Multiple sequence alignment - TraesCS2D01G131900

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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 TraesCS2D01G131900 chr2D 100.000 6545 0 0 1 6545 76864658 76858114 0.000000e+00 12087
1 TraesCS2D01G131900 chr2A 92.034 3201 164 49 3387 6545 77530591 77527440 0.000000e+00 4414
2 TraesCS2D01G131900 chr2A 90.537 2029 105 40 687 2683 77533433 77531460 0.000000e+00 2603
3 TraesCS2D01G131900 chr2A 93.777 707 37 4 2685 3386 77531337 77530633 0.000000e+00 1055
4 TraesCS2D01G131900 chr2A 91.691 698 28 6 1 679 704703673 704704359 0.000000e+00 941
5 TraesCS2D01G131900 chr2B 90.224 2762 160 31 687 3386 118608658 118605945 0.000000e+00 3504
6 TraesCS2D01G131900 chr2B 91.439 2009 89 38 4578 6545 118604629 118602663 0.000000e+00 2680
7 TraesCS2D01G131900 chr2B 96.330 1199 38 6 3387 4583 118605904 118604710 0.000000e+00 1965
8 TraesCS2D01G131900 chr2B 84.694 392 46 12 8 393 58297133 58297516 4.790000e-101 379
9 TraesCS2D01G131900 chr2B 81.893 243 37 2 452 693 776689029 776689265 1.440000e-46 198
10 TraesCS2D01G131900 chr7A 91.822 697 27 6 1 679 12114881 12115565 0.000000e+00 944
11 TraesCS2D01G131900 chr7A 96.703 91 1 2 1276 1365 519105048 519104959 4.090000e-32 150
12 TraesCS2D01G131900 chr1D 85.823 395 42 10 8 393 391951400 391951789 2.200000e-109 407
13 TraesCS2D01G131900 chr1D 87.685 203 16 4 487 687 396311124 396310929 1.840000e-55 228
14 TraesCS2D01G131900 chr6B 84.461 399 51 5 1 393 95560104 95559711 3.700000e-102 383
15 TraesCS2D01G131900 chr3B 83.463 387 45 8 13 393 812717054 812716681 6.280000e-90 342
16 TraesCS2D01G131900 chr3B 84.503 342 34 5 350 679 725027760 725028094 2.940000e-83 320
17 TraesCS2D01G131900 chr3B 80.398 352 41 12 347 682 755658537 755658198 6.560000e-60 243
18 TraesCS2D01G131900 chr3B 98.901 91 0 1 1268 1357 543724370 543724460 1.890000e-35 161
19 TraesCS2D01G131900 chr5D 91.339 254 15 2 429 682 335790745 335790499 2.260000e-89 340
20 TraesCS2D01G131900 chr5D 88.489 278 31 1 1 278 44185202 44185478 1.050000e-87 335
21 TraesCS2D01G131900 chr5D 80.115 347 41 13 347 679 418463081 418462749 3.950000e-57 233
22 TraesCS2D01G131900 chr5A 82.133 375 40 9 26 394 316129221 316128868 4.960000e-76 296
23 TraesCS2D01G131900 chr5A 79.370 349 49 9 347 682 316128946 316128608 2.370000e-54 224
24 TraesCS2D01G131900 chr5A 82.403 233 34 2 452 684 645287198 645286973 5.180000e-46 196
25 TraesCS2D01G131900 chr5B 82.965 317 35 6 285 588 644457058 644456748 1.080000e-67 268
26 TraesCS2D01G131900 chr7D 80.460 348 44 9 347 682 5793401 5793066 1.820000e-60 244
27 TraesCS2D01G131900 chr7D 93.750 96 6 0 1272 1367 496106741 496106836 1.900000e-30 145
28 TraesCS2D01G131900 chr3A 85.470 234 27 2 446 679 501927445 501927671 3.050000e-58 237
29 TraesCS2D01G131900 chr1A 85.463 227 27 1 453 679 544297400 544297620 1.420000e-56 231
30 TraesCS2D01G131900 chr1A 96.552 87 1 2 1268 1354 571561471 571561555 6.840000e-30 143
31 TraesCS2D01G131900 chr4A 83.268 257 36 2 431 687 614547455 614547206 5.100000e-56 230
32 TraesCS2D01G131900 chr1B 86.735 196 20 1 487 682 525904935 525904746 5.140000e-51 213
33 TraesCS2D01G131900 chr1B 93.878 98 2 3 1272 1366 661494193 661494097 1.900000e-30 145
34 TraesCS2D01G131900 chr7B 82.000 250 36 3 431 679 451356693 451356934 3.090000e-48 204
35 TraesCS2D01G131900 chr3D 86.885 183 12 4 8 184 554715394 554715218 1.860000e-45 195
36 TraesCS2D01G131900 chr3D 100.000 84 0 0 1271 1354 417381202 417381285 8.790000e-34 156
37 TraesCS2D01G131900 chrUn 98.864 88 0 1 1269 1355 32916325 32916412 8.790000e-34 156


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 TraesCS2D01G131900 chr2D 76858114 76864658 6544 True 12087.000000 12087 100.000000 1 6545 1 chr2D.!!$R1 6544
1 TraesCS2D01G131900 chr2A 77527440 77533433 5993 True 2690.666667 4414 92.116000 687 6545 3 chr2A.!!$R1 5858
2 TraesCS2D01G131900 chr2A 704703673 704704359 686 False 941.000000 941 91.691000 1 679 1 chr2A.!!$F1 678
