Multiple sequence alignment - TraesCS1B01G307100

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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 TraesCS1B01G307100 chr1B 100.000 4692 0 0 1 4692 530049481 530054172 0.000000e+00 8665.0
1 TraesCS1B01G307100 chr1B 94.949 99 3 2 3923 4020 637589086 637589183 2.260000e-33 154.0
2 TraesCS1B01G307100 chr1B 97.753 89 1 1 3923 4011 604837251 604837164 8.130000e-33 152.0
3 TraesCS1B01G307100 chr1B 89.474 114 11 1 3927 4039 637554970 637555083 4.890000e-30 143.0
4 TraesCS1B01G307100 chr1B 94.521 73 4 0 520 592 568973280 568973352 3.840000e-21 113.0
5 TraesCS1B01G307100 chr1B 90.361 83 6 2 516 597 180349252 180349171 1.790000e-19 108.0
6 TraesCS1B01G307100 chr1A 94.574 3465 107 33 595 4003 492798179 492801618 0.000000e+00 5282.0
7 TraesCS1B01G307100 chr1A 91.667 192 13 2 1 192 492797846 492798034 3.600000e-66 263.0
8 TraesCS1B01G307100 chr1A 79.321 324 46 12 4149 4461 492802361 492802674 1.710000e-49 207.0
9 TraesCS1B01G307100 chr1D 94.671 3359 99 41 790 4114 392573714 392570402 0.000000e+00 5138.0
10 TraesCS1B01G307100 chr1D 93.818 275 14 2 4149 4422 392560017 392559745 1.220000e-110 411.0
11 TraesCS1B01G307100 chr1D 94.397 232 12 1 3925 4155 392560781 392560550 5.770000e-94 355.0
12 TraesCS1B01G307100 chr1D 90.265 226 13 4 4467 4692 392569065 392568849 2.140000e-73 287.0
13 TraesCS1B01G307100 chr1D 94.944 178 9 0 4515 4692 392559717 392559540 3.580000e-71 279.0
14 TraesCS1B01G307100 chr1D 94.857 175 7 2 637 811 392573896 392573724 5.980000e-69 272.0
15 TraesCS1B01G307100 chr1D 81.230 309 40 6 4152 4452 392569414 392569116 2.820000e-57 233.0
16 TraesCS1B01G307100 chr1D 90.351 114 8 3 3892 4003 392558340 392558228 3.780000e-31 147.0
17 TraesCS1B01G307100 chr1D 84.828 145 10 8 1 136 392574524 392574383 8.190000e-28 135.0
18 TraesCS1B01G307100 chr5D 94.737 95 1 4 3926 4019 486171023 486170932 1.360000e-30 145.0
19 TraesCS1B01G307100 chr5B 90.741 108 5 5 3922 4028 684575515 684575412 6.330000e-29 139.0
20 TraesCS1B01G307100 chr5B 92.405 79 5 1 516 593 387753256 387753178 1.380000e-20 111.0
21 TraesCS1B01G307100 chr4B 93.407 91 6 0 497 587 606909958 606909868 8.190000e-28 135.0
22 TraesCS1B01G307100 chr4B 92.308 78 6 0 516 593 168152742 168152819 1.380000e-20 111.0
23 TraesCS1B01G307100 chr3B 90.722 97 8 1 494 589 371351459 371351363 1.370000e-25 128.0
24 TraesCS1B01G307100 chr4D 90.625 96 8 1 494 588 371212199 371212104 4.930000e-25 126.0
25 TraesCS1B01G307100 chr6B 95.775 71 3 0 516 586 444741731 444741801 1.070000e-21 115.0
26 TraesCS1B01G307100 chr6B 88.889 90 10 0 497 586 461267552 461267641 1.380000e-20 111.0
27 TraesCS1B01G307100 chr6B 90.909 55 3 2 3461 3514 599758753 599758806 6.510000e-09 73.1
28 TraesCS1B01G307100 chr6D 90.909 55 3 2 3461 3514 400701993 400702046 6.510000e-09 73.1
29 TraesCS1B01G307100 chr6A 90.741 54 3 2 3462 3514 546929520 546929572 2.340000e-08 71.3


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 TraesCS1B01G307100 chr1B 530049481 530054172 4691 False 8665.000000 8665 100.000000 1 4692 1 chr1B.!!$F1 4691
1 TraesCS1B01G307100 chr1A 492797846 492802674 4828 False 1917.333333 5282 88.520667 1 4461 3 chr1A.!!$F1 4460
2 TraesCS1B01G307100 chr1D 392568849 392574524 5675 True 1213.000000 5138 89.170200 1 4692 5 chr1D.!!$R2 4691
3 TraesCS1B01G307100 chr1D 392558228 392560781 2553 True 298.000000 411 93.377500 3892 4692 4 chr1D.!!$R1 800

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
467 513 0.322456 CGGGACAAATTCCTGGCTCA 60.322 55.0 0.00 0.00 46.30 4.26 F
590 636 0.463116 CGGACGGAGGGGGTATTTTG 60.463 60.0 0.00 0.00 0.00 2.44 F
591 637 0.622136 GGACGGAGGGGGTATTTTGT 59.378 55.0 0.00 0.00 0.00 2.83 F
1298 1474 1.098050 ATTCGGTGCTGATTTCAGGC 58.902 50.0 9.49 3.04 43.94 4.85 F
1658 1834 1.397672 CCGATCCTCTCTGAGCTCAA 58.602 55.0 18.85 8.05 0.00 3.02 F
