Multiple sequence alignment - TraesCS2D01G127600

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 TraesCS2D01G127600 chr2D 100.000 4137 0 0 1 4137 74135656 74139792 0.000000e+00 7640
1 TraesCS2D01G127600 chr2D 87.778 90 10 1 455 543 10893296 10893207 2.030000e-18 104
2 TraesCS2D01G127600 chr1D 93.943 1882 74 19 1518 3365 459046263 459044388 0.000000e+00 2808
3 TraesCS2D01G127600 chr1D 89.029 556 41 9 977 1514 459046947 459046394 0.000000e+00 671
4 TraesCS2D01G127600 chr1D 86.039 308 39 4 22 327 489752078 489752383 1.110000e-85 327
5 TraesCS2D01G127600 chr1D 90.698 86 8 0 454 539 73677353 73677268 9.400000e-22 115
6 TraesCS2D01G127600 chr2A 94.067 1871 61 15 1515 3344 73528417 73530278 0.000000e+00 2795
7 TraesCS2D01G127600 chr2A 91.987 624 41 6 675 1296 73527472 73528088 0.000000e+00 867
8 TraesCS2D01G127600 chr2A 83.956 455 56 9 1 453 73525409 73525848 1.780000e-113 420
9 TraesCS2D01G127600 chr2A 83.067 313 44 7 28 335 690719814 690720122 4.070000e-70 276
10 TraesCS2D01G127600 chr1B 92.259 1899 94 24 1515 3365 631226054 631224161 0.000000e+00 2643
11 TraesCS2D01G127600 chr1B 87.086 573 39 14 977 1514 631226769 631226197 2.110000e-172 616
12 TraesCS2D01G127600 chr1B 87.097 93 10 2 451 542 422979363 422979272 2.030000e-18 104
13 TraesCS2D01G127600 chr2B 97.431 1012 23 2 2274 3284 113268172 113269181 0.000000e+00 1722
14 TraesCS2D01G127600 chr2B 94.490 490 21 4 812 1296 113266227 113266715 0.000000e+00 750
15 TraesCS2D01G127600 chr2B 88.931 533 38 11 1678 2198 113267297 113267820 4.510000e-179 638
16 TraesCS2D01G127600 chr2B 94.595 74 4 0 1515 1588 113267215 113267288 9.400000e-22 115
17 TraesCS2D01G127600 chr2B 88.636 88 9 1 453 539 443759020 443758933 5.660000e-19 106
18 TraesCS2D01G127600 chr5D 96.222 794 5 4 3365 4137 216058052 216058841 0.000000e+00 1277
19 TraesCS2D01G127600 chr5D 82.704 318 48 6 23 338 30433100 30432788 4.070000e-70 276
20 TraesCS2D01G127600 chrUn 95.970 794 9 3 3367 4137 94077851 94077058 0.000000e+00 1267
21 TraesCS2D01G127600 chrUn 85.714 399 42 6 1515 1909 2685939 2685552 1.380000e-109 407
22 TraesCS2D01G127600 chr1A 94.849 796 34 5 1518 2311 551481398 551480608 0.000000e+00 1236
23 TraesCS2D01G127600 chr1A 91.612 608 26 13 2777 3359 551466701 551466094 0.000000e+00 817
24 TraesCS2D01G127600 chr1A 93.204 412 21 3 2341 2745 551480610 551480199 2.130000e-167 599
25 TraesCS2D01G127600 chr1A 86.813 364 25 10 1174 1514 551481909 551481546 6.490000e-103 385
26 TraesCS2D01G127600 chr1A 89.423 208 19 2 977 1184 551482247 551482043 4.100000e-65 259
27 TraesCS2D01G127600 chr7D 93.216 796 26 6 3365 4137 245259705 245260495 0.000000e+00 1146
28 TraesCS2D01G127600 chr7D 93.784 740 22 10 3367 4083 612263179 612262441 0.000000e+00 1090
29 TraesCS2D01G127600 chr7D 93.351 737 24 5 3364 4077 584452839 584453573 0.000000e+00 1066
30 TraesCS2D01G127600 chr7D 82.555 321 50 5 25 342 613056564 613056247 1.130000e-70 278
31 TraesCS2D01G127600 chr3D 93.099 797 30 5 3364 4137 598110199 598110993 0.000000e+00 1144
32 TraesCS2D01G127600 chr6D 92.249 787 31 9 3364 4121 98130503 98131288 0.000000e+00 1088
33 TraesCS2D01G127600 chr6D 93.351 737 25 12 3363 4077 184474606 184475340 0.000000e+00 1068
34 TraesCS2D01G127600 chr6D 89.432 757 43 14 3412 4137 348545941 348545191 0.000000e+00 920
35 TraesCS2D01G127600 chr3A 91.740 799 36 11 3363 4135 459819008 459819802 0.000000e+00 1083
36 TraesCS2D01G127600 chr7B 91.294 804 39 15 3361 4137 482298219 482299018 0.000000e+00 1068
37 TraesCS2D01G127600 chr7B 82.085 307 51 4 22 327 446189361 446189664 4.100000e-65 259
38 TraesCS2D01G127600 chr7B 81.761 318 49 8 19 333 531683733 531684044 1.480000e-64 257
39 TraesCS2D01G127600 chr7B 89.888 89 8 1 455 542 372034726 372034814 3.380000e-21 113
40 TraesCS2D01G127600 chr7B 88.372 86 8 2 455 539 681769309 681769393 7.320000e-18 102
41 TraesCS2D01G127600 chr4D 92.730 674 20 12 3486 4137 12193798 12194464 0.000000e+00 946
42 TraesCS2D01G127600 chr4D 91.139 711 35 13 3454 4137 214983407 214984116 0.000000e+00 939
43 TraesCS2D01G127600 chr4D 84.106 302 41 6 36 334 25461193 25461490 6.770000e-73 285
44 TraesCS2D01G127600 chr4D 88.506 87 9 1 454 539 502713734 502713820 2.030000e-18 104
45 TraesCS2D01G127600 chr3B 82.650 317 49 6 22 335 736943449 736943762 4.070000e-70 276
