Multiple sequence alignment - TraesCS2B01G216500

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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 TraesCS2B01G216500 chr2B 100.000 4325 0 0 1 4325 202595102 202599426 0.000000e+00 7987
1 TraesCS2B01G216500 chr2B 93.714 175 8 2 4019 4192 152758088 152757916 4.290000e-65 259
2 TraesCS2B01G216500 chr2D 94.606 3708 116 27 1 3666 144564751 144568416 0.000000e+00 5662
3 TraesCS2B01G216500 chr2A 93.677 3748 136 38 1 3692 157116539 157112837 0.000000e+00 5515
4 TraesCS2B01G216500 chr5B 85.714 567 49 14 3788 4324 230885398 230884834 1.750000e-158 569
5 TraesCS2B01G216500 chr5B 88.806 268 26 4 3788 4052 120308694 120308428 4.170000e-85 326
6 TraesCS2B01G216500 chr3B 85.742 512 45 12 3786 4269 684094764 684094253 2.310000e-142 516
7 TraesCS2B01G216500 chr6B 91.857 307 24 1 4017 4322 692451251 692451557 1.110000e-115 427
8 TraesCS2B01G216500 chr6B 90.291 309 25 5 4019 4325 220572734 220573039 2.420000e-107 399
9 TraesCS2B01G216500 chr1B 87.812 320 36 3 4007 4325 185068675 185068992 5.280000e-99 372
10 TraesCS2B01G216500 chr1B 93.117 247 16 1 4019 4264 522761390 522761144 1.140000e-95 361
11 TraesCS2B01G216500 chr1B 88.809 277 28 3 3786 4059 529578259 529577983 1.930000e-88 337
12 TraesCS2B01G216500 chr1B 88.406 276 30 2 3786 4059 605017340 605017065 8.960000e-87 331
13 TraesCS2B01G216500 chr1B 88.000 275 32 1 3786 4059 522761662 522761388 1.500000e-84 324
14 TraesCS2B01G216500 chr1B 86.909 275 33 3 3796 4068 451557778 451557505 5.430000e-79 305
15 TraesCS2B01G216500 chr4B 93.117 247 16 1 4019 4264 535289657 535289903 1.140000e-95 361
16 TraesCS2B01G216500 chr4B 91.903 247 19 1 4019 4264 73920606 73920852 1.150000e-90 344
17 TraesCS2B01G216500 chr4B 88.764 267 27 2 3786 4052 530170644 530170907 1.500000e-84 324
18 TraesCS2B01G216500 chr4B 89.200 250 25 2 3786 4034 535289388 535289636 1.170000e-80 311
19 TraesCS2B01G216500 chrUn 89.716 282 27 2 3786 4065 88158820 88158539 4.110000e-95 359
20 TraesCS2B01G216500 chr6A 83.721 129 14 6 4175 4300 162781660 162781784 9.830000e-22 115


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 TraesCS2B01G216500 chr2B 202595102 202599426 4324 False 7987.0 7987 100.0000 1 4325 1 chr2B.!!$F1 4324
1 TraesCS2B01G216500 chr2D 144564751 144568416 3665 False 5662.0 5662 94.6060 1 3666 1 chr2D.!!$F1 3665
2 TraesCS2B01G216500 chr2A 157112837 157116539 3702 True 5515.0 5515 93.6770 1 3692 1 chr2A.!!$R1 3691
3 TraesCS2B01G216500 chr5B 230884834 230885398 564 True 569.0 569 85.7140 3788 4324 1 chr5B.!!$R2 536
4 TraesCS2B01G216500 chr3B 684094253 684094764 511 True 516.0 516 85.7420 3786 4269 1 chr3B.!!$R1 483
5 TraesCS2B01G216500 chr1B 522761144 522761662 518 True 342.5 361 90.5585 3786 4264 2 chr1B.!!$R4 478
6 TraesCS2B01G216500 chr4B 535289388 535289903 515 False 336.0 361 91.1585 3786 4264 2 chr4B.!!$F3 478

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
755 779 0.035439 AAAACGCCGAGACCATCCAT 60.035 50.0 0.00 0.00 0.00 3.41 F
1098 1126 0.032416 TTAGCCCTTACTCGAGCCCT 60.032 55.0 13.61 2.55 0.00 5.19 F
1384 1415 0.247736 GTCGTTGCAGGATCCTCTGT 59.752 55.0 12.69 0.00 37.12 3.41 F
