Multiple sequence alignment - TraesCS2B01G564900

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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 TraesCS2B01G564900 chr2B 100.000 2927 0 0 1 2927 756572384 756569458 0.000000e+00 5406
1 TraesCS2B01G564900 chr2B 86.872 716 45 23 959 1654 756553572 756552886 0.000000e+00 756
2 TraesCS2B01G564900 chr2B 79.610 461 65 21 1427 1869 718396605 718397054 1.320000e-78 303
3 TraesCS2B01G564900 chr2B 78.372 393 46 28 905 1278 718396111 718396483 4.910000e-53 219
4 TraesCS2B01G564900 chr6A 92.879 969 63 4 1961 2927 419774086 419773122 0.000000e+00 1402
5 TraesCS2B01G564900 chr6A 86.528 720 91 3 1 719 133774329 133773615 0.000000e+00 787
6 TraesCS2B01G564900 chr3D 92.798 972 65 4 1958 2927 20702649 20703617 0.000000e+00 1402
7 TraesCS2B01G564900 chr3D 93.462 933 58 3 1959 2890 445110568 445109638 0.000000e+00 1382
8 TraesCS2B01G564900 chr3D 75.167 749 151 18 1 719 508094330 508095073 1.310000e-83 320
9 TraesCS2B01G564900 chr1D 92.776 969 66 3 1958 2925 270634336 270635301 0.000000e+00 1399
10 TraesCS2B01G564900 chr1D 92.324 964 72 2 1965 2927 31052304 31053266 0.000000e+00 1369
11 TraesCS2B01G564900 chr1D 75.477 681 148 12 56 719 443790498 443791176 6.090000e-82 315
12 TraesCS2B01G564900 chr1D 75.588 680 133 21 56 719 449217899 449218561 3.660000e-79 305
13 TraesCS2B01G564900 chr1D 74.779 678 149 15 56 719 427867995 427868664 4.770000e-73 285
14 TraesCS2B01G564900 chr7A 92.181 972 70 4 1958 2927 547109220 547108253 0.000000e+00 1369
15 TraesCS2B01G564900 chr7A 91.864 971 77 2 1958 2927 3807074 3806105 0.000000e+00 1354
16 TraesCS2B01G564900 chr7A 91.744 969 72 8 1960 2927 646085295 646084334 0.000000e+00 1339
17 TraesCS2B01G564900 chr5B 91.461 972 80 3 1957 2927 308535100 308534131 0.000000e+00 1332
18 TraesCS2B01G564900 chr5B 80.743 727 118 19 1 715 43846953 43846237 5.510000e-152 547
19 TraesCS2B01G564900 chr2D 91.387 894 32 19 784 1651 619058807 619057933 0.000000e+00 1182
20 TraesCS2B01G564900 chr2D 83.352 871 68 35 959 1815 619046860 619046053 0.000000e+00 734
21 TraesCS2B01G564900 chr2D 77.137 1041 127 65 905 1869 592410708 592411713 4.350000e-138 501
22 TraesCS2B01G564900 chr2D 86.939 245 24 4 1280 1524 619052958 619052722 4.810000e-68 268
23 TraesCS2B01G564900 chr2D 88.718 195 7 6 1695 1874 619057929 619057735 1.060000e-54 224
24 TraesCS2B01G564900 chr2D 94.505 91 2 1 1873 1960 619057660 619057570 1.410000e-28 137
25 TraesCS2B01G564900 chr7B 91.099 719 64 0 1 719 641483663 641482945 0.000000e+00 974
26 TraesCS2B01G564900 chr7B 76.974 304 65 5 1 300 15234864 15234562 5.020000e-38 169
27 TraesCS2B01G564900 chr1A 90.960 719 65 0 1 719 86620498 86619780 0.000000e+00 968
28 TraesCS2B01G564900 chr1A 74.757 309 61 17 2 300 578554440 578554741 3.960000e-24 122
29 TraesCS2B01G564900 chr2A 81.818 869 59 38 959 1815 749904587 749903806 3.180000e-179 638
30 TraesCS2B01G564900 chr2A 87.283 519 23 10 1366 1874 749915112 749914627 1.190000e-153 553
31 TraesCS2B01G564900 chr2A 76.522 1035 136 63 905 1869 726985830 726986827 1.590000e-127 466
32 TraesCS2B01G564900 chr2A 84.119 403 35 11 1134 1524 749910496 749910111 2.140000e-96 363
33 TraesCS2B01G564900 chr2A 95.402 87 3 1 1874 1960 749914572 749914487 1.410000e-28 137
34 TraesCS2B01G564900 chr5A 80.844 308 57 2 3 309 4691411 4691105 1.050000e-59 241
35 TraesCS2B01G564900 chr5D 78.472 288 57 5 17 300 559217692 559217406 1.790000e-42 183


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 TraesCS2B01G564900 chr2B 756569458 756572384 2926 True 5406.000000 5406 100.000000 1 2927 1 chr2B.!!$R2 2926
1 TraesCS2B01G564900 chr2B 756552886 756553572 686 True 756.000000 756 86.872000 959 1654 1 chr2B.!!$R1 695
2 TraesCS2B01G564900 chr2B 718396111 718397054 943 False 261.000000 303 78.991000 905 1869 2 chr2B.!!$F1 964
3 TraesCS2B01G564900 chr6A 419773122 419774086 964 True 1402.000000 1402 92.879000 1961 2927 1 chr6A.!!$R2 966