46 TraesCS2D01G127600 chr4B 87.778 90 10 1 452 540 600659491 600659580 2.030000e-18 104
47 TraesCS2D01G127600 chr5A 88.235 85 9 1 455 538 702862558 702862642 2.630000e-17 100


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 TraesCS2D01G127600 chr2D 74135656 74139792 4136 False 7640.000000 7640 100.000000 1 4137 1 chr2D.!!$F1 4136
1 TraesCS2D01G127600 chr1D 459044388 459046947 2559 True 1739.500000 2808 91.486000 977 3365 2 chr1D.!!$R2 2388
2 TraesCS2D01G127600 chr2A 73525409 73530278 4869 False 1360.666667 2795 90.003333 1 3344 3 chr2A.!!$F2 3343
3 TraesCS2D01G127600 chr1B 631224161 631226769 2608 True 1629.500000 2643 89.672500 977 3365 2 chr1B.!!$R2 2388
4 TraesCS2D01G127600 chr2B 113266227 113269181 2954 False 806.250000 1722 93.861750 812 3284 4 chr2B.!!$F1 2472
5 TraesCS2D01G127600 chr5D 216058052 216058841 789 False 1277.000000 1277 96.222000 3365 4137 1 chr5D.!!$F1 772
6 TraesCS2D01G127600 chrUn 94077058 94077851 793 True 1267.000000 1267 95.970000 3367 4137 1 chrUn.!!$R2 770
7 TraesCS2D01G127600 chr1A 551466094 551466701 607 True 817.000000 817 91.612000 2777 3359 1 chr1A.!!$R1 582
8 TraesCS2D01G127600 chr1A 551480199 551482247 2048 True 619.750000 1236 91.072250 977 2745 4 chr1A.!!$R2 1768
9 TraesCS2D01G127600 chr7D 245259705 245260495 790 False 1146.000000 1146 93.216000 3365 4137 1 chr7D.!!$F1 772
10 TraesCS2D01G127600 chr7D 612262441 612263179 738 True 1090.000000 1090 93.784000 3367 4083 1 chr7D.!!$R1 716
11 TraesCS2D01G127600 chr7D 584452839 584453573 734 False 1066.000000 1066 93.351000 3364 4077 1 chr7D.!!$F2 713
12 TraesCS2D01G127600 chr3D 598110199 598110993 794 False 1144.000000 1144 93.099000 3364 4137 1 chr3D.!!$F1 773
13 TraesCS2D01G127600 chr6D 98130503 98131288 785 False 1088.000000 1088 92.249000 3364 4121 1 chr6D.!!$F1 757
14 TraesCS2D01G127600 chr6D 184474606 184475340 734 False 1068.000000 1068 93.351000 3363 4077 1 chr6D.!!$F2 714
15 TraesCS2D01G127600 chr6D 348545191 348545941 750 True 920.000000 920 89.432000 3412 4137 1 chr6D.!!$R1 725
16 TraesCS2D01G127600 chr3A 459819008 459819802 794 False 1083.000000 1083 91.740000 3363 4135 1 chr3A.!!$F1 772
17 TraesCS2D01G127600 chr7B 482298219 482299018 799 False 1068.000000 1068 91.294000 3361 4137 1 chr7B.!!$F3 776
18 TraesCS2D01G127600 chr4D 12193798 12194464 666 False 946.000000 946 92.730000 3486 4137 1 chr4D.!!$F1 651
19 TraesCS2D01G127600 chr4D 214983407 214984116 709 False 939.000000 939 91.139000 3454 4137 1 chr4D.!!$F3 683

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
73 74 0.109342 CAGTGATATCCCAGCCCACC 59.891 60.0 0.00 0.00 0.00 4.61 F
632 2084 0.309302 TGGTTGTACATGCGTGTTGC 59.691 50.0 18.34 11.26 46.70 4.17 F
795 2247 0.322546 AGAAGTCAATGGGCCGAACC 60.323 55.0 0.00 0.00 37.93 3.62 F
1339 2966 0.610232 ACCAAAGCTAAGCCTGCAGG 60.610 55.0 29.34 29.34 38.53 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1333 2960 0.038744 ATTGTGTTCCTCCCCTGCAG 59.961 55.000 6.78 6.78 0.00 4.41 R
1987 3938 1.117150 ATTAAGGCCATGCAAGCAGG 58.883 50.000 5.01 0.00 0.00 4.85 R
2231 4192 1.478916 CCGACAAAACCAACCCTTTGT 59.521 47.619 0.06 0.06 45.91 2.83 R
3155 5419 1.822990 CAGGTTGCAATGCTCCAATCT 59.177 47.619 18.18 3.72 32.88 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
51 52 5.373812 AACTATGGTTGGATGGTTAGGAG 57.626 43.478 0.00 0.00 33.96 3.69
52 53 3.716872 ACTATGGTTGGATGGTTAGGAGG 59.283 47.826 0.00 0.00 0.00 4.30
66 67 4.223953 GTTAGGAGGACAGTGATATCCCA 58.776 47.826 0.00 0.00 0.00 4.37
67 68 2.969628 AGGAGGACAGTGATATCCCAG 58.030 52.381 0.00 0.00 0.00 4.45
68 69 1.346068 GGAGGACAGTGATATCCCAGC 59.654 57.143 0.00 0.00 0.00 4.85
71 72 1.131638 GACAGTGATATCCCAGCCCA 58.868 55.000 0.00 0.00 0.00 5.36
72 73 0.839946 ACAGTGATATCCCAGCCCAC 59.160 55.000 0.00 0.00 0.00 4.61
73 74 0.109342 CAGTGATATCCCAGCCCACC 59.891 60.000 0.00 0.00 0.00 4.61
74 75 0.327480 AGTGATATCCCAGCCCACCA 60.327 55.000 0.00 0.00 0.00 4.17
75 76 0.109342 GTGATATCCCAGCCCACCAG 59.891 60.000 0.00 0.00 0.00 4.00
105 107 5.719173 AGTCTTAGACTTGACATTGAGCTC 58.281 41.667 9.37 6.82 40.28 4.09
117 119 4.960938 ACATTGAGCTCGCATTATTCCTA 58.039 39.130 9.64 0.00 0.00 2.94
126 128 8.854614 AGCTCGCATTATTCCTAGATTTATTT 57.145 30.769 0.00 0.00 0.00 1.40
130 132 9.219603 TCGCATTATTCCTAGATTTATTTCAGG 57.780 33.333 0.00 0.00 0.00 3.86
