Multiple sequence alignment - TraesCS5D01G305500

Loading Multiple Alignment...

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 TraesCS5D01G305500 chr5D 100.000 3827 0 0 1 3827 400298237 400294411 0.000000e+00 7068.0
1 TraesCS5D01G305500 chr5A 96.851 2255 63 3 750 2996 505628277 505626023 0.000000e+00 3764.0
2 TraesCS5D01G305500 chr5A 85.791 556 30 19 3206 3730 505625715 505625178 9.350000e-151 544.0
3 TraesCS5D01G305500 chr5A 92.593 216 13 2 2992 3204 505625989 505625774 1.340000e-79 307.0
4 TraesCS5D01G305500 chr5A 93.662 142 8 1 1 142 505640824 505640964 1.080000e-50 211.0
5 TraesCS5D01G305500 chr5A 95.556 90 3 1 135 224 526591826 526591738 3.990000e-30 143.0
6 TraesCS5D01G305500 chr5B 97.339 2029 54 0 968 2996 480303701 480301673 0.000000e+00 3448.0
7 TraesCS5D01G305500 chr5B 92.408 461 20 2 3381 3826 480300128 480299668 0.000000e+00 643.0
8 TraesCS5D01G305500 chr5B 93.882 425 14 5 557 969 480309731 480309307 6.980000e-177 630.0
9 TraesCS5D01G305500 chr5B 89.510 143 13 1 1 143 480310115 480309975 3.040000e-41 180.0
10 TraesCS5D01G305500 chr5B 88.591 149 9 3 3214 3361 480301286 480301145 1.410000e-39 174.0
11 TraesCS5D01G305500 chr7B 90.429 2236 169 30 781 2986 586265990 586263770 0.000000e+00 2902.0
12 TraesCS5D01G305500 chr7B 90.629 2177 167 26 781 2939 586659427 586661584 0.000000e+00 2856.0
13 TraesCS5D01G305500 chr7B 88.560 507 55 3 2436 2940 586668643 586669148 2.530000e-171 612.0
14 TraesCS5D01G305500 chr7B 91.837 98 8 0 140 237 414314538 414314441 1.850000e-28 137.0
15 TraesCS5D01G305500 chr7A 90.013 2233 188 28 781 2992 624967309 624965091 0.000000e+00 2856.0
16 TraesCS5D01G305500 chr7A 92.000 100 7 1 134 233 63791703 63791605 5.160000e-29 139.0
17 TraesCS5D01G305500 chr7D 90.404 2178 168 30 781 2940 543602073 543604227 0.000000e+00 2826.0
18 TraesCS5D01G305500 chr7D 92.544 1918 132 6 1001 2908 543059615 543057699 0.000000e+00 2739.0
19 TraesCS5D01G305500 chr7D 85.714 63 8 1 71 133 457216913 457216974 8.870000e-07 65.8
20 TraesCS5D01G305500 chr2D 81.793 1829 301 23 1086 2901 651417405 651419214 0.000000e+00 1504.0
21 TraesCS5D01G305500 chr2D 92.632 95 7 0 140 234 433984842 433984748 1.850000e-28 137.0
22 TraesCS5D01G305500 chr2A 81.429 1820 305 20 1095 2901 776218355 776216556 0.000000e+00 1458.0
23 TraesCS5D01G305500 chr4D 76.198 1252 277 15 1440 2676 354136552 354137797 3.220000e-180 641.0
24 TraesCS5D01G305500 chr4A 76.133 1236 276 13 1455 2676 110638673 110637443 6.980000e-177 630.0
25 TraesCS5D01G305500 chr4A 93.684 95 6 0 131 225 621812569 621812475 3.990000e-30 143.0
26 TraesCS5D01G305500 chr4A 94.505 91 5 0 138 228 609073820 609073910 1.430000e-29 141.0
27 TraesCS5D01G305500 chr3B 92.233 103 6 2 122 224 690417746 690417846 1.110000e-30 145.0
28 TraesCS5D01G305500 chr4B 93.617 94 6 0 140 233 565213377 565213470 1.430000e-29 141.0
29 TraesCS5D01G305500 chr6A 92.708 96 7 0 134 229 478526382 478526477 5.160000e-29 139.0


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 TraesCS5D01G305500 chr5D 400294411 400298237 3826 True 7068.000000 7068 100.000000 1 3827 1 chr5D.!!$R1 3826
1 TraesCS5D01G305500 chr5A 505625178 505628277 3099 True 1538.333333 3764 91.745000 750 3730 3 chr5A.!!$R2 2980
2 TraesCS5D01G305500 chr5B 480299668 480303701 4033 True 1421.666667 3448 92.779333 968 3826 3 chr5B.!!$R1 2858
3 TraesCS5D01G305500 chr5B 480309307 480310115 808 True 405.000000 630 91.696000 1 969 2 chr5B.!!$R2 968
4 TraesCS5D01G305500 chr7B 586263770 586265990 2220 True 2902.000000 2902 90.429000 781 2986 1 chr7B.!!$R2 2205
5 TraesCS5D01G305500 chr7B 586659427 586661584 2157 False 2856.000000 2856 90.629000 781 2939 1 chr7B.!!$F1 2158
6 TraesCS5D01G305500 chr7B 586668643 586669148 505 False 612.000000 612 88.560000 2436 2940 1 chr7B.!!$F2 504
7 TraesCS5D01G305500 chr7A 624965091 624967309 2218 True 2856.000000 2856 90.013000 781 2992 1 chr7A.!!$R2 2211