3 TraesCS2D01G131900 chr2B 118602663 118608658 5995 True 2716.333333 3504 92.664333 687 6545 3 chr2B.!!$R1 5858
4 TraesCS2D01G131900 chr7A 12114881 12115565 684 False 944.000000 944 91.822000 1 679 1 chr7A.!!$F1 678
5 TraesCS2D01G131900 chr5A 316128608 316129221 613 True 260.000000 296 80.751500 26 682 2 chr5A.!!$R2 656

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
527 546 0.259065 TTACATGCCGGGCCCAATTA 59.741 50.0 24.92 4.85 0.00 1.40 F
592 624 0.396435 TGAAACAGCCGACCACTCAT 59.604 50.0 0.00 0.00 0.00 2.90 F
1568 1630 0.461870 CGCATTTGTCCCGGAGATCA 60.462 55.0 0.73 0.00 0.00 2.92 F
3153 3376 0.457166 TTCGTCGTAATCCGGCACTG 60.457 55.0 0.00 0.00 42.71 3.66 F
3245 3471 1.272807 TTTCCTAACGGGACTCCCAG 58.727 55.0 14.92 9.33 45.83 4.45 F
4110 4377 0.108396 TGGCTACACTGCAAGCTTCA 59.892 50.0 7.97 0.00 37.60 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2063 2132 0.250513 ACATTGTCCTCGCCTTCTCC 59.749 55.000 0.0 0.0 0.00 3.71 R
2142 2212 2.105477 AGCTGATGAAATATCCCGCAGT 59.895 45.455 0.0 0.0 0.00 4.40 R
3239 3465 0.244994 CAGAGTCGGTTCACTGGGAG 59.755 60.000 0.0 0.0 0.00 4.30 R
4110 4377 0.673437 CATTCGCCCTTTGTGGTGTT 59.327 50.000 0.0 0.0 37.20 3.32 R
5070 5441 3.669824 GCAATCACACAATGCTGTCTCTG 60.670 47.826 0.0 0.0 37.12 3.35 R
5827 6203 0.453390 GGCGAAGGAAAGAAGCCATG 59.547 55.000 0.0 0.0 46.48 3.66 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
40 41 2.750350 CAAGGACCAAGGGACGCT 59.250 61.111 0.00 0.00 0.00 5.07
69 70 2.520458 CCAGGGTTCAGGCCAACA 59.480 61.111 5.01 0.00 0.00 3.33
156 163 4.045334 AGAAAAAGGGAGGAGAGAGAGAGA 59.955 45.833 0.00 0.00 0.00 3.10
157 164 3.669939 AAAGGGAGGAGAGAGAGAGAG 57.330 52.381 0.00 0.00 0.00 3.20
332 339 1.256812 AGGGACCCGATTGCTTTTTG 58.743 50.000 4.40 0.00 0.00 2.44
333 340 0.966179 GGGACCCGATTGCTTTTTGT 59.034 50.000 0.00 0.00 0.00 2.83
334 341 1.343142 GGGACCCGATTGCTTTTTGTT 59.657 47.619 0.00 0.00 0.00 2.83
473 480 1.620819 GAGACACTGACATGTGGGTCT 59.379 52.381 18.31 18.31 41.84 3.85
525 544 1.455587 CTTACATGCCGGGCCCAAT 60.456 57.895 24.92 9.41 0.00 3.16
527 546 0.259065 TTACATGCCGGGCCCAATTA 59.741 50.000 24.92 4.85 0.00 1.40
529 548 0.398381 ACATGCCGGGCCCAATTATT 60.398 50.000 24.92 0.00 0.00 1.40
563 582 8.579600 CGATCAATAGTAAAGCATTAGACGATC 58.420 37.037 0.00 0.00 0.00 3.69
567 586 9.249457 CAATAGTAAAGCATTAGACGATCAGAA 57.751 33.333 0.00 0.00 0.00 3.02
592 624 0.396435 TGAAACAGCCGACCACTCAT 59.604 50.000 0.00 0.00 0.00 2.90
704 736 8.688747 ATCAGAAAAATAGAAGGCTAATCCTG 57.311 34.615 0.00 0.00 46.94 3.86
881 913 3.787001 CTCTCCCGGTCCAAGCCC 61.787 72.222 0.00 0.00 0.00 5.19
995 1032 2.177778 GTCCGTCCGTCCGAGAAC 59.822 66.667 0.00 0.00 0.00 3.01
1004 1041 1.469940 CCGTCCGAGAACCAAGATGAG 60.470 57.143 0.00 0.00 0.00 2.90
1077 1114 1.674057 CCGGGTGAGTGAGCTCTTT 59.326 57.895 16.19 2.43 42.13 2.52
1167 1204 2.468831 GAGTCCTCATGCGTGAATCTC 58.531 52.381 10.41 12.98 33.05 2.75
1187 1224 3.999663 CTCTTCCTGTTCTTGGTGATGAC 59.000 47.826 0.00 0.00 0.00 3.06
1248 1298 8.363029 GCGAACGTTTTCCAAAAGAATATTAAG 58.637 33.333 0.46 0.00 33.44 1.85
1250 1300 8.528917 AACGTTTTCCAAAAGAATATTAAGCC 57.471 30.769 0.00 0.00 33.44 4.35
1262 1312 6.716284 AGAATATTAAGCCCTGCTAGGATTC 58.284 40.000 0.00 2.23 38.25 2.52
1348 1399 1.203087 TCAAGTCTCGGTGGGACCTTA 60.203 52.381 0.00 0.00 35.66 2.69
1381 1433 7.452880 TGTATTTTTGCTCAGCTCAGTAATT 57.547 32.000 0.00 0.00 0.00 1.40
1385 1437 3.969287 TGCTCAGCTCAGTAATTCAGT 57.031 42.857 0.00 0.00 0.00 3.41
1496 1558 2.945008 CACAAGAACAACTCAGAAGGCA 59.055 45.455 0.00 0.00 0.00 4.75
1513 1575 2.955660 AGGCACATTTCTTCGGTTCAAA 59.044 40.909 0.00 0.00 0.00 2.69
1566 1628 0.469917 ATCGCATTTGTCCCGGAGAT 59.530 50.000 0.73 0.00 0.00 2.75
1568 1630 0.461870 CGCATTTGTCCCGGAGATCA 60.462 55.000 0.73 0.00 0.00 2.92
1666 1729 2.880890 CAAACCCTCTCAAGGTCTTGTG 59.119 50.000 10.10 8.21 41.59 3.33
1667 1730 1.807814 ACCCTCTCAAGGTCTTGTGT 58.192 50.000 10.10 0.57 41.59 3.72