139 141 4.455606 AGATTTATTTCAGGCTTCCGGAG 58.544 43.478 3.34 0.00 0.00 4.63
197 199 0.659957 GAGGCGCCTGTGATGATTTC 59.340 55.000 38.41 12.03 0.00 2.17
198 200 1.091771 AGGCGCCTGTGATGATTTCG 61.092 55.000 32.33 0.00 0.00 3.46
219 221 6.530913 TCGTAAAATCTCAAGATGCTATGC 57.469 37.500 0.00 0.00 34.49 3.14
222 224 2.469274 ATCTCAAGATGCTATGCCGG 57.531 50.000 0.00 0.00 32.68 6.13
224 226 1.227943 TCAAGATGCTATGCCGGCC 60.228 57.895 26.77 9.02 0.00 6.13
235 237 1.925285 ATGCCGGCCCATTCTCTTGA 61.925 55.000 26.77 0.00 0.00 3.02
241 243 0.813821 GCCCATTCTCTTGAAGGTGC 59.186 55.000 0.00 0.00 35.44 5.01
249 251 3.445008 TCTCTTGAAGGTGCTCATAGGT 58.555 45.455 0.00 0.00 0.00 3.08
250 252 3.196469 TCTCTTGAAGGTGCTCATAGGTG 59.804 47.826 0.00 0.00 0.00 4.00
255 257 1.794714 AGGTGCTCATAGGTGTAGGG 58.205 55.000 0.00 0.00 0.00 3.53
256 258 1.008449 AGGTGCTCATAGGTGTAGGGT 59.992 52.381 0.00 0.00 0.00 4.34
266 268 0.602905 GGTGTAGGGTGTGTGAGTGC 60.603 60.000 0.00 0.00 0.00 4.40
271 273 4.000557 GGTGTGTGAGTGCGTGCG 62.001 66.667 0.00 0.00 0.00 5.34
274 276 2.103647 TGTGTGAGTGCGTGCGTTT 61.104 52.632 0.00 0.00 0.00 3.60
279 281 1.323534 GTGAGTGCGTGCGTTTATAGG 59.676 52.381 0.00 0.00 0.00 2.57
283 285 0.822811 TGCGTGCGTTTATAGGGGTA 59.177 50.000 0.00 0.00 0.00 3.69
294 296 6.285990 CGTTTATAGGGGTAAGTGTATGCTT 58.714 40.000 0.00 0.00 0.00 3.91
296 298 8.092687 CGTTTATAGGGGTAAGTGTATGCTTAT 58.907 37.037 0.00 0.00 34.03 1.73
297 299 9.216117 GTTTATAGGGGTAAGTGTATGCTTATG 57.784 37.037 0.00 0.00 34.03 1.90
304 306 6.073222 GGGTAAGTGTATGCTTATGTATGTGC 60.073 42.308 0.00 0.00 34.03 4.57
305 307 6.481976 GGTAAGTGTATGCTTATGTATGTGCA 59.518 38.462 0.00 0.00 39.83 4.57
306 308 7.173218 GGTAAGTGTATGCTTATGTATGTGCAT 59.827 37.037 0.00 0.00 46.22 3.96
312 314 6.704289 ATGCTTATGTATGTGCATGACTTT 57.296 33.333 0.00 0.00 43.41 2.66
320 322 7.075674 TGTATGTGCATGACTTTGATTGTAG 57.924 36.000 0.00 0.00 0.00 2.74
322 324 5.361135 TGTGCATGACTTTGATTGTAGTG 57.639 39.130 0.00 0.00 0.00 2.74
326 328 5.299028 TGCATGACTTTGATTGTAGTGTGTT 59.701 36.000 0.00 0.00 0.00 3.32
363 365 1.000717 GACGTGGAACCAACCCATTTG 60.001 52.381 0.00 0.00 35.91 2.32
383 385 3.323775 TGGGTTCAGGTCCTAGACTTTT 58.676 45.455 0.00 0.00 32.47 2.27
384 386 4.495565 TGGGTTCAGGTCCTAGACTTTTA 58.504 43.478 0.00 0.00 32.47 1.52
385 387 4.530946 TGGGTTCAGGTCCTAGACTTTTAG 59.469 45.833 0.00 0.00 32.47 1.85
386 388 4.776308 GGGTTCAGGTCCTAGACTTTTAGA 59.224 45.833 0.00 0.00 32.47 2.10
387 389 5.337410 GGGTTCAGGTCCTAGACTTTTAGAC 60.337 48.000 0.00 0.00 32.47 2.59
388 390 5.245526 GGTTCAGGTCCTAGACTTTTAGACA 59.754 44.000 0.00 0.00 32.47 3.41
389 391 5.979288 TCAGGTCCTAGACTTTTAGACAC 57.021 43.478 0.00 0.00 32.47 3.67
390 392 5.391256 TCAGGTCCTAGACTTTTAGACACA 58.609 41.667 0.00 0.00 32.47 3.72
391 393 5.477291 TCAGGTCCTAGACTTTTAGACACAG 59.523 44.000 0.00 0.00 32.47 3.66
392 394 4.773149 AGGTCCTAGACTTTTAGACACAGG 59.227 45.833 0.00 0.00 32.47 4.00
396 398 5.713861 TCCTAGACTTTTAGACACAGGTACC 59.286 44.000 2.73 2.73 0.00 3.34
441 443 5.793026 AGCTTCTTCTTCGCTATTCTTTG 57.207 39.130 0.00 0.00 31.12 2.77
467 469 6.549433 TGGTACAATATACTTCCTCCGTTT 57.451 37.500 0.00 0.00 31.92 3.60
468 470 6.949715 TGGTACAATATACTTCCTCCGTTTT 58.050 36.000 0.00 0.00 31.92 2.43
469 471 8.076910 TGGTACAATATACTTCCTCCGTTTTA 57.923 34.615 0.00 0.00 31.92 1.52
471 473 9.382275 GGTACAATATACTTCCTCCGTTTTAAA 57.618 33.333 0.00 0.00 0.00 1.52
480 482 8.265165 ACTTCCTCCGTTTTAAAATAGATGAC 57.735 34.615 3.52 0.00 0.00 3.06
481 483 7.336176 ACTTCCTCCGTTTTAAAATAGATGACC 59.664 37.037 3.52 0.00 0.00 4.02
482 484 6.117488 TCCTCCGTTTTAAAATAGATGACCC 58.883 40.000 3.52 0.00 0.00 4.46
484 486 6.376018 CCTCCGTTTTAAAATAGATGACCCAA 59.624 38.462 3.52 0.00 0.00 4.12
485 487 7.068226 CCTCCGTTTTAAAATAGATGACCCAAT 59.932 37.037 3.52 0.00 0.00 3.16
486 488 8.356000 TCCGTTTTAAAATAGATGACCCAATT 57.644 30.769 3.52 0.00 0.00 2.32
487 489 8.808092 TCCGTTTTAAAATAGATGACCCAATTT 58.192 29.630 3.52 0.00 0.00 1.82
488 490 9.430623 CCGTTTTAAAATAGATGACCCAATTTT 57.569 29.630 3.52 0.00 36.04 1.82
500 502 9.927668 AGATGACCCAATTTTGTATTAACTTTG 57.072 29.630 0.00 0.00 0.00 2.77
503 505 9.968870 TGACCCAATTTTGTATTAACTTTGTAC 57.031 29.630 0.00 0.00 0.00 2.90
529 531 9.746711 CTAAGTTGAGTCATCTATTTTGAAACG 57.253 33.333 4.14 0.00 0.00 3.60