4 TraesCS2B01G564900 chr6A 133773615 133774329 714 True 787.000000 787 86.528000 1 719 1 chr6A.!!$R1 718
5 TraesCS2B01G564900 chr3D 20702649 20703617 968 False 1402.000000 1402 92.798000 1958 2927 1 chr3D.!!$F1 969
6 TraesCS2B01G564900 chr3D 445109638 445110568 930 True 1382.000000 1382 93.462000 1959 2890 1 chr3D.!!$R1 931
7 TraesCS2B01G564900 chr3D 508094330 508095073 743 False 320.000000 320 75.167000 1 719 1 chr3D.!!$F2 718
8 TraesCS2B01G564900 chr1D 270634336 270635301 965 False 1399.000000 1399 92.776000 1958 2925 1 chr1D.!!$F2 967
9 TraesCS2B01G564900 chr1D 31052304 31053266 962 False 1369.000000 1369 92.324000 1965 2927 1 chr1D.!!$F1 962
10 TraesCS2B01G564900 chr1D 443790498 443791176 678 False 315.000000 315 75.477000 56 719 1 chr1D.!!$F4 663
11 TraesCS2B01G564900 chr1D 449217899 449218561 662 False 305.000000 305 75.588000 56 719 1 chr1D.!!$F5 663
12 TraesCS2B01G564900 chr1D 427867995 427868664 669 False 285.000000 285 74.779000 56 719 1 chr1D.!!$F3 663
13 TraesCS2B01G564900 chr7A 547108253 547109220 967 True 1369.000000 1369 92.181000 1958 2927 1 chr7A.!!$R2 969
14 TraesCS2B01G564900 chr7A 3806105 3807074 969 True 1354.000000 1354 91.864000 1958 2927 1 chr7A.!!$R1 969
15 TraesCS2B01G564900 chr7A 646084334 646085295 961 True 1339.000000 1339 91.744000 1960 2927 1 chr7A.!!$R3 967
16 TraesCS2B01G564900 chr5B 308534131 308535100 969 True 1332.000000 1332 91.461000 1957 2927 1 chr5B.!!$R2 970
17 TraesCS2B01G564900 chr5B 43846237 43846953 716 True 547.000000 547 80.743000 1 715 1 chr5B.!!$R1 714
18 TraesCS2B01G564900 chr2D 619046053 619046860 807 True 734.000000 734 83.352000 959 1815 1 chr2D.!!$R1 856
19 TraesCS2B01G564900 chr2D 619057570 619058807 1237 True 514.333333 1182 91.536667 784 1960 3 chr2D.!!$R3 1176
20 TraesCS2B01G564900 chr2D 592410708 592411713 1005 False 501.000000 501 77.137000 905 1869 1 chr2D.!!$F1 964
21 TraesCS2B01G564900 chr7B 641482945 641483663 718 True 974.000000 974 91.099000 1 719 1 chr7B.!!$R2 718
22 TraesCS2B01G564900 chr1A 86619780 86620498 718 True 968.000000 968 90.960000 1 719 1 chr1A.!!$R1 718
23 TraesCS2B01G564900 chr2A 749903806 749904587 781 True 638.000000 638 81.818000 959 1815 1 chr2A.!!$R1 856
24 TraesCS2B01G564900 chr2A 726985830 726986827 997 False 466.000000 466 76.522000 905 1869 1 chr2A.!!$F1 964
25 TraesCS2B01G564900 chr2A 749910111 749915112 5001 True 351.000000 553 88.934667 1134 1960 3 chr2A.!!$R2 826

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
601 616 0.095417 GAATCTTCGCGAAGTGGCAC 59.905 55.0 39.17 25.2 39.38 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1937 5717 0.59868 CTTCCATCCATCGTCGAGCC 60.599 60.0 0.0 0.0 0.0 4.7 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
49 50 1.531739 GGGTTTGATTTGGCAGCGGA 61.532 55.000 0.00 0.00 0.00 5.54
289 301 0.832135 ACAAGTGCCCGAAGAGAGGA 60.832 55.000 0.00 0.00 0.00 3.71
333 348 2.042843 AGCGGTAGGTGAGGGAGG 60.043 66.667 0.00 0.00 0.00 4.30
334 349 2.043248 GCGGTAGGTGAGGGAGGA 60.043 66.667 0.00 0.00 0.00 3.71
335 350 2.128507 GCGGTAGGTGAGGGAGGAG 61.129 68.421 0.00 0.00 0.00 3.69
336 351 1.613610 CGGTAGGTGAGGGAGGAGA 59.386 63.158 0.00 0.00 0.00 3.71
338 353 1.424302 CGGTAGGTGAGGGAGGAGATA 59.576 57.143 0.00 0.00 0.00 1.98
342 357 1.869648 AGGTGAGGGAGGAGATATGGT 59.130 52.381 0.00 0.00 0.00 3.55
343 358 2.251338 AGGTGAGGGAGGAGATATGGTT 59.749 50.000 0.00 0.00 0.00 3.67
344 359 2.635427 GGTGAGGGAGGAGATATGGTTC 59.365 54.545 0.00 0.00 0.00 3.62
345 360 2.635427 GTGAGGGAGGAGATATGGTTCC 59.365 54.545 0.00 0.00 0.00 3.62
346 361 2.261729 GAGGGAGGAGATATGGTTCCC 58.738 57.143 0.00 0.00 46.41 3.97
347 362 1.363246 GGGAGGAGATATGGTTCCCC 58.637 60.000 0.00 0.00 41.36 4.81
364 379 4.504916 CCCTCCTCGCACGCTCTG 62.505 72.222 0.00 0.00 0.00 3.35
365 380 4.504916 CCTCCTCGCACGCTCTGG 62.505 72.222 0.00 0.00 0.00 3.86
366 381 3.443925 CTCCTCGCACGCTCTGGA 61.444 66.667 0.00 0.00 0.00 3.86
367 382 2.989253 TCCTCGCACGCTCTGGAA 60.989 61.111 0.00 0.00 0.00 3.53