1671 1734 2.548920 CCTCTCAAGGTCTTGTGTCACC 60.549 54.545 10.10 0.00 41.16 4.02
1676 1739 2.614057 CAAGGTCTTGTGTCACCAACTC 59.386 50.000 0.00 0.00 34.80 3.01
1682 1745 2.148916 TGTGTCACCAACTCGACATC 57.851 50.000 0.00 0.00 43.59 3.06
1700 1764 5.336849 CGACATCTTCCCTCTTCTGTTAACT 60.337 44.000 7.22 0.00 0.00 2.24
1713 1777 8.178313 TCTTCTGTTAACTTGTGTATCTCTGA 57.822 34.615 7.22 0.00 0.00 3.27
1740 1804 3.391965 TGCTCATGCATTTGTTTGGTTC 58.608 40.909 0.00 0.00 45.31 3.62
1875 1943 2.159421 GCGAAGAGTTGTCGATGTCCTA 60.159 50.000 0.00 0.00 41.02 2.94
1957 2026 8.464404 CAACTATCTATCCATTATGGCATTTGG 58.536 37.037 18.29 18.29 37.47 3.28
1962 2031 3.717576 TCCATTATGGCATTTGGTTCCA 58.282 40.909 21.58 6.60 37.47 3.53
1981 2050 2.236223 ATCAGGGAGTGTGCTGCTCG 62.236 60.000 0.00 0.00 34.00 5.03
2018 2087 3.512033 TCTCGCTTTTCTTAGAGCTCC 57.488 47.619 10.93 0.00 36.76 4.70
2022 2091 1.921230 GCTTTTCTTAGAGCTCCGTCG 59.079 52.381 10.93 0.00 36.01 5.12
2116 2185 4.020573 TGTGGACTTGGTAGGTCACTTATG 60.021 45.833 0.00 0.00 35.61 1.90
2122 2191 6.698380 ACTTGGTAGGTCACTTATGTTAGTG 58.302 40.000 0.00 0.00 45.46 2.74
2142 2212 5.553123 AGTGGAATTATGTACCGTGTTTCA 58.447 37.500 0.00 0.00 0.00 2.69
2191 2290 6.458615 GGTTAGACGGTTAGTTCAGAGAGATC 60.459 46.154 0.00 0.00 0.00 2.75
2192 2291 4.590918 AGACGGTTAGTTCAGAGAGATCA 58.409 43.478 0.00 0.00 0.00 2.92
2193 2292 5.010933 AGACGGTTAGTTCAGAGAGATCAA 58.989 41.667 0.00 0.00 0.00 2.57
2194 2293 5.124776 AGACGGTTAGTTCAGAGAGATCAAG 59.875 44.000 0.00 0.00 0.00 3.02
2195 2294 4.109050 CGGTTAGTTCAGAGAGATCAAGC 58.891 47.826 0.00 0.00 0.00 4.01
2196 2295 4.380973 CGGTTAGTTCAGAGAGATCAAGCA 60.381 45.833 0.00 0.00 0.00 3.91
2197 2296 5.482908 GGTTAGTTCAGAGAGATCAAGCAA 58.517 41.667 0.00 0.00 0.00 3.91
2198 2297 5.350091 GGTTAGTTCAGAGAGATCAAGCAAC 59.650 44.000 0.00 0.00 0.00 4.17
2199 2298 4.613925 AGTTCAGAGAGATCAAGCAACA 57.386 40.909 0.00 0.00 0.00 3.33
2200 2299 4.965814 AGTTCAGAGAGATCAAGCAACAA 58.034 39.130 0.00 0.00 0.00 2.83
2201 2300 5.558818 AGTTCAGAGAGATCAAGCAACAAT 58.441 37.500 0.00 0.00 0.00 2.71
2202 2301 6.705302 AGTTCAGAGAGATCAAGCAACAATA 58.295 36.000 0.00 0.00 0.00 1.90
2203 2302 7.337167 AGTTCAGAGAGATCAAGCAACAATAT 58.663 34.615 0.00 0.00 0.00 1.28
2204 2303 8.481314 AGTTCAGAGAGATCAAGCAACAATATA 58.519 33.333 0.00 0.00 0.00 0.86
2205 2304 9.270640 GTTCAGAGAGATCAAGCAACAATATAT 57.729 33.333 0.00 0.00 0.00 0.86
2246 2345 7.075674 TGCAGTGTTCAATGACATTACATAG 57.924 36.000 6.97 4.90 0.00 2.23
2247 2346 6.654582 TGCAGTGTTCAATGACATTACATAGT 59.345 34.615 6.97 0.00 0.00 2.12
2290 2389 1.942657 CCATTGCCTACCTCATTGTCG 59.057 52.381 0.00 0.00 0.00 4.35
2306 2406 3.791973 TGTCGCATGTTCCAAAAACTT 57.208 38.095 0.00 0.00 0.00 2.66
2308 2408 4.109050 TGTCGCATGTTCCAAAAACTTTC 58.891 39.130 0.00 0.00 0.00 2.62
2323 2423 7.041440 CCAAAAACTTTCAGTTCTTTTTGTGGT 60.041 33.333 11.48 0.00 37.47 4.16
2332 2432 5.581874 CAGTTCTTTTTGTGGTGCTGAAAAT 59.418 36.000 0.00 0.00 0.00 1.82
2392 2492 4.937620 TCCTGACATTCTTCATGTAGCAAC 59.062 41.667 0.00 0.00 46.96 4.17
2407 2507 4.761227 TGTAGCAACGGACACGGATATATA 59.239 41.667 0.00 0.00 46.48 0.86
2590 2690 5.007385 TCGATCCTAAGTACTTCAAAGGC 57.993 43.478 12.39 1.42 0.00 4.35
2683 2783 6.893958 AAGTATTCGCAAGTAAGTCATCTG 57.106 37.500 0.00 0.00 39.48 2.90
2695 2916 0.672342 GTCATCTGCATCCATTGGCC 59.328 55.000 0.00 0.00 0.00 5.36
2855 3076 6.951062 TGTCATCAATAGATCTTCTCGTCT 57.049 37.500 0.00 0.00 30.20 4.18
2911 3134 5.503002 TCCTTAACCTTTAACATACAGCCC 58.497 41.667 0.00 0.00 0.00 5.19
2930 3153 5.939883 CAGCCCGAATCTTATATTCATTCCA 59.060 40.000 0.00 0.00 0.00 3.53
2957 3180 9.924650 TCTCTTTAAAGTTCCTGTTCACTATAC 57.075 33.333 14.74 0.00 0.00 1.47
2970 3193 6.500041 TGTTCACTATACTTGTTTTGCCAAC 58.500 36.000 0.00 0.00 0.00 3.77
3153 3376 0.457166 TTCGTCGTAATCCGGCACTG 60.457 55.000 0.00 0.00 42.71 3.66
3172 3395 1.302192 TTGTGTTAGCGGGGTGAGC 60.302 57.895 0.00 0.00 0.00 4.26
3239 3465 4.383173 TCTGAAGTTTTTCCTAACGGGAC 58.617 43.478 0.00 0.00 45.03 4.46
