 5375 4.407621 TGAAGAACTGTCACAGAAAGGGTA 59.592 41.667 13.14 0.00 35.18 3.69
4912 5588 2.888447 AAAGCTCAGCCTCGGCACT 61.888 57.895 11.02 0.00 44.88 4.40
4918 5594 1.466558 GTAACTGCAAAGCTCAGCCTC 59.533 52.381 7.76 0.00 35.04 4.70
5585 6317 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
5586 6318 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
5587 6319 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
5588 6320 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
5589 6321 2.094390 TGACAAGTATTTCCGGACGGAG 60.094 50.000 13.64 3.15 46.06 4.63
5590 6322 1.894466 TGACAAGTATTTCCGGACGGA 59.106 47.619 1.83 9.76 43.52 4.69
5591 6323 2.373540 TGACAAGTATTTCCGGACGG 57.626 50.000 1.83 3.96 0.00 4.79
5592 6324 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
5593 6325 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
5594 6326 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
5595 6327 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
5596 6328 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
5603 6335 8.096414 CCCCTTTTATTCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
5604 6336 8.313292 TCCCCTTTTATTCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
5605 6337 8.200024 TCCCCTTTTATTCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
5606 6338 7.789202 TCCCCTTTTATTCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
5607 6339 8.260114 ACATCCCCTTTTATTCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
5608 6340 8.378115 ACATCCCCTTTTATTCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
5611 6343 9.713684 AGATACATCCCCTTTTATTCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
5617 6349 9.170890 ACATCTAGATACATCCCCTTTTATTCA 57.829 33.333 4.54 0.00 0.00 2.57
5625 6357 9.845214 ACTAAAATACATCTAGATACATCCCCT 57.155 33.333 4.54 0.00 0.00 4.79
5647 6379 9.886132 GACAAAAAGGGATGTATCTAGAACTAA 57.114 33.333 0.00 0.00 0.00 2.24
5648 6380 8.483758 GGACAAAAAGGGATGTATCTAGAACTA 58.516 37.037 0.00 0.00 0.00 2.24
5649 6381 7.037586 TGGACAAAAAGGGATGTATCTAGAACT 60.038 37.037 0.00 0.00 0.00 3.01
5650 6382 7.110155 TGGACAAAAAGGGATGTATCTAGAAC 58.890 38.462 0.00 0.00 0.00 3.01
5651 6383 7.265599 TGGACAAAAAGGGATGTATCTAGAA 57.734 36.000 0.00 0.00 0.00 2.10
5652 6384 6.884472 TGGACAAAAAGGGATGTATCTAGA 57.116 37.500 0.00 0.00 0.00 2.43
5653 6385 8.525290 AAATGGACAAAAAGGGATGTATCTAG 57.475 34.615 0.00 0.00 0.00 2.43
5654 6386 8.748412 CAAAATGGACAAAAAGGGATGTATCTA 58.252 33.333 0.00 0.00 0.00 1.98
5655 6387 7.454380 TCAAAATGGACAAAAAGGGATGTATCT 59.546 33.333 0.00 0.00 0.00 1.98