368 383 2.048222 CCTCGCACGCTCTGGAAA 60.048 61.111 0.00 0.00 0.00 3.13
372 387 0.944311 TCGCACGCTCTGGAAAACTC 60.944 55.000 0.00 0.00 0.00 3.01
375 390 0.868406 CACGCTCTGGAAAACTCCAC 59.132 55.000 0.00 0.00 35.63 4.02
376 391 0.600255 ACGCTCTGGAAAACTCCACG 60.600 55.000 2.24 2.24 35.63 4.94
377 392 1.869690 GCTCTGGAAAACTCCACGC 59.130 57.895 0.00 0.00 35.63 5.34
378 393 1.578206 GCTCTGGAAAACTCCACGCC 61.578 60.000 0.00 0.00 35.63 5.68
380 395 1.073199 CTGGAAAACTCCACGCCCT 59.927 57.895 0.00 0.00 35.63 5.19
383 398 1.971695 GAAAACTCCACGCCCTGGG 60.972 63.158 8.86 8.86 41.06 4.45
384 399 4.660938 AAACTCCACGCCCTGGGC 62.661 66.667 28.17 28.17 46.75 5.36
413 428 3.314331 CCTCCTGGCAGTCGGTGT 61.314 66.667 14.43 0.00 0.00 4.16
414 429 2.743718 CTCCTGGCAGTCGGTGTT 59.256 61.111 14.43 0.00 0.00 3.32
415 430 1.374758 CTCCTGGCAGTCGGTGTTC 60.375 63.158 14.43 0.00 0.00 3.18
417 432 1.374758 CCTGGCAGTCGGTGTTCTC 60.375 63.158 14.43 0.00 0.00 2.87
418 433 1.734477 CTGGCAGTCGGTGTTCTCG 60.734 63.158 6.28 0.00 0.00 4.04
419 434 2.338984 GGCAGTCGGTGTTCTCGT 59.661 61.111 0.00 0.00 0.00 4.18
422 437 2.022129 CAGTCGGTGTTCTCGTGCC 61.022 63.158 0.00 0.00 0.00 5.01
423 438 3.103911 GTCGGTGTTCTCGTGCCG 61.104 66.667 0.00 0.00 44.95 5.69
427 442 4.681978 GTGTTCTCGTGCCGCCCT 62.682 66.667 0.00 0.00 0.00 5.19
428 443 3.936203 TGTTCTCGTGCCGCCCTT 61.936 61.111 0.00 0.00 0.00 3.95
430 445 4.388499 TTCTCGTGCCGCCCTTCC 62.388 66.667 0.00 0.00 0.00 3.46
462 477 4.717313 GTGGGTGGGGCTCGAACC 62.717 72.222 0.00 0.00 0.00 3.62
463 478 4.974438 TGGGTGGGGCTCGAACCT 62.974 66.667 3.60 0.00 34.24 3.50
473 488 3.934391 CTCGAACCTGCCCCGTCAC 62.934 68.421 0.00 0.00 0.00 3.67
480 495 4.308458 TGCCCCGTCACGGTTCAG 62.308 66.667 16.87 0.00 46.80 3.02
482 497 4.308458 CCCCGTCACGGTTCAGCA 62.308 66.667 16.87 0.00 46.80 4.41
484 499 3.403057 CCGTCACGGTTCAGCACG 61.403 66.667 8.54 0.00 42.73 5.34
485 500 4.059459 CGTCACGGTTCAGCACGC 62.059 66.667 0.00 0.00 0.00 5.34
486 501 2.661866 GTCACGGTTCAGCACGCT 60.662 61.111 0.00 0.00 0.00 5.07
487 502 2.355837 TCACGGTTCAGCACGCTC 60.356 61.111 0.00 0.00 0.00 5.03
488 503 3.767230 CACGGTTCAGCACGCTCG 61.767 66.667 0.00 0.00 0.00 5.03
492 507 3.782244 GTTCAGCACGCTCGCCTG 61.782 66.667 0.00 4.77 0.00 4.85
494 509 3.300934 TTCAGCACGCTCGCCTGAT 62.301 57.895 11.93 0.00 0.00 2.90
495 510 3.561213 CAGCACGCTCGCCTGATG 61.561 66.667 5.07 0.00 0.00 3.07
498 513 3.857854 CACGCTCGCCTGATGCAC 61.858 66.667 0.00 0.00 41.33 4.57
502 517 2.494445 CTCGCCTGATGCACCGTA 59.506 61.111 0.00 0.00 41.33 4.02
503 518 1.878522 CTCGCCTGATGCACCGTAC 60.879 63.158 0.00 0.00 41.33 3.67
505 520 1.878522 CGCCTGATGCACCGTACTC 60.879 63.158 0.00 0.00 41.33 2.59
506 521 1.521681 GCCTGATGCACCGTACTCC 60.522 63.158 0.00 0.00 40.77 3.85
508 523 1.144057 CTGATGCACCGTACTCCCC 59.856 63.158 0.00 0.00 0.00 4.81
509 524 2.311688 CTGATGCACCGTACTCCCCC 62.312 65.000 0.00 0.00 0.00 5.40
589 604 2.752121 GGTAACCGATCCCGAATCTTC 58.248 52.381 0.00 0.00 38.22 2.87
599 614 1.345176 CGAATCTTCGCGAAGTGGC 59.655 57.895 39.17 28.47 44.26 5.01
600 615 1.351430 CGAATCTTCGCGAAGTGGCA 61.351 55.000 39.17 25.56 44.26 4.92
601 616 0.095417 GAATCTTCGCGAAGTGGCAC 59.905 55.000 39.17 25.20 39.38 5.01
602 617 1.626654 AATCTTCGCGAAGTGGCACG 61.627 55.000 39.17 19.93 39.38 5.34
603 618 3.777925 CTTCGCGAAGTGGCACGG 61.778 66.667 34.97 12.87 39.32 4.94
607 622 4.683334 GCGAAGTGGCACGGCAAC 62.683 66.667 20.89 8.76 31.62 4.17
619 634 4.571250 GGCAACGAGATGACGTCA 57.429 55.556 22.48 22.48 45.83 4.35
620 635 2.070861 GGCAACGAGATGACGTCAC 58.929 57.895 22.71 14.69 45.83 3.67
621 636 1.352156 GGCAACGAGATGACGTCACC 61.352 60.000 22.71 12.28 45.83 4.02
622 637 0.666274 GCAACGAGATGACGTCACCA 60.666 55.000 22.71 0.00 45.83 4.17
623 638 1.778334 CAACGAGATGACGTCACCAA 58.222 50.000 22.71 0.00 45.83 3.67
624 639 1.455786 CAACGAGATGACGTCACCAAC 59.544 52.381 22.71 12.53 45.83 3.77
634 649 0.570734 CGTCACCAACGTCGATATGC 59.429 55.000 0.00 0.00 46.42 3.14
635 650 1.797713 CGTCACCAACGTCGATATGCT 60.798 52.381 0.00 0.00 46.42 3.79