3108 3145 0.179032 TTCGCAAGGACAGCAAGGAA 60.179 50.0 0.00 0.00 38.47 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2382 2419 0.040336 GCTTCGGATCAGCGACGATA 60.040 55.000 0.00 0.00 36.43 2.92 R
2589 2626 0.461693 AATCAGCAGCTTCCTCTCGC 60.462 55.000 0.00 0.00 0.00 5.03 R
3234 3271 0.038526 ACACGGCCAGTCTCGTAAAG 60.039 55.000 2.24 0.00 37.88 1.85 R
3997 4053 1.202475 TGCCCCTGCTTTTTCGAAAAC 60.202 47.619 22.41 12.81 38.71 2.43 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
47 48 3.400054 GGCGAGGTAACCAGGCCT 61.400 66.667 0.00 0.00 39.79 5.19
141 142 1.674519 TCATGGTGAATGACGGAACGG 60.675 52.381 0.00 0.00 46.41 4.44
209 210 2.279408 GCCTCCTCCCCTCGTAGT 59.721 66.667 0.00 0.00 0.00 2.73
210 211 0.992431 AGCCTCCTCCCCTCGTAGTA 60.992 60.000 0.00 0.00 0.00 1.82
211 212 0.537828 GCCTCCTCCCCTCGTAGTAG 60.538 65.000 0.00 0.00 0.00 2.57
234 235 2.953605 GCTCGTCAATGTGCACGCA 61.954 57.895 13.13 0.00 35.93 5.24
235 236 1.154599 CTCGTCAATGTGCACGCAC 60.155 57.895 15.20 15.20 46.33 5.34
332 348 2.961526 TCCGTGAGCAGAAAGGATAC 57.038 50.000 0.00 0.00 0.00 2.24
422 438 0.895559 CTCCAACTCCAAGCAACCCC 60.896 60.000 0.00 0.00 0.00 4.95
423 439 1.153756 CCAACTCCAAGCAACCCCT 59.846 57.895 0.00 0.00 0.00 4.79
424 440 1.181098 CCAACTCCAAGCAACCCCTG 61.181 60.000 0.00 0.00 0.00 4.45
425 441 1.153756 AACTCCAAGCAACCCCTGG 59.846 57.895 0.00 0.00 0.00 4.45
426 442 2.677875 CTCCAAGCAACCCCTGGC 60.678 66.667 0.00 0.00 0.00 4.85
427 443 3.185203 TCCAAGCAACCCCTGGCT 61.185 61.111 0.00 0.00 43.46 4.75
501 517 0.739561 GACTTCTCGGCCATCGTACT 59.260 55.000 2.24 0.00 40.32 2.73
502 518 1.945394 GACTTCTCGGCCATCGTACTA 59.055 52.381 2.24 0.00 40.32 1.82
503 519 1.674962 ACTTCTCGGCCATCGTACTAC 59.325 52.381 2.24 0.00 40.32 2.73
523 539 1.971505 GATCCGTCCATGGCACCAGA 61.972 60.000 6.96 5.66 0.00 3.86
527 543 1.001641 GTCCATGGCACCAGAAGCT 60.002 57.895 6.96 0.00 0.00 3.74
588 604 7.444299 ACACCAATTACTTGCATCAAGAATTT 58.556 30.769 12.89 1.56 43.42 1.82
743 767 2.475685 GCAAATCTACCGAGAAAACGCC 60.476 50.000 0.00 0.00 34.61 5.68
751 775 0.736325 CGAGAAAACGCCGAGACCAT 60.736 55.000 0.00 0.00 0.00 3.55
752 776 1.000145 GAGAAAACGCCGAGACCATC 59.000 55.000 0.00 0.00 0.00 3.51
753 777 0.391263 AGAAAACGCCGAGACCATCC 60.391 55.000 0.00 0.00 0.00 3.51
754 778 0.672401 GAAAACGCCGAGACCATCCA 60.672 55.000 0.00 0.00 0.00 3.41
755 779 0.035439 AAAACGCCGAGACCATCCAT 60.035 50.000 0.00 0.00 0.00 3.41
756 780 0.462047 AAACGCCGAGACCATCCATC 60.462 55.000 0.00 0.00 0.00 3.51
757 781 2.029666 CGCCGAGACCATCCATCC 59.970 66.667 0.00 0.00 0.00 3.51
762 786 0.678395 CGAGACCATCCATCCAGAGG 59.322 60.000 0.00 0.00 0.00 3.69
763 787 1.755621 CGAGACCATCCATCCAGAGGA 60.756 57.143 0.00 0.00 39.97 3.71
765 789 1.577729 AGACCATCCATCCAGAGGAGA 59.422 52.381 0.00 0.00 38.83 3.71
766 790 2.181865 AGACCATCCATCCAGAGGAGAT 59.818 50.000 0.00 0.00 38.83 2.75
782 806 6.934083 CAGAGGAGATAGGGAATTAAGAAAGC 59.066 42.308 0.00 0.00 0.00 3.51
910 938 4.302455 CTCCGCACTCAACATCCTTATAG 58.698 47.826 0.00 0.00 0.00 1.31
911 939 2.802816 CCGCACTCAACATCCTTATAGC 59.197 50.000 0.00 0.00 0.00 2.97
912 940 3.493350 CCGCACTCAACATCCTTATAGCT 60.493 47.826 0.00 0.00 0.00 3.32