530 532 7.133891 AGTTGAGTCATCTATTTTGAAACGG 57.866 36.000 1.70 0.00 0.00 4.44
531 533 6.149474 AGTTGAGTCATCTATTTTGAAACGGG 59.851 38.462 1.70 0.00 0.00 5.28
532 534 4.941263 TGAGTCATCTATTTTGAAACGGGG 59.059 41.667 0.00 0.00 0.00 5.73
533 535 4.270008 AGTCATCTATTTTGAAACGGGGG 58.730 43.478 0.00 0.00 0.00 5.40
560 2012 8.821147 AGTACTTGTCATTTACGTTGTTATGA 57.179 30.769 0.00 0.00 0.00 2.15
584 2036 4.719164 CGACTTCGTTAATTTCAAGATGCG 59.281 41.667 0.00 0.00 34.11 4.73
585 2037 5.607119 ACTTCGTTAATTTCAAGATGCGT 57.393 34.783 0.00 0.00 0.00 5.24
586 2038 5.997385 ACTTCGTTAATTTCAAGATGCGTT 58.003 33.333 0.00 0.00 0.00 4.84
587 2039 5.851177 ACTTCGTTAATTTCAAGATGCGTTG 59.149 36.000 0.00 0.00 0.00 4.10
588 2040 4.717991 TCGTTAATTTCAAGATGCGTTGG 58.282 39.130 0.00 0.00 0.00 3.77
589 2041 3.300590 CGTTAATTTCAAGATGCGTTGGC 59.699 43.478 0.00 0.00 40.52 4.52
590 2042 2.368655 AATTTCAAGATGCGTTGGCC 57.631 45.000 0.00 0.00 38.85 5.36
591 2043 1.549203 ATTTCAAGATGCGTTGGCCT 58.451 45.000 3.32 0.00 38.85 5.19
592 2044 2.192664 TTTCAAGATGCGTTGGCCTA 57.807 45.000 3.32 0.00 38.85 3.93
593 2045 1.737838 TTCAAGATGCGTTGGCCTAG 58.262 50.000 3.32 0.00 38.85 3.02
594 2046 0.613260 TCAAGATGCGTTGGCCTAGT 59.387 50.000 3.32 0.00 38.85 2.57
595 2047 1.009829 CAAGATGCGTTGGCCTAGTC 58.990 55.000 3.32 0.00 38.85 2.59
596 2048 0.905357 AAGATGCGTTGGCCTAGTCT 59.095 50.000 3.32 0.00 38.85 3.24
597 2049 1.776662 AGATGCGTTGGCCTAGTCTA 58.223 50.000 3.32 0.00 38.85 2.59
598 2050 2.320781 AGATGCGTTGGCCTAGTCTAT 58.679 47.619 3.32 0.00 38.85 1.98
599 2051 2.700897 AGATGCGTTGGCCTAGTCTATT 59.299 45.455 3.32 0.00 38.85 1.73
600 2052 2.309528 TGCGTTGGCCTAGTCTATTG 57.690 50.000 3.32 0.00 38.85 1.90
601 2053 1.134521 TGCGTTGGCCTAGTCTATTGG 60.135 52.381 3.32 0.00 38.85 3.16
602 2054 1.138266 GCGTTGGCCTAGTCTATTGGA 59.862 52.381 3.32 0.00 0.00 3.53
603 2055 2.803492 GCGTTGGCCTAGTCTATTGGAG 60.803 54.545 3.32 0.00 0.00 3.86
604 2056 2.224066 CGTTGGCCTAGTCTATTGGAGG 60.224 54.545 3.32 0.00 0.00 4.30
605 2057 2.772515 GTTGGCCTAGTCTATTGGAGGT 59.227 50.000 3.32 0.00 0.00 3.85
606 2058 2.398588 TGGCCTAGTCTATTGGAGGTG 58.601 52.381 3.32 0.00 0.00 4.00
607 2059 2.292918 TGGCCTAGTCTATTGGAGGTGT 60.293 50.000 3.32 0.00 0.00 4.16
608 2060 3.052414 TGGCCTAGTCTATTGGAGGTGTA 60.052 47.826 3.32 0.00 0.00 2.90
609 2061 3.965347 GGCCTAGTCTATTGGAGGTGTAA 59.035 47.826 0.00 0.00 0.00 2.41
610 2062 4.407945 GGCCTAGTCTATTGGAGGTGTAAA 59.592 45.833 0.00 0.00 0.00 2.01
611 2063 5.071923 GGCCTAGTCTATTGGAGGTGTAAAT 59.928 44.000 0.00 0.00 0.00 1.40
612 2064 6.269307 GGCCTAGTCTATTGGAGGTGTAAATA 59.731 42.308 0.00 0.00 0.00 1.40
622 2074 6.375830 TGGAGGTGTAAATATGGTTGTACA 57.624 37.500 0.00 0.00 0.00 2.90
628 2080 5.963004 GTGTAAATATGGTTGTACATGCGTG 59.037 40.000 3.82 3.82 32.39 5.34
632 2084 0.309302 TGGTTGTACATGCGTGTTGC 59.691 50.000 18.34 11.26 46.70 4.17
633 2085 0.591170 GGTTGTACATGCGTGTTGCT 59.409 50.000 18.34 0.00 46.63 3.91
696 2148 2.591715 GGGCGTGTGTGTTGAGCT 60.592 61.111 0.00 0.00 0.00 4.09
748 2200 2.749280 GCTAAAGCCAAGCCAATGTT 57.251 45.000 0.00 0.00 33.73 2.71
749 2201 3.044235 GCTAAAGCCAAGCCAATGTTT 57.956 42.857 0.00 0.00 33.73 2.83
750 2202 2.995939 GCTAAAGCCAAGCCAATGTTTC 59.004 45.455 0.00 0.00 33.73 2.78
751 2203 3.306294 GCTAAAGCCAAGCCAATGTTTCT 60.306 43.478 0.00 0.00 33.73 2.52
752 2204 3.391506 AAAGCCAAGCCAATGTTTCTC 57.608 42.857 0.00 0.00 0.00 2.87
753 2205 2.299326 AGCCAAGCCAATGTTTCTCT 57.701 45.000 0.00 0.00 0.00 3.10
757 2209 4.159135 AGCCAAGCCAATGTTTCTCTATTG 59.841 41.667 0.00 0.00 34.79 1.90
762 2214 3.950395 GCCAATGTTTCTCTATTGAGGCT 59.050 43.478 4.29 0.00 40.58 4.58
765 2217 5.826737 CCAATGTTTCTCTATTGAGGCTCAT 59.173 40.000 19.50 10.97 40.58 2.90
766 2218 6.017275 CCAATGTTTCTCTATTGAGGCTCATC 60.017 42.308 19.50 0.00 40.58 2.92
773 2225 4.075682 TCTATTGAGGCTCATCTCGTAGG 58.924 47.826 19.50 3.61 36.61 3.18
795 2247 0.322546 AGAAGTCAATGGGCCGAACC 60.323 55.000 0.00 0.00 37.93 3.62
809 2261 3.428862 GGCCGAACCCACATATTTTTCAG 60.429 47.826 0.00 0.00 0.00 3.02
810 2262 3.192633 GCCGAACCCACATATTTTTCAGT 59.807 43.478 0.00 0.00 0.00 3.41
842 2294 2.484594 GCCCTTCTTCAGTATCCAGAGC 60.485 54.545 0.00 0.00 0.00 4.09
989 2442 4.309950 GTGACCGTCAACCCGCCT 62.310 66.667 1.88 0.00 0.00 5.52
1063 2516 1.381327 GACATGGTCGGAGAGGGGA 60.381 63.158 0.00 0.00 36.95 4.81