636 651 1.852895 GTCACCAACGTCGATATGCTC 59.147 52.381 0.00 0.00 0.00 4.26
637 652 1.202371 TCACCAACGTCGATATGCTCC 60.202 52.381 0.00 0.00 0.00 4.70
639 654 0.600255 CCAACGTCGATATGCTCCCC 60.600 60.000 0.00 0.00 0.00 4.81
640 655 0.600255 CAACGTCGATATGCTCCCCC 60.600 60.000 0.00 0.00 0.00 5.40
641 656 2.083835 AACGTCGATATGCTCCCCCG 62.084 60.000 0.00 0.00 0.00 5.73
642 657 2.048127 GTCGATATGCTCCCCCGC 60.048 66.667 0.00 0.00 0.00 6.13
644 659 2.357517 CGATATGCTCCCCCGCAC 60.358 66.667 0.00 0.00 43.61 5.34
645 660 2.357517 GATATGCTCCCCCGCACG 60.358 66.667 0.00 0.00 43.61 5.34
646 661 4.626081 ATATGCTCCCCCGCACGC 62.626 66.667 0.00 0.00 43.61 5.34
657 672 3.918220 CGCACGCAGGAATCGAGC 61.918 66.667 0.00 0.00 39.49 5.03
658 673 2.815211 GCACGCAGGAATCGAGCA 60.815 61.111 0.00 0.00 41.78 4.26
660 675 1.930100 CACGCAGGAATCGAGCATC 59.070 57.895 0.00 0.00 0.00 3.91
671 686 4.327885 GAGCATCGACCGTGATCC 57.672 61.111 0.00 0.00 0.00 3.36
672 687 1.300233 GAGCATCGACCGTGATCCC 60.300 63.158 0.00 0.00 0.00 3.85
673 688 2.658593 GCATCGACCGTGATCCCG 60.659 66.667 0.00 0.00 0.00 5.14
675 690 4.266070 ATCGACCGTGATCCCGCG 62.266 66.667 0.00 0.00 45.12 6.46
691 706 4.873129 CGCCCATCGGTCAGGACG 62.873 72.222 0.00 0.00 33.78 4.79
692 707 3.458163 GCCCATCGGTCAGGACGA 61.458 66.667 0.00 0.00 45.19 4.20
697 712 2.827190 TCGGTCAGGACGATCCGG 60.827 66.667 0.00 0.00 42.75 5.14
698 713 2.827190 CGGTCAGGACGATCCGGA 60.827 66.667 6.61 6.61 42.75 5.14
704 719 2.123812 GGACGATCCGGAGAGGGT 60.124 66.667 11.34 4.61 41.52 4.34
705 720 2.194889 GGACGATCCGGAGAGGGTC 61.195 68.421 11.34 13.66 46.86 4.46
708 723 3.752704 GATCCGGAGAGGGTCTCG 58.247 66.667 11.34 0.00 46.80 4.04
709 724 2.519780 ATCCGGAGAGGGTCTCGC 60.520 66.667 11.34 0.00 44.28 5.03
713 728 2.124403 GGAGAGGGTCTCGCCGTA 60.124 66.667 2.18 0.00 44.28 4.02
714 729 2.188161 GGAGAGGGTCTCGCCGTAG 61.188 68.421 2.18 0.00 44.28 3.51
715 730 2.829458 AGAGGGTCTCGCCGTAGC 60.829 66.667 0.00 0.00 38.44 3.58
716 731 3.138798 GAGGGTCTCGCCGTAGCA 61.139 66.667 0.00 0.00 39.83 3.49
717 732 3.412879 GAGGGTCTCGCCGTAGCAC 62.413 68.421 0.00 0.00 39.83 4.40
718 733 4.509737 GGGTCTCGCCGTAGCACC 62.510 72.222 0.00 0.00 39.83 5.01
719 734 4.509737 GGTCTCGCCGTAGCACCC 62.510 72.222 0.00 0.00 39.83 4.61
720 735 4.509737 GTCTCGCCGTAGCACCCC 62.510 72.222 0.00 0.00 39.83 4.95
721 736 4.753662 TCTCGCCGTAGCACCCCT 62.754 66.667 0.00 0.00 39.83 4.79
722 737 2.831742 CTCGCCGTAGCACCCCTA 60.832 66.667 0.00 0.00 39.83 3.53
725 740 2.420568 CGCCGTAGCACCCCTAAGA 61.421 63.158 0.00 0.00 39.83 2.10
726 741 1.442148 GCCGTAGCACCCCTAAGAG 59.558 63.158 0.00 0.00 39.53 2.85
727 742 1.328430 GCCGTAGCACCCCTAAGAGT 61.328 60.000 0.00 0.00 39.53 3.24
731 746 2.176889 GTAGCACCCCTAAGAGTCACA 58.823 52.381 0.00 0.00 0.00 3.58
732 747 1.270907 AGCACCCCTAAGAGTCACAG 58.729 55.000 0.00 0.00 0.00 3.66
733 748 0.391793 GCACCCCTAAGAGTCACAGC 60.392 60.000 0.00 0.00 0.00 4.40
734 749 1.270907 CACCCCTAAGAGTCACAGCT 58.729 55.000 0.00 0.00 0.00 4.24
735 750 1.066573 CACCCCTAAGAGTCACAGCTG 60.067 57.143 13.48 13.48 0.00 4.24
736 751 0.539051 CCCCTAAGAGTCACAGCTGG 59.461 60.000 19.93 7.28 0.00 4.85
737 752 0.539051 CCCTAAGAGTCACAGCTGGG 59.461 60.000 19.93 15.69 0.00 4.45
739 754 0.459237 CTAAGAGTCACAGCTGGGCG 60.459 60.000 19.93 6.18 0.00 6.13
742 757 4.996434 AGTCACAGCTGGGCGTGC 62.996 66.667 19.93 5.14 34.81 5.34
743 758 4.996434 GTCACAGCTGGGCGTGCT 62.996 66.667 19.93 0.00 42.06 4.40
760 775 0.321671 GCTGGGTAGCTCACTGTTGA 59.678 55.000 0.00 0.00 46.57 3.18
776 791 4.866508 TGTTGAGGAACAGTGTAGTAGG 57.133 45.455 0.00 0.00 37.15 3.18
778 793 4.523173 TGTTGAGGAACAGTGTAGTAGGAG 59.477 45.833 0.00 0.00 37.15 3.69
779 794 4.383931 TGAGGAACAGTGTAGTAGGAGT 57.616 45.455 0.00 0.00 0.00 3.85
780 795 4.079970 TGAGGAACAGTGTAGTAGGAGTG 58.920 47.826 0.00 0.00 0.00 3.51
781 796 2.826725 AGGAACAGTGTAGTAGGAGTGC 59.173 50.000 0.00 0.00 0.00 4.40
782 797 2.094130 GGAACAGTGTAGTAGGAGTGCC 60.094 54.545 0.00 0.00 0.00 5.01