8 TraesCS5D01G305500 chr7D 543602073 543604227 2154 False 2826.000000 2826 90.404000 781 2940 1 chr7D.!!$F2 2159
9 TraesCS5D01G305500 chr7D 543057699 543059615 1916 True 2739.000000 2739 92.544000 1001 2908 1 chr7D.!!$R1 1907
10 TraesCS5D01G305500 chr2D 651417405 651419214 1809 False 1504.000000 1504 81.793000 1086 2901 1 chr2D.!!$F1 1815
11 TraesCS5D01G305500 chr2A 776216556 776218355 1799 True 1458.000000 1458 81.429000 1095 2901 1 chr2A.!!$R1 1806
12 TraesCS5D01G305500 chr4D 354136552 354137797 1245 False 641.000000 641 76.198000 1440 2676 1 chr4D.!!$F1 1236
13 TraesCS5D01G305500 chr4A 110637443 110638673 1230 True 630.000000 630 76.133000 1455 2676 1 chr4A.!!$R1 1221

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
461 498 0.036010 ACCAGCTTCCGATCCAAGTG 60.036 55.000 0.00 0.37 0.00 3.16 F
463 500 0.036010 CAGCTTCCGATCCAAGTGGT 60.036 55.000 0.00 0.00 36.34 4.16 F
464 501 0.036010 AGCTTCCGATCCAAGTGGTG 60.036 55.000 0.00 0.00 36.34 4.17 F
465 502 0.036388 GCTTCCGATCCAAGTGGTGA 60.036 55.000 0.00 0.00 36.34 4.02 F
630 667 0.179200 GGTTATTGGTGCGTTCGCTG 60.179 55.000 17.63 0.00 0.00 5.18 F
734 777 0.610785 GGCCCATGAACGAAGGGAAA 60.611 55.000 0.00 0.00 45.80 3.13 F
2820 2941 1.211457 GATGCAGTGAGGGAGGTGAAT 59.789 52.381 0.00 0.00 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1465 1570 1.092345 GCGGTCTCCTTCATCTTGGC 61.092 60.000 0.00 0.0 0.00 4.52 R
1992 2112 1.272490 TCGTTGTTGAGCTCCTCGAAT 59.728 47.619 12.15 0.0 32.35 3.34 R
2763 2884 0.178767 CATCTCCTTCCATGGCGTCA 59.821 55.000 6.96 0.0 0.00 4.35 R
2796 2917 1.270414 CCTCCCTCACTGCATCCTGT 61.270 60.000 0.00 0.0 0.00 4.00 R
2820 2941 0.520404 GGTTGTCGTCGAGCTACTCA 59.480 55.000 0.00 0.0 0.00 3.41 R
2825 2946 4.052229 CCGGGTTGTCGTCGAGCT 62.052 66.667 0.00 0.0 0.00 4.09 R
3686 5040 0.252284 ACCACGGGAGAGACCAAGAT 60.252 55.000 0.00 0.0 41.20 2.40 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
29 30 3.880047 ATGCCATGGTATATGCATTGC 57.120 42.857 14.40 0.46 41.40 3.56
30 31 1.540707 TGCCATGGTATATGCATTGCG 59.459 47.619 14.67 0.00 0.00 4.85
34 35 4.618927 GCCATGGTATATGCATTGCGAATT 60.619 41.667 14.67 0.00 0.00 2.17
41 42 1.184431 TGCATTGCGAATTCCATGGT 58.816 45.000 12.58 0.00 0.00 3.55
47 48 5.649557 CATTGCGAATTCCATGGTTTCTAA 58.350 37.500 12.58 13.17 0.00 2.10
70 71 5.371115 AAAAATGACATGGTTCCTACACG 57.629 39.130 0.00 0.00 0.00 4.49
103 104 9.394767 CCATGCTACCTATAATATAATTGCACA 57.605 33.333 0.00 0.00 0.00 4.57
107 108 9.613428 GCTACCTATAATATAATTGCACATGGA 57.387 33.333 0.00 0.00 0.00 3.41
120 121 8.729805 AATTGCACATGGAAAGTTTAGAAAAA 57.270 26.923 0.00 0.00 0.00 1.94
121 122 8.907222 ATTGCACATGGAAAGTTTAGAAAAAT 57.093 26.923 0.00 0.00 0.00 1.82
122 123 8.729805 TTGCACATGGAAAGTTTAGAAAAATT 57.270 26.923 0.00 0.00 0.00 1.82
143 144 5.494390 TTCCCCTCTAAACAAAGGTACTC 57.506 43.478 0.00 0.00 38.49 2.59
144 145 3.842436 TCCCCTCTAAACAAAGGTACTCC 59.158 47.826 0.00 0.00 38.49 3.85
145 146 3.054582 CCCCTCTAAACAAAGGTACTCCC 60.055 52.174 0.00 0.00 38.49 4.30
147 148 4.081031 CCCTCTAAACAAAGGTACTCCCTC 60.081 50.000 0.00 0.00 45.47 4.30
148 149 4.778427 CCTCTAAACAAAGGTACTCCCTCT 59.222 45.833 0.00 0.00 45.47 3.69
149 150 5.337652 CCTCTAAACAAAGGTACTCCCTCTG 60.338 48.000 0.00 0.00 45.47 3.35
150 151 5.152934 TCTAAACAAAGGTACTCCCTCTGT 58.847 41.667 0.00 0.00 45.47 3.41
151 152 6.317312 TCTAAACAAAGGTACTCCCTCTGTA 58.683 40.000 0.00 0.00 45.47 2.74
152 153 5.899631 AAACAAAGGTACTCCCTCTGTAA 57.100 39.130 0.00 0.00 45.47 2.41
153 154 5.899631 AACAAAGGTACTCCCTCTGTAAA 57.100 39.130 0.00 0.00 45.47 2.01
154 155 5.224821 ACAAAGGTACTCCCTCTGTAAAC 57.775 43.478 0.00 0.00 45.47 2.01
155 156 4.906060 ACAAAGGTACTCCCTCTGTAAACT 59.094 41.667 0.00 0.00 45.47 2.66
156 157 6.080009 ACAAAGGTACTCCCTCTGTAAACTA 58.920 40.000 0.00 0.00 45.47 2.24
157 158 6.556116 ACAAAGGTACTCCCTCTGTAAACTAA 59.444 38.462 0.00 0.00 45.47 2.24
158 159 7.237055 ACAAAGGTACTCCCTCTGTAAACTAAT 59.763 37.037 0.00 0.00 45.47 1.73