924 952 2.165437 CCTTATAGCTGCTCCGATCCTC 59.835 54.545 4.91 0.00 0.00 3.71
925 953 1.840737 TATAGCTGCTCCGATCCTCC 58.159 55.000 4.91 0.00 0.00 4.30
926 954 0.114168 ATAGCTGCTCCGATCCTCCT 59.886 55.000 4.91 0.00 0.00 3.69
928 956 2.866726 GCTGCTCCGATCCTCCTCC 61.867 68.421 0.00 0.00 0.00 4.30
929 957 2.123251 TGCTCCGATCCTCCTCCC 60.123 66.667 0.00 0.00 0.00 4.30
931 959 2.206536 GCTCCGATCCTCCTCCCAG 61.207 68.421 0.00 0.00 0.00 4.45
932 960 1.231641 CTCCGATCCTCCTCCCAGT 59.768 63.158 0.00 0.00 0.00 4.00
933 961 1.075970 TCCGATCCTCCTCCCAGTG 60.076 63.158 0.00 0.00 0.00 3.66
935 963 1.395826 CCGATCCTCCTCCCAGTGAC 61.396 65.000 0.00 0.00 0.00 3.67
947 975 3.827302 CTCCCAGTGACACAAGTACTAGT 59.173 47.826 8.59 0.00 0.00 2.57
979 1007 4.035612 ACCTGCGAAGGATAGATAGCTA 57.964 45.455 19.18 0.00 0.00 3.32
980 1008 3.759618 ACCTGCGAAGGATAGATAGCTAC 59.240 47.826 19.18 0.00 0.00 3.58
983 1011 5.065474 CCTGCGAAGGATAGATAGCTACTAC 59.935 48.000 1.89 0.00 0.00 2.73
984 1012 5.557866 TGCGAAGGATAGATAGCTACTACA 58.442 41.667 0.00 0.00 0.00 2.74
991 1019 8.951787 AGGATAGATAGCTACTACATACTTCG 57.048 38.462 0.00 0.00 0.00 3.79
1013 1041 2.293788 TGGAGAAGATGATTGGGAGGGA 60.294 50.000 0.00 0.00 0.00 4.20
1015 1043 3.312890 GAGAAGATGATTGGGAGGGAGA 58.687 50.000 0.00 0.00 0.00 3.71
1025 1053 1.487850 GGGAGGGAGATGGAGATGGC 61.488 65.000 0.00 0.00 0.00 4.40
1098 1126 0.032416 TTAGCCCTTACTCGAGCCCT 60.032 55.000 13.61 2.55 0.00 5.19
1154 1182 1.995484 CTGGTACGTGAAGCTCATGTG 59.005 52.381 16.52 0.00 45.40 3.21
1166 1194 1.734707 GCTCATGTGGCATGTTGCTTC 60.735 52.381 15.94 0.00 44.28 3.86
1302 1330 1.013005 CAGTCAGAGCTTGCGACCAG 61.013 60.000 7.31 0.00 0.00 4.00
1339 1367 2.594303 TGGCGCTGGTTTGGTGAG 60.594 61.111 7.64 0.00 0.00 3.51
1384 1415 0.247736 GTCGTTGCAGGATCCTCTGT 59.752 55.000 12.69 0.00 37.12 3.41
1572 1603 2.214920 GGAGTTCCTGGACGTGGGT 61.215 63.158 0.00 0.00 0.00 4.51
1578 1609 3.000819 CTGGACGTGGGTGGCCTA 61.001 66.667 3.32 0.00 0.00 3.93
1878 1909 0.909610 TCAAGGACCTCATCGCCCTT 60.910 55.000 0.00 0.00 39.42 3.95
2016 2047 2.032681 AAGTTCTGGGCGAGCACC 59.967 61.111 0.00 0.00 0.00 5.01
2382 2419 1.740285 GGATCGGTACCTCGTGCAT 59.260 57.895 10.90 0.00 0.00 3.96
2558 2595 4.251268 GTTATTAGTCCGAGTGGTTTGCT 58.749 43.478 0.00 0.00 36.30 3.91
2559 2596 2.922740 TTAGTCCGAGTGGTTTGCTT 57.077 45.000 0.00 0.00 36.30 3.91
2560 2597 2.922740 TAGTCCGAGTGGTTTGCTTT 57.077 45.000 0.00 0.00 36.30 3.51
2561 2598 2.052782 AGTCCGAGTGGTTTGCTTTT 57.947 45.000 0.00 0.00 36.30 2.27
2562 2599 1.676006 AGTCCGAGTGGTTTGCTTTTG 59.324 47.619 0.00 0.00 36.30 2.44
2563 2600 0.383949 TCCGAGTGGTTTGCTTTTGC 59.616 50.000 0.00 0.00 40.58 3.68
2583 2620 3.870419 TGCTGGTTTGAATTTTCAACTGC 59.130 39.130 5.26 10.51 45.99 4.40
2589 2626 1.969923 TGAATTTTCAACTGCCCCTGG 59.030 47.619 0.00 0.00 33.55 4.45
2604 2641 2.999648 TGGCGAGAGGAAGCTGCT 61.000 61.111 0.00 0.00 0.00 4.24
2661 2698 4.459089 GAGGAGAAGGCGGCGCTT 62.459 66.667 32.30 23.33 0.00 4.68
3108 3145 0.179032 TTCGCAAGGACAGCAAGGAA 60.179 50.000 0.00 0.00 38.47 3.36
3315 3352 2.215625 AGCACCAGAGCAGCTCAGT 61.216 57.895 24.64 17.56 32.05 3.41
3327 3364 2.869636 GCAGCTCAGTTGCTTGTAGACT 60.870 50.000 6.19 0.00 41.98 3.24