823 844 3.917760 CCAGGCCCGACTCCGATC 61.918 72.222 0.00 0.00 38.22 3.69
850 871 5.349817 CCTAGCTGAAATCACACTACTGTTG 59.650 44.000 0.00 0.00 0.00 3.33
855 876 6.389830 TGAAATCACACTACTGTTGCAATT 57.610 33.333 0.59 0.00 0.00 2.32
856 877 7.503521 TGAAATCACACTACTGTTGCAATTA 57.496 32.000 0.59 0.00 0.00 1.40
858 879 4.983215 TCACACTACTGTTGCAATTACG 57.017 40.909 0.59 0.00 0.00 3.18
864 885 6.091713 ACACTACTGTTGCAATTACGTATTCC 59.908 38.462 0.59 0.00 0.00 3.01
881 902 6.596106 ACGTATTCCCTTTTTGTTTTGCTTTT 59.404 30.769 0.00 0.00 0.00 2.27
889 910 5.619625 TTTTGTTTTGCTTTTGGACAAGG 57.380 34.783 0.00 0.00 32.50 3.61
894 915 5.942826 TGTTTTGCTTTTGGACAAGGAAATT 59.057 32.000 1.61 0.00 41.87 1.82
922 943 4.161102 AGAGAGTAAAGTTGCAGGGTACT 58.839 43.478 0.00 0.00 0.00 2.73
923 944 5.331069 AGAGAGTAAAGTTGCAGGGTACTA 58.669 41.667 0.00 0.00 0.00 1.82
973 1007 1.202382 AGACGGCGTGGCTATAAAGAC 60.202 52.381 21.19 0.00 0.00 3.01
974 1008 0.526954 ACGGCGTGGCTATAAAGACG 60.527 55.000 13.76 0.00 30.84 4.18
999 1034 5.732633 AGCAGCAACATCATCTATCTATCC 58.267 41.667 0.00 0.00 0.00 2.59
1105 1152 5.044030 TCAAGGAAGATCTACTGTACTCCCT 60.044 44.000 0.00 0.00 0.00 4.20
1133 1180 1.447314 GCCGAGGTTCGTTGGGTAG 60.447 63.158 0.00 0.00 38.40 3.18
1134 1181 1.217244 CCGAGGTTCGTTGGGTAGG 59.783 63.158 0.00 0.00 38.40 3.18
1164 4662 0.108138 CGATGGAGGAGGTGTGGAAC 60.108 60.000 0.00 0.00 37.35 3.62
1536 5179 1.607467 GAAGCAGGCCCACACCAAT 60.607 57.895 0.00 0.00 0.00 3.16
1663 5319 7.817962 TCTCTCTTTGCCATTTAGTTACTGTAC 59.182 37.037 0.00 0.00 0.00 2.90
1664 5320 6.877322 TCTCTTTGCCATTTAGTTACTGTACC 59.123 38.462 0.00 0.00 0.00 3.34
1665 5321 6.535540 TCTTTGCCATTTAGTTACTGTACCA 58.464 36.000 0.00 0.00 0.00 3.25
1666 5322 6.653320 TCTTTGCCATTTAGTTACTGTACCAG 59.347 38.462 0.00 0.00 37.52 4.00
1668 5324 5.871834 TGCCATTTAGTTACTGTACCAGTT 58.128 37.500 1.74 0.00 42.59 3.16
1670 5326 6.428771 TGCCATTTAGTTACTGTACCAGTTTC 59.571 38.462 1.74 0.00 42.59 2.78
1676 5335 9.492973 TTTAGTTACTGTACCAGTTTCATTACC 57.507 33.333 1.74 0.00 42.59 2.85
1684 5343 2.609459 CCAGTTTCATTACCTGCTAGCG 59.391 50.000 10.77 4.90 0.00 4.26
1685 5344 2.030946 CAGTTTCATTACCTGCTAGCGC 59.969 50.000 10.77 0.00 0.00 5.92
1701 5360 5.122512 CTAGCGCTACCTAGCTGAAAATA 57.877 43.478 14.45 0.00 46.85 1.40
1705 5364 4.051922 CGCTACCTAGCTGAAAATACTGG 58.948 47.826 0.00 0.00 46.85 4.00
1869 5570 1.437573 CGGCCATCGACTCTAGCAA 59.562 57.895 2.24 0.00 42.43 3.91
1908 5688 5.372547 TGTATGTAATCTAGCAGTAGCCG 57.627 43.478 0.00 0.00 43.56 5.52
1937 5717 4.994220 TGCAAAATTAAGCAAGCATGTG 57.006 36.364 2.54 0.00 37.90 3.21
2022 5803 3.785887 AGCCAAACCATACAGGAATAGGA 59.214 43.478 0.00 0.00 41.22 2.94
2065 5846 1.001815 CACGCCCAAAAGAAACGACAT 60.002 47.619 0.00 0.00 0.00 3.06
2199 5980 1.407437 GGCACCTATCAACACCTCCAG 60.407 57.143 0.00 0.00 0.00 3.86
2266 6047 2.427245 CCCGACGAGGCAAGAGGAT 61.427 63.158 0.00 0.00 39.21 3.24
2416 6197 4.579384 CCAACCACCACCCTGCGT 62.579 66.667 0.00 0.00 0.00 5.24
2435 6216 3.706373 AACGCGGTCATGAGGCCT 61.706 61.111 3.86 3.86 0.00 5.19
2473 6254 1.079819 CACCGCGAAGTGAGGACAT 60.080 57.895 8.23 0.00 43.07 3.06
2476 6257 1.154016 CGCGAAGTGAGGACATCGT 60.154 57.895 0.00 0.00 43.55 3.73
2579 6360 0.811616 GTCCAGACGCAATAGCAGGG 60.812 60.000 0.00 0.00 42.27 4.45
2640 6421 1.622442 TGGGCCCATAAAGCTCCCT 60.622 57.895 24.45 0.00 37.83 4.20
2721 6502 4.961511 TCACCGCGCCACAGACAC 62.962 66.667 0.00 0.00 0.00 3.67
2726 6507 4.357947 GCGCCACAGACACCGAGA 62.358 66.667 0.00 0.00 0.00 4.04
2760 6542 2.123425 CCCGCTAGGACCCAGCTA 60.123 66.667 10.33 0.00 41.02 3.32
2821 6603 4.562425 CACCCAGCACCACCACGT 62.562 66.667 0.00 0.00 0.00 4.49
2823 6605 4.248842 CCCAGCACCACCACGTCA 62.249 66.667 0.00 0.00 0.00 4.35
2911 6693 4.680237 CCAAGCCGAGCGACACCA 62.680 66.667 0.00 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
289 301 4.406173 CGAGACGCACACCTCGCT 62.406 66.667 0.00 0.00 44.35 4.93
347 362 4.504916 CAGAGCGTGCGAGGAGGG 62.505 72.222 0.00 0.00 0.00 4.30