2432 2610 0.820482 TCTGGTGTTCTCGTCGGTGA 60.820 55.0 0.00 0.00 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1303 1479 0.179092 AGCGACGGGCCAAGTATAAC 60.179 55.000 4.39 0.0 45.17 1.89 R
1722 1898 0.184451 ATCCCACCATGATGAGCCAC 59.816 55.000 0.00 0.0 0.00 5.01 R
2412 2590 0.243907 CACCGACGAGAACACCAGAT 59.756 55.000 0.00 0.0 0.00 2.90 R
2413 2591 0.820482 TCACCGACGAGAACACCAGA 60.820 55.000 0.00 0.0 0.00 3.86 R
3520 3716 2.804090 GGCGTGTCGAAGTCGGAC 60.804 66.667 0.00 0.0 40.29 4.79 R
3924 4123 1.134729 ACTACACCACGAAACCGTTGT 60.135 47.619 0.00 0.0 38.35 3.32 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
52 59 2.283388 ACCATGGCCACCTGCAAG 60.283 61.111 8.16 0.00 43.89 4.01
83 90 4.005650 CTGCATCCTTCTCTTTTGCACTA 58.994 43.478 0.00 0.00 38.32 2.74
86 93 4.036144 GCATCCTTCTCTTTTGCACTATCC 59.964 45.833 0.00 0.00 33.58 2.59
87 94 5.435291 CATCCTTCTCTTTTGCACTATCCT 58.565 41.667 0.00 0.00 0.00 3.24
108 115 7.634526 TCCTCTCTACTCTCTATTATCCACA 57.365 40.000 0.00 0.00 0.00 4.17
119 126 9.775854 CTCTCTATTATCCACATTCTCATTTGT 57.224 33.333 0.00 0.00 0.00 2.83
121 128 8.158169 TCTATTATCCACATTCTCATTTGTGC 57.842 34.615 0.00 0.00 41.47 4.57
131 138 3.554934 TCTCATTTGTGCCTTGTCTTGT 58.445 40.909 0.00 0.00 0.00 3.16
140 147 1.726853 CCTTGTCTTGTGATCCCGTC 58.273 55.000 0.00 0.00 0.00 4.79
149 156 2.335369 GATCCCGTCGATGGACCG 59.665 66.667 25.65 8.66 40.17 4.79
191 198 3.130264 TTGCCTGCCAACAACATCT 57.870 47.368 0.00 0.00 0.00 2.90
192 199 0.675083 TTGCCTGCCAACAACATCTG 59.325 50.000 0.00 0.00 0.00 2.90
193 200 1.080298 GCCTGCCAACAACATCTGC 60.080 57.895 0.00 0.00 0.00 4.26
194 201 1.808531 GCCTGCCAACAACATCTGCA 61.809 55.000 0.00 0.00 0.00 4.41
195 202 0.892755 CCTGCCAACAACATCTGCAT 59.107 50.000 0.00 0.00 0.00 3.96
196 203 1.403647 CCTGCCAACAACATCTGCATG 60.404 52.381 0.00 0.00 35.92 4.06
197 204 1.271379 CTGCCAACAACATCTGCATGT 59.729 47.619 0.00 0.00 45.89 3.21
216 223 2.280628 GTTGCTACCACCATGACTAGC 58.719 52.381 0.00 0.00 33.56 3.42
227 234 2.484417 CCATGACTAGCTGACCACCATC 60.484 54.545 0.00 0.00 0.00 3.51
231 238 0.529337 CTAGCTGACCACCATCGCTG 60.529 60.000 0.00 0.00 32.97 5.18
237 244 2.202987 CCACCATCGCTGGAGCTC 60.203 66.667 13.24 4.71 46.37 4.09
240 247 4.598894 CCATCGCTGGAGCTCCCG 62.599 72.222 29.95 25.24 46.37 5.14
254 293 2.246761 CTCCCGTGCCGAATACCCAA 62.247 60.000 0.00 0.00 0.00 4.12
257 296 1.743623 CGTGCCGAATACCCAAGCA 60.744 57.895 0.00 0.00 0.00 3.91
286 326 3.698289 TCCTTGGAGAACACGAGATACT 58.302 45.455 0.00 0.00 0.00 2.12
289 329 4.202030 CCTTGGAGAACACGAGATACTACC 60.202 50.000 0.00 0.00 0.00 3.18
290 330 3.959293 TGGAGAACACGAGATACTACCA 58.041 45.455 0.00 0.00 0.00 3.25
291 331 3.693085 TGGAGAACACGAGATACTACCAC 59.307 47.826 0.00 0.00 0.00 4.16
292 332 3.693085 GGAGAACACGAGATACTACCACA 59.307 47.826 0.00 0.00 0.00 4.17
304 344 7.465916 CGAGATACTACCACATTTTGTCAATGG 60.466 40.741 2.01 2.01 36.46 3.16
305 345 7.402054 AGATACTACCACATTTTGTCAATGGA 58.598 34.615 9.45 0.00 34.38 3.41
308 348 4.806640 ACCACATTTTGTCAATGGATCC 57.193 40.909 4.20 4.20 34.38 3.36
312 352 5.186409 CCACATTTTGTCAATGGATCCTTCT 59.814 40.000 14.23 0.00 31.69 2.85
315 355 7.919091 CACATTTTGTCAATGGATCCTTCTATG 59.081 37.037 14.23 2.40 32.14 2.23
321 361 5.888161 GTCAATGGATCCTTCTATGTTGGTT 59.112 40.000 14.23 0.00 0.00 3.67
336 376 6.655078 ATGTTGGTTAGACTGCAAAAGAAT 57.345 33.333 0.00 0.00 0.00 2.40
338 378 6.966021 TGTTGGTTAGACTGCAAAAGAATAC 58.034 36.000 0.00 0.00 0.00 1.89
339 379 6.544197 TGTTGGTTAGACTGCAAAAGAATACA 59.456 34.615 0.00 0.00 0.00 2.29
340 380 6.801539 TGGTTAGACTGCAAAAGAATACAG 57.198 37.500 0.00 0.00 36.22 2.74
341 381 6.296026 TGGTTAGACTGCAAAAGAATACAGT 58.704 36.000 0.00 0.00 45.66 3.55
342 382 7.446769 TGGTTAGACTGCAAAAGAATACAGTA 58.553 34.615 0.00 0.00 43.16 2.74
343 383 7.386848 TGGTTAGACTGCAAAAGAATACAGTAC 59.613 37.037 0.00 0.00 43.16 2.73
345 385 8.989980 GTTAGACTGCAAAAGAATACAGTACTT 58.010 33.333 0.00 0.00 43.16 2.24