3334 3371 4.058124 CAGTTGCTTGTAGACTTGCAGTA 58.942 43.478 0.00 0.00 36.75 2.74
3367 3404 1.304547 ACTCAGGAGTCGGGACAGG 60.305 63.158 1.17 0.00 36.92 4.00
3368 3405 1.000771 CTCAGGAGTCGGGACAGGA 60.001 63.158 1.17 0.00 0.00 3.86
3369 3406 0.612174 CTCAGGAGTCGGGACAGGAA 60.612 60.000 1.17 0.00 0.00 3.36
3370 3407 0.041238 TCAGGAGTCGGGACAGGAAT 59.959 55.000 1.17 0.00 0.00 3.01
3371 3408 0.905357 CAGGAGTCGGGACAGGAATT 59.095 55.000 1.17 0.00 0.00 2.17
3372 3409 0.905357 AGGAGTCGGGACAGGAATTG 59.095 55.000 1.17 0.00 0.00 2.32
3378 3420 2.683362 GTCGGGACAGGAATTGGAAATC 59.317 50.000 0.00 0.00 0.00 2.17
3385 3427 4.338879 ACAGGAATTGGAAATCAGTCTGG 58.661 43.478 0.00 0.00 0.00 3.86
3432 3474 1.630223 TGGAAATTGCAGATGCCACA 58.370 45.000 1.72 0.00 41.18 4.17
3456 3498 0.106519 AACCTGGTAGCCATGGATGC 60.107 55.000 18.40 13.90 30.82 3.91
3504 3546 3.655276 AGCAATGTTGAAAGGCTTGAG 57.345 42.857 0.00 0.00 0.00 3.02
3524 3577 4.523173 TGAGTAGGTAGTTCAGGTGTTCAG 59.477 45.833 0.00 0.00 0.00 3.02
3589 3643 2.361119 AGCAACTGCCAAGATATGCATG 59.639 45.455 10.16 0.00 43.38 4.06
3609 3663 6.645827 TGCATGGTTTATCAGTTCATTTGTTG 59.354 34.615 0.00 0.00 0.00 3.33
3689 3743 8.311650 AGTTTTACACTTTAGCTACATGTCAG 57.688 34.615 0.00 0.00 27.32 3.51
3692 3746 9.767228 TTTTACACTTTAGCTACATGTCAGTTA 57.233 29.630 0.00 0.00 0.00 2.24
3693 3747 9.767228 TTTACACTTTAGCTACATGTCAGTTAA 57.233 29.630 0.00 4.77 0.00 2.01
3694 3748 7.653767 ACACTTTAGCTACATGTCAGTTAAC 57.346 36.000 0.00 0.00 0.00 2.01
3695 3749 7.442656 ACACTTTAGCTACATGTCAGTTAACT 58.557 34.615 0.00 1.12 0.00 2.24
3696 3750 7.385205 ACACTTTAGCTACATGTCAGTTAACTG 59.615 37.037 26.60 26.60 45.08 3.16
3697 3751 6.369065 ACTTTAGCTACATGTCAGTTAACTGC 59.631 38.462 27.49 22.02 43.46 4.40
3698 3752 4.271696 AGCTACATGTCAGTTAACTGCA 57.728 40.909 27.49 25.97 43.46 4.41
3699 3753 4.836825 AGCTACATGTCAGTTAACTGCAT 58.163 39.130 27.49 26.78 43.46 3.96
3700 3754 5.248640 AGCTACATGTCAGTTAACTGCATT 58.751 37.500 28.01 22.87 43.46 3.56
3701 3755 5.707298 AGCTACATGTCAGTTAACTGCATTT 59.293 36.000 28.01 25.39 43.46 2.32
3702 3756 6.207417 AGCTACATGTCAGTTAACTGCATTTT 59.793 34.615 28.01 22.62 43.46 1.82
3703 3757 6.306356 GCTACATGTCAGTTAACTGCATTTTG 59.694 38.462 28.01 24.40 43.46 2.44
3704 3758 6.389830 ACATGTCAGTTAACTGCATTTTGA 57.610 33.333 28.01 12.81 43.46 2.69
3705 3759 6.985117 ACATGTCAGTTAACTGCATTTTGAT 58.015 32.000 28.01 14.58 43.46 2.57
3706 3760 7.436118 ACATGTCAGTTAACTGCATTTTGATT 58.564 30.769 28.01 14.09 43.46 2.57
3707 3761 7.927629 ACATGTCAGTTAACTGCATTTTGATTT 59.072 29.630 28.01 13.59 43.46 2.17
3708 3762 7.697352 TGTCAGTTAACTGCATTTTGATTTG 57.303 32.000 27.49 3.77 43.46 2.32
3709 3763 7.264221 TGTCAGTTAACTGCATTTTGATTTGT 58.736 30.769 27.49 0.00 43.46 2.83
3710 3764 7.763528 TGTCAGTTAACTGCATTTTGATTTGTT 59.236 29.630 27.49 0.00 43.46 2.83
3711 3765 8.603181 GTCAGTTAACTGCATTTTGATTTGTTT 58.397 29.630 27.49 0.00 43.46 2.83
3712 3766 9.160496 TCAGTTAACTGCATTTTGATTTGTTTT 57.840 25.926 27.49 0.00 43.46 2.43
3713 3767 9.771915 CAGTTAACTGCATTTTGATTTGTTTTT 57.228 25.926 22.03 0.00 37.15 1.94
3739 3793 9.947669 TTGAATCAACTGCATTTTAAATTTTGG 57.052 25.926 0.00 0.00 0.00 3.28