349 364 2.492449 TTTCCAGAGCGTGCGAGGAG 62.492 60.000 0.00 0.00 0.00 3.69
350 365 2.094757 TTTTCCAGAGCGTGCGAGGA 62.095 55.000 0.00 0.00 0.00 3.71
351 366 1.667830 TTTTCCAGAGCGTGCGAGG 60.668 57.895 0.00 0.00 0.00 4.63
352 367 0.946221 AGTTTTCCAGAGCGTGCGAG 60.946 55.000 0.00 0.00 0.00 5.03
353 368 0.944311 GAGTTTTCCAGAGCGTGCGA 60.944 55.000 0.00 0.00 0.00 5.10
354 369 1.493311 GAGTTTTCCAGAGCGTGCG 59.507 57.895 0.00 0.00 0.00 5.34
364 379 3.668386 CAGGGCGTGGAGTTTTCC 58.332 61.111 0.00 0.00 44.31 3.13
395 410 4.087892 CACCGACTGCCAGGAGGG 62.088 72.222 11.53 4.84 40.85 4.30
398 413 1.816863 GAGAACACCGACTGCCAGGA 61.817 60.000 0.00 0.00 0.00 3.86
399 414 1.374758 GAGAACACCGACTGCCAGG 60.375 63.158 0.00 0.00 0.00 4.45
401 416 2.338620 CGAGAACACCGACTGCCA 59.661 61.111 0.00 0.00 0.00 4.92
402 417 2.022129 CACGAGAACACCGACTGCC 61.022 63.158 0.00 0.00 0.00 4.85
444 459 4.717313 GTTCGAGCCCCACCCACC 62.717 72.222 0.00 0.00 0.00 4.61
446 461 4.974438 AGGTTCGAGCCCCACCCA 62.974 66.667 15.45 0.00 0.00 4.51
455 470 3.691342 TGACGGGGCAGGTTCGAG 61.691 66.667 0.00 0.00 0.00 4.04
470 485 2.355837 GAGCGTGCTGAACCGTGA 60.356 61.111 0.00 0.00 0.00 4.35
475 490 3.782244 CAGGCGAGCGTGCTGAAC 61.782 66.667 0.00 0.00 34.52 3.18
476 491 3.300934 ATCAGGCGAGCGTGCTGAA 62.301 57.895 12.32 0.00 34.52 3.02
477 492 3.763356 ATCAGGCGAGCGTGCTGA 61.763 61.111 12.32 8.60 34.52 4.26
478 493 3.561213 CATCAGGCGAGCGTGCTG 61.561 66.667 12.32 9.61 34.52 4.41
488 503 1.521681 GGAGTACGGTGCATCAGGC 60.522 63.158 0.00 0.00 45.13 4.85
489 504 1.144057 GGGAGTACGGTGCATCAGG 59.856 63.158 0.00 0.00 0.00 3.86
492 507 2.504519 GGGGGAGTACGGTGCATC 59.495 66.667 0.00 0.00 0.00 3.91
569 584 2.752121 GAAGATTCGGGATCGGTTACC 58.248 52.381 0.00 0.00 39.85 2.85
571 586 2.787601 CGAAGATTCGGGATCGGTTA 57.212 50.000 7.08 0.00 46.30 2.85
582 597 0.095417 GTGCCACTTCGCGAAGATTC 59.905 55.000 45.43 32.30 40.79 2.52
583 598 1.626654 CGTGCCACTTCGCGAAGATT 61.627 55.000 45.43 27.58 41.99 2.40
584 599 2.094659 CGTGCCACTTCGCGAAGAT 61.095 57.895 45.43 29.93 41.99 2.40
585 600 2.733218 CGTGCCACTTCGCGAAGA 60.733 61.111 45.43 26.53 41.99 2.87
586 601 3.777925 CCGTGCCACTTCGCGAAG 61.778 66.667 39.55 39.55 41.99 3.79
592 607 2.954753 CTCGTTGCCGTGCCACTTC 61.955 63.158 0.00 0.00 35.01 3.01
593 608 2.731691 ATCTCGTTGCCGTGCCACTT 62.732 55.000 0.00 0.00 35.01 3.16
594 609 3.240134 ATCTCGTTGCCGTGCCACT 62.240 57.895 0.00 0.00 35.01 4.00
595 610 2.742372 ATCTCGTTGCCGTGCCAC 60.742 61.111 0.00 0.00 35.01 5.01
596 611 2.741985 CATCTCGTTGCCGTGCCA 60.742 61.111 0.00 0.00 35.01 4.92
598 613 2.778679 GTCATCTCGTTGCCGTGC 59.221 61.111 0.00 0.00 35.01 5.34
599 614 1.674611 GACGTCATCTCGTTGCCGTG 61.675 60.000 11.55 0.00 44.21 4.94
600 615 1.443872 GACGTCATCTCGTTGCCGT 60.444 57.895 11.55 0.00 44.21 5.68
601 616 1.443702 TGACGTCATCTCGTTGCCG 60.444 57.895 15.76 0.00 44.21 5.69
602 617 1.352156 GGTGACGTCATCTCGTTGCC 61.352 60.000 23.12 11.64 44.21 4.52
603 618 0.666274 TGGTGACGTCATCTCGTTGC 60.666 55.000 27.93 9.94 44.21 4.17
604 619 1.455786 GTTGGTGACGTCATCTCGTTG 59.544 52.381 27.93 0.00 44.21 4.10
605 620 1.779569 GTTGGTGACGTCATCTCGTT 58.220 50.000 27.93 0.00 44.21 3.85
607 622 2.349843 CGTTGGTGACGTCATCTCG 58.650 57.895 27.93 25.41 46.49 4.04
616 631 1.852895 GAGCATATCGACGTTGGTGAC 59.147 52.381 2.20 0.00 0.00 3.67
617 632 1.202371 GGAGCATATCGACGTTGGTGA 60.202 52.381 2.20 0.00 0.00 4.02
618 633 1.209128 GGAGCATATCGACGTTGGTG 58.791 55.000 2.20 1.48 0.00 4.17
619 634 0.104304 GGGAGCATATCGACGTTGGT 59.896 55.000 2.20 0.00 0.00 3.67
620 635 0.600255 GGGGAGCATATCGACGTTGG 60.600 60.000 2.20 0.00 0.00 3.77
621 636 0.600255 GGGGGAGCATATCGACGTTG 60.600 60.000 0.00 0.00 0.00 4.10
622 637 1.746517 GGGGGAGCATATCGACGTT 59.253 57.895 0.00 0.00 0.00 3.99
623 638 2.561956 CGGGGGAGCATATCGACGT 61.562 63.158 0.00 0.00 0.00 4.34
624 639 2.258591 CGGGGGAGCATATCGACG 59.741 66.667 0.00 0.00 0.00 5.12
625 640 2.048127 GCGGGGGAGCATATCGAC 60.048 66.667 0.00 0.00 37.05 4.20