346 386 7.659652 AGACTGCAAAAGAATACAGTACTTC 57.340 36.000 0.00 0.00 43.16 3.01
347 387 7.217200 AGACTGCAAAAGAATACAGTACTTCA 58.783 34.615 0.00 0.00 43.16 3.02
348 388 7.386299 AGACTGCAAAAGAATACAGTACTTCAG 59.614 37.037 0.00 0.00 43.16 3.02
349 389 6.992715 ACTGCAAAAGAATACAGTACTTCAGT 59.007 34.615 0.00 0.00 41.41 3.41
351 391 8.534333 TGCAAAAGAATACAGTACTTCAGTAG 57.466 34.615 0.00 0.00 0.00 2.57
352 392 8.148351 TGCAAAAGAATACAGTACTTCAGTAGT 58.852 33.333 0.00 0.00 41.04 2.73
405 448 3.303881 TCTCGAAGGACATCACACAAG 57.696 47.619 0.00 0.00 0.00 3.16
412 455 4.630644 AGGACATCACACAAGTTGAGAT 57.369 40.909 10.54 7.09 36.07 2.75
431 474 3.629398 AGATTGCTCAAGGCCGAAATAAG 59.371 43.478 0.00 0.00 40.92 1.73
432 475 1.750193 TGCTCAAGGCCGAAATAAGG 58.250 50.000 0.00 0.00 40.92 2.69
467 513 0.322456 CGGGACAAATTCCTGGCTCA 60.322 55.000 0.00 0.00 46.30 4.26
496 542 3.746492 GCTAAGAAGTTTCTCAAAGCGGA 59.254 43.478 0.00 0.00 36.28 5.54
497 543 4.213482 GCTAAGAAGTTTCTCAAAGCGGAA 59.787 41.667 0.00 0.00 36.28 4.30
499 545 6.092259 GCTAAGAAGTTTCTCAAAGCGGAATA 59.908 38.462 0.00 0.00 36.28 1.75
500 546 7.201652 GCTAAGAAGTTTCTCAAAGCGGAATAT 60.202 37.037 0.00 0.00 36.28 1.28
501 547 7.454260 AAGAAGTTTCTCAAAGCGGAATATT 57.546 32.000 0.00 0.00 36.28 1.28
502 548 7.454260 AGAAGTTTCTCAAAGCGGAATATTT 57.546 32.000 0.00 0.00 29.94 1.40
503 549 7.308435 AGAAGTTTCTCAAAGCGGAATATTTG 58.692 34.615 0.00 0.00 37.67 2.32
504 550 6.575162 AGTTTCTCAAAGCGGAATATTTGT 57.425 33.333 0.00 0.00 37.60 2.83
505 551 6.612306 AGTTTCTCAAAGCGGAATATTTGTC 58.388 36.000 0.00 0.00 37.60 3.18
507 553 5.801350 TCTCAAAGCGGAATATTTGTCAG 57.199 39.130 0.00 0.00 37.60 3.51
508 554 5.487433 TCTCAAAGCGGAATATTTGTCAGA 58.513 37.500 0.00 0.00 37.60 3.27
509 555 5.582269 TCTCAAAGCGGAATATTTGTCAGAG 59.418 40.000 0.00 0.00 37.60 3.35
510 556 5.487433 TCAAAGCGGAATATTTGTCAGAGA 58.513 37.500 0.00 0.00 37.60 3.10
511 557 5.937540 TCAAAGCGGAATATTTGTCAGAGAA 59.062 36.000 0.00 0.00 37.60 2.87
513 559 7.121168 TCAAAGCGGAATATTTGTCAGAGAAAT 59.879 33.333 10.25 10.25 37.60 2.17
514 560 6.369059 AGCGGAATATTTGTCAGAGAAATG 57.631 37.500 14.44 0.47 0.00 2.32
515 561 5.297776 AGCGGAATATTTGTCAGAGAAATGG 59.702 40.000 14.44 2.11 0.00 3.16
516 562 5.296780 GCGGAATATTTGTCAGAGAAATGGA 59.703 40.000 14.44 0.00 0.00 3.41
517 563 6.016777 GCGGAATATTTGTCAGAGAAATGGAT 60.017 38.462 14.44 0.08 0.00 3.41
518 564 7.358066 CGGAATATTTGTCAGAGAAATGGATG 58.642 38.462 14.44 0.00 0.00 3.51
519 565 7.012704 CGGAATATTTGTCAGAGAAATGGATGT 59.987 37.037 14.44 0.00 0.00 3.06
520 566 9.342308 GGAATATTTGTCAGAGAAATGGATGTA 57.658 33.333 14.44 0.00 0.00 2.29
527 573 9.739276 TTGTCAGAGAAATGGATGTATTTTAGT 57.261 29.630 0.00 0.00 30.78 2.24
559 605 7.760131 ACATTCATTTTTATCCATTTCAGCG 57.240 32.000 0.00 0.00 0.00 5.18
561 607 7.489113 ACATTCATTTTTATCCATTTCAGCGAC 59.511 33.333 0.00 0.00 0.00 5.19
562 608 6.507958 TCATTTTTATCCATTTCAGCGACA 57.492 33.333 0.00 0.00 0.00 4.35
563 609 6.918626 TCATTTTTATCCATTTCAGCGACAA 58.081 32.000 0.00 0.00 0.00 3.18
564 610 7.028962 TCATTTTTATCCATTTCAGCGACAAG 58.971 34.615 0.00 0.00 0.00 3.16
566 612 7.441890 TTTTTATCCATTTCAGCGACAAGTA 57.558 32.000 0.00 0.00 0.00 2.24
568 614 7.624360 TTTATCCATTTCAGCGACAAGTAAT 57.376 32.000 0.00 0.00 0.00 1.89
570 616 5.545658 TCCATTTCAGCGACAAGTAATTC 57.454 39.130 0.00 0.00 0.00 2.17
571 617 4.394920 TCCATTTCAGCGACAAGTAATTCC 59.605 41.667 0.00 0.00 0.00 3.01
572 618 4.334443 CATTTCAGCGACAAGTAATTCCG 58.666 43.478 0.00 0.00 0.00 4.30
573 619 2.004583 TCAGCGACAAGTAATTCCGG 57.995 50.000 0.00 0.00 0.00 5.14
576 622 0.643820 GCGACAAGTAATTCCGGACG 59.356 55.000 1.83 1.53 0.00 4.79
578 624 1.135315 CGACAAGTAATTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
580 626 1.206371 ACAAGTAATTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
582 628 1.047034 AGTAATTCCGGACGGAGGGG 61.047 60.000 13.64 0.00 46.06 4.79
583 629 1.763256 TAATTCCGGACGGAGGGGG 60.763 63.158 13.64 0.00 46.06 5.40