159 160 8.755977 CAAAGGTACTCCCTCTGTAAACTAATA 58.244 37.037 0.00 0.00 45.47 0.98
160 161 9.503369 AAAGGTACTCCCTCTGTAAACTAATAT 57.497 33.333 0.00 0.00 45.47 1.28
201 202 9.654663 AACTAAAGTAATGATCTAAACGCTCTT 57.345 29.630 0.00 0.00 0.00 2.85
215 216 9.669353 TCTAAACGCTCTTATATTAGTTTACGG 57.331 33.333 0.00 0.00 34.29 4.02
216 217 9.669353 CTAAACGCTCTTATATTAGTTTACGGA 57.331 33.333 0.00 0.00 34.29 4.69
217 218 8.931385 AAACGCTCTTATATTAGTTTACGGAA 57.069 30.769 0.00 0.00 31.14 4.30
218 219 8.571461 AACGCTCTTATATTAGTTTACGGAAG 57.429 34.615 0.00 0.00 0.00 3.46
219 220 7.144000 ACGCTCTTATATTAGTTTACGGAAGG 58.856 38.462 0.00 0.00 0.00 3.46
220 221 7.013655 ACGCTCTTATATTAGTTTACGGAAGGA 59.986 37.037 0.00 0.00 0.00 3.36
221 222 7.537991 CGCTCTTATATTAGTTTACGGAAGGAG 59.462 40.741 0.00 0.00 0.00 3.69
222 223 8.358895 GCTCTTATATTAGTTTACGGAAGGAGT 58.641 37.037 0.00 0.00 0.00 3.85
228 229 4.467198 AGTTTACGGAAGGAGTACATGG 57.533 45.455 0.00 0.00 0.00 3.66
229 230 2.934553 GTTTACGGAAGGAGTACATGGC 59.065 50.000 0.00 0.00 0.00 4.40
230 231 1.855295 TACGGAAGGAGTACATGGCA 58.145 50.000 0.00 0.00 0.00 4.92
233 234 1.737793 CGGAAGGAGTACATGGCAAAC 59.262 52.381 0.00 0.00 0.00 2.93
257 258 8.266392 ACAAACAAATATAATTTGCACATGGG 57.734 30.769 11.32 0.00 36.91 4.00
261 262 9.683870 AACAAATATAATTTGCACATGGGAATT 57.316 25.926 0.00 0.00 32.93 2.17
309 345 2.485038 GCATGGCAACCTTTTGGATTTG 59.515 45.455 0.00 0.00 44.07 2.32
312 348 4.329462 TGGCAACCTTTTGGATTTGTAC 57.671 40.909 0.00 0.00 44.07 2.90
313 349 3.243569 TGGCAACCTTTTGGATTTGTACG 60.244 43.478 0.00 0.00 44.07 3.67
321 357 6.704050 ACCTTTTGGATTTGTACGGATTTTTG 59.296 34.615 0.00 0.00 44.07 2.44
323 359 7.225734 CCTTTTGGATTTGTACGGATTTTTGTT 59.774 33.333 0.00 0.00 44.07 2.83
324 360 7.701809 TTTGGATTTGTACGGATTTTTGTTC 57.298 32.000 0.00 0.00 0.00 3.18
328 364 7.982354 TGGATTTGTACGGATTTTTGTTCTTTT 59.018 29.630 0.00 0.00 0.00 2.27
438 475 6.317789 TGACAAGTTTGATCTGAAATGTCC 57.682 37.500 17.12 8.13 36.10 4.02
439 476 5.827267 TGACAAGTTTGATCTGAAATGTCCA 59.173 36.000 17.12 9.51 36.10 4.02
440 477 6.076981 ACAAGTTTGATCTGAAATGTCCAC 57.923 37.500 0.00 0.00 0.00 4.02
441 478 5.593909 ACAAGTTTGATCTGAAATGTCCACA 59.406 36.000 0.00 0.00 0.00 4.17
442 479 6.096705 ACAAGTTTGATCTGAAATGTCCACAA 59.903 34.615 0.00 0.00 0.00 3.33
443 480 6.076981 AGTTTGATCTGAAATGTCCACAAC 57.923 37.500 0.00 0.00 0.00 3.32
444 481 5.010012 AGTTTGATCTGAAATGTCCACAACC 59.990 40.000 0.00 0.00 0.00 3.77
445 482 4.097551 TGATCTGAAATGTCCACAACCA 57.902 40.909 0.00 0.00 0.00 3.67
446 483 4.074259 TGATCTGAAATGTCCACAACCAG 58.926 43.478 0.00 0.00 0.00 4.00
447 484 2.229792 TCTGAAATGTCCACAACCAGC 58.770 47.619 0.00 0.00 0.00 4.85
448 485 2.158623 TCTGAAATGTCCACAACCAGCT 60.159 45.455 0.00 0.00 0.00 4.24
449 486 2.624838 CTGAAATGTCCACAACCAGCTT 59.375 45.455 0.00 0.00 0.00 3.74
450 487 2.622942 TGAAATGTCCACAACCAGCTTC 59.377 45.455 0.00 0.00 0.00 3.86
451 488 1.620822 AATGTCCACAACCAGCTTCC 58.379 50.000 0.00 0.00 0.00 3.46
452 489 0.606401 ATGTCCACAACCAGCTTCCG 60.606 55.000 0.00 0.00 0.00 4.30
453 490 1.070786 GTCCACAACCAGCTTCCGA 59.929 57.895 0.00 0.00 0.00 4.55
454 491 0.321653 GTCCACAACCAGCTTCCGAT 60.322 55.000 0.00 0.00 0.00 4.18
455 492 0.036388 TCCACAACCAGCTTCCGATC 60.036 55.000 0.00 0.00 0.00 3.69
456 493 1.026718 CCACAACCAGCTTCCGATCC 61.027 60.000 0.00 0.00 0.00 3.36
457 494 0.321564 CACAACCAGCTTCCGATCCA 60.322 55.000 0.00 0.00 0.00 3.41
458 495 0.400213 ACAACCAGCTTCCGATCCAA 59.600 50.000 0.00 0.00 0.00 3.53
459 496 1.089920 CAACCAGCTTCCGATCCAAG 58.910 55.000 0.00 0.00 0.00 3.61
460 497 0.693049 AACCAGCTTCCGATCCAAGT 59.307 50.000 0.00 0.00 0.00 3.16
461 498 0.036010 ACCAGCTTCCGATCCAAGTG 60.036 55.000 0.00 0.37 0.00 3.16
462 499 0.745845 CCAGCTTCCGATCCAAGTGG 60.746 60.000 0.00 0.00 0.00 4.00
463 500 0.036010 CAGCTTCCGATCCAAGTGGT 60.036 55.000 0.00 0.00 36.34 4.16
464 501 0.036010 AGCTTCCGATCCAAGTGGTG 60.036 55.000 0.00 0.00 36.34 4.17