5656 6388 7.610865 TCAAAATGGACAAAAAGGGATGTATC 58.389 34.615 0.00 0.00 0.00 2.24
5657 6389 7.552050 TCAAAATGGACAAAAAGGGATGTAT 57.448 32.000 0.00 0.00 0.00 2.29
5658 6390 6.985653 TCAAAATGGACAAAAAGGGATGTA 57.014 33.333 0.00 0.00 0.00 2.29
5659 6391 5.885449 TCAAAATGGACAAAAAGGGATGT 57.115 34.783 0.00 0.00 0.00 3.06
5660 6392 6.369615 GTCATCAAAATGGACAAAAAGGGATG 59.630 38.462 0.00 0.00 33.42 3.51
5661 6393 6.043012 TGTCATCAAAATGGACAAAAAGGGAT 59.957 34.615 0.00 0.00 33.42 3.85
5662 6394 5.365025 TGTCATCAAAATGGACAAAAAGGGA 59.635 36.000 0.00 0.00 33.42 4.20
5663 6395 5.609423 TGTCATCAAAATGGACAAAAAGGG 58.391 37.500 0.00 0.00 33.42 3.95
5664 6396 6.762661 ACTTGTCATCAAAATGGACAAAAAGG 59.237 34.615 7.70 0.11 34.98 3.11
5665 6397 7.775397 ACTTGTCATCAAAATGGACAAAAAG 57.225 32.000 7.70 0.11 34.98 2.27
5666 6398 9.829507 AATACTTGTCATCAAAATGGACAAAAA 57.170 25.926 7.70 0.55 34.98 1.94
5667 6399 9.829507 AAATACTTGTCATCAAAATGGACAAAA 57.170 25.926 7.70 0.84 34.98 2.44
5668 6400 9.829507 AAAATACTTGTCATCAAAATGGACAAA 57.170 25.926 7.70 0.00 34.98 2.83
5669 6401 9.474920 GAAAATACTTGTCATCAAAATGGACAA 57.525 29.630 0.00 0.00 34.59 3.18
5670 6402 7.807433 CGAAAATACTTGTCATCAAAATGGACA 59.193 33.333 0.00 0.00 33.42 4.02
5671 6403 7.273381 CCGAAAATACTTGTCATCAAAATGGAC 59.727 37.037 0.00 0.00 33.42 4.02
5672 6404 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
5673 6405 7.312154 TCCGAAAATACTTGTCATCAAAATGG 58.688 34.615 0.00 0.00 33.42 3.16
5674 6406 8.800972 CATCCGAAAATACTTGTCATCAAAATG 58.199 33.333 0.00 0.00 32.87 2.32
5675 6407 7.975616 CCATCCGAAAATACTTGTCATCAAAAT 59.024 33.333 0.00 0.00 32.87 1.82
5676 6408 7.175816 TCCATCCGAAAATACTTGTCATCAAAA 59.824 33.333 0.00 0.00 32.87 2.44
5677 6409 6.657117 TCCATCCGAAAATACTTGTCATCAAA 59.343 34.615 0.00 0.00 32.87 2.69
5678 6410 6.176896 TCCATCCGAAAATACTTGTCATCAA 58.823 36.000 0.00 0.00 0.00 2.57
5679 6411 5.739959 TCCATCCGAAAATACTTGTCATCA 58.260 37.500 0.00 0.00 0.00 3.07
5680 6412 5.817816 ACTCCATCCGAAAATACTTGTCATC 59.182 40.000 0.00 0.00 0.00 2.92
5681 6413 5.586243 CACTCCATCCGAAAATACTTGTCAT 59.414 40.000 0.00 0.00 0.00 3.06
5682 6414 4.935205 CACTCCATCCGAAAATACTTGTCA 59.065 41.667 0.00 0.00 0.00 3.58
5683 6415 5.175859 TCACTCCATCCGAAAATACTTGTC 58.824 41.667 0.00 0.00 0.00 3.18
5684 6416 5.160607 TCACTCCATCCGAAAATACTTGT 57.839 39.130 0.00 0.00 0.00 3.16
5685 6417 5.178797 ACTCACTCCATCCGAAAATACTTG 58.821 41.667 0.00 0.00 0.00 3.16
5686 6418 5.422214 ACTCACTCCATCCGAAAATACTT 57.578 39.130 0.00 0.00 0.00 2.24