639 654 3.257561 CTCGATTCCTGCGTGCGG 61.258 66.667 0.00 0.00 0.00 5.69
640 655 3.918220 GCTCGATTCCTGCGTGCG 61.918 66.667 0.00 0.00 38.26 5.34
641 656 2.098842 GATGCTCGATTCCTGCGTGC 62.099 60.000 0.00 0.00 45.27 5.34
642 657 1.815212 CGATGCTCGATTCCTGCGTG 61.815 60.000 0.00 0.00 43.74 5.34
644 659 1.299392 TCGATGCTCGATTCCTGCG 60.299 57.895 4.47 0.00 44.82 5.18
645 660 4.738198 TCGATGCTCGATTCCTGC 57.262 55.556 4.47 0.00 44.82 4.85
653 668 1.658717 GGATCACGGTCGATGCTCG 60.659 63.158 0.00 0.00 42.10 5.03
654 669 1.300233 GGGATCACGGTCGATGCTC 60.300 63.158 0.00 0.00 34.42 4.26
657 672 2.658593 GCGGGATCACGGTCGATG 60.659 66.667 20.80 0.00 0.00 3.84
658 673 4.266070 CGCGGGATCACGGTCGAT 62.266 66.667 20.80 0.00 0.00 3.59
675 690 2.701163 GATCGTCCTGACCGATGGGC 62.701 65.000 0.00 0.00 44.48 5.36
676 691 1.364171 GATCGTCCTGACCGATGGG 59.636 63.158 0.00 0.00 44.48 4.00
677 692 1.364171 GGATCGTCCTGACCGATGG 59.636 63.158 0.00 0.00 44.48 3.51
678 693 1.008424 CGGATCGTCCTGACCGATG 60.008 63.158 0.00 0.00 44.48 3.84
679 694 2.194212 CCGGATCGTCCTGACCGAT 61.194 63.158 0.00 0.00 46.91 4.18
680 695 2.827190 CCGGATCGTCCTGACCGA 60.827 66.667 0.00 0.00 41.09 4.69
682 697 1.448922 CTCTCCGGATCGTCCTGACC 61.449 65.000 3.57 0.00 33.30 4.02
683 698 1.448922 CCTCTCCGGATCGTCCTGAC 61.449 65.000 3.57 0.00 33.30 3.51
685 700 2.196925 CCCTCTCCGGATCGTCCTG 61.197 68.421 3.57 0.00 33.30 3.86
687 702 2.123812 ACCCTCTCCGGATCGTCC 60.124 66.667 3.57 0.00 33.16 4.79
688 703 1.152922 AGACCCTCTCCGGATCGTC 60.153 63.158 3.57 8.40 33.16 4.20
689 704 1.152922 GAGACCCTCTCCGGATCGT 60.153 63.158 3.57 0.00 37.55 3.73
690 705 2.255172 CGAGACCCTCTCCGGATCG 61.255 68.421 3.57 5.67 40.34 3.69
691 706 2.557372 GCGAGACCCTCTCCGGATC 61.557 68.421 3.57 0.00 40.34 3.36
692 707 2.519780 GCGAGACCCTCTCCGGAT 60.520 66.667 3.57 0.00 40.34 4.18
696 711 2.124403 TACGGCGAGACCCTCTCC 60.124 66.667 16.62 0.00 40.34 3.71
697 712 2.836793 GCTACGGCGAGACCCTCTC 61.837 68.421 16.62 0.00 40.06 3.20
698 713 2.829458 GCTACGGCGAGACCCTCT 60.829 66.667 16.62 0.00 33.26 3.69
704 719 2.842188 TTAGGGGTGCTACGGCGAGA 62.842 60.000 16.62 0.00 42.25 4.04
705 720 2.351336 CTTAGGGGTGCTACGGCGAG 62.351 65.000 16.62 8.03 42.25 5.03
707 722 2.106332 CTTAGGGGTGCTACGGCG 59.894 66.667 4.80 4.80 42.25 6.46
708 723 1.328430 ACTCTTAGGGGTGCTACGGC 61.328 60.000 0.00 0.00 39.26 5.68
709 724 0.745468 GACTCTTAGGGGTGCTACGG 59.255 60.000 0.00 0.00 0.00 4.02
711 726 2.166664 CTGTGACTCTTAGGGGTGCTAC 59.833 54.545 0.00 0.00 0.00 3.58
712 727 2.457598 CTGTGACTCTTAGGGGTGCTA 58.542 52.381 0.00 0.00 0.00 3.49
713 728 1.270907 CTGTGACTCTTAGGGGTGCT 58.729 55.000 0.00 0.00 0.00 4.40
714 729 0.391793 GCTGTGACTCTTAGGGGTGC 60.392 60.000 0.00 0.00 0.00 5.01
715 730 1.066573 CAGCTGTGACTCTTAGGGGTG 60.067 57.143 5.25 0.00 0.00 4.61
716 731 1.270907 CAGCTGTGACTCTTAGGGGT 58.729 55.000 5.25 0.00 0.00 4.95
717 732 0.539051 CCAGCTGTGACTCTTAGGGG 59.461 60.000 13.81 0.00 0.00 4.79
718 733 0.539051 CCCAGCTGTGACTCTTAGGG 59.461 60.000 13.81 0.00 0.00 3.53
719 734 0.107945 GCCCAGCTGTGACTCTTAGG 60.108 60.000 13.81 4.18 0.00 2.69
720 735 0.459237 CGCCCAGCTGTGACTCTTAG 60.459 60.000 13.81 0.00 0.00 2.18
721 736 1.185618 ACGCCCAGCTGTGACTCTTA 61.186 55.000 13.81 0.00 0.00 2.10
722 737 2.345244 CGCCCAGCTGTGACTCTT 59.655 61.111 13.81 0.00 0.00 2.85
725 740 4.996434 GCACGCCCAGCTGTGACT 62.996 66.667 13.81 0.00 36.03 3.41
726 741 4.996434 AGCACGCCCAGCTGTGAC 62.996 66.667 13.81 0.05 41.61 3.67
742 757 2.376808 CTCAACAGTGAGCTACCCAG 57.623 55.000 0.00 0.00 44.74 4.45
756 771 4.523558 ACTCCTACTACACTGTTCCTCAAC 59.476 45.833 0.00 0.00 0.00 3.18
757 772 4.523173 CACTCCTACTACACTGTTCCTCAA 59.477 45.833 0.00 0.00 0.00 3.02
758 773 4.079970 CACTCCTACTACACTGTTCCTCA 58.920 47.826 0.00 0.00 0.00 3.86
760 775 2.826725 GCACTCCTACTACACTGTTCCT 59.173 50.000 0.00 0.00 0.00 3.36
761 776 2.094130 GGCACTCCTACTACACTGTTCC 60.094 54.545 0.00 0.00 0.00 3.62
762 777 2.415625 CGGCACTCCTACTACACTGTTC 60.416 54.545 0.00 0.00 0.00 3.18