465 502 0.036388 GCTTCCGATCCAAGTGGTGA 60.036 55.000 0.00 0.00 36.34 4.02
466 503 2.009042 GCTTCCGATCCAAGTGGTGAG 61.009 57.143 0.00 0.00 36.34 3.51
467 504 0.036388 TTCCGATCCAAGTGGTGAGC 60.036 55.000 0.00 0.00 36.34 4.26
468 505 1.450312 CCGATCCAAGTGGTGAGCC 60.450 63.158 0.00 0.00 36.34 4.70
469 506 1.450312 CGATCCAAGTGGTGAGCCC 60.450 63.158 0.00 0.00 36.34 5.19
470 507 1.450312 GATCCAAGTGGTGAGCCCG 60.450 63.158 0.00 0.00 35.15 6.13
471 508 3.628646 ATCCAAGTGGTGAGCCCGC 62.629 63.158 0.00 0.00 44.63 6.13
478 515 4.115199 GGTGAGCCCGCCCTCATT 62.115 66.667 6.54 0.00 43.19 2.57
479 516 2.044946 GTGAGCCCGCCCTCATTT 60.045 61.111 6.54 0.00 43.19 2.32
480 517 2.115291 GTGAGCCCGCCCTCATTTC 61.115 63.158 6.54 0.00 43.19 2.17
481 518 2.300967 TGAGCCCGCCCTCATTTCT 61.301 57.895 0.00 0.00 36.96 2.52
482 519 1.821332 GAGCCCGCCCTCATTTCTG 60.821 63.158 0.00 0.00 0.00 3.02
483 520 3.521796 GCCCGCCCTCATTTCTGC 61.522 66.667 0.00 0.00 0.00 4.26
484 521 2.045045 CCCGCCCTCATTTCTGCA 60.045 61.111 0.00 0.00 0.00 4.41
485 522 1.454479 CCCGCCCTCATTTCTGCAT 60.454 57.895 0.00 0.00 0.00 3.96
486 523 1.731433 CCCGCCCTCATTTCTGCATG 61.731 60.000 0.00 0.00 0.00 4.06
487 524 0.749091 CCGCCCTCATTTCTGCATGA 60.749 55.000 0.00 0.00 0.00 3.07
488 525 0.661552 CGCCCTCATTTCTGCATGAG 59.338 55.000 7.89 7.89 46.89 2.90
493 530 3.146618 CTCATTTCTGCATGAGGTTGC 57.853 47.619 7.09 0.00 44.57 4.17
494 531 1.820519 TCATTTCTGCATGAGGTTGCC 59.179 47.619 0.00 0.00 42.06 4.52
495 532 1.546923 CATTTCTGCATGAGGTTGCCA 59.453 47.619 0.00 0.00 42.06 4.92
496 533 1.927487 TTTCTGCATGAGGTTGCCAT 58.073 45.000 0.00 0.00 42.06 4.40
497 534 2.804986 TTCTGCATGAGGTTGCCATA 57.195 45.000 0.00 0.00 42.06 2.74
498 535 3.301794 TTCTGCATGAGGTTGCCATAT 57.698 42.857 0.00 0.00 42.06 1.78
499 536 3.301794 TCTGCATGAGGTTGCCATATT 57.698 42.857 0.00 0.00 42.06 1.28
500 537 3.634504 TCTGCATGAGGTTGCCATATTT 58.365 40.909 0.00 0.00 42.06 1.40
501 538 4.025360 TCTGCATGAGGTTGCCATATTTT 58.975 39.130 0.00 0.00 42.06 1.82
502 539 4.467082 TCTGCATGAGGTTGCCATATTTTT 59.533 37.500 0.00 0.00 42.06 1.94
503 540 4.505808 TGCATGAGGTTGCCATATTTTTG 58.494 39.130 0.00 0.00 42.06 2.44
504 541 4.020396 TGCATGAGGTTGCCATATTTTTGT 60.020 37.500 0.00 0.00 42.06 2.83
505 542 4.330620 GCATGAGGTTGCCATATTTTTGTG 59.669 41.667 0.00 0.00 36.60 3.33
506 543 4.533919 TGAGGTTGCCATATTTTTGTGG 57.466 40.909 0.00 0.00 38.55 4.17
507 544 4.155709 TGAGGTTGCCATATTTTTGTGGA 58.844 39.130 0.00 0.00 37.72 4.02
508 545 4.590647 TGAGGTTGCCATATTTTTGTGGAA 59.409 37.500 0.00 0.00 37.72 3.53
509 546 5.070981 TGAGGTTGCCATATTTTTGTGGAAA 59.929 36.000 0.00 0.00 37.72 3.13
510 547 5.550290 AGGTTGCCATATTTTTGTGGAAAG 58.450 37.500 0.00 0.00 33.68 2.62
511 548 5.071653 AGGTTGCCATATTTTTGTGGAAAGT 59.928 36.000 0.00 0.00 33.68 2.66
512 549 6.268847 AGGTTGCCATATTTTTGTGGAAAGTA 59.731 34.615 0.00 0.00 33.68 2.24
513 550 6.931840 GGTTGCCATATTTTTGTGGAAAGTAA 59.068 34.615 0.00 0.00 33.68 2.24
514 551 7.442666 GGTTGCCATATTTTTGTGGAAAGTAAA 59.557 33.333 0.00 0.00 33.68 2.01
515 552 8.831550 GTTGCCATATTTTTGTGGAAAGTAAAA 58.168 29.630 0.00 0.00 33.68 1.52
516 553 8.964476 TGCCATATTTTTGTGGAAAGTAAAAA 57.036 26.923 0.00 0.00 37.72 1.94
536 573 3.369546 AAAAACTGTTCGCCAGGAATG 57.630 42.857 0.00 0.00 46.06 2.67
537 574 1.981256 AAACTGTTCGCCAGGAATGT 58.019 45.000 0.00 0.00 46.06 2.71
538 575 1.238439 AACTGTTCGCCAGGAATGTG 58.762 50.000 0.00 0.00 46.06 3.21
539 576 0.396435 ACTGTTCGCCAGGAATGTGA 59.604 50.000 0.00 0.00 46.06 3.58
540 577 1.202758 ACTGTTCGCCAGGAATGTGAA 60.203 47.619 0.00 0.00 46.06 3.18
541 578 2.086869 CTGTTCGCCAGGAATGTGAAT 58.913 47.619 0.00 0.00 37.54 2.57
542 579 1.811965 TGTTCGCCAGGAATGTGAATG 59.188 47.619 0.00 0.00 36.92 2.67
543 580 1.812571 GTTCGCCAGGAATGTGAATGT 59.187 47.619 0.00 0.00 36.92 2.71
544 581 3.006940 GTTCGCCAGGAATGTGAATGTA 58.993 45.455 0.00 0.00 36.92 2.29
545 582 2.905075 TCGCCAGGAATGTGAATGTAG 58.095 47.619 0.00 0.00 0.00 2.74