585 631 2.534594 AATTCCGGACGGAGGGGGTA 62.535 60.000 13.64 0.00 46.06 3.69
587 633 2.445274 CCGGACGGAGGGGGTATT 60.445 66.667 4.40 0.00 37.50 1.89
588 634 2.068213 CCGGACGGAGGGGGTATTT 61.068 63.158 4.40 0.00 37.50 1.40
589 635 1.629181 CCGGACGGAGGGGGTATTTT 61.629 60.000 4.40 0.00 37.50 1.82
590 636 0.463116 CGGACGGAGGGGGTATTTTG 60.463 60.000 0.00 0.00 0.00 2.44
591 637 0.622136 GGACGGAGGGGGTATTTTGT 59.378 55.000 0.00 0.00 0.00 2.83
592 638 1.839354 GGACGGAGGGGGTATTTTGTA 59.161 52.381 0.00 0.00 0.00 2.41
593 639 2.420547 GGACGGAGGGGGTATTTTGTAC 60.421 54.545 0.00 0.00 0.00 2.90
599 645 5.678583 GGAGGGGGTATTTTGTACTAGTTC 58.321 45.833 0.00 0.00 0.00 3.01
609 655 4.913335 TTGTACTAGTTCGGAGGCATAG 57.087 45.455 0.00 0.00 0.00 2.23
805 957 3.755378 CCAACTAAACAAGCTGAGCTCAT 59.245 43.478 18.63 0.00 38.25 2.90
828 980 9.271921 TCATATATATTCTCAAGGCTACCATGT 57.728 33.333 0.00 0.00 0.00 3.21
875 1039 2.937149 GTTTTCTCTGGTATTCGCCTCC 59.063 50.000 0.00 0.00 0.00 4.30
876 1040 2.160721 TTCTCTGGTATTCGCCTCCT 57.839 50.000 0.00 0.00 0.00 3.69
877 1041 1.693627 TCTCTGGTATTCGCCTCCTC 58.306 55.000 0.00 0.00 0.00 3.71
904 1068 1.292860 CACCATGCAAACCGCCATT 59.707 52.632 0.00 0.00 41.33 3.16
1023 1199 2.237392 GGAGAAGGTGGACTGCTATGTT 59.763 50.000 0.00 0.00 34.19 2.71
1154 1330 1.341482 TGTCCTCTACCTCCTCTGCAG 60.341 57.143 7.63 7.63 0.00 4.41
1272 1448 3.007940 TGTGGATCGATGGAGAAAGTGTT 59.992 43.478 0.54 0.00 0.00 3.32
1274 1450 5.175859 GTGGATCGATGGAGAAAGTGTTTA 58.824 41.667 0.54 0.00 0.00 2.01
1282 1458 7.117812 TCGATGGAGAAAGTGTTTACTCAATTC 59.882 37.037 0.00 0.00 35.69 2.17
1298 1474 1.098050 ATTCGGTGCTGATTTCAGGC 58.902 50.000 9.49 3.04 43.94 4.85
1303 1479 3.880846 GCTGATTTCAGGCCGGCG 61.881 66.667 22.54 7.85 43.94 6.46
1647 1823 2.026879 GTGCTCTCGCCGATCCTC 59.973 66.667 0.00 0.00 34.43 3.71
1650 1826 1.896660 GCTCTCGCCGATCCTCTCT 60.897 63.158 0.00 0.00 0.00 3.10
1658 1834 1.397672 CCGATCCTCTCTGAGCTCAA 58.602 55.000 18.85 8.05 0.00 3.02
1796 1972 2.435059 GTCGCTCTGGGCCTTCAC 60.435 66.667 4.53 0.00 37.74 3.18
2134 2310 4.990910 ACTGGGGGAGGCTGCAGT 62.991 66.667 16.64 0.00 0.00 4.40
2370 2548 5.106948 CGTACTGACATGCAAGACTGATTTT 60.107 40.000 0.00 0.00 0.00 1.82
2371 2549 5.117355 ACTGACATGCAAGACTGATTTTG 57.883 39.130 0.00 0.00 0.00 2.44
2412 2590 0.867746 GACAAGCACATGTTCAGCGA 59.132 50.000 0.00 0.00 32.57 4.93
2413 2591 1.466167 GACAAGCACATGTTCAGCGAT 59.534 47.619 0.00 0.00 32.57 4.58
2432 2610 0.820482 TCTGGTGTTCTCGTCGGTGA 60.820 55.000 0.00 0.00 0.00 4.02
3028 3206 2.993264 TCCGTGGGGGTCTTCGTC 60.993 66.667 0.00 0.00 37.00 4.20
3415 3611 4.814294 GCCGGCTACGACCTGGTG 62.814 72.222 22.15 0.00 44.60 4.17
3738 3935 2.744202 ACGTGATCTTGACCTTTGCATC 59.256 45.455 0.00 0.00 0.00 3.91
3779 3976 2.962421 AGTTCCTAGCATCACTCCTAGC 59.038 50.000 0.00 0.00 31.76 3.42
3780 3977 2.695666 GTTCCTAGCATCACTCCTAGCA 59.304 50.000 0.00 0.00 31.76 3.49
3824 4021 0.796312 TTTCAGTTCATCGCTTCGCC 59.204 50.000 0.00 0.00 0.00 5.54
3830 4027 3.179265 CATCGCTTCGCCGTTCGT 61.179 61.111 0.00 0.00 39.67 3.85
3831 4028 1.870458 CATCGCTTCGCCGTTCGTA 60.870 57.895 0.00 0.00 39.67 3.43
3839 4036 2.565210 TCGCCGTTCGTATATGTTGT 57.435 45.000 0.00 0.00 39.67 3.32
3848 4045 6.914215 CCGTTCGTATATGTTGTGTACAGTAT 59.086 38.462 0.00 0.00 40.83 2.12
3887 4086 5.275067 TGGAAACAATTTTGTGCTTAGCT 57.725 34.783 5.60 0.00 41.31 3.32
3889 4088 6.212955 TGGAAACAATTTTGTGCTTAGCTAC 58.787 36.000 5.60 2.88 41.31 3.58
3891 4090 6.582672 GGAAACAATTTTGTGCTTAGCTACTC 59.417 38.462 5.60 0.00 41.31 2.59
3892 4091 6.884280 AACAATTTTGTGCTTAGCTACTCT 57.116 33.333 5.60 0.00 41.31 3.24
3894 4093 7.979444 ACAATTTTGTGCTTAGCTACTCTTA 57.021 32.000 5.60 0.00 40.49 2.10
3895 4094 8.567285 ACAATTTTGTGCTTAGCTACTCTTAT 57.433 30.769 5.60 0.00 40.49 1.73
3896 4095 9.667107 ACAATTTTGTGCTTAGCTACTCTTATA 57.333 29.630 5.60 0.00 40.49 0.98
3897 4096 9.922305 CAATTTTGTGCTTAGCTACTCTTATAC 57.078 33.333 5.60 0.00 0.00 1.47