1333 2960 2.678471 TACGGTACCAAAGCTAAGCC 57.322 50.000 13.54 0.00 0.00 4.35
1334 2961 0.981943 ACGGTACCAAAGCTAAGCCT 59.018 50.000 13.54 0.00 0.00 4.58
1335 2962 1.338769 ACGGTACCAAAGCTAAGCCTG 60.339 52.381 13.54 0.00 0.00 4.85
1336 2963 1.095600 GGTACCAAAGCTAAGCCTGC 58.904 55.000 7.15 0.00 0.00 4.85
1337 2964 1.613255 GGTACCAAAGCTAAGCCTGCA 60.613 52.381 7.15 0.00 0.00 4.41
1338 2965 1.740025 GTACCAAAGCTAAGCCTGCAG 59.260 52.381 6.78 6.78 0.00 4.41
1339 2966 0.610232 ACCAAAGCTAAGCCTGCAGG 60.610 55.000 29.34 29.34 38.53 4.85
1340 2967 1.318158 CCAAAGCTAAGCCTGCAGGG 61.318 60.000 33.46 18.03 35.18 4.45
1363 2994 4.762251 GGAGGAACACAATAAGCTGAAAGT 59.238 41.667 0.00 0.00 35.30 2.66
1593 3537 1.920574 CAGTATACTGTGCAGCGACAC 59.079 52.381 22.48 5.32 39.09 3.67
1635 3580 5.269313 CCTCGTGGTTATACGTCTTAGAAC 58.731 45.833 0.00 0.00 44.06 3.01
1990 3941 8.879342 TTTTTATTGTTGTATTTGTCACCCTG 57.121 30.769 0.00 0.00 0.00 4.45
1991 3942 4.519540 ATTGTTGTATTTGTCACCCTGC 57.480 40.909 0.00 0.00 0.00 4.85
1995 3946 1.885887 TGTATTTGTCACCCTGCTTGC 59.114 47.619 0.00 0.00 0.00 4.01
2127 4078 3.932710 TCGGCTCTATGTTTCATGTGTTC 59.067 43.478 0.00 0.00 0.00 3.18
2164 4122 8.382875 GTGTTACCGTTGGTTTACATTAGATAC 58.617 37.037 0.00 0.00 37.09 2.24
2242 4204 0.543749 TTTTGGCCACAAAGGGTTGG 59.456 50.000 3.88 0.00 46.37 3.77
2261 4223 1.880027 GGTTTTGTCGGCTCTGTCATT 59.120 47.619 0.00 0.00 0.00 2.57
2466 4704 3.923017 ATGCCTGAAGTACAAAACTGC 57.077 42.857 0.00 0.00 38.88 4.40
2862 5121 7.475771 CTGCAAGTTCATTACTAAGATCTCC 57.524 40.000 0.00 0.00 35.54 3.71
2896 5156 3.817084 TGACATCCTTGAAACAGAAGCAG 59.183 43.478 0.00 0.00 0.00 4.24
2900 5160 4.156455 TCCTTGAAACAGAAGCAGAAGT 57.844 40.909 0.00 0.00 0.00 3.01
3146 5410 5.163622 GGTGGTTCATCATGATCGATTTTGT 60.164 40.000 4.86 0.00 0.00 2.83
3155 5419 7.680442 TCATGATCGATTTTGTTTCTTGGTA 57.320 32.000 0.00 0.00 0.00 3.25
3286 5571 2.045561 TGGTCGTTTGGTGATTGTGT 57.954 45.000 0.00 0.00 0.00 3.72
4062 6412 0.810426 TTGTGTAAGCCGTGCGTTCA 60.810 50.000 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 1.068541 GTTCGCCACATCAAGAAACCC 60.069 52.381 0.00 0.00 0.00 4.11
30 31 3.716872 CCTCCTAACCATCCAACCATAGT 59.283 47.826 0.00 0.00 0.00 2.12
33 34 2.509964 GTCCTCCTAACCATCCAACCAT 59.490 50.000 0.00 0.00 0.00 3.55
51 52 0.398318 GGGCTGGGATATCACTGTCC 59.602 60.000 18.44 18.44 35.85 4.02
52 53 1.131638 TGGGCTGGGATATCACTGTC 58.868 55.000 12.83 10.48 0.00 3.51
71 72 3.588569 AGTCTAAGACTTGAACCCTGGT 58.411 45.455 0.00 0.00 40.28 4.00
96 97 5.233225 TCTAGGAATAATGCGAGCTCAATG 58.767 41.667 15.40 0.00 0.00 2.82
97 98 5.474578 TCTAGGAATAATGCGAGCTCAAT 57.525 39.130 15.40 3.63 0.00 2.57
101 102 8.854614 AAATAAATCTAGGAATAATGCGAGCT 57.145 30.769 0.00 0.00 0.00 4.09
105 107 7.965107 GCCTGAAATAAATCTAGGAATAATGCG 59.035 37.037 0.00 0.00 0.00 4.73
117 119 4.164221 TCTCCGGAAGCCTGAAATAAATCT 59.836 41.667 5.23 0.00 0.00 2.40
126 128 1.330655 GGACATCTCCGGAAGCCTGA 61.331 60.000 5.23 0.00 0.00 3.86
139 141 0.108138 CCTCCCACTGAACGGACATC 60.108 60.000 0.00 0.00 0.00 3.06
180 182 1.353103 CGAAATCATCACAGGCGCC 59.647 57.895 21.89 21.89 0.00 6.53
197 199 5.613360 CGGCATAGCATCTTGAGATTTTACG 60.613 44.000 0.00 0.00 31.21 3.18
198 200 5.334414 CCGGCATAGCATCTTGAGATTTTAC 60.334 44.000 0.00 0.00 31.21 2.01
205 207 1.233285 GGCCGGCATAGCATCTTGAG 61.233 60.000 30.85 0.00 0.00 3.02
213 215 1.968540 GAGAATGGGCCGGCATAGC 60.969 63.158 30.85 10.78 0.00 2.97
219 221 0.749454 CCTTCAAGAGAATGGGCCGG 60.749 60.000 0.00 0.00 32.31 6.13
222 224 0.813821 GCACCTTCAAGAGAATGGGC 59.186 55.000 0.00 0.00 40.67 5.36
224 226 3.063510 TGAGCACCTTCAAGAGAATGG 57.936 47.619 0.00 0.00 32.31 3.16
235 237 2.119495 CCCTACACCTATGAGCACCTT 58.881 52.381 0.00 0.00 0.00 3.50
241 243 3.096852 TCACACACCCTACACCTATGAG 58.903 50.000 0.00 0.00 0.00 2.90
249 251 1.365999 CGCACTCACACACCCTACA 59.634 57.895 0.00 0.00 0.00 2.74
250 252 0.944311 CACGCACTCACACACCCTAC 60.944 60.000 0.00 0.00 0.00 3.18
255 257 2.304516 AAACGCACGCACTCACACAC 62.305 55.000 0.00 0.00 0.00 3.82
256 258 0.806492 TAAACGCACGCACTCACACA 60.806 50.000 0.00 0.00 0.00 3.72
266 268 2.861935 CACTTACCCCTATAAACGCACG 59.138 50.000 0.00 0.00 0.00 5.34
271 273 9.216117 CATAAGCATACACTTACCCCTATAAAC 57.784 37.037 0.00 0.00 35.05 2.01
274 276 9.778479 ATACATAAGCATACACTTACCCCTATA 57.222 33.333 0.00 0.00 35.05 1.31