546 583 1.331756 CGCCAGGAATGTGAATGTAGC 59.668 52.381 0.00 0.00 0.00 3.58
547 584 1.331756 GCCAGGAATGTGAATGTAGCG 59.668 52.381 0.00 0.00 0.00 4.26
548 585 2.905075 CCAGGAATGTGAATGTAGCGA 58.095 47.619 0.00 0.00 0.00 4.93
549 586 3.270027 CCAGGAATGTGAATGTAGCGAA 58.730 45.455 0.00 0.00 0.00 4.70
550 587 3.063997 CCAGGAATGTGAATGTAGCGAAC 59.936 47.826 0.00 0.00 0.00 3.95
551 588 2.930040 AGGAATGTGAATGTAGCGAACG 59.070 45.455 0.00 0.00 0.00 3.95
552 589 2.671396 GGAATGTGAATGTAGCGAACGT 59.329 45.455 0.00 0.00 0.00 3.99
553 590 3.124636 GGAATGTGAATGTAGCGAACGTT 59.875 43.478 0.00 0.00 40.11 3.99
554 591 4.378046 GGAATGTGAATGTAGCGAACGTTT 60.378 41.667 0.46 0.00 37.44 3.60
555 592 4.742438 ATGTGAATGTAGCGAACGTTTT 57.258 36.364 0.46 0.00 37.44 2.43
556 593 4.539509 TGTGAATGTAGCGAACGTTTTT 57.460 36.364 0.46 0.00 37.44 1.94
566 603 2.220133 GCGAACGTTTTTCTGTAGCTGA 59.780 45.455 0.46 0.00 0.00 4.26
571 608 2.538449 CGTTTTTCTGTAGCTGACGTGT 59.462 45.455 0.00 0.00 0.00 4.49
608 645 5.106876 TCAAGATTCATGAGCAAGATCCA 57.893 39.130 0.00 0.00 0.00 3.41
616 653 4.166725 TCATGAGCAAGATCCAAGGGTTAT 59.833 41.667 0.00 0.00 0.00 1.89
630 667 0.179200 GGTTATTGGTGCGTTCGCTG 60.179 55.000 17.63 0.00 0.00 5.18
651 688 4.948847 TGGAGATCATCAAATACCTGACG 58.051 43.478 0.00 0.00 0.00 4.35
674 711 6.183360 ACGTTCGTCAGTTAGATATTCCGTAA 60.183 38.462 0.00 0.00 0.00 3.18
734 777 0.610785 GGCCCATGAACGAAGGGAAA 60.611 55.000 0.00 0.00 45.80 3.13
847 893 2.105128 CGGCTGAGATCACCGGAC 59.895 66.667 9.46 0.00 43.23 4.79
881 927 2.102357 CCCACGACGATCGGAGTG 59.898 66.667 27.31 27.31 45.59 3.51
984 1046 6.790285 ATCAAATCAAATCAAACCAAGCAC 57.210 33.333 0.00 0.00 0.00 4.40
2763 2884 2.185350 CTCGACGGCAAGATGGCT 59.815 61.111 0.00 0.00 41.25 4.75
2796 2917 4.338795 AGGAGATGACAAGGAGAAGGTA 57.661 45.455 0.00 0.00 0.00 3.08
2820 2941 1.211457 GATGCAGTGAGGGAGGTGAAT 59.789 52.381 0.00 0.00 0.00 2.57
2825 2946 3.099905 CAGTGAGGGAGGTGAATGAGTA 58.900 50.000 0.00 0.00 0.00 2.59
2996 3188 1.065126 ACTCTAGGCATGGGCAGTTTC 60.065 52.381 0.00 0.00 43.71 2.78
2998 3202 1.098050 CTAGGCATGGGCAGTTTCAC 58.902 55.000 0.00 0.00 43.71 3.18
3024 3253 7.558161 TTTATCTATGTTGCATCTTCCTGTG 57.442 36.000 0.00 0.00 0.00 3.66
3037 3266 7.611467 TGCATCTTCCTGTGATATAAACTTGTT 59.389 33.333 0.00 0.00 0.00 2.83
3100 3329 5.817784 TCAACGTAATTTCCCCCAATCTTA 58.182 37.500 0.00 0.00 0.00 2.10
3102 3331 6.320164 TCAACGTAATTTCCCCCAATCTTATG 59.680 38.462 0.00 0.00 0.00 1.90
3130 3359 5.200454 CACTCTTTGTTTCAATGAGTCACG 58.800 41.667 20.29 11.21 36.05 4.35
3163 3392 7.065324 CAGGTATAACTCTAGCGAATCTCTAGG 59.935 44.444 7.35 1.92 35.43 3.02
3173 3404 3.182967 CGAATCTCTAGGCTTGTGTGTC 58.817 50.000 0.00 0.00 0.00 3.67
3195 3426 6.153851 TGTCCTTACTCACGATCCAAATTCTA 59.846 38.462 0.00 0.00 0.00 2.10
3272 3595 8.718102 TTAGATTGGACACTTTTAGACTATGC 57.282 34.615 0.00 0.00 0.00 3.14
3371 3694 5.928839 AGCATGATATTGAATACACCGTCTC 59.071 40.000 0.00 0.00 0.00 3.36
3409 4729 7.227910 GGAAAGTACGCAAATTCCTAATATGGA 59.772 37.037 8.97 0.00 38.61 3.41
3491 4817 7.759489 TTACCTTGCATGATCAAGTAAAACT 57.241 32.000 0.00 0.00 41.29 2.66
3535 4861 2.294233 TGCAGTTTTCAGCACCATCTTC 59.706 45.455 0.00 0.00 37.41 2.87
3579 4905 0.324943 ATCCACCCGAAAGTGACCAG 59.675 55.000 2.28 0.00 40.34 4.00
3719 5074 3.055021 TCCCGTGGTGTGCTATCAAATTA 60.055 43.478 0.00 0.00 0.00 1.40
3804 5159 1.331214 CATTCCAGTGCAACCCAACT 58.669 50.000 0.00 0.00 37.80 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 2.298411 AACCATGGAATTCGCAATGC 57.702 45.000 21.47 0.00 0.00 3.56
27 28 5.713792 TTTTAGAAACCATGGAATTCGCA 57.286 34.783 21.47 12.31 0.00 5.10
55 56 3.190535 GCATTTTCGTGTAGGAACCATGT 59.809 43.478 0.00 0.00 0.00 3.21
103 104 7.734865 AGAGGGGAATTTTTCTAAACTTTCCAT 59.265 33.333 13.51 2.53 35.49 3.41
120 121 5.045066 GGAGTACCTTTGTTTAGAGGGGAAT 60.045 44.000 0.00 0.00 37.36 3.01
121 122 4.287845 GGAGTACCTTTGTTTAGAGGGGAA 59.712 45.833 0.00 0.00 37.36 3.97