3898 4097 9.892130 AATTTTGTGCTTAGCTACTCTTATACT 57.108 29.630 5.60 0.00 0.00 2.12
4021 4223 9.405587 CGAAGCCAATTTATCTTCTTTTTACAA 57.594 29.630 8.55 0.00 35.35 2.41
4108 4311 5.627503 GCATCCTTTTTGCCCAATGACTAAT 60.628 40.000 0.00 0.00 33.95 1.73
4138 4342 6.602179 TCTTGCTTTACAACAATCAAGATCG 58.398 36.000 0.00 0.00 36.15 3.69
4152 4356 6.996180 ATCAAGATCGAGTTAATCCCCTAA 57.004 37.500 0.00 0.00 0.00 2.69
4155 4359 6.014499 TCAAGATCGAGTTAATCCCCTAATCC 60.014 42.308 0.00 0.00 0.00 3.01
4156 4360 5.403512 AGATCGAGTTAATCCCCTAATCCA 58.596 41.667 0.00 0.00 0.00 3.41
4157 4361 5.844516 AGATCGAGTTAATCCCCTAATCCAA 59.155 40.000 0.00 0.00 0.00 3.53
4158 4362 5.286267 TCGAGTTAATCCCCTAATCCAAC 57.714 43.478 0.00 0.00 0.00 3.77
4162 4366 6.355588 AGTTAATCCCCTAATCCAACCAAT 57.644 37.500 0.00 0.00 0.00 3.16
4163 4367 6.136155 AGTTAATCCCCTAATCCAACCAATG 58.864 40.000 0.00 0.00 0.00 2.82
4164 4368 4.625225 AATCCCCTAATCCAACCAATGT 57.375 40.909 0.00 0.00 0.00 2.71
4165 4369 3.380471 TCCCCTAATCCAACCAATGTG 57.620 47.619 0.00 0.00 0.00 3.21
4169 5548 4.344104 CCCTAATCCAACCAATGTGAACT 58.656 43.478 0.00 0.00 0.00 3.01
4253 5635 4.769488 TCAGATACTGCCATGAGATAGGTC 59.231 45.833 0.00 0.00 0.00 3.85
4269 5657 6.656902 AGATAGGTCATATGGCATATGGTTG 58.343 40.000 35.10 19.74 42.23 3.77
4353 5742 6.533012 TGAGATTCAATGAGTTGTCGAGATTC 59.467 38.462 0.00 0.00 36.69 2.52
4363 5752 3.790152 TGTCGAGATTCTGGATCACTG 57.210 47.619 1.50 0.00 37.22 3.66
4367 5756 2.159128 CGAGATTCTGGATCACTGCAGT 60.159 50.000 15.25 15.25 41.30 4.40
4388 5777 9.502091 TGCAGTAAGTTTATCAGTAACTTTCAT 57.498 29.630 6.33 0.00 41.69 2.57
4430 5819 1.284657 CAACCTGATAGAGCACTGCG 58.715 55.000 0.00 0.00 0.00 5.18
4436 5825 0.317938 GATAGAGCACTGCGGTACCG 60.318 60.000 30.06 30.06 43.09 4.02
4437 5826 1.735376 ATAGAGCACTGCGGTACCGG 61.735 60.000 33.98 21.29 40.19 5.28
4438 5827 2.825075 TAGAGCACTGCGGTACCGGA 62.825 60.000 33.98 30.85 40.19 5.14
4492 5917 1.614525 AGCATCACTCTGGGAGCCA 60.615 57.895 0.00 0.00 32.04 4.75
4507 5932 2.379005 GAGCCATAGGGTTTCAAAGGG 58.621 52.381 0.00 0.00 36.17 3.95
4508 5933 2.000048 AGCCATAGGGTTTCAAAGGGA 59.000 47.619 0.00 0.00 36.17 4.20
4509 5934 2.381961 AGCCATAGGGTTTCAAAGGGAA 59.618 45.455 0.00 0.00 36.17 3.97
4510 5935 2.496070 GCCATAGGGTTTCAAAGGGAAC 59.504 50.000 0.00 0.00 36.17 3.62
4511 5936 3.773560 CCATAGGGTTTCAAAGGGAACA 58.226 45.455 0.00 0.00 34.56 3.18
4512 5937 3.509967 CCATAGGGTTTCAAAGGGAACAC 59.490 47.826 0.00 0.00 34.56 3.32
4513 5938 2.082140 AGGGTTTCAAAGGGAACACC 57.918 50.000 0.00 0.00 36.63 4.16
4562 5987 2.124529 GAGCCTACAAGCCCCAGC 60.125 66.667 0.00 0.00 40.32 4.85
4665 6090 1.794714 TAGGGAAGAGGGAGCATGTC 58.205 55.000 0.00 0.00 0.00 3.06
4677 6102 1.263484 GAGCATGTCCAATGATCTGCG 59.737 52.381 0.00 0.00 36.45 5.18
4681 6106 1.026182 TGTCCAATGATCTGCGGTGC 61.026 55.000 0.00 0.00 0.00 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 59 4.826556 AGAGAAGGATGCAGTTGTAGTTC 58.173 43.478 0.00 0.00 0.00 3.01
83 90 8.225863 TGTGGATAATAGAGAGTAGAGAGGAT 57.774 38.462 0.00 0.00 0.00 3.24
86 93 9.739276 AGAATGTGGATAATAGAGAGTAGAGAG 57.261 37.037 0.00 0.00 0.00 3.20
87 94 9.733556 GAGAATGTGGATAATAGAGAGTAGAGA 57.266 37.037 0.00 0.00 0.00 3.10
108 115 4.586001 ACAAGACAAGGCACAAATGAGAAT 59.414 37.500 0.00 0.00 0.00 2.40
119 126 0.321564 CGGGATCACAAGACAAGGCA 60.322 55.000 0.00 0.00 0.00 4.75
121 128 1.726853 GACGGGATCACAAGACAAGG 58.273 55.000 0.00 0.00 0.00 3.61
131 138 2.486663 CGGTCCATCGACGGGATCA 61.487 63.158 16.16 0.00 40.17 2.92
149 156 2.359850 TCCAGCAATGGTCGTGGC 60.360 61.111 0.00 0.00 0.00 5.01
192 199 1.133025 GTCATGGTGGTAGCAACATGC 59.867 52.381 36.75 29.08 46.70 4.06
194 201 3.682718 GCTAGTCATGGTGGTAGCAACAT 60.683 47.826 19.57 19.57 38.23 2.71
195 202 2.354704 GCTAGTCATGGTGGTAGCAACA 60.355 50.000 16.16 16.16 38.23 3.33
196 203 2.093447 AGCTAGTCATGGTGGTAGCAAC 60.093 50.000 2.13 2.13 40.37 4.17