279 281 6.073222 GCACATACATAAGCATACACTTACCC 60.073 42.308 0.00 0.00 35.05 3.69
283 285 6.767423 TCATGCACATACATAAGCATACACTT 59.233 34.615 0.00 0.00 45.14 3.16
294 296 7.628769 ACAATCAAAGTCATGCACATACATA 57.371 32.000 0.00 0.00 0.00 2.29
296 298 5.963176 ACAATCAAAGTCATGCACATACA 57.037 34.783 0.00 0.00 0.00 2.29
297 299 6.963242 CACTACAATCAAAGTCATGCACATAC 59.037 38.462 0.00 0.00 0.00 2.39
304 306 9.729023 TTTTAACACACTACAATCAAAGTCATG 57.271 29.630 0.00 0.00 0.00 3.07
333 335 2.235891 GGTTCCACGTCCAAAATCCTT 58.764 47.619 0.00 0.00 0.00 3.36
334 336 1.144093 TGGTTCCACGTCCAAAATCCT 59.856 47.619 0.00 0.00 0.00 3.24
336 338 2.287970 GGTTGGTTCCACGTCCAAAATC 60.288 50.000 7.92 0.00 43.89 2.17
337 339 1.684450 GGTTGGTTCCACGTCCAAAAT 59.316 47.619 7.92 0.00 43.89 1.82
341 343 1.710996 ATGGGTTGGTTCCACGTCCA 61.711 55.000 8.59 8.59 37.08 4.02
342 344 0.538746 AATGGGTTGGTTCCACGTCC 60.539 55.000 0.00 0.00 37.08 4.79
343 345 1.000717 CAAATGGGTTGGTTCCACGTC 60.001 52.381 0.00 0.00 37.08 4.34
344 346 1.036707 CAAATGGGTTGGTTCCACGT 58.963 50.000 0.00 0.00 37.08 4.49
345 347 3.883997 CAAATGGGTTGGTTCCACG 57.116 52.632 0.00 0.00 37.08 4.94
363 365 4.776308 TCTAAAAGTCTAGGACCTGAACCC 59.224 45.833 3.53 0.00 32.18 4.11
418 420 6.631016 TCAAAGAATAGCGAAGAAGAAGCTA 58.369 36.000 0.00 0.00 45.90 3.32
419 421 5.482908 TCAAAGAATAGCGAAGAAGAAGCT 58.517 37.500 0.00 0.00 44.24 3.74
426 428 6.403049 TGTACCATTCAAAGAATAGCGAAGA 58.597 36.000 0.00 0.00 0.00 2.87
428 430 7.624360 ATTGTACCATTCAAAGAATAGCGAA 57.376 32.000 0.00 0.00 0.00 4.70
429 431 8.902540 ATATTGTACCATTCAAAGAATAGCGA 57.097 30.769 0.00 0.00 0.00 4.93
441 443 6.756221 ACGGAGGAAGTATATTGTACCATTC 58.244 40.000 0.00 0.00 0.00 2.67
455 457 7.336176 GGTCATCTATTTTAAAACGGAGGAAGT 59.664 37.037 15.79 0.00 0.00 3.01
457 459 6.600427 GGGTCATCTATTTTAAAACGGAGGAA 59.400 38.462 15.79 4.22 0.00 3.36
459 461 5.883673 TGGGTCATCTATTTTAAAACGGAGG 59.116 40.000 1.97 6.55 0.00 4.30
460 462 6.995511 TGGGTCATCTATTTTAAAACGGAG 57.004 37.500 1.97 1.74 0.00 4.63
461 463 7.948034 ATTGGGTCATCTATTTTAAAACGGA 57.052 32.000 1.97 5.09 0.00 4.69
462 464 8.996024 AAATTGGGTCATCTATTTTAAAACGG 57.004 30.769 1.97 0.00 0.00 4.44
503 505 9.746711 CGTTTCAAAATAGATGACTCAACTTAG 57.253 33.333 0.00 0.00 0.00 2.18
505 507 7.308589 CCCGTTTCAAAATAGATGACTCAACTT 60.309 37.037 0.00 0.00 0.00 2.66
507 509 6.314784 CCCGTTTCAAAATAGATGACTCAAC 58.685 40.000 0.00 0.00 0.00 3.18
508 510 5.414454 CCCCGTTTCAAAATAGATGACTCAA 59.586 40.000 0.00 0.00 0.00 3.02
511 513 4.270008 CCCCCGTTTCAAAATAGATGACT 58.730 43.478 0.00 0.00 0.00 3.41
512 514 4.632538 CCCCCGTTTCAAAATAGATGAC 57.367 45.455 0.00 0.00 0.00 3.06
530 532 3.055602 ACGTAAATGACAAGTACTCCCCC 60.056 47.826 0.00 0.00 0.00 5.40
531 533 4.198028 ACGTAAATGACAAGTACTCCCC 57.802 45.455 0.00 0.00 0.00 4.81
532 534 4.992951 ACAACGTAAATGACAAGTACTCCC 59.007 41.667 0.00 0.00 0.00 4.30
533 535 6.535274 AACAACGTAAATGACAAGTACTCC 57.465 37.500 0.00 0.00 0.00 3.85
535 537 8.706035 GTCATAACAACGTAAATGACAAGTACT 58.294 33.333 19.37 0.00 44.84 2.73
536 538 7.681246 CGTCATAACAACGTAAATGACAAGTAC 59.319 37.037 21.89 0.00 45.44 2.73
537 539 7.594386 TCGTCATAACAACGTAAATGACAAGTA 59.406 33.333 21.89 9.46 45.44 2.24
538 540 6.421501 TCGTCATAACAACGTAAATGACAAGT 59.578 34.615 21.89 0.00 45.44 3.16
539 541 6.730619 GTCGTCATAACAACGTAAATGACAAG 59.269 38.462 21.89 12.77 45.44 3.16
540 542 6.421501 AGTCGTCATAACAACGTAAATGACAA 59.578 34.615 21.89 9.65 45.44 3.18
541 543 5.921976 AGTCGTCATAACAACGTAAATGACA 59.078 36.000 21.89 12.49 45.44 3.58
542 544 6.385537 AGTCGTCATAACAACGTAAATGAC 57.614 37.500 16.45 16.45 43.00 3.06
544 546 5.944135 CGAAGTCGTCATAACAACGTAAATG 59.056 40.000 0.00 0.00 40.86 2.32
545 547 6.074398 CGAAGTCGTCATAACAACGTAAAT 57.926 37.500 0.00 0.00 40.86 1.40
546 548 5.484639 CGAAGTCGTCATAACAACGTAAA 57.515 39.130 0.00 0.00 40.86 2.01
570 2022 3.088532 AGGCCAACGCATCTTGAAATTA 58.911 40.909 5.01 0.00 36.38 1.40
571 2023 1.895131 AGGCCAACGCATCTTGAAATT 59.105 42.857 5.01 0.00 36.38 1.82
575 2027 0.613260 ACTAGGCCAACGCATCTTGA 59.387 50.000 5.01 0.00 36.38 3.02
576 2028 1.009829 GACTAGGCCAACGCATCTTG 58.990 55.000 5.01 0.00 36.38 3.02
578 2030 1.776662 TAGACTAGGCCAACGCATCT 58.223 50.000 5.01 1.13 36.38 2.90
580 2032 2.485479 CCAATAGACTAGGCCAACGCAT 60.485 50.000 5.01 0.00 36.38 4.73