3740 3794 9.118300 TGAATCAACTGCATTTTAAATTTTGGT 57.882 25.926 0.00 0.00 0.00 3.67
3741 3795 9.597999 GAATCAACTGCATTTTAAATTTTGGTC 57.402 29.630 0.00 0.00 0.00 4.02
3742 3796 7.171447 TCAACTGCATTTTAAATTTTGGTCG 57.829 32.000 0.00 0.00 0.00 4.79
3743 3797 6.201806 TCAACTGCATTTTAAATTTTGGTCGG 59.798 34.615 0.00 0.00 0.00 4.79
3744 3798 5.606505 ACTGCATTTTAAATTTTGGTCGGT 58.393 33.333 0.00 0.00 0.00 4.69
3745 3799 5.694458 ACTGCATTTTAAATTTTGGTCGGTC 59.306 36.000 0.00 0.00 0.00 4.79
3746 3800 4.681942 TGCATTTTAAATTTTGGTCGGTCG 59.318 37.500 0.00 0.00 0.00 4.79
3747 3801 4.918583 GCATTTTAAATTTTGGTCGGTCGA 59.081 37.500 0.00 0.00 0.00 4.20
3748 3802 5.575218 GCATTTTAAATTTTGGTCGGTCGAT 59.425 36.000 0.00 0.00 0.00 3.59
3749 3803 6.090223 GCATTTTAAATTTTGGTCGGTCGATT 59.910 34.615 0.00 0.00 0.00 3.34
3750 3804 7.359681 GCATTTTAAATTTTGGTCGGTCGATTT 60.360 33.333 0.00 0.00 0.00 2.17
3751 3805 8.491950 CATTTTAAATTTTGGTCGGTCGATTTT 58.508 29.630 0.00 0.00 0.00 1.82
3752 3806 6.994868 TTAAATTTTGGTCGGTCGATTTTG 57.005 33.333 0.00 0.00 0.00 2.44
3753 3807 4.577834 AATTTTGGTCGGTCGATTTTGT 57.422 36.364 0.00 0.00 0.00 2.83
3754 3808 3.341857 TTTTGGTCGGTCGATTTTGTG 57.658 42.857 0.00 0.00 0.00 3.33
3755 3809 1.231221 TTGGTCGGTCGATTTTGTGG 58.769 50.000 0.00 0.00 0.00 4.17
3756 3810 0.604243 TGGTCGGTCGATTTTGTGGG 60.604 55.000 0.00 0.00 0.00 4.61
3757 3811 1.500396 GTCGGTCGATTTTGTGGGC 59.500 57.895 0.00 0.00 0.00 5.36
3758 3812 2.030401 TCGGTCGATTTTGTGGGCG 61.030 57.895 0.00 0.00 0.00 6.13
3759 3813 2.322081 CGGTCGATTTTGTGGGCGT 61.322 57.895 0.00 0.00 0.00 5.68
3760 3814 1.847890 CGGTCGATTTTGTGGGCGTT 61.848 55.000 0.00 0.00 0.00 4.84
3761 3815 0.386731 GGTCGATTTTGTGGGCGTTG 60.387 55.000 0.00 0.00 0.00 4.10
3762 3816 0.386731 GTCGATTTTGTGGGCGTTGG 60.387 55.000 0.00 0.00 0.00 3.77
3763 3817 0.535328 TCGATTTTGTGGGCGTTGGA 60.535 50.000 0.00 0.00 0.00 3.53
3764 3818 0.525761 CGATTTTGTGGGCGTTGGAT 59.474 50.000 0.00 0.00 0.00 3.41
3765 3819 1.467374 CGATTTTGTGGGCGTTGGATC 60.467 52.381 0.00 0.00 0.00 3.36
3766 3820 1.543802 GATTTTGTGGGCGTTGGATCA 59.456 47.619 0.00 0.00 0.00 2.92
3767 3821 1.626686 TTTTGTGGGCGTTGGATCAT 58.373 45.000 0.00 0.00 0.00 2.45
3768 3822 0.887247 TTTGTGGGCGTTGGATCATG 59.113 50.000 0.00 0.00 0.00 3.07
3769 3823 1.594194 TTGTGGGCGTTGGATCATGC 61.594 55.000 0.00 0.00 0.00 4.06
3770 3824 1.750399 GTGGGCGTTGGATCATGCT 60.750 57.895 0.00 0.00 0.00 3.79
3771 3825 1.001020 TGGGCGTTGGATCATGCTT 60.001 52.632 0.00 0.00 0.00 3.91
3772 3826 0.611618 TGGGCGTTGGATCATGCTTT 60.612 50.000 0.00 0.00 0.00 3.51
3773 3827 0.532115 GGGCGTTGGATCATGCTTTT 59.468 50.000 0.00 0.00 0.00 2.27
3774 3828 1.066929 GGGCGTTGGATCATGCTTTTT 60.067 47.619 0.00 0.00 0.00 1.94
3775 3829 1.994779 GGCGTTGGATCATGCTTTTTG 59.005 47.619 0.00 0.00 0.00 2.44
3776 3830 2.352617 GGCGTTGGATCATGCTTTTTGA 60.353 45.455 0.00 0.00 0.00 2.69
3777 3831 3.514645 GCGTTGGATCATGCTTTTTGAT 58.485 40.909 0.00 0.00 36.54 2.57
3778 3832 3.305094 GCGTTGGATCATGCTTTTTGATG 59.695 43.478 0.00 0.00 34.03 3.07
3779 3833 3.861113 CGTTGGATCATGCTTTTTGATGG 59.139 43.478 0.00 0.00 34.03 3.51
3780 3834 4.618927 CGTTGGATCATGCTTTTTGATGGT 60.619 41.667 0.00 0.00 34.03 3.55