197 204 2.093500 CAGCTAGTCATGGTGGTAGCAA 60.093 50.000 14.72 0.00 40.37 3.91
198 205 1.482182 CAGCTAGTCATGGTGGTAGCA 59.518 52.381 14.72 0.00 40.37 3.49
199 206 1.757118 TCAGCTAGTCATGGTGGTAGC 59.243 52.381 0.00 0.87 38.56 3.58
200 207 2.101582 GGTCAGCTAGTCATGGTGGTAG 59.898 54.545 0.00 0.00 34.15 3.18
240 247 1.800681 GTGCTTGGGTATTCGGCAC 59.199 57.895 0.00 0.00 44.53 5.01
254 293 1.421268 TCTCCAAGGAACATGTGTGCT 59.579 47.619 0.00 0.00 0.00 4.40
257 296 3.576078 TGTTCTCCAAGGAACATGTGT 57.424 42.857 0.00 0.00 46.91 3.72
286 326 5.579047 AGGATCCATTGACAAAATGTGGTA 58.421 37.500 15.82 0.00 0.00 3.25
289 329 6.276832 AGAAGGATCCATTGACAAAATGTG 57.723 37.500 15.82 0.00 0.00 3.21
290 330 7.616935 ACATAGAAGGATCCATTGACAAAATGT 59.383 33.333 15.82 7.82 0.00 2.71
291 331 8.004087 ACATAGAAGGATCCATTGACAAAATG 57.996 34.615 15.82 7.24 0.00 2.32
292 332 8.472413 CAACATAGAAGGATCCATTGACAAAAT 58.528 33.333 15.82 0.00 0.00 1.82
304 344 5.755861 GCAGTCTAACCAACATAGAAGGATC 59.244 44.000 0.00 0.00 31.52 3.36
305 345 5.189736 TGCAGTCTAACCAACATAGAAGGAT 59.810 40.000 0.00 0.00 31.52 3.24
308 348 6.801539 TTTGCAGTCTAACCAACATAGAAG 57.198 37.500 0.00 0.00 31.52 2.85
312 352 7.759489 ATTCTTTTGCAGTCTAACCAACATA 57.241 32.000 0.00 0.00 0.00 2.29
315 355 6.966021 TGTATTCTTTTGCAGTCTAACCAAC 58.034 36.000 0.00 0.00 0.00 3.77
321 361 8.364894 TGAAGTACTGTATTCTTTTGCAGTCTA 58.635 33.333 0.00 0.00 41.67 2.59
364 404 0.768622 TCCGAAAGAGGCCAGGAAAA 59.231 50.000 5.01 0.00 0.00 2.29
367 407 0.541863 GATTCCGAAAGAGGCCAGGA 59.458 55.000 5.01 0.26 0.00 3.86
372 412 2.197577 CTTCGAGATTCCGAAAGAGGC 58.802 52.381 9.98 0.00 46.19 4.70
375 415 2.823747 TGTCCTTCGAGATTCCGAAAGA 59.176 45.455 9.98 7.54 46.19 2.52
376 416 3.232213 TGTCCTTCGAGATTCCGAAAG 57.768 47.619 9.98 5.83 46.19 2.62
412 455 2.091541 CCTTATTTCGGCCTTGAGCAA 58.908 47.619 0.00 0.00 46.50 3.91
420 463 1.664873 GGACAGTCCTTATTTCGGCC 58.335 55.000 12.94 0.00 32.53 6.13
421 464 1.134907 TCGGACAGTCCTTATTTCGGC 60.135 52.381 17.95 0.00 33.30 5.54
431 474 2.971452 GTGGAGGTCGGACAGTCC 59.029 66.667 17.60 17.60 0.00 3.85
432 475 2.567049 CGTGGAGGTCGGACAGTC 59.433 66.667 10.76 5.87 0.00 3.51
467 513 5.489792 TGAGAAACTTCTTAGCAGATGGT 57.510 39.130 0.00 0.00 37.73 3.55
501 547 9.739276 ACTAAAATACATCCATTTCTCTGACAA 57.261 29.630 0.00 0.00 0.00 3.18
502 548 9.739276 AACTAAAATACATCCATTTCTCTGACA 57.261 29.630 0.00 0.00 0.00 3.58
534 580 8.681806 TCGCTGAAATGGATAAAAATGAATGTA 58.318 29.630 0.00 0.00 0.00 2.29
537 583 7.546358 TGTCGCTGAAATGGATAAAAATGAAT 58.454 30.769 0.00 0.00 0.00 2.57
538 584 6.918626 TGTCGCTGAAATGGATAAAAATGAA 58.081 32.000 0.00 0.00 0.00 2.57
539 585 6.507958 TGTCGCTGAAATGGATAAAAATGA 57.492 33.333 0.00 0.00 0.00 2.57
540 586 6.808212 ACTTGTCGCTGAAATGGATAAAAATG 59.192 34.615 0.00 0.00 0.00 2.32
543 589 5.957842 ACTTGTCGCTGAAATGGATAAAA 57.042 34.783 0.00 0.00 0.00 1.52
544 590 7.624360 ATTACTTGTCGCTGAAATGGATAAA 57.376 32.000 0.00 0.00 0.00 1.40
545 591 7.201696 GGAATTACTTGTCGCTGAAATGGATAA 60.202 37.037 0.00 0.00 0.00 1.75
546 592 6.260050 GGAATTACTTGTCGCTGAAATGGATA 59.740 38.462 0.00 0.00 0.00 2.59
547 593 5.066505 GGAATTACTTGTCGCTGAAATGGAT 59.933 40.000 0.00 0.00 0.00 3.41
549 595 4.662145 GGAATTACTTGTCGCTGAAATGG 58.338 43.478 0.00 0.00 0.00 3.16
550 596 4.334443 CGGAATTACTTGTCGCTGAAATG 58.666 43.478 0.00 0.00 0.00 2.32
551 597 3.374058 CCGGAATTACTTGTCGCTGAAAT 59.626 43.478 0.00 0.00 0.00 2.17
553 599 2.028839 TCCGGAATTACTTGTCGCTGAA 60.029 45.455 0.00 0.00 0.00 3.02
554 600 1.546923 TCCGGAATTACTTGTCGCTGA 59.453 47.619 0.00 0.00 0.00 4.26
555 601 1.659098 GTCCGGAATTACTTGTCGCTG 59.341 52.381 5.23 0.00 0.00 5.18
556 602 1.734707 CGTCCGGAATTACTTGTCGCT 60.735 52.381 5.23 0.00 0.00 4.93
557 603 0.643820 CGTCCGGAATTACTTGTCGC 59.356 55.000 5.23 0.00 0.00 5.19
558 604 1.135315 TCCGTCCGGAATTACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
559 605 2.537401 CTCCGTCCGGAATTACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