3245 3471 1.272807 TTTCCTAACGGGACTCCCAG 58.727 55.000 14.92 9.33 45.83 4.45
3259 3485 1.374758 CCCAGTGAACCGACTCTGC 60.375 63.158 0.00 0.00 32.32 4.26
3294 3520 6.200854 GCTTGTAACTTGGTTTGGAATCTTTG 59.799 38.462 0.00 0.00 0.00 2.77
3334 3560 6.378280 ACATGATCCTAAACCTGTCATTTTCC 59.622 38.462 0.00 0.00 0.00 3.13
3340 3566 8.348285 TCCTAAACCTGTCATTTTCCAAATAG 57.652 34.615 0.00 0.00 0.00 1.73
3346 3572 9.546428 AACCTGTCATTTTCCAAATAGAAAAAG 57.454 29.630 3.79 0.47 45.94 2.27
3371 3597 7.015584 AGCATAGTCCTATATGTGTTGATGTGA 59.984 37.037 0.00 0.00 35.87 3.58
3373 3599 9.148104 CATAGTCCTATATGTGTTGATGTGATG 57.852 37.037 0.00 0.00 0.00 3.07
3431 3698 9.868277 TTTTTGGAATTTACACTGGCTATATTG 57.132 29.630 0.00 0.00 0.00 1.90
3756 4023 7.359262 TGTGTATGAAATGTTAAGACTTCCG 57.641 36.000 0.00 0.00 0.00 4.30
3916 4183 9.821662 CTCATACATGCATATCATTGTTAGTTG 57.178 33.333 0.00 0.00 31.79 3.16
3921 4188 5.639757 TGCATATCATTGTTAGTTGTGTGC 58.360 37.500 0.00 0.00 0.00 4.57
3969 4236 9.601217 GTATTTTATCTGAACTGGTCTGTGTAT 57.399 33.333 0.00 0.00 0.00 2.29
3989 4256 4.946784 ATGTCTGCAGAATTTTACCGTC 57.053 40.909 20.19 2.06 0.00 4.79
4110 4377 0.108396 TGGCTACACTGCAAGCTTCA 59.892 50.000 7.97 0.00 37.60 3.02
4161 4428 8.503196 GCGTATGTTGTATTAATTCATCATGGA 58.497 33.333 20.39 6.66 0.00 3.41
4317 4584 2.162809 TGCAAGCAATATCACTGCACTG 59.837 45.455 0.96 0.00 42.48 3.66
4332 4599 1.207791 CACTGCAGGTATCCCTTCCT 58.792 55.000 19.93 0.00 39.89 3.36
4386 4654 3.616219 TGTGTGCTCCTGTGTAAACTTT 58.384 40.909 0.00 0.00 0.00 2.66
4571 4848 3.513515 TCCAAGGTGAGCAACAAGTTTTT 59.486 39.130 0.00 0.00 0.00 1.94
4817 5184 8.552034 GTTGAAGGCATGTGACTTATATTAGTC 58.448 37.037 13.72 13.72 44.93 2.59
4923 5294 2.619013 AAGAACTTATGCTTGCACGC 57.381 45.000 8.48 8.48 0.00 5.34
4932 5303 1.216298 TGCTTGCACGCAAATGCTTG 61.216 50.000 16.40 7.45 46.28 4.01
4977 5348 4.930696 AGGATTTAATTCGGGAAAGTGGT 58.069 39.130 0.00 0.00 0.00 4.16
4980 5351 5.047590 GGATTTAATTCGGGAAAGTGGTGTT 60.048 40.000 0.00 0.00 0.00 3.32
5070 5441 5.013183 ACAGGGGGATAATATCACTGTAAGC 59.987 44.000 17.01 0.00 38.00 3.09
5087 5458 1.520494 AGCAGAGACAGCATTGTGTG 58.480 50.000 0.00 0.00 37.76 3.82
5147 5518 5.049060 TCCTTGTTACACACCGAAATGATTG 60.049 40.000 0.00 0.00 0.00 2.67
5307 5678 4.667519 AAAAGATACGTAGGGCAGTAGG 57.332 45.455 0.08 0.00 0.00 3.18
5421 5797 3.074412 CAAGAGCACCGTTCCATTTAGT 58.926 45.455 0.00 0.00 0.00 2.24
5520 5896 1.640917 TCACGGGTAAAGAGGCTCTT 58.359 50.000 23.76 23.76 38.59 2.85
5567 5943 0.859232 ATACGTCGAATGCGGAATGC 59.141 50.000 0.00 0.00 46.70 3.56
5639 6015 5.772169 AGAAAAGAAAAGAAGTCCCCATGAG 59.228 40.000 0.00 0.00 0.00 2.90
5698 6074 2.698855 TTGTCATAGAGCAGCTTCCC 57.301 50.000 0.00 0.00 0.00 3.97
5713 6089 3.014623 GCTTCCCGGTAATTTACTGCTT 58.985 45.455 9.50 0.00 33.68 3.91
5827 6203 1.266989 GTTTACAGTTCCTGCCTGTGC 59.733 52.381 3.44 0.00 42.85 4.57
5844 6220 1.135575 GTGCATGGCTTCTTTCCTTCG 60.136 52.381 0.00 0.00 0.00 3.79
5850 6226 1.362406 GCTTCTTTCCTTCGCCTCCG 61.362 60.000 0.00 0.00 0.00 4.63
5856 6232 1.956629 TTCCTTCGCCTCCGGATGAC 61.957 60.000 11.34 0.00 34.56 3.06
5885 6261 9.590451 TTATTCATTCTTCCTGCATGATTTTTC 57.410 29.630 0.00 0.00 29.09 2.29
5988 6365 7.810282 AGTACAGATTACATTGATATCAGTCGC 59.190 37.037 5.39 0.00 0.00 5.19
6054 6442 5.181811 ACAGTAATTACCACCGCTTTTTACC 59.818 40.000 12.05 0.00 0.00 2.85
6056 6444 5.947566 AGTAATTACCACCGCTTTTTACCAT 59.052 36.000 12.05 0.00 0.00 3.55
6077 6465 5.590259 CCATACCCAACTATGAGAAGGTTTG 59.410 44.000 0.00 0.00 0.00 2.93
6080 6468 3.420893 CCAACTATGAGAAGGTTTGGCA 58.579 45.455 0.00 0.00 0.00 4.92
6101 6489 2.669569 GCAACGCCCTCAGCAAGA 60.670 61.111 0.00 0.00 44.04 3.02
6114 6502 3.535561 TCAGCAAGAGAATCGGAAATCC 58.464 45.455 0.00 0.00 42.67 3.01
6128 6516 4.900635 GGAAATCCGCACTTATTGATGT 57.099 40.909 0.00 0.00 0.00 3.06
6129 6517 5.248870 GGAAATCCGCACTTATTGATGTT 57.751 39.130 0.00 0.00 0.00 2.71
6130 6518 6.371809 GGAAATCCGCACTTATTGATGTTA 57.628 37.500 0.00 0.00 0.00 2.41