3781 3835 4.459390 TGGATCATGCTTTTTGATGGTG 57.541 40.909 0.00 0.00 34.03 4.17
3782 3836 3.196039 TGGATCATGCTTTTTGATGGTGG 59.804 43.478 0.00 0.00 34.03 4.61
3783 3837 3.431207 GGATCATGCTTTTTGATGGTGGG 60.431 47.826 0.00 0.00 34.03 4.61
3784 3838 1.901159 TCATGCTTTTTGATGGTGGGG 59.099 47.619 0.00 0.00 0.00 4.96
3813 3867 3.329386 AGTGATCCAGACAATGTGTTCG 58.671 45.455 0.00 0.00 0.00 3.95
3869 3923 9.630098 CACAACTTAGCATCAAACATAAAGAAT 57.370 29.630 0.00 0.00 0.00 2.40
3875 3929 7.934855 AGCATCAAACATAAAGAATCAGACT 57.065 32.000 0.00 0.00 0.00 3.24
3890 3944 0.610174 AGACTCGCTTTGCAGATCCA 59.390 50.000 0.00 0.00 0.00 3.41
3902 3956 7.315890 GCTTTGCAGATCCAAATTACTTTAGT 58.684 34.615 0.00 0.00 34.50 2.24
4083 4181 9.650539 TTCAGAAAATTCAGAAAACATGAACAA 57.349 25.926 0.00 0.00 39.36 2.83
4092 4190 7.908230 TCAGAAAACATGAACAATTTTTGAGC 58.092 30.769 0.00 0.00 0.00 4.26
4106 4204 8.124199 ACAATTTTTGAGCATGTGAACAAAATC 58.876 29.630 15.79 0.00 40.29 2.17
4227 4327 2.032377 TGAGTTCGCGAACAAATTGTCC 60.032 45.455 42.89 24.31 43.47 4.02
4235 4335 4.026145 CGCGAACAAATTGTCCAAAACATT 60.026 37.500 0.00 0.00 37.82 2.71
4241 4341 9.168353 GAACAAATTGTCCAAAACATTATTTGC 57.832 29.630 0.00 0.00 43.58 3.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 6.264067 TCTTTAAGAGATCTGATGATGCGAGA 59.736 38.462 0.00 0.00 32.19 4.04
81 82 7.002879 ACTCTGGTTTAGACTACAGAACTGTA 58.997 38.462 13.00 13.00 44.42 2.74
89 90 6.053005 CCACAAAACTCTGGTTTAGACTACA 58.947 40.000 0.00 0.00 43.90 2.74
174 175 2.094494 AGGCTCTGAATATCATACGGCG 60.094 50.000 4.80 4.80 0.00 6.46
209 210 1.404181 GCACATTGACGAGCACCTCTA 60.404 52.381 0.00 0.00 0.00 2.43
210 211 0.671781 GCACATTGACGAGCACCTCT 60.672 55.000 0.00 0.00 0.00 3.69
211 212 0.950555 TGCACATTGACGAGCACCTC 60.951 55.000 0.00 0.00 31.05 3.85
234 235 3.189702 TGCTTTTTAATAAAGGCGAGCGT 59.810 39.130 10.25 0.00 46.13 5.07
235 236 3.753842 TGCTTTTTAATAAAGGCGAGCG 58.246 40.909 10.25 0.00 46.13 5.03
236 237 4.733850 ACTGCTTTTTAATAAAGGCGAGC 58.266 39.130 10.25 6.81 46.13 5.03
237 238 6.912591 CCATACTGCTTTTTAATAAAGGCGAG 59.087 38.462 10.25 0.00 46.13 5.03
332 348 2.793790 GCATCTTGTGCGATCAGACTAG 59.206 50.000 0.00 0.00 45.23 2.57
333 349 2.814269 GCATCTTGTGCGATCAGACTA 58.186 47.619 0.00 0.00 45.23 2.59
334 350 1.649664 GCATCTTGTGCGATCAGACT 58.350 50.000 0.00 0.00 45.23 3.24
422 438 2.282674 TTTGCCAGCCAGAGCCAG 60.283 61.111 0.00 0.00 41.25 4.85
423 439 2.282674 CTTTGCCAGCCAGAGCCA 60.283 61.111 0.00 0.00 41.25 4.75
424 440 2.282745 ACTTTGCCAGCCAGAGCC 60.283 61.111 0.00 0.00 41.25 4.70
425 441 1.601759 TGACTTTGCCAGCCAGAGC 60.602 57.895 0.00 0.00 40.32 4.09
426 442 1.239968 GGTGACTTTGCCAGCCAGAG 61.240 60.000 0.00 0.00 0.00 3.35
427 443 1.228245 GGTGACTTTGCCAGCCAGA 60.228 57.895 0.00 0.00 0.00 3.86
479 495 1.218047 CGATGGCCGAGAAGTCCAA 59.782 57.895 0.00 0.00 41.76 3.53
480 496 0.681887 TACGATGGCCGAGAAGTCCA 60.682 55.000 0.00 0.00 41.76 4.02
481 497 0.248949 GTACGATGGCCGAGAAGTCC 60.249 60.000 0.00 0.00 41.76 3.85
501 517 1.440060 GTGCCATGGACGGATCGTA 59.560 57.895 18.40 0.00 41.37 3.43
502 518 2.186903 GTGCCATGGACGGATCGT 59.813 61.111 18.40 0.00 45.10 3.73
503 519 2.588877 GGTGCCATGGACGGATCG 60.589 66.667 18.40 0.00 0.00 3.69