561 607 1.472728 CCCTCCGTCCGGAATTACTTG 60.473 57.143 5.23 0.00 44.66 3.16
562 608 0.828677 CCCTCCGTCCGGAATTACTT 59.171 55.000 5.23 0.00 44.66 2.24
563 609 1.047034 CCCCTCCGTCCGGAATTACT 61.047 60.000 5.23 0.00 44.66 2.24
564 610 1.444672 CCCCTCCGTCCGGAATTAC 59.555 63.158 5.23 0.00 44.66 1.89
566 612 2.534594 TACCCCCTCCGTCCGGAATT 62.535 60.000 5.23 0.00 44.66 2.17
568 614 2.534594 AATACCCCCTCCGTCCGGAA 62.535 60.000 5.23 0.00 44.66 4.30
570 616 1.629181 AAAATACCCCCTCCGTCCGG 61.629 60.000 0.00 0.00 0.00 5.14
571 617 0.463116 CAAAATACCCCCTCCGTCCG 60.463 60.000 0.00 0.00 0.00 4.79
572 618 0.622136 ACAAAATACCCCCTCCGTCC 59.378 55.000 0.00 0.00 0.00 4.79
573 619 2.502947 AGTACAAAATACCCCCTCCGTC 59.497 50.000 0.00 0.00 0.00 4.79
576 622 5.678583 GAACTAGTACAAAATACCCCCTCC 58.321 45.833 0.00 0.00 0.00 4.30
578 624 4.162888 CCGAACTAGTACAAAATACCCCCT 59.837 45.833 0.00 0.00 0.00 4.79
580 626 5.343307 TCCGAACTAGTACAAAATACCCC 57.657 43.478 0.00 0.00 0.00 4.95
582 628 4.807834 GCCTCCGAACTAGTACAAAATACC 59.192 45.833 0.00 0.00 0.00 2.73
583 629 5.413499 TGCCTCCGAACTAGTACAAAATAC 58.587 41.667 0.00 0.00 0.00 1.89
585 631 4.546829 TGCCTCCGAACTAGTACAAAAT 57.453 40.909 0.00 0.00 0.00 1.82
587 633 4.951715 TCTATGCCTCCGAACTAGTACAAA 59.048 41.667 0.00 0.00 0.00 2.83
588 634 4.529897 TCTATGCCTCCGAACTAGTACAA 58.470 43.478 0.00 0.00 0.00 2.41
589 635 4.160642 TCTATGCCTCCGAACTAGTACA 57.839 45.455 0.00 0.00 0.00 2.90
590 636 5.708877 AATCTATGCCTCCGAACTAGTAC 57.291 43.478 0.00 0.00 0.00 2.73
591 637 7.174599 GTCTAAATCTATGCCTCCGAACTAGTA 59.825 40.741 0.00 0.00 0.00 1.82
592 638 6.016108 GTCTAAATCTATGCCTCCGAACTAGT 60.016 42.308 0.00 0.00 0.00 2.57
593 639 6.016192 TGTCTAAATCTATGCCTCCGAACTAG 60.016 42.308 0.00 0.00 0.00 2.57
599 645 6.925211 TCTTATGTCTAAATCTATGCCTCCG 58.075 40.000 0.00 0.00 0.00 4.63
609 655 9.620259 AGTCTGGGATTTTCTTATGTCTAAATC 57.380 33.333 0.00 0.00 36.65 2.17
629 675 5.009610 TGGTTTTGCTAAAAGCTAAGTCTGG 59.990 40.000 17.92 0.00 46.18 3.86
631 677 6.901081 ATGGTTTTGCTAAAAGCTAAGTCT 57.099 33.333 17.92 0.00 46.18 3.24
665 767 5.411083 CATGTCATGCAATCTTCTCTCAG 57.589 43.478 0.00 0.00 0.00 3.35
805 957 9.326489 AGAACATGGTAGCCTTGAGAATATATA 57.674 33.333 7.86 0.00 33.58 0.86
875 1039 0.253894 TGCATGGTGGATGTGAGGAG 59.746 55.000 0.00 0.00 34.14 3.69
876 1040 0.697658 TTGCATGGTGGATGTGAGGA 59.302 50.000 0.00 0.00 34.14 3.71
877 1041 1.203052 GTTTGCATGGTGGATGTGAGG 59.797 52.381 0.00 0.00 34.14 3.86
904 1068 1.270305 CCTCGTCAGGCTGTTTCTTCA 60.270 52.381 15.27 0.00 30.98 3.02
931 1098 2.654877 GTTCCTCTTGCCCGACGA 59.345 61.111 0.00 0.00 0.00 4.20
1272 1448 5.000591 TGAAATCAGCACCGAATTGAGTAA 58.999 37.500 0.00 0.00 0.00 2.24
1274 1450 3.411446 TGAAATCAGCACCGAATTGAGT 58.589 40.909 0.00 0.00 0.00 3.41
1282 1458 3.190878 GGCCTGAAATCAGCACCG 58.809 61.111 4.87 0.00 42.47 4.94
1298 1474 1.890510 GGGCCAAGTATAACGCCGG 60.891 63.158 4.39 0.00 42.59 6.13
1303 1479 0.179092 AGCGACGGGCCAAGTATAAC 60.179 55.000 4.39 0.00 45.17 1.89
1566 1742 2.101575 GTGAGCCGCGTCGACATA 59.898 61.111 17.16 0.00 0.00 2.29
1647 1823 1.554836 TGAGGAGGTTGAGCTCAGAG 58.445 55.000 17.43 0.00 0.00 3.35
1650 1826 1.620819 GAGTTGAGGAGGTTGAGCTCA 59.379 52.381 13.74 13.74 0.00 4.26
1658 1834 0.612453 GAGGTCCGAGTTGAGGAGGT 60.612 60.000 0.00 0.00 38.65 3.85
1722 1898 0.184451 ATCCCACCATGATGAGCCAC 59.816 55.000 0.00 0.00 0.00 5.01
2134 2310 0.329261 CACCCAAGGAGCAGGATCAA 59.671 55.000 0.00 0.00 0.00 2.57
2302 2478 8.119845 CGAGATCGATCGATTCAGATAAGTTAT 58.880 37.037 29.89 4.89 45.56 1.89
2318 2494 1.793532 TCGTGACTAGCGAGATCGATC 59.206 52.381 17.91 17.91 43.02 3.69
2319 2495 1.867166 TCGTGACTAGCGAGATCGAT 58.133 50.000 6.39 0.00 43.02 3.59
2320 2496 1.793532 GATCGTGACTAGCGAGATCGA 59.206 52.381 6.39 7.87 41.83 3.59
2321 2497 1.136197 GGATCGTGACTAGCGAGATCG 60.136 57.143 0.00 0.00 41.83 3.69
2322 2498 1.136197 CGGATCGTGACTAGCGAGATC 60.136 57.143 0.00 8.64 41.83 2.75