763 778 1.544691 CGGCACTCCTACTACACTGTT 59.455 52.381 0.00 0.00 0.00 3.16
766 781 0.039326 ACCGGCACTCCTACTACACT 59.961 55.000 0.00 0.00 0.00 3.55
768 783 0.251474 ACACCGGCACTCCTACTACA 60.251 55.000 0.00 0.00 0.00 2.74
770 785 1.601419 GCACACCGGCACTCCTACTA 61.601 60.000 0.00 0.00 0.00 1.82
771 786 2.943978 GCACACCGGCACTCCTACT 61.944 63.158 0.00 0.00 0.00 2.57
772 787 2.434359 GCACACCGGCACTCCTAC 60.434 66.667 0.00 0.00 0.00 3.18
773 788 2.920384 TGCACACCGGCACTCCTA 60.920 61.111 0.00 0.00 39.25 2.94
779 794 2.740440 CATACGTGCACACCGGCA 60.740 61.111 18.64 0.00 42.53 5.69
823 844 3.902881 AGTGTGATTTCAGCTAGGAGG 57.097 47.619 0.00 0.00 0.00 4.30
850 871 7.646446 AAACAAAAAGGGAATACGTAATTGC 57.354 32.000 0.00 0.20 35.29 3.56
855 876 6.394025 AGCAAAACAAAAAGGGAATACGTA 57.606 33.333 0.00 0.00 0.00 3.57
856 877 5.270893 AGCAAAACAAAAAGGGAATACGT 57.729 34.783 0.00 0.00 0.00 3.57
858 879 7.066404 TCCAAAAGCAAAACAAAAAGGGAATAC 59.934 33.333 0.00 0.00 0.00 1.89
864 885 5.619625 TGTCCAAAAGCAAAACAAAAAGG 57.380 34.783 0.00 0.00 0.00 3.11
901 922 4.538746 AGTACCCTGCAACTTTACTCTC 57.461 45.455 0.00 0.00 0.00 3.20
922 943 0.388778 CCATGGTGCACACGTACGTA 60.389 55.000 22.34 3.59 0.00 3.57
923 944 1.666553 CCATGGTGCACACGTACGT 60.667 57.895 20.43 16.72 0.00 3.57
951 985 1.067212 CTTTATAGCCACGCCGTCTCT 59.933 52.381 0.00 0.00 0.00 3.10
973 1007 2.229675 TAGATGATGTTGCTGCTCCG 57.770 50.000 0.00 0.00 0.00 4.63
974 1008 4.005487 AGATAGATGATGTTGCTGCTCC 57.995 45.455 0.00 0.00 0.00 4.70
999 1034 3.943381 TGCAAGCAGAGAGATATTTGGTG 59.057 43.478 0.00 0.00 0.00 4.17
1030 1077 1.945394 CAAATGTAGCTAGGCAGGCAG 59.055 52.381 0.00 0.00 0.00 4.85
1031 1078 1.559219 TCAAATGTAGCTAGGCAGGCA 59.441 47.619 0.00 0.00 0.00 4.75
1105 1152 1.700955 GAACCTCGGCTAGTATGGGA 58.299 55.000 0.00 0.00 0.00 4.37
1133 1180 4.099266 CCTCCTCCATCGATGATCTTATCC 59.901 50.000 26.86 0.00 0.00 2.59
1134 1181 4.709397 ACCTCCTCCATCGATGATCTTATC 59.291 45.833 26.86 0.00 0.00 1.75
1516 5159 3.971702 GGTGTGGGCCTGCTTCCT 61.972 66.667 4.53 0.00 0.00 3.36
1620 5268 5.109903 AGAGAGAAATTGCCGTGTGTATAC 58.890 41.667 0.00 0.00 0.00 1.47
1663 5319 2.609459 CGCTAGCAGGTAATGAAACTGG 59.391 50.000 16.45 0.00 0.00 4.00
1664 5320 2.030946 GCGCTAGCAGGTAATGAAACTG 59.969 50.000 16.45 0.00 44.35 3.16
1665 5321 2.280628 GCGCTAGCAGGTAATGAAACT 58.719 47.619 16.45 0.00 44.35 2.66
1666 5322 2.739293 GCGCTAGCAGGTAATGAAAC 57.261 50.000 16.45 0.00 44.35 2.78
1685 5344 6.183361 ACCATCCAGTATTTTCAGCTAGGTAG 60.183 42.308 0.00 0.00 0.00 3.18
1701 5360 3.505386 TGCCAACATTTAACCATCCAGT 58.495 40.909 0.00 0.00 0.00 4.00
1705 5364 3.859443 TGCATGCCAACATTTAACCATC 58.141 40.909 16.68 0.00 32.87 3.51
1781 5446 4.206375 GGAGGGTACTACTAGTGTTCCTC 58.794 52.174 21.98 21.98 38.28 3.71
1869 5570 2.460757 ACATACTTGGTTAACGCCGT 57.539 45.000 0.00 0.00 0.00 5.68
1937 5717 0.598680 CTTCCATCCATCGTCGAGCC 60.599 60.000 0.00 0.00 0.00 4.70
2004 5785 4.141390 CCAGCTCCTATTCCTGTATGGTTT 60.141 45.833 0.00 0.00 37.07 3.27
2065 5846 6.701400 GGCATTTGTTTCTTTTGCTCTTTCTA 59.299 34.615 0.00 0.00 33.86 2.10
2140 5921 2.035321 GAGCCTAGTGAAAGATCTCGGG 59.965 54.545 0.00 0.00 0.00 5.14
2199 5980 0.935366 GTCATCGTCGCGATCCTTCC 60.935 60.000 14.06 0.00 45.19 3.46
2249 6030 1.227089 CATCCTCTTGCCTCGTCGG 60.227 63.158 0.00 0.00 0.00 4.79
2286 6067 3.319198 GCCACCTGACCTTCCGGA 61.319 66.667 0.00 0.00 0.00 5.14
2334 6115 2.741211 GAAACCCCTGTCGGCGTC 60.741 66.667 6.85 0.72 0.00 5.19
2390 6171 0.973496 GTGGTGGTTGGTTTGGTGGT 60.973 55.000 0.00 0.00 0.00 4.16
2416 6197 2.434185 GCCTCATGACCGCGTTGA 60.434 61.111 4.92 1.64 0.00 3.18
2435 6216 3.986006 GTGGTGAGACGGCGTGGA 61.986 66.667 21.19 0.00 0.00 4.02
2473 6254 1.809869 CTCTGATCCTTCGCCACGA 59.190 57.895 0.00 0.00 0.00 4.35
2476 6257 2.903357 GGCTCTGATCCTTCGCCA 59.097 61.111 7.33 0.00 40.41 5.69
2620 6401 1.306296 GGAGCTTTATGGGCCCACA 59.694 57.895 31.51 15.29 0.00 4.17
2629 6410 0.105039 CGCGAAGGAGGGAGCTTTAT 59.895 55.000 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.