6131 6519 6.199393 GGAAATCCGCACTTATTGATGTTAC 58.801 40.000 0.00 0.00 0.00 2.50
6132 6520 6.038271 GGAAATCCGCACTTATTGATGTTACT 59.962 38.462 0.00 0.00 0.00 2.24
6133 6521 7.391148 AAATCCGCACTTATTGATGTTACTT 57.609 32.000 0.00 0.00 0.00 2.24
6134 6522 7.391148 AATCCGCACTTATTGATGTTACTTT 57.609 32.000 0.00 0.00 0.00 2.66
6135 6523 6.176975 TCCGCACTTATTGATGTTACTTTG 57.823 37.500 0.00 0.00 0.00 2.77
6158 6546 0.251564 TGCCGGATCCAACCACAATT 60.252 50.000 13.41 0.00 0.00 2.32
6159 6547 1.004862 TGCCGGATCCAACCACAATTA 59.995 47.619 13.41 0.00 0.00 1.40
6160 6548 2.096248 GCCGGATCCAACCACAATTAA 58.904 47.619 13.41 0.00 0.00 1.40
6161 6549 2.693074 GCCGGATCCAACCACAATTAAT 59.307 45.455 13.41 0.00 0.00 1.40
6164 6552 3.490761 CGGATCCAACCACAATTAATGGC 60.491 47.826 13.41 0.00 41.31 4.40
6182 6570 1.076332 GCGGGATCAACTACACACAC 58.924 55.000 0.00 0.00 0.00 3.82
6188 6576 4.314961 GGATCAACTACACACACATGACA 58.685 43.478 0.00 0.00 0.00 3.58
6232 6620 1.003118 TCACTCGAGGGTGAAAATGGG 59.997 52.381 15.72 0.00 42.35 4.00
6233 6621 0.322546 ACTCGAGGGTGAAAATGGGC 60.323 55.000 18.41 0.00 0.00 5.36
6234 6622 0.322456 CTCGAGGGTGAAAATGGGCA 60.322 55.000 3.91 0.00 0.00 5.36
6235 6623 0.322456 TCGAGGGTGAAAATGGGCAG 60.322 55.000 0.00 0.00 0.00 4.85
6236 6624 0.609131 CGAGGGTGAAAATGGGCAGT 60.609 55.000 0.00 0.00 0.00 4.40
6237 6625 1.177401 GAGGGTGAAAATGGGCAGTC 58.823 55.000 0.00 0.00 0.00 3.51
6251 6639 1.959282 GGCAGTCCATCCATCATTTCC 59.041 52.381 0.00 0.00 0.00 3.13
6295 6685 9.163899 GGTTAAAGTCCCTATTTTCTTACAGAG 57.836 37.037 0.00 0.00 0.00 3.35
6309 6709 6.922247 TCTTACAGAGAGTAGTAATGTCCG 57.078 41.667 0.00 0.00 33.43 4.79
6332 6732 5.107989 CGCGTAAATACATCGATTAGCAAGT 60.108 40.000 0.00 0.00 0.00 3.16
6346 6746 1.079503 GCAAGTCTCCCTAAACTGCG 58.920 55.000 0.00 0.00 0.00 5.18
6350 6750 2.188817 AGTCTCCCTAAACTGCGGAAT 58.811 47.619 0.00 0.00 0.00 3.01
6367 6767 4.803924 GCGGAATGATCTATGAACATCCCA 60.804 45.833 0.00 0.00 0.00 4.37
6382 6782 0.468214 TCCCAATTGCCCGAAACACA 60.468 50.000 0.00 0.00 0.00 3.72
6394 6794 0.439600 GAAACACAAATGGCGCATGC 59.560 50.000 10.83 7.91 41.71 4.06
6459 6862 3.255149 AGAGGCAAGAAACATCAGCAAAG 59.745 43.478 0.00 0.00 0.00 2.77
6479 6882 2.496871 AGCATCTGACTCAACTCTCAGG 59.503 50.000 0.00 0.00 35.54 3.86
6488 6891 3.572255 ACTCAACTCTCAGGTCTCAAGTC 59.428 47.826 0.00 0.00 0.00 3.01
6492 6895 3.153919 ACTCTCAGGTCTCAAGTCTCAC 58.846 50.000 0.00 0.00 0.00 3.51
6498 6901 2.171840 GGTCTCAAGTCTCACCAGCTA 58.828 52.381 0.00 0.00 0.00 3.32
6505 6908 1.548269 AGTCTCACCAGCTAGCACTTC 59.452 52.381 18.83 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 1.761174 GTCCCTTGGTCCTTGCTCA 59.239 57.895 0.00 0.00 0.00 4.26
135 142 4.352893 CTCTCTCTCTCTCCTCCCTTTTT 58.647 47.826 0.00 0.00 0.00 1.94
138 145 1.852965 CCTCTCTCTCTCTCCTCCCTT 59.147 57.143 0.00 0.00 0.00 3.95
332 339 4.098807 TCAGGTCCCTGCAAACTTAAAAAC 59.901 41.667 8.53 0.00 43.31 2.43
333 340 4.282496 TCAGGTCCCTGCAAACTTAAAAA 58.718 39.130 8.53 0.00 43.31 1.94
334 341 3.904717 TCAGGTCCCTGCAAACTTAAAA 58.095 40.909 8.53 0.00 43.31 1.52
473 480 3.737032 TGACCGTTAACTGACATGTGA 57.263 42.857 1.15 0.00 0.00 3.58
783 815 2.158959 CGAGTAGCTCGCCCGTTTG 61.159 63.158 5.60 0.00 46.75 2.93
841 873 2.642129 CGCGGCCACACAAAATCA 59.358 55.556 2.24 0.00 0.00 2.57
881 913 1.517832 CTACTGGAACTGGAGGCGG 59.482 63.158 0.00 0.00 34.32 6.13
882 914 1.153549 GCTACTGGAACTGGAGGCG 60.154 63.158 0.00 0.00 38.79 5.52
883 915 0.543749 ATGCTACTGGAACTGGAGGC 59.456 55.000 0.00 0.00 38.79 4.70
885 917 1.202463 CCGATGCTACTGGAACTGGAG 60.202 57.143 0.00 0.00 41.54 3.86
886 918 0.824109 CCGATGCTACTGGAACTGGA 59.176 55.000 0.00 0.00 0.00 3.86
887 919 0.824109 TCCGATGCTACTGGAACTGG 59.176 55.000 0.00 0.00 0.00 4.00
888 920 2.672961 TTCCGATGCTACTGGAACTG 57.327 50.000 0.00 0.00 36.87 3.16
889 921 2.223829 CGATTCCGATGCTACTGGAACT 60.224 50.000 0.00 0.00 44.05 3.01
890 922 2.128035 CGATTCCGATGCTACTGGAAC 58.872 52.381 0.00 0.00 44.05 3.62