583 2035 2.224066 CCTCCAATAGACTAGGCCAACG 60.224 54.545 5.01 0.00 0.00 4.10
584 2036 2.772515 ACCTCCAATAGACTAGGCCAAC 59.227 50.000 5.01 0.00 31.98 3.77
585 2037 2.771943 CACCTCCAATAGACTAGGCCAA 59.228 50.000 5.01 0.00 31.98 4.52
586 2038 2.292918 ACACCTCCAATAGACTAGGCCA 60.293 50.000 5.01 0.00 31.98 5.36
587 2039 2.399580 ACACCTCCAATAGACTAGGCC 58.600 52.381 0.00 0.00 31.98 5.19
588 2040 5.609533 TTTACACCTCCAATAGACTAGGC 57.390 43.478 0.00 0.00 31.98 3.93
589 2041 8.314751 CCATATTTACACCTCCAATAGACTAGG 58.685 40.741 0.00 0.00 35.14 3.02
590 2042 8.871125 ACCATATTTACACCTCCAATAGACTAG 58.129 37.037 0.00 0.00 0.00 2.57
591 2043 8.792830 ACCATATTTACACCTCCAATAGACTA 57.207 34.615 0.00 0.00 0.00 2.59
592 2044 7.691993 ACCATATTTACACCTCCAATAGACT 57.308 36.000 0.00 0.00 0.00 3.24
593 2045 7.773690 ACAACCATATTTACACCTCCAATAGAC 59.226 37.037 0.00 0.00 0.00 2.59
594 2046 7.867921 ACAACCATATTTACACCTCCAATAGA 58.132 34.615 0.00 0.00 0.00 1.98
595 2047 9.052759 GTACAACCATATTTACACCTCCAATAG 57.947 37.037 0.00 0.00 0.00 1.73
596 2048 8.549731 TGTACAACCATATTTACACCTCCAATA 58.450 33.333 0.00 0.00 0.00 1.90
597 2049 7.406916 TGTACAACCATATTTACACCTCCAAT 58.593 34.615 0.00 0.00 0.00 3.16
598 2050 6.780901 TGTACAACCATATTTACACCTCCAA 58.219 36.000 0.00 0.00 0.00 3.53
599 2051 6.375830 TGTACAACCATATTTACACCTCCA 57.624 37.500 0.00 0.00 0.00 3.86
600 2052 6.238648 GCATGTACAACCATATTTACACCTCC 60.239 42.308 0.00 0.00 0.00 4.30
601 2053 6.511121 CGCATGTACAACCATATTTACACCTC 60.511 42.308 0.00 0.00 0.00 3.85
602 2054 5.295787 CGCATGTACAACCATATTTACACCT 59.704 40.000 0.00 0.00 0.00 4.00
603 2055 5.065474 ACGCATGTACAACCATATTTACACC 59.935 40.000 0.00 0.00 0.00 4.16
604 2056 5.963004 CACGCATGTACAACCATATTTACAC 59.037 40.000 0.00 0.00 0.00 2.90
605 2057 5.644206 ACACGCATGTACAACCATATTTACA 59.356 36.000 0.00 0.00 37.26 2.41
606 2058 6.114221 ACACGCATGTACAACCATATTTAC 57.886 37.500 0.00 0.00 37.26 2.01
607 2059 6.547283 CAACACGCATGTACAACCATATTTA 58.453 36.000 0.00 0.00 38.45 1.40
608 2060 5.398169 CAACACGCATGTACAACCATATTT 58.602 37.500 0.00 0.00 38.45 1.40
609 2061 4.674101 GCAACACGCATGTACAACCATATT 60.674 41.667 0.00 0.00 38.45 1.28
610 2062 3.181501 GCAACACGCATGTACAACCATAT 60.182 43.478 0.00 0.00 38.45 1.78
611 2063 2.160615 GCAACACGCATGTACAACCATA 59.839 45.455 0.00 0.00 38.45 2.74
612 2064 1.068610 GCAACACGCATGTACAACCAT 60.069 47.619 0.00 0.00 38.45 3.55
655 2107 4.581409 CCCTCGGTTACTCAAAAGGAAAAA 59.419 41.667 0.00 0.00 0.00 1.94
656 2108 4.139038 CCCTCGGTTACTCAAAAGGAAAA 58.861 43.478 0.00 0.00 0.00 2.29
657 2109 3.497227 CCCCTCGGTTACTCAAAAGGAAA 60.497 47.826 0.00 0.00 0.00 3.13
658 2110 2.039348 CCCCTCGGTTACTCAAAAGGAA 59.961 50.000 0.00 0.00 0.00 3.36
659 2111 1.626825 CCCCTCGGTTACTCAAAAGGA 59.373 52.381 0.00 0.00 0.00 3.36
660 2112 1.339727 CCCCCTCGGTTACTCAAAAGG 60.340 57.143 0.00 0.00 0.00 3.11
661 2113 2.109425 CCCCCTCGGTTACTCAAAAG 57.891 55.000 0.00 0.00 0.00 2.27
711 2163 4.712425 CTTGGCTGCTTGGCGCAC 62.712 66.667 10.83 0.00 45.47 5.34
734 2186 2.299326 AGAGAAACATTGGCTTGGCT 57.701 45.000 0.00 0.00 0.00 4.75
738 2190 4.400567 GCCTCAATAGAGAAACATTGGCTT 59.599 41.667 0.00 0.00 44.98 4.35
740 2192 3.950395 AGCCTCAATAGAGAAACATTGGC 59.050 43.478 0.00 0.00 44.98 4.52
741 2193 5.188434 TGAGCCTCAATAGAGAAACATTGG 58.812 41.667 0.00 0.00 44.98 3.16
742 2194 6.766944 AGATGAGCCTCAATAGAGAAACATTG 59.233 38.462 0.00 0.00 44.98 2.82
743 2195 6.897986 AGATGAGCCTCAATAGAGAAACATT 58.102 36.000 0.00 0.00 44.98 2.71
744 2196 6.497624 AGATGAGCCTCAATAGAGAAACAT 57.502 37.500 0.00 0.00 44.98 2.71
745 2197 5.451103 CGAGATGAGCCTCAATAGAGAAACA 60.451 44.000 0.00 0.00 44.98 2.83
746 2198 4.981674 CGAGATGAGCCTCAATAGAGAAAC 59.018 45.833 0.00 0.00 44.98 2.78
747 2199 4.646945 ACGAGATGAGCCTCAATAGAGAAA 59.353 41.667 0.00 0.00 44.98 2.52
748 2200 4.211125 ACGAGATGAGCCTCAATAGAGAA 58.789 43.478 0.00 0.00 44.98 2.87
749 2201 3.826524 ACGAGATGAGCCTCAATAGAGA 58.173 45.455 0.00 0.00 44.98 3.10
750 2202 4.155826 CCTACGAGATGAGCCTCAATAGAG 59.844 50.000 0.00 0.00 41.72 2.43
751 2203 4.075682 CCTACGAGATGAGCCTCAATAGA 58.924 47.826 0.00 0.00 32.86 1.98
752 2204 4.075682 TCCTACGAGATGAGCCTCAATAG 58.924 47.826 0.00 0.00 32.86 1.73
753 2205 4.075682 CTCCTACGAGATGAGCCTCAATA 58.924 47.826 0.00 0.00 38.52 1.90