122 123 3.842436 GGAGTACCTTTGTTTAGAGGGGA 59.158 47.826 0.00 0.00 37.36 4.81
175 176 9.654663 AAGAGCGTTTAGATCATTACTTTAGTT 57.345 29.630 0.00 0.00 37.82 2.24
189 190 9.669353 CCGTAAACTAATATAAGAGCGTTTAGA 57.331 33.333 0.00 0.00 30.36 2.10
190 191 9.669353 TCCGTAAACTAATATAAGAGCGTTTAG 57.331 33.333 0.00 0.00 30.36 1.85
192 193 8.931385 TTCCGTAAACTAATATAAGAGCGTTT 57.069 30.769 0.00 0.00 0.00 3.60
193 194 7.650903 CCTTCCGTAAACTAATATAAGAGCGTT 59.349 37.037 0.00 0.00 0.00 4.84
194 195 7.013655 TCCTTCCGTAAACTAATATAAGAGCGT 59.986 37.037 0.00 0.00 0.00 5.07
195 196 7.365741 TCCTTCCGTAAACTAATATAAGAGCG 58.634 38.462 0.00 0.00 0.00 5.03
196 197 8.358895 ACTCCTTCCGTAAACTAATATAAGAGC 58.641 37.037 0.00 0.00 0.00 4.09
202 203 8.365647 CCATGTACTCCTTCCGTAAACTAATAT 58.634 37.037 0.00 0.00 0.00 1.28
203 204 7.685155 GCCATGTACTCCTTCCGTAAACTAATA 60.685 40.741 0.00 0.00 0.00 0.98
204 205 6.579865 CCATGTACTCCTTCCGTAAACTAAT 58.420 40.000 0.00 0.00 0.00 1.73
205 206 5.625197 GCCATGTACTCCTTCCGTAAACTAA 60.625 44.000 0.00 0.00 0.00 2.24
206 207 4.142093 GCCATGTACTCCTTCCGTAAACTA 60.142 45.833 0.00 0.00 0.00 2.24
207 208 3.369157 GCCATGTACTCCTTCCGTAAACT 60.369 47.826 0.00 0.00 0.00 2.66
208 209 2.934553 GCCATGTACTCCTTCCGTAAAC 59.065 50.000 0.00 0.00 0.00 2.01
209 210 2.568062 TGCCATGTACTCCTTCCGTAAA 59.432 45.455 0.00 0.00 0.00 2.01
210 211 2.181125 TGCCATGTACTCCTTCCGTAA 58.819 47.619 0.00 0.00 0.00 3.18
211 212 1.855295 TGCCATGTACTCCTTCCGTA 58.145 50.000 0.00 0.00 0.00 4.02
212 213 0.981183 TTGCCATGTACTCCTTCCGT 59.019 50.000 0.00 0.00 0.00 4.69
213 214 1.737793 GTTTGCCATGTACTCCTTCCG 59.262 52.381 0.00 0.00 0.00 4.30
214 215 2.790433 TGTTTGCCATGTACTCCTTCC 58.210 47.619 0.00 0.00 0.00 3.46
215 216 4.037446 TGTTTGTTTGCCATGTACTCCTTC 59.963 41.667 0.00 0.00 0.00 3.46
216 217 3.957497 TGTTTGTTTGCCATGTACTCCTT 59.043 39.130 0.00 0.00 0.00 3.36
217 218 3.561143 TGTTTGTTTGCCATGTACTCCT 58.439 40.909 0.00 0.00 0.00 3.69
218 219 4.314740 TTGTTTGTTTGCCATGTACTCC 57.685 40.909 0.00 0.00 0.00 3.85
219 220 9.632807 TTATATTTGTTTGTTTGCCATGTACTC 57.367 29.630 0.00 0.00 0.00 2.59
224 225 9.063739 GCAAATTATATTTGTTTGTTTGCCATG 57.936 29.630 12.26 0.00 42.24 3.66
225 226 8.790718 TGCAAATTATATTTGTTTGTTTGCCAT 58.209 25.926 14.80 0.00 45.44 4.40
226 227 8.072567 GTGCAAATTATATTTGTTTGTTTGCCA 58.927 29.630 14.80 3.74 45.44 4.92
227 228 8.072567 TGTGCAAATTATATTTGTTTGTTTGCC 58.927 29.630 14.80 8.59 45.44 4.52
228 229 9.609950 ATGTGCAAATTATATTTGTTTGTTTGC 57.390 25.926 11.65 11.65 45.93 3.68
233 234 8.489990 TCCCATGTGCAAATTATATTTGTTTG 57.510 30.769 12.26 0.00 36.26 2.93
266 267 9.897744 CATGCTTTTCTAGAGAACATGTTTAAA 57.102 29.630 13.36 4.66 34.27 1.52
267 268 8.514594 CCATGCTTTTCTAGAGAACATGTTTAA 58.485 33.333 22.36 0.00 35.78 1.52
268 269 7.362056 GCCATGCTTTTCTAGAGAACATGTTTA 60.362 37.037 22.36 0.24 35.78 2.01
283 319 2.549329 CCAAAAGGTTGCCATGCTTTTC 59.451 45.455 5.37 0.00 33.01 2.29
312 348 9.685828 TCCATACTTTAAAAGAACAAAAATCCG 57.314 29.630 0.00 0.00 0.00 4.18
417 454 5.593909 TGTGGACATTTCAGATCAAACTTGT 59.406 36.000 0.00 0.00 0.00 3.16
435 472 0.321653 ATCGGAAGCTGGTTGTGGAC 60.322 55.000 0.00 0.00 0.00 4.02
436 473 0.036388 GATCGGAAGCTGGTTGTGGA 60.036 55.000 0.00 0.00 0.00 4.02
437 474 1.026718 GGATCGGAAGCTGGTTGTGG 61.027 60.000 0.00 0.00 0.00 4.17
438 475 0.321564 TGGATCGGAAGCTGGTTGTG 60.322 55.000 0.00 0.00 0.00 3.33
439 476 0.400213 TTGGATCGGAAGCTGGTTGT 59.600 50.000 0.00 0.00 0.00 3.32
440 477 1.089920 CTTGGATCGGAAGCTGGTTG 58.910 55.000 0.00 0.00 0.00 3.77
441 478 0.693049 ACTTGGATCGGAAGCTGGTT 59.307 50.000 0.00 0.00 0.00 3.67
442 479 0.036010 CACTTGGATCGGAAGCTGGT 60.036 55.000 0.00 0.00 0.00 4.00
443 480 0.745845 CCACTTGGATCGGAAGCTGG 60.746 60.000 0.00 6.66 37.39 4.85
444 481 0.036010 ACCACTTGGATCGGAAGCTG 60.036 55.000 1.14 2.56 38.94 4.24
445 482 0.036010 CACCACTTGGATCGGAAGCT 60.036 55.000 1.14 0.00 38.94 3.74
446 483 0.036388 TCACCACTTGGATCGGAAGC 60.036 55.000 1.14 0.00 38.94 3.86