891 923 1.538204 GCGATTCCGATGCTACTGGAA 60.538 52.381 0.00 0.00 45.22 3.53
978 1015 2.177778 GTTCTCGGACGGACGGAC 59.822 66.667 0.00 0.00 0.00 4.79
979 1016 3.058160 GGTTCTCGGACGGACGGA 61.058 66.667 0.00 0.00 0.00 4.69
980 1017 2.814183 CTTGGTTCTCGGACGGACGG 62.814 65.000 0.00 0.00 0.00 4.79
981 1018 1.443872 CTTGGTTCTCGGACGGACG 60.444 63.158 0.00 0.00 0.00 4.79
995 1032 1.153005 GAGGGGCAGCTCATCTTGG 60.153 63.158 0.00 0.00 0.00 3.61
1004 1041 4.814041 AGGAGGAGGAGGGGCAGC 62.814 72.222 0.00 0.00 0.00 5.25
1077 1114 2.021639 AGAGGAATGGATTGAGGAGGGA 60.022 50.000 0.00 0.00 0.00 4.20
1142 1179 0.248417 CACGCATGAGGACTCGAGAG 60.248 60.000 21.68 0.00 0.00 3.20
1167 1204 3.743521 TGTCATCACCAAGAACAGGAAG 58.256 45.455 0.00 0.00 0.00 3.46
1219 1259 2.032426 TCTTTTGGAAAACGTTCGCCTC 59.968 45.455 17.14 6.15 34.28 4.70
1248 1298 1.329256 TCTACGAATCCTAGCAGGGC 58.671 55.000 0.00 0.00 35.59 5.19
1250 1300 4.386867 TTGTTCTACGAATCCTAGCAGG 57.613 45.455 0.00 0.00 36.46 4.85
1262 1312 3.128589 CCATGGGACCATTTTGTTCTACG 59.871 47.826 2.85 0.00 33.90 3.51
1381 1433 5.105473 GGTACCAGTAGTAAGCATTGACTGA 60.105 44.000 7.15 0.00 37.01 3.41
1385 1437 5.748670 TTGGTACCAGTAGTAAGCATTGA 57.251 39.130 15.65 0.00 31.05 2.57
1440 1500 3.201290 CGAATTCACCCTGAGAATGAGG 58.799 50.000 6.22 0.00 40.24 3.86
1441 1501 2.611292 GCGAATTCACCCTGAGAATGAG 59.389 50.000 6.22 0.00 35.96 2.90
1447 1509 0.392193 AGCAGCGAATTCACCCTGAG 60.392 55.000 17.20 0.00 0.00 3.35
1496 1558 2.955660 TGGCTTTGAACCGAAGAAATGT 59.044 40.909 0.00 0.00 0.00 2.71
1513 1575 2.141911 AGATGATTTGGGAGGATGGCT 58.858 47.619 0.00 0.00 0.00 4.75
1566 1628 4.954933 GGCCAAGGCGATTACTGA 57.045 55.556 4.80 0.00 43.06 3.41
1666 1729 2.338500 GGAAGATGTCGAGTTGGTGAC 58.662 52.381 0.00 0.00 35.67 3.67
1667 1730 1.275291 GGGAAGATGTCGAGTTGGTGA 59.725 52.381 0.00 0.00 0.00 4.02
1671 1734 3.194542 AGAAGAGGGAAGATGTCGAGTTG 59.805 47.826 0.00 0.00 0.00 3.16
1676 1739 3.601443 AACAGAAGAGGGAAGATGTCG 57.399 47.619 0.00 0.00 0.00 4.35
1682 1745 5.368989 ACACAAGTTAACAGAAGAGGGAAG 58.631 41.667 8.61 0.00 0.00 3.46
1700 1764 2.354103 GCACAGGCTCAGAGATACACAA 60.354 50.000 0.00 0.00 36.96 3.33
1734 1798 3.907474 TGGACTCCACAATCTAGAACCAA 59.093 43.478 0.00 0.00 0.00 3.67
1736 1800 4.762289 ATGGACTCCACAATCTAGAACC 57.238 45.455 0.00 0.00 35.80 3.62
1740 1804 5.931146 GCTCATTATGGACTCCACAATCTAG 59.069 44.000 0.00 2.19 35.80 2.43
1785 1853 4.735132 TTCTTCGGCGCCTCGGTG 62.735 66.667 26.68 8.63 0.00 4.94
1875 1943 3.647771 GGCACCCCCTTCTTCCGT 61.648 66.667 0.00 0.00 0.00 4.69
1947 2016 2.112998 CCTGATGGAACCAAATGCCAT 58.887 47.619 0.00 0.00 44.70 4.40
1957 2026 0.326264 AGCACACTCCCTGATGGAAC 59.674 55.000 0.00 0.00 44.57 3.62
1962 2031 1.601171 GAGCAGCACACTCCCTGAT 59.399 57.895 0.00 0.00 0.00 2.90
2018 2087 7.644917 AAACGAAATAAATATTTGAGCGACG 57.355 32.000 11.05 10.61 36.13 5.12
2063 2132 0.250513 ACATTGTCCTCGCCTTCTCC 59.749 55.000 0.00 0.00 0.00 3.71
2116 2185 6.973229 AACACGGTACATAATTCCACTAAC 57.027 37.500 0.00 0.00 0.00 2.34
2122 2191 5.672819 GCAGTGAAACACGGTACATAATTCC 60.673 44.000 0.00 0.00 41.43 3.01
2142 2212 2.105477 AGCTGATGAAATATCCCGCAGT 59.895 45.455 0.00 0.00 0.00 4.40
2193 2292 9.445878 CCTCATTATCTGTGATATATTGTTGCT 57.554 33.333 0.00 0.00 0.00 3.91
2194 2293 9.440773 TCCTCATTATCTGTGATATATTGTTGC 57.559 33.333 0.00 0.00 0.00 4.17
2198 2297 9.096160 GCAGTCCTCATTATCTGTGATATATTG 57.904 37.037 0.00 0.00 0.00 1.90
2199 2298 8.819845 TGCAGTCCTCATTATCTGTGATATATT 58.180 33.333 0.00 0.00 0.00 1.28
2200 2299 8.371571 TGCAGTCCTCATTATCTGTGATATAT 57.628 34.615 0.00 0.00 0.00 0.86
2201 2300 7.452813 ACTGCAGTCCTCATTATCTGTGATATA 59.547 37.037 15.25 0.00 0.00 0.86
2202 2301 6.269538 ACTGCAGTCCTCATTATCTGTGATAT 59.730 38.462 15.25 0.00 0.00 1.63
2203 2302 5.600069 ACTGCAGTCCTCATTATCTGTGATA 59.400 40.000 15.25 0.00 0.00 2.15
2204 2303 4.408270 ACTGCAGTCCTCATTATCTGTGAT 59.592 41.667 15.25 0.00 0.00 3.06
2205 2304 3.771479 ACTGCAGTCCTCATTATCTGTGA 59.229 43.478 15.25 0.00 0.00 3.58