757 2209 2.151202 CTCTCCTACGAGATGAGCCTC 58.849 57.143 0.00 0.00 44.25 4.70
762 2214 4.489306 TGACTTCTCTCCTACGAGATGA 57.511 45.455 9.71 0.00 44.25 2.92
765 2217 3.948473 CCATTGACTTCTCTCCTACGAGA 59.052 47.826 0.00 0.00 43.08 4.04
766 2218 3.067461 CCCATTGACTTCTCTCCTACGAG 59.933 52.174 0.00 0.00 37.48 4.18
773 2225 0.537188 TCGGCCCATTGACTTCTCTC 59.463 55.000 0.00 0.00 0.00 3.20
795 2247 4.023193 GGCCGGATACTGAAAAATATGTGG 60.023 45.833 5.05 0.00 0.00 4.17
796 2248 4.023193 GGGCCGGATACTGAAAAATATGTG 60.023 45.833 5.05 0.00 0.00 3.21
798 2250 4.141287 TGGGCCGGATACTGAAAAATATG 58.859 43.478 5.05 0.00 0.00 1.78
799 2251 4.398319 CTGGGCCGGATACTGAAAAATAT 58.602 43.478 6.48 0.00 0.00 1.28
800 2252 3.815809 CTGGGCCGGATACTGAAAAATA 58.184 45.455 6.48 0.00 0.00 1.40
801 2253 2.654863 CTGGGCCGGATACTGAAAAAT 58.345 47.619 6.48 0.00 0.00 1.82
802 2254 1.953311 GCTGGGCCGGATACTGAAAAA 60.953 52.381 18.84 0.00 0.00 1.94
804 2256 1.223487 GCTGGGCCGGATACTGAAA 59.777 57.895 18.84 0.00 0.00 2.69
805 2257 2.742116 GGCTGGGCCGGATACTGAA 61.742 63.158 18.84 0.00 39.62 3.02
824 2276 2.103941 GGGGCTCTGGATACTGAAGAAG 59.896 54.545 0.00 0.00 44.56 2.85
938 2391 1.540267 GAGGCGTGTGTTAGACTGAGA 59.460 52.381 0.00 0.00 0.00 3.27
973 2426 2.601067 TAGGCGGGTTGACGGTCA 60.601 61.111 6.76 6.76 0.00 4.02
1063 2516 4.035102 GCTCCCGGTGCCTCCTTT 62.035 66.667 0.00 0.00 0.00 3.11
1300 2927 8.740123 TTTGGTACCGTATCATCACAAATTAT 57.260 30.769 7.57 0.00 0.00 1.28
1333 2960 0.038744 ATTGTGTTCCTCCCCTGCAG 59.961 55.000 6.78 6.78 0.00 4.41
1334 2961 1.367346 TATTGTGTTCCTCCCCTGCA 58.633 50.000 0.00 0.00 0.00 4.41
1335 2962 2.369394 CTTATTGTGTTCCTCCCCTGC 58.631 52.381 0.00 0.00 0.00 4.85
1336 2963 2.025887 AGCTTATTGTGTTCCTCCCCTG 60.026 50.000 0.00 0.00 0.00 4.45
1337 2964 2.025887 CAGCTTATTGTGTTCCTCCCCT 60.026 50.000 0.00 0.00 0.00 4.79
1338 2965 2.026262 TCAGCTTATTGTGTTCCTCCCC 60.026 50.000 0.00 0.00 0.00 4.81
1339 2966 3.350219 TCAGCTTATTGTGTTCCTCCC 57.650 47.619 0.00 0.00 0.00 4.30
1340 2967 4.762251 ACTTTCAGCTTATTGTGTTCCTCC 59.238 41.667 0.00 0.00 0.00 4.30
1389 3024 2.028876 CATCATTGCATTGCCCTCTGA 58.971 47.619 6.12 4.33 0.00 3.27
1434 3224 7.730364 ACATCAGATAAATATGGTTCGTTCC 57.270 36.000 0.00 0.00 0.00 3.62
1593 3537 3.555966 AGGGACAGGAAAAACAACTCAG 58.444 45.455 0.00 0.00 0.00 3.35
1635 3580 1.201181 AGAGCAGTAGAGCACTTCACG 59.799 52.381 0.00 0.00 34.26 4.35
1987 3938 1.117150 ATTAAGGCCATGCAAGCAGG 58.883 50.000 5.01 0.00 0.00 4.85
1988 3939 4.202182 ACATTATTAAGGCCATGCAAGCAG 60.202 41.667 5.01 0.00 0.00 4.24
1989 3940 3.705579 ACATTATTAAGGCCATGCAAGCA 59.294 39.130 5.01 0.00 0.00 3.91
1990 3941 4.326504 ACATTATTAAGGCCATGCAAGC 57.673 40.909 5.01 3.55 0.00 4.01
1991 3942 5.069516 AGGAACATTATTAAGGCCATGCAAG 59.930 40.000 5.01 0.00 0.00 4.01
1995 3946 9.696917 GATTTTAGGAACATTATTAAGGCCATG 57.303 33.333 5.01 0.30 0.00 3.66
2073 4024 6.151144 ACCTATTTGTTCACCATTAAGCAGAC 59.849 38.462 0.00 0.00 0.00 3.51
2127 4078 5.699458 ACCAACGGTAACACAGAAAGAATAG 59.301 40.000 0.00 0.00 32.11 1.73
2138 4089 6.783892 TCTAATGTAAACCAACGGTAACAC 57.216 37.500 4.02 0.00 35.52 3.32
2231 4192 1.478916 CCGACAAAACCAACCCTTTGT 59.521 47.619 0.06 0.06 45.91 2.83
2242 4204 3.626028 AAATGACAGAGCCGACAAAAC 57.374 42.857 0.00 0.00 0.00 2.43
2261 4223 6.430925 AGCACACATTGTATAGCTCTTCAAAA 59.569 34.615 0.00 0.00 0.00 2.44
2466 4704 5.466728 TGCTGAGAAGTTTGTAGCTACTTTG 59.533 40.000 23.84 5.92 34.88 2.77
2745 4991 7.769044 ACTATATCCAAACCATGTGTCTGTAAC 59.231 37.037 0.00 0.00 0.00 2.50
2747 4993 7.432148 ACTATATCCAAACCATGTGTCTGTA 57.568 36.000 0.00 0.00 0.00 2.74
2748 4994 6.313519 ACTATATCCAAACCATGTGTCTGT 57.686 37.500 0.00 0.00 0.00 3.41
2786 5043 3.005472 AGTGTTCGAGCTAGCTTGTAACA 59.995 43.478 28.06 28.06 31.51 2.41
2862 5121 5.928976 TCAAGGATGTCACCAAGGTATATG 58.071 41.667 0.00 0.00 0.00 1.78
2896 5156 4.324267 TGGATTCTTTTCCTTCCGACTTC 58.676 43.478 0.00 0.00 36.68 3.01
2900 5160 4.917385 TCATTGGATTCTTTTCCTTCCGA 58.083 39.130 0.00 0.00 36.68 4.55
3146 5410 4.158394 GCAATGCTCCAATCTACCAAGAAA 59.842 41.667 0.00 0.00 34.73 2.52
3155 5419 1.822990 CAGGTTGCAATGCTCCAATCT 59.177 47.619 18.18 3.72 32.88 2.40
3286 5571 4.473196 TCCATCCCAGTATTACAGCAGAAA 59.527 41.667 0.00 0.00 0.00 2.52


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

AutoCloner maintained by Alex Coulton.