447 484 2.009042 GCTCACCACTTGGATCGGAAG 61.009 57.143 1.14 2.36 38.94 3.46
448 485 0.036388 GCTCACCACTTGGATCGGAA 60.036 55.000 1.14 0.00 38.94 4.30
449 486 1.596934 GCTCACCACTTGGATCGGA 59.403 57.895 1.14 0.00 38.94 4.55
450 487 1.450312 GGCTCACCACTTGGATCGG 60.450 63.158 1.14 0.00 38.94 4.18
451 488 1.450312 GGGCTCACCACTTGGATCG 60.450 63.158 1.14 0.00 39.85 3.69
452 489 1.450312 CGGGCTCACCACTTGGATC 60.450 63.158 1.14 0.00 40.22 3.36
453 490 2.671070 CGGGCTCACCACTTGGAT 59.329 61.111 1.14 0.00 40.22 3.41
454 491 4.329545 GCGGGCTCACCACTTGGA 62.330 66.667 1.14 0.00 40.22 3.53
461 498 3.645268 AAATGAGGGCGGGCTCACC 62.645 63.158 0.26 0.00 31.95 4.02
462 499 2.044946 AAATGAGGGCGGGCTCAC 60.045 61.111 0.26 0.00 31.95 3.51
463 500 2.272146 GAAATGAGGGCGGGCTCA 59.728 61.111 0.26 3.94 0.00 4.26
464 501 1.821332 CAGAAATGAGGGCGGGCTC 60.821 63.158 0.26 0.00 0.00 4.70
465 502 2.273449 CAGAAATGAGGGCGGGCT 59.727 61.111 0.26 0.00 0.00 5.19
466 503 3.521796 GCAGAAATGAGGGCGGGC 61.522 66.667 0.00 0.00 0.00 6.13
467 504 1.454479 ATGCAGAAATGAGGGCGGG 60.454 57.895 0.00 0.00 0.00 6.13
468 505 0.749091 TCATGCAGAAATGAGGGCGG 60.749 55.000 0.00 0.00 32.75 6.13
469 506 0.661552 CTCATGCAGAAATGAGGGCG 59.338 55.000 7.09 0.00 46.57 6.13
482 519 4.330620 CACAAAAATATGGCAACCTCATGC 59.669 41.667 0.00 0.00 45.67 4.06
483 520 4.871557 CCACAAAAATATGGCAACCTCATG 59.128 41.667 0.00 0.00 0.00 3.07
484 521 4.776837 TCCACAAAAATATGGCAACCTCAT 59.223 37.500 0.00 0.00 35.81 2.90
485 522 4.155709 TCCACAAAAATATGGCAACCTCA 58.844 39.130 0.00 0.00 35.81 3.86
486 523 4.799564 TCCACAAAAATATGGCAACCTC 57.200 40.909 0.00 0.00 35.81 3.85
487 524 5.071653 ACTTTCCACAAAAATATGGCAACCT 59.928 36.000 0.00 0.00 35.81 3.50
488 525 5.304778 ACTTTCCACAAAAATATGGCAACC 58.695 37.500 0.00 0.00 35.81 3.77
489 526 7.954788 TTACTTTCCACAAAAATATGGCAAC 57.045 32.000 0.00 0.00 35.81 4.17
490 527 8.964476 TTTTACTTTCCACAAAAATATGGCAA 57.036 26.923 0.00 0.00 35.81 4.52
491 528 8.964476 TTTTTACTTTCCACAAAAATATGGCA 57.036 26.923 0.00 0.00 35.81 4.92
516 553 2.693074 ACATTCCTGGCGAACAGTTTTT 59.307 40.909 6.77 0.00 46.06 1.94
517 554 2.034558 CACATTCCTGGCGAACAGTTTT 59.965 45.455 6.77 0.00 46.06 2.43
518 555 1.608590 CACATTCCTGGCGAACAGTTT 59.391 47.619 6.77 0.00 46.06 2.66
519 556 1.202758 TCACATTCCTGGCGAACAGTT 60.203 47.619 6.77 0.00 46.06 3.16
520 557 0.396435 TCACATTCCTGGCGAACAGT 59.604 50.000 6.77 0.00 46.06 3.55
522 559 1.811965 CATTCACATTCCTGGCGAACA 59.188 47.619 0.00 0.00 31.79 3.18
523 560 1.812571 ACATTCACATTCCTGGCGAAC 59.187 47.619 0.00 0.00 31.79 3.95
524 561 2.198827 ACATTCACATTCCTGGCGAA 57.801 45.000 0.00 0.00 34.14 4.70
525 562 2.905075 CTACATTCACATTCCTGGCGA 58.095 47.619 0.00 0.00 0.00 5.54
526 563 1.331756 GCTACATTCACATTCCTGGCG 59.668 52.381 0.00 0.00 0.00 5.69
527 564 1.331756 CGCTACATTCACATTCCTGGC 59.668 52.381 0.00 0.00 0.00 4.85
528 565 2.905075 TCGCTACATTCACATTCCTGG 58.095 47.619 0.00 0.00 0.00 4.45
529 566 3.242091 CGTTCGCTACATTCACATTCCTG 60.242 47.826 0.00 0.00 0.00 3.86
530 567 2.930040 CGTTCGCTACATTCACATTCCT 59.070 45.455 0.00 0.00 0.00 3.36
531 568 2.671396 ACGTTCGCTACATTCACATTCC 59.329 45.455 0.00 0.00 0.00 3.01
532 569 3.991605 ACGTTCGCTACATTCACATTC 57.008 42.857 0.00 0.00 0.00 2.67
533 570 4.742438 AAACGTTCGCTACATTCACATT 57.258 36.364 0.00 0.00 0.00 2.71
534 571 4.742438 AAAACGTTCGCTACATTCACAT 57.258 36.364 0.00 0.00 0.00 3.21
535 572 4.271533 AGAAAAACGTTCGCTACATTCACA 59.728 37.500 0.00 0.00 0.00 3.58
536 573 4.607235 CAGAAAAACGTTCGCTACATTCAC 59.393 41.667 0.00 0.00 0.00 3.18
537 574 4.271533 ACAGAAAAACGTTCGCTACATTCA 59.728 37.500 0.00 0.00 0.00 2.57
538 575 4.769215 ACAGAAAAACGTTCGCTACATTC 58.231 39.130 0.00 0.00 0.00 2.67
539 576 4.806342 ACAGAAAAACGTTCGCTACATT 57.194 36.364 0.00 0.00 0.00 2.71
540 577 4.143179 GCTACAGAAAAACGTTCGCTACAT 60.143 41.667 0.00 0.00 0.00 2.29
541 578 3.182972 GCTACAGAAAAACGTTCGCTACA 59.817 43.478 0.00 0.00 0.00 2.74