2306 2406 3.761218 TCAGCACCACAAAAAGAACTGAA 59.239 39.130 0.00 0.00 30.46 3.02
2308 2408 3.781079 TCAGCACCACAAAAAGAACTG 57.219 42.857 0.00 0.00 0.00 3.16
2545 2645 3.659786 CGTGTCTCCCTTTGTAACATCA 58.340 45.455 0.00 0.00 0.00 3.07
2590 2690 8.752766 AAACTGCATTGATGACTTTCTTAATG 57.247 30.769 0.00 0.00 0.00 1.90
2683 2783 1.209990 TCCAATTTGGCCAATGGATGC 59.790 47.619 29.33 0.00 37.47 3.91
2695 2916 5.713025 AGATGGTTGAAATCGTCCAATTTG 58.287 37.500 0.00 0.00 33.55 2.32
2941 3164 6.856426 GCAAAACAAGTATAGTGAACAGGAAC 59.144 38.462 0.00 0.00 0.00 3.62
2957 3180 3.731652 TGATCTGGTTGGCAAAACAAG 57.268 42.857 0.00 0.00 30.95 3.16
2970 3193 2.307098 AGGTGAAGGTCCTTTGATCTGG 59.693 50.000 5.36 0.00 30.39 3.86
3000 3223 4.332828 AGTTTTGCATACCAAGGTACTCC 58.667 43.478 0.14 0.00 38.49 3.85
3153 3376 1.574702 GCTCACCCCGCTAACACAAC 61.575 60.000 0.00 0.00 0.00 3.32
3172 3395 6.595682 AGTATGACTTGAATGGAGGGTATTG 58.404 40.000 0.00 0.00 0.00 1.90
3239 3465 0.244994 CAGAGTCGGTTCACTGGGAG 59.755 60.000 0.00 0.00 0.00 4.30
3245 3471 2.086054 AATCAGCAGAGTCGGTTCAC 57.914 50.000 0.00 0.00 0.00 3.18
3259 3485 4.039124 ACCAAGTTACAAGCCCAAAATCAG 59.961 41.667 0.00 0.00 0.00 2.90
3294 3520 4.276926 GGATCATGTGGACATTAAGAAGGC 59.723 45.833 0.00 0.00 33.61 4.35
3340 3566 9.109393 TCAACACATATAGGACTATGCTTTTTC 57.891 33.333 2.17 0.00 33.26 2.29
3346 3572 7.154656 TCACATCAACACATATAGGACTATGC 58.845 38.462 2.17 0.00 33.26 3.14
3371 3597 8.255206 TCTTGCAGCTTTGATAATCAATTTCAT 58.745 29.630 0.00 0.00 36.11 2.57
3373 3599 8.470040 TTCTTGCAGCTTTGATAATCAATTTC 57.530 30.769 0.00 0.00 36.11 2.17
3447 3714 9.113876 CGAATTTACAACTTATCCAGTCAAAAC 57.886 33.333 0.00 0.00 32.94 2.43
3451 3718 7.972832 AACGAATTTACAACTTATCCAGTCA 57.027 32.000 0.00 0.00 32.94 3.41
3478 3745 9.745880 GTCAGGAAATGATTTACGATACTTCTA 57.254 33.333 0.00 0.00 40.92 2.10
3544 3811 4.202567 ACCAACATGTTGTATGAGGGAACT 60.203 41.667 31.20 2.30 40.65 3.01
3913 4180 1.742831 TCCAGTGACAAAGCACACAAC 59.257 47.619 0.00 0.00 41.19 3.32
3916 4183 1.268743 GCTTCCAGTGACAAAGCACAC 60.269 52.381 15.62 0.00 43.77 3.82
3921 4188 4.037208 ACTTGATTGCTTCCAGTGACAAAG 59.963 41.667 0.00 0.00 29.52 2.77
3969 4236 3.071479 GGACGGTAAAATTCTGCAGACA 58.929 45.455 18.03 8.50 0.00 3.41
4110 4377 0.673437 CATTCGCCCTTTGTGGTGTT 59.327 50.000 0.00 0.00 37.20 3.32
4287 4554 4.025360 TGATATTGCTTGCATCAAAGGGT 58.975 39.130 6.08 0.00 0.00 4.34
4386 4654 5.546499 AGATGAGTGTTTTGGGTAACTCCTA 59.454 40.000 0.00 0.00 38.61 2.94
4510 4778 9.787532 TTTATGTATGCTCTAATGCTTGAAAAC 57.212 29.630 0.00 0.00 0.00 2.43
4632 4999 9.890629 ACAACATCATTTAGTCTTTATGAGCTA 57.109 29.630 0.00 0.00 32.32 3.32
4932 5303 4.460382 TCTCCCTGAAAGCATTCAAATGTC 59.540 41.667 5.79 0.00 44.64 3.06
5070 5441 3.669824 GCAATCACACAATGCTGTCTCTG 60.670 47.826 0.00 0.00 37.12 3.35
5087 5458 5.875910 TGACATGGAATTTCATTTGGCAATC 59.124 36.000 0.00 0.00 25.88 2.67
5421 5797 2.028476 AGGATCGATCACAAACGGTTCA 60.028 45.455 25.93 0.00 0.00 3.18
5520 5896 2.563179 GACTAGAGCAGGTGTTCCTTCA 59.437 50.000 0.00 0.00 43.07 3.02
5567 5943 2.038295 AGTTCACTCTTGAAGCAGAGGG 59.962 50.000 4.05 0.00 44.73 4.30
5639 6015 0.952984 GCCACAAGTCCTCTGCAGTC 60.953 60.000 14.67 3.42 0.00 3.51
5698 6074 6.143278 GTGGAAACAAAAGCAGTAAATTACCG 59.857 38.462 0.00 0.00 46.06 4.02
5713 6089 9.653287 CTATACTACAGAATCAGTGGAAACAAA 57.347 33.333 0.00 0.00 46.06 2.83
5827 6203 0.453390 GGCGAAGGAAAGAAGCCATG 59.547 55.000 0.00 0.00 46.48 3.66
5828 6204 2.873797 GGCGAAGGAAAGAAGCCAT 58.126 52.632 0.00 0.00 46.48 4.40
5829 6205 4.397348 GGCGAAGGAAAGAAGCCA 57.603 55.556 0.00 0.00 46.48 4.75
5850 6226 7.144000 GCAGGAAGAATGAATAAATGTCATCC 58.856 38.462 0.00 0.00 34.60 3.51
5856 6232 9.542462 AAATCATGCAGGAAGAATGAATAAATG 57.458 29.630 4.62 0.00 45.46 2.32
5988 6365 7.065803 TGGAGTAACTTGTTCTTGTCTGAAAAG 59.934 37.037 0.91 0.91 0.00 2.27
6054 6442 5.590259 CCAAACCTTCTCATAGTTGGGTATG 59.410 44.000 0.00 0.00 31.04 2.39
6056 6444 4.566907 GCCAAACCTTCTCATAGTTGGGTA 60.567 45.833 0.00 0.00 37.00 3.69