743 767 0.678395 CCTCTGGATGGATGGTCTCG 59.322 60.000 0.00 0.00 0.00 4.04
751 775 2.443449 TCCCTATCTCCTCTGGATGGA 58.557 52.381 0.00 0.00 0.00 3.41
752 776 3.266477 TTCCCTATCTCCTCTGGATGG 57.734 52.381 0.00 0.00 0.00 3.51
753 777 6.728164 TCTTAATTCCCTATCTCCTCTGGATG 59.272 42.308 0.00 0.00 0.00 3.51
754 778 6.879922 TCTTAATTCCCTATCTCCTCTGGAT 58.120 40.000 0.00 0.00 0.00 3.41
755 779 6.295041 TCTTAATTCCCTATCTCCTCTGGA 57.705 41.667 0.00 0.00 0.00 3.86
756 780 7.380423 TTTCTTAATTCCCTATCTCCTCTGG 57.620 40.000 0.00 0.00 0.00 3.86
757 781 6.934083 GCTTTCTTAATTCCCTATCTCCTCTG 59.066 42.308 0.00 0.00 0.00 3.35
762 786 6.543831 TGCAAGCTTTCTTAATTCCCTATCTC 59.456 38.462 0.00 0.00 0.00 2.75
763 787 6.319911 GTGCAAGCTTTCTTAATTCCCTATCT 59.680 38.462 0.00 0.00 0.00 1.98
765 789 5.066505 CGTGCAAGCTTTCTTAATTCCCTAT 59.933 40.000 0.00 0.00 0.00 2.57
766 790 4.394920 CGTGCAAGCTTTCTTAATTCCCTA 59.605 41.667 0.00 0.00 0.00 3.53
782 806 2.892425 GGATCGCCCTCGTGCAAG 60.892 66.667 0.00 0.00 36.96 4.01
910 938 2.733945 GAGGAGGATCGGAGCAGC 59.266 66.667 0.00 0.00 34.37 5.25
911 939 2.206536 GGGAGGAGGATCGGAGCAG 61.207 68.421 0.00 0.00 34.37 4.24
912 940 2.123251 GGGAGGAGGATCGGAGCA 60.123 66.667 0.00 0.00 34.37 4.26
924 952 1.971357 AGTACTTGTGTCACTGGGAGG 59.029 52.381 4.27 0.00 0.00 4.30
925 953 3.827302 ACTAGTACTTGTGTCACTGGGAG 59.173 47.826 9.25 0.00 0.00 4.30
926 954 3.840991 ACTAGTACTTGTGTCACTGGGA 58.159 45.455 9.25 0.00 0.00 4.37
928 956 4.720090 CGTACTAGTACTTGTGTCACTGG 58.280 47.826 26.36 6.62 34.04 4.00
929 957 4.083431 AGCGTACTAGTACTTGTGTCACTG 60.083 45.833 26.36 11.01 34.04 3.66
931 959 4.156915 CAGCGTACTAGTACTTGTGTCAC 58.843 47.826 26.36 9.02 34.04 3.67
932 960 3.365666 GCAGCGTACTAGTACTTGTGTCA 60.366 47.826 26.36 0.00 34.04 3.58
933 961 3.169733 GCAGCGTACTAGTACTTGTGTC 58.830 50.000 26.36 14.20 34.04 3.67
935 963 2.163815 AGGCAGCGTACTAGTACTTGTG 59.836 50.000 26.36 20.72 34.04 3.33
947 975 2.183300 CGCAGGTTAGGCAGCGTA 59.817 61.111 0.00 0.00 44.67 4.42
990 1018 2.484417 CCTCCCAATCATCTTCTCCACG 60.484 54.545 0.00 0.00 0.00 4.94
991 1019 2.158696 CCCTCCCAATCATCTTCTCCAC 60.159 54.545 0.00 0.00 0.00 4.02
1013 1041 1.039068 CTCTGTCGCCATCTCCATCT 58.961 55.000 0.00 0.00 0.00 2.90
1015 1043 0.689080 ACCTCTGTCGCCATCTCCAT 60.689 55.000 0.00 0.00 0.00 3.41
1029 1057 2.418910 CGGCGACATCTCCACCTCT 61.419 63.158 0.00 0.00 0.00 3.69
1153 1181 2.867624 AGAGAAAGAAGCAACATGCCA 58.132 42.857 0.00 0.00 46.52 4.92
1154 1182 3.005155 ACAAGAGAAAGAAGCAACATGCC 59.995 43.478 0.00 0.00 46.52 4.40
1166 1194 1.923204 CGATCGCCAGACAAGAGAAAG 59.077 52.381 0.26 0.00 0.00 2.62
1302 1330 0.381801 CCGCCACACCATAATTGAGC 59.618 55.000 0.00 0.00 0.00 4.26
1339 1367 1.737793 CGACAAAGGTTAGCATGGTCC 59.262 52.381 0.00 0.00 0.00 4.46
1384 1415 4.245660 CTGAAATACCTGCTTCTTGACGA 58.754 43.478 0.00 0.00 0.00 4.20
1518 1549 3.351416 GCCACGTTGAACGGGTCC 61.351 66.667 22.44 7.38 44.93 4.46
1878 1909 1.336887 CGCTTGAAGAACTCGAAGGGA 60.337 52.381 0.00 0.00 32.13 4.20
2039 2070 3.691342 CCCTCCTGTTGGCGTCGA 61.691 66.667 0.00 0.00 0.00 4.20
2169 2200 3.213402 CTCGTCCGGCTCTCCTCC 61.213 72.222 0.00 0.00 0.00 4.30