542 579 3.427863 AGCTACAGAAAAACGTTCGCTAC 59.572 43.478 0.00 0.00 0.00 3.58
543 580 3.427528 CAGCTACAGAAAAACGTTCGCTA 59.572 43.478 0.00 0.00 0.00 4.26
544 581 2.221055 CAGCTACAGAAAAACGTTCGCT 59.779 45.455 0.00 0.00 0.00 4.93
545 582 2.220133 TCAGCTACAGAAAAACGTTCGC 59.780 45.455 0.00 0.00 0.00 4.70
546 583 3.658342 CGTCAGCTACAGAAAAACGTTCG 60.658 47.826 0.00 0.00 0.00 3.95
547 584 3.244579 ACGTCAGCTACAGAAAAACGTTC 59.755 43.478 0.00 0.00 38.58 3.95
548 585 3.000925 CACGTCAGCTACAGAAAAACGTT 59.999 43.478 0.00 0.00 39.58 3.99
549 586 2.538449 CACGTCAGCTACAGAAAAACGT 59.462 45.455 0.00 0.00 41.98 3.99
550 587 2.538449 ACACGTCAGCTACAGAAAAACG 59.462 45.455 0.00 0.00 35.00 3.60
551 588 5.429615 GTTACACGTCAGCTACAGAAAAAC 58.570 41.667 0.00 0.00 0.00 2.43
552 589 4.508861 GGTTACACGTCAGCTACAGAAAAA 59.491 41.667 0.00 0.00 0.00 1.94
553 590 4.053295 GGTTACACGTCAGCTACAGAAAA 58.947 43.478 0.00 0.00 0.00 2.29
554 591 3.319972 AGGTTACACGTCAGCTACAGAAA 59.680 43.478 0.00 0.00 0.00 2.52
555 592 2.889045 AGGTTACACGTCAGCTACAGAA 59.111 45.455 0.00 0.00 0.00 3.02
556 593 2.486982 GAGGTTACACGTCAGCTACAGA 59.513 50.000 0.00 0.00 33.54 3.41
566 603 0.542232 AGCAGGGAGAGGTTACACGT 60.542 55.000 0.00 0.00 0.00 4.49
571 608 2.902608 TCTTGAAGCAGGGAGAGGTTA 58.097 47.619 0.00 0.00 0.00 2.85
608 645 1.161843 CGAACGCACCAATAACCCTT 58.838 50.000 0.00 0.00 0.00 3.95
616 653 2.449031 ATCTCCAGCGAACGCACCAA 62.449 55.000 20.66 3.30 44.88 3.67
630 667 4.950050 ACGTCAGGTATTTGATGATCTCC 58.050 43.478 2.51 0.00 37.49 3.71
651 688 7.975866 TTTACGGAATATCTAACTGACGAAC 57.024 36.000 0.00 0.00 0.00 3.95
722 765 2.355444 TGTTTTCGGTTTCCCTTCGTTC 59.645 45.455 0.00 0.00 0.00 3.95
734 777 3.687200 GTCGATGTGTTTTGTTTTCGGT 58.313 40.909 0.00 0.00 0.00 4.69
984 1046 0.458543 CCATCCCGACTGACTCGTTG 60.459 60.000 0.00 0.00 41.18 4.10
1182 1287 2.351276 GTGATCCGGTTGCCCTGT 59.649 61.111 0.00 0.00 0.00 4.00
1465 1570 1.092345 GCGGTCTCCTTCATCTTGGC 61.092 60.000 0.00 0.00 0.00 4.52
1992 2112 1.272490 TCGTTGTTGAGCTCCTCGAAT 59.728 47.619 12.15 0.00 32.35 3.34
2763 2884 0.178767 CATCTCCTTCCATGGCGTCA 59.821 55.000 6.96 0.00 0.00 4.35
2796 2917 1.270414 CCTCCCTCACTGCATCCTGT 61.270 60.000 0.00 0.00 0.00 4.00
2820 2941 0.520404 GGTTGTCGTCGAGCTACTCA 59.480 55.000 0.00 0.00 0.00 3.41
2825 2946 4.052229 CCGGGTTGTCGTCGAGCT 62.052 66.667 0.00 0.00 0.00 4.09
2996 3188 8.127327 CAGGAAGATGCAACATAGATAAAAGTG 58.873 37.037 0.00 0.00 0.00 3.16
2998 3202 8.127327 CACAGGAAGATGCAACATAGATAAAAG 58.873 37.037 0.00 0.00 0.00 2.27
3089 3318 1.750778 GTGCACACATAAGATTGGGGG 59.249 52.381 13.17 0.00 0.00 5.40
3100 3329 4.717233 TTGAAACAAAGAGTGCACACAT 57.283 36.364 21.04 2.17 0.00 3.21
3102 3331 4.671377 TCATTGAAACAAAGAGTGCACAC 58.329 39.130 21.04 13.64 0.00 3.82
3130 3359 4.633175 GCTAGAGTTATACCTGCTTTCCC 58.367 47.826 0.00 0.00 0.00 3.97
3163 3392 1.792949 CGTGAGTAAGGACACACAAGC 59.207 52.381 6.49 0.00 44.65 4.01
3173 3404 6.574350 ACTAGAATTTGGATCGTGAGTAAGG 58.426 40.000 0.00 0.00 0.00 2.69
3183 3414 8.787852 AGAAGTGTTTTGACTAGAATTTGGATC 58.212 33.333 0.00 0.00 0.00 3.36
3242 3565 4.388577 AAAAGTGTCCAATCTAAGCCCT 57.611 40.909 0.00 0.00 0.00 5.19
3272 3595 2.459555 ATATGCTTGTTTGGAGGGGG 57.540 50.000 0.00 0.00 0.00 5.40
3371 3694 1.065251 GTACTTTCCGTCGGCCTAGAG 59.935 57.143 6.34 0.00 0.00 2.43
3409 4729 4.713792 AAGGATGGAAAAGTGTGAGAGT 57.286 40.909 0.00 0.00 0.00 3.24
3491 4817 6.515832 CATGAGCTGTATGGTATTGTCACTA 58.484 40.000 0.00 0.00 0.00 2.74
3579 4905 6.426937 TGAGTGACAACTAAGAAACCATTAGC 59.573 38.462 0.00 0.00 36.52 3.09
3686 5040 0.252284 ACCACGGGAGAGACCAAGAT 60.252 55.000 0.00 0.00 41.20 2.40
3687 5041 1.155390 ACCACGGGAGAGACCAAGA 59.845 57.895 0.00 0.00 41.20 3.02
3690 5045 2.200370 ACACCACGGGAGAGACCA 59.800 61.111 0.00 0.00 41.20 4.02
3719 5074 8.229253 TGCACTTAAGCTATGATTTCATCAAT 57.771 30.769 1.29 0.00 37.91 2.57


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

AutoCloner maintained by Alex Coulton.