6080 6468 2.980233 GCTGAGGGCGTTGCTGTT 60.980 61.111 0.00 0.00 0.00 3.16
6089 6477 0.813210 CCGATTCTCTTGCTGAGGGC 60.813 60.000 7.30 0.00 42.86 5.19
6108 6496 7.016361 AGTAACATCAATAAGTGCGGATTTC 57.984 36.000 0.00 0.00 0.00 2.17
6109 6497 7.391148 AAGTAACATCAATAAGTGCGGATTT 57.609 32.000 0.00 0.00 0.00 2.17
6110 6498 7.250569 CAAAGTAACATCAATAAGTGCGGATT 58.749 34.615 0.00 0.00 0.00 3.01
6111 6499 6.677920 GCAAAGTAACATCAATAAGTGCGGAT 60.678 38.462 0.00 0.00 0.00 4.18
6112 6500 5.391523 GCAAAGTAACATCAATAAGTGCGGA 60.392 40.000 0.00 0.00 0.00 5.54
6113 6501 4.793216 GCAAAGTAACATCAATAAGTGCGG 59.207 41.667 0.00 0.00 0.00 5.69
6114 6502 4.491942 CGCAAAGTAACATCAATAAGTGCG 59.508 41.667 0.00 0.00 44.01 5.34
6115 6503 5.390613 ACGCAAAGTAACATCAATAAGTGC 58.609 37.500 0.00 0.00 0.00 4.40
6116 6504 6.183359 GCAACGCAAAGTAACATCAATAAGTG 60.183 38.462 0.00 0.00 0.00 3.16
6117 6505 5.856455 GCAACGCAAAGTAACATCAATAAGT 59.144 36.000 0.00 0.00 0.00 2.24
6118 6506 5.286082 GGCAACGCAAAGTAACATCAATAAG 59.714 40.000 0.00 0.00 0.00 1.73
6119 6507 5.157781 GGCAACGCAAAGTAACATCAATAA 58.842 37.500 0.00 0.00 0.00 1.40
6120 6508 4.728534 GGCAACGCAAAGTAACATCAATA 58.271 39.130 0.00 0.00 0.00 1.90
6121 6509 3.574614 GGCAACGCAAAGTAACATCAAT 58.425 40.909 0.00 0.00 0.00 2.57
6122 6510 3.006659 GGCAACGCAAAGTAACATCAA 57.993 42.857 0.00 0.00 0.00 2.57
6123 6511 2.697431 GGCAACGCAAAGTAACATCA 57.303 45.000 0.00 0.00 0.00 3.07
6158 6546 2.502130 TGTGTAGTTGATCCCGCCATTA 59.498 45.455 0.00 0.00 0.00 1.90
6159 6547 1.280710 TGTGTAGTTGATCCCGCCATT 59.719 47.619 0.00 0.00 0.00 3.16
6160 6548 0.908910 TGTGTAGTTGATCCCGCCAT 59.091 50.000 0.00 0.00 0.00 4.40
6161 6549 0.036765 GTGTGTAGTTGATCCCGCCA 60.037 55.000 0.00 0.00 0.00 5.69
6164 6552 2.448926 TGTGTGTGTAGTTGATCCCG 57.551 50.000 0.00 0.00 0.00 5.14
6182 6570 8.506437 AGGAAATATAAACATACGCATGTCATG 58.494 33.333 8.56 8.56 44.83 3.07
6232 6620 1.605710 CGGAAATGATGGATGGACTGC 59.394 52.381 0.00 0.00 0.00 4.40
6233 6621 2.224606 CCGGAAATGATGGATGGACTG 58.775 52.381 0.00 0.00 0.00 3.51
6234 6622 1.477558 GCCGGAAATGATGGATGGACT 60.478 52.381 5.05 0.00 0.00 3.85
6235 6623 0.954452 GCCGGAAATGATGGATGGAC 59.046 55.000 5.05 0.00 0.00 4.02
6236 6624 0.178992 GGCCGGAAATGATGGATGGA 60.179 55.000 5.05 0.00 0.00 3.41
6237 6625 1.181098 GGGCCGGAAATGATGGATGG 61.181 60.000 5.05 0.00 0.00 3.51
6239 6627 0.261402 TTGGGCCGGAAATGATGGAT 59.739 50.000 5.05 0.00 0.00 3.41
6240 6628 0.040351 TTTGGGCCGGAAATGATGGA 59.960 50.000 5.05 0.00 0.00 3.41
6241 6629 0.461135 CTTTGGGCCGGAAATGATGG 59.539 55.000 5.05 0.00 0.00 3.51
6242 6630 1.185315 ACTTTGGGCCGGAAATGATG 58.815 50.000 5.05 0.00 0.00 3.07
6243 6631 2.291282 TGTACTTTGGGCCGGAAATGAT 60.291 45.455 5.05 0.00 0.00 2.45
6244 6632 1.074084 TGTACTTTGGGCCGGAAATGA 59.926 47.619 5.05 0.00 0.00 2.57
6251 6639 1.674322 CCTGGTGTACTTTGGGCCG 60.674 63.158 0.00 0.00 0.00 6.13
6283 6673 8.242053 CGGACATTACTACTCTCTGTAAGAAAA 58.758 37.037 0.00 0.00 46.34 2.29
6295 6685 6.201517 TGTATTTACGCGGACATTACTACTC 58.798 40.000 12.47 0.00 0.00 2.59
6309 6709 6.144080 AGACTTGCTAATCGATGTATTTACGC 59.856 38.462 0.00 0.00 0.00 4.42
6332 6732 2.184533 TCATTCCGCAGTTTAGGGAGA 58.815 47.619 0.00 0.00 0.00 3.71
6346 6746 7.600065 CAATTGGGATGTTCATAGATCATTCC 58.400 38.462 7.99 7.99 37.71 3.01
6350 6750 4.828939 GGCAATTGGGATGTTCATAGATCA 59.171 41.667 7.72 0.00 0.00 2.92
6367 6767 2.765122 CCATTTGTGTTTCGGGCAATT 58.235 42.857 0.00 0.00 0.00 2.32
6459 6862 2.233431 ACCTGAGAGTTGAGTCAGATGC 59.767 50.000 0.86 0.00 42.49 3.91
6479 6882 2.416701 GCTAGCTGGTGAGACTTGAGAC 60.417 54.545 7.70 0.00 0.00 3.36
6488 6891 0.610174 TGGAAGTGCTAGCTGGTGAG 59.390 55.000 17.23 0.00 0.00 3.51
6505 6908 3.325135 AGAAGGAAGGTTAGTGACACTGG 59.675 47.826 18.58 0.00 0.00 4.00
6511 6920 2.567615 GCTGGAGAAGGAAGGTTAGTGA 59.432 50.000 0.00 0.00 0.00 3.41
6512 6921 2.569404 AGCTGGAGAAGGAAGGTTAGTG 59.431 50.000 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.