5687 6419 5.450137 CGTACTCACTCCATCCGAAAATACT 60.450 44.000 0.00 0.00 0.00 2.12
5688 6420 4.738740 CGTACTCACTCCATCCGAAAATAC 59.261 45.833 0.00 0.00 0.00 1.89
5689 6421 4.400251 ACGTACTCACTCCATCCGAAAATA 59.600 41.667 0.00 0.00 0.00 1.40
5690 6422 3.194968 ACGTACTCACTCCATCCGAAAAT 59.805 43.478 0.00 0.00 0.00 1.82
5691 6423 2.559668 ACGTACTCACTCCATCCGAAAA 59.440 45.455 0.00 0.00 0.00 2.29
5692 6424 2.094906 CACGTACTCACTCCATCCGAAA 60.095 50.000 0.00 0.00 0.00 3.46
5693 6425 1.471287 CACGTACTCACTCCATCCGAA 59.529 52.381 0.00 0.00 0.00 4.30
5694 6426 1.092348 CACGTACTCACTCCATCCGA 58.908 55.000 0.00 0.00 0.00 4.55
5695 6427 0.809385 ACACGTACTCACTCCATCCG 59.191 55.000 0.00 0.00 0.00 4.18
5696 6428 2.993899 CAAACACGTACTCACTCCATCC 59.006 50.000 0.00 0.00 0.00 3.51
5697 6429 3.909430 TCAAACACGTACTCACTCCATC 58.091 45.455 0.00 0.00 0.00 3.51
5698 6430 4.537135 ATCAAACACGTACTCACTCCAT 57.463 40.909 0.00 0.00 0.00 3.41
5699 6431 4.055360 CAATCAAACACGTACTCACTCCA 58.945 43.478 0.00 0.00 0.00 3.86
5700 6432 4.056050 ACAATCAAACACGTACTCACTCC 58.944 43.478 0.00 0.00 0.00 3.85
5701 6433 4.982916 AGACAATCAAACACGTACTCACTC 59.017 41.667 0.00 0.00 0.00 3.51
5702 6434 4.945246 AGACAATCAAACACGTACTCACT 58.055 39.130 0.00 0.00 0.00 3.41
5703 6435 5.652744 AAGACAATCAAACACGTACTCAC 57.347 39.130 0.00 0.00 0.00 3.51
5704 6436 5.404366 GCTAAGACAATCAAACACGTACTCA 59.596 40.000 0.00 0.00 0.00 3.41
5705 6437 5.442909 CGCTAAGACAATCAAACACGTACTC 60.443 44.000 0.00 0.00 0.00 2.59
5706 6438 4.384846 CGCTAAGACAATCAAACACGTACT 59.615 41.667 0.00 0.00 0.00 2.73
5802 6535 2.717011 CCAAACACAAAACGCGATGTAC 59.283 45.455 15.93 0.00 0.00 2.90
5806 6539 2.853731 TTCCAAACACAAAACGCGAT 57.146 40.000 15.93 0.00 0.00 4.58
5809 6542 2.222707 GCTGTTTCCAAACACAAAACGC 60.223 45.455 0.55 0.00 43.45 4.84
5810 6543 2.347150 GGCTGTTTCCAAACACAAAACG 59.653 45.455 0.55 0.00 43.45 3.60
5841 6574 3.490078 GGCTTCGTTGTCAATGTCCAAAA 60.490 43.478 4.72 0.00 0.00 2.44
5885 6618 7.784633 TGTATTGAACTGATATGCATTCGAA 57.215 32.000 3.54 0.00 0.00 3.71
5898 6631 8.522830 ACCTTACATTTTGGATGTATTGAACTG 58.477 33.333 0.24 0.00 34.83 3.16
6027 6800 1.103803 TGTCGGCTGAGATGAGGTAC 58.896 55.000 0.00 0.00 0.00 3.34
6050 6824 4.064388 TGACACTTCGCATCATTCTTTCA 58.936 39.130 0.00 0.00 0.00 2.69
6114 6888 1.190984 CACATCGACACGCTATGCATC 59.809 52.381 0.19 0.00 0.00 3.91
6132 7423 4.478206 TGTCTCAATTCCAGGAGATCAC 57.522 45.455 0.00 0.00 41.77 3.06
6137 7428 5.931146 GCTGTATATGTCTCAATTCCAGGAG 59.069 44.000 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.