2412 2590 0.243907 CACCGACGAGAACACCAGAT 59.756 55.000 0.00 0.00 0.00 2.90
2413 2591 0.820482 TCACCGACGAGAACACCAGA 60.820 55.000 0.00 0.00 0.00 3.86
2432 2610 2.202743 CGACACCGCCGTGATCAT 60.203 61.111 12.29 0.00 43.14 2.45
2640 2818 4.200283 CGACGAGCTGGAGGAGGC 62.200 72.222 1.44 0.00 0.00 4.70
3412 3608 3.630148 CGCATGCCGACGATCACC 61.630 66.667 13.15 0.00 40.02 4.02
3520 3716 2.804090 GGCGTGTCGAAGTCGGAC 60.804 66.667 0.00 0.00 40.29 4.79
3649 3845 3.199891 GCGGTGGTCATTACCCGC 61.200 66.667 6.14 6.14 46.16 6.13
3738 3935 5.906113 ACTAGACAGGTCAACATCTACAG 57.094 43.478 0.00 0.00 0.00 2.74
3795 3992 7.009568 AGCGATGAACTGAAAAATGTCTATC 57.990 36.000 0.00 0.00 0.00 2.08
3824 4021 7.903452 ATACTGTACACAACATATACGAACG 57.097 36.000 0.00 0.00 37.50 3.95
3857 4056 3.118956 ACAAAATTGTTTCCAACAGCGGA 60.119 39.130 0.00 0.00 43.27 5.54
3871 4070 9.922305 GTATAAGAGTAGCTAAGCACAAAATTG 57.078 33.333 0.00 0.00 0.00 2.32
3873 4072 9.892130 AAGTATAAGAGTAGCTAAGCACAAAAT 57.108 29.630 0.00 0.00 0.00 1.82
3904 4103 7.010183 CCGTTGTGATCACTATCGTATCTTTTT 59.990 37.037 25.55 0.00 34.60 1.94
3906 4105 5.977725 CCGTTGTGATCACTATCGTATCTTT 59.022 40.000 25.55 0.00 34.60 2.52
3909 4108 4.856664 ACCGTTGTGATCACTATCGTATC 58.143 43.478 25.55 5.47 34.60 2.24
3910 4109 4.913335 ACCGTTGTGATCACTATCGTAT 57.087 40.909 25.55 13.91 34.60 3.06
3911 4110 4.707030 AACCGTTGTGATCACTATCGTA 57.293 40.909 25.55 2.16 34.60 3.43
3912 4111 3.587797 AACCGTTGTGATCACTATCGT 57.412 42.857 25.55 14.95 34.60 3.73
3913 4112 3.001070 CGAAACCGTTGTGATCACTATCG 60.001 47.826 25.55 23.07 34.60 2.92
3914 4113 3.924686 ACGAAACCGTTGTGATCACTATC 59.075 43.478 25.55 14.46 36.84 2.08
3915 4114 3.678072 CACGAAACCGTTGTGATCACTAT 59.322 43.478 25.55 3.78 38.35 2.12
3916 4115 3.054166 CACGAAACCGTTGTGATCACTA 58.946 45.455 25.55 16.43 38.35 2.74
3919 4118 1.222300 CCACGAAACCGTTGTGATCA 58.778 50.000 0.00 0.00 38.35 2.92
3920 4119 1.223187 ACCACGAAACCGTTGTGATC 58.777 50.000 3.83 0.00 38.35 2.92
3923 4122 4.987419 CACCACGAAACCGTTGTG 57.013 55.556 7.57 7.57 43.70 3.33
3924 4123 1.134729 ACTACACCACGAAACCGTTGT 60.135 47.619 0.00 0.00 38.35 3.32
4131 4335 6.166982 GGATTAGGGGATTAACTCGATCTTG 58.833 44.000 0.00 0.00 0.00 3.02
4138 4342 5.382664 TGGTTGGATTAGGGGATTAACTC 57.617 43.478 0.00 0.00 0.00 3.01
4152 4356 3.074390 TCAGGAGTTCACATTGGTTGGAT 59.926 43.478 0.00 0.00 0.00 3.41
4155 4359 3.251729 CACTCAGGAGTTCACATTGGTTG 59.748 47.826 0.00 0.00 40.20 3.77
4156 4360 3.136443 TCACTCAGGAGTTCACATTGGTT 59.864 43.478 0.00 0.00 40.20 3.67
4157 4361 2.705658 TCACTCAGGAGTTCACATTGGT 59.294 45.455 0.00 0.00 40.20 3.67
4158 4362 3.407424 TCACTCAGGAGTTCACATTGG 57.593 47.619 0.00 0.00 40.20 3.16
4162 4366 4.635223 CTGAAATCACTCAGGAGTTCACA 58.365 43.478 0.00 0.00 44.17 3.58
4232 5614 4.745351 TGACCTATCTCATGGCAGTATCT 58.255 43.478 0.00 0.00 0.00 1.98
4269 5657 7.945033 TTTGAAAACTCAATTTGTATCCAGC 57.055 32.000 0.00 0.00 0.00 4.85
4353 5742 6.108687 TGATAAACTTACTGCAGTGATCCAG 58.891 40.000 29.57 17.51 35.26 3.86
4363 5752 9.760660 CATGAAAGTTACTGATAAACTTACTGC 57.239 33.333 1.96 0.00 44.35 4.40
4430 5819 2.028385 AGACATCACAGTTTCCGGTACC 60.028 50.000 0.16 0.16 0.00 3.34
4436 5825 3.997021 CACTACCAGACATCACAGTTTCC 59.003 47.826 0.00 0.00 0.00 3.13
4437 5826 3.997021 CCACTACCAGACATCACAGTTTC 59.003 47.826 0.00 0.00 0.00 2.78
4438 5827 3.646162 TCCACTACCAGACATCACAGTTT 59.354 43.478 0.00 0.00 0.00 2.66
4492 5917 3.774734 GGTGTTCCCTTTGAAACCCTAT 58.225 45.455 0.00 0.00 33.94 2.57
4562 5987 1.271001 TGTCATCCTCAGTGCCTTGTG 60.271 52.381 0.00 0.00 0.00 3.33
4624 6049 7.275920 CCTAACTGTAGGCTTATGAATGAAGT 58.724 38.462 0.00 0.00 40.69 3.01
4625 6050 6.708054 CCCTAACTGTAGGCTTATGAATGAAG 59.292 42.308 0.00 0.00 45.16 3.02
4665 6090 0.527113 TTTGCACCGCAGATCATTGG 59.473 50.000 0.00 0.00 40.61 3.16


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

AutoCloner maintained by Alex Coulton.