2357 2394 0.177373 GAGGTACCGATCCCACAACC 59.823 60.000 6.18 0.00 0.00 3.77
2382 2419 0.040336 GCTTCGGATCAGCGACGATA 60.040 55.000 0.00 0.00 36.43 2.92
2415 2452 1.078848 GCCGATCAGTTCTGCCAGT 60.079 57.895 0.00 0.00 0.00 4.00
2583 2620 4.168291 GCTTCCTCTCGCCAGGGG 62.168 72.222 0.00 0.00 42.75 4.79
2589 2626 0.461693 AATCAGCAGCTTCCTCTCGC 60.462 55.000 0.00 0.00 0.00 5.03
2604 2641 1.629861 TCCTGCCATGACACAGAATCA 59.370 47.619 10.75 0.00 35.90 2.57
2661 2698 4.680237 CACTCGAGGTGCCCGCAA 62.680 66.667 18.41 0.00 39.22 4.85
2983 3020 2.097038 CCGTCTCGTAGTCCGACGT 61.097 63.158 9.70 0.00 46.45 4.34
3234 3271 0.038526 ACACGGCCAGTCTCGTAAAG 60.039 55.000 2.24 0.00 37.88 1.85
3301 3338 3.576004 GCAACTGAGCTGCTCTGG 58.424 61.111 31.23 24.02 36.84 3.86
3327 3364 3.582647 TCCTGAATGGAAGAGTACTGCAA 59.417 43.478 0.00 0.00 42.94 4.08
3367 3404 6.581171 AACTTCCAGACTGATTTCCAATTC 57.419 37.500 3.32 0.00 0.00 2.17
3368 3405 6.983906 AAACTTCCAGACTGATTTCCAATT 57.016 33.333 3.32 0.00 0.00 2.32
3369 3406 6.550854 TCAAAACTTCCAGACTGATTTCCAAT 59.449 34.615 3.32 0.00 0.00 3.16
3370 3407 5.890985 TCAAAACTTCCAGACTGATTTCCAA 59.109 36.000 3.32 0.00 0.00 3.53
3371 3408 5.445069 TCAAAACTTCCAGACTGATTTCCA 58.555 37.500 3.32 0.00 0.00 3.53
3372 3409 6.039829 AGTTCAAAACTTCCAGACTGATTTCC 59.960 38.462 3.32 0.00 39.04 3.13
3404 3446 4.524316 TCTGCAATTTCCAATTCCACAG 57.476 40.909 0.00 0.00 0.00 3.66
3432 3474 1.004745 CCATGGCTACCAGGTTTCACT 59.995 52.381 0.00 0.00 36.75 3.41
3456 3498 7.674937 GCAGTATGTACAAATAAGCAGTCACTG 60.675 40.741 0.00 0.00 39.31 3.66
3504 3546 4.280174 TGACTGAACACCTGAACTACCTAC 59.720 45.833 0.00 0.00 0.00 3.18
3524 3577 1.272769 ACCTCCGCTTGTTCTACTGAC 59.727 52.381 0.00 0.00 0.00 3.51
3589 3643 5.925969 CACCCAACAAATGAACTGATAAACC 59.074 40.000 0.00 0.00 0.00 3.27
3631 3685 1.286880 GCAACGACAGCAAGCCAAT 59.713 52.632 0.00 0.00 0.00 3.16
3713 3767 9.947669 CCAAAATTTAAAATGCAGTTGATTCAA 57.052 25.926 0.00 0.00 0.00 2.69
3714 3768 9.118300 ACCAAAATTTAAAATGCAGTTGATTCA 57.882 25.926 0.00 0.00 0.00 2.57
3715 3769 9.597999 GACCAAAATTTAAAATGCAGTTGATTC 57.402 29.630 0.00 0.00 0.00 2.52
3716 3770 8.281893 CGACCAAAATTTAAAATGCAGTTGATT 58.718 29.630 0.00 0.00 0.00 2.57
3717 3771 7.095271 CCGACCAAAATTTAAAATGCAGTTGAT 60.095 33.333 0.00 0.00 0.00 2.57
3718 3772 6.201806 CCGACCAAAATTTAAAATGCAGTTGA 59.798 34.615 0.00 0.00 0.00 3.18
3719 3773 6.018343 ACCGACCAAAATTTAAAATGCAGTTG 60.018 34.615 0.00 0.00 0.00 3.16
3720 3774 6.052360 ACCGACCAAAATTTAAAATGCAGTT 58.948 32.000 0.00 0.00 0.00 3.16
3721 3775 5.606505 ACCGACCAAAATTTAAAATGCAGT 58.393 33.333 0.00 0.00 0.00 4.40
3722 3776 5.164100 CGACCGACCAAAATTTAAAATGCAG 60.164 40.000 0.00 0.00 0.00 4.41
3723 3777 4.681942 CGACCGACCAAAATTTAAAATGCA 59.318 37.500 0.00 0.00 0.00 3.96
3724 3778 4.918583 TCGACCGACCAAAATTTAAAATGC 59.081 37.500 0.00 0.00 0.00 3.56
3725 3779 7.575332 AATCGACCGACCAAAATTTAAAATG 57.425 32.000 0.00 0.00 0.00 2.32
3726 3780 8.491950 CAAAATCGACCGACCAAAATTTAAAAT 58.508 29.630 0.00 0.00 0.00 1.82
3727 3781 7.491696 ACAAAATCGACCGACCAAAATTTAAAA 59.508 29.630 0.00 0.00 0.00 1.52
3728 3782 6.979238 ACAAAATCGACCGACCAAAATTTAAA 59.021 30.769 0.00 0.00 0.00 1.52
3729 3783 6.418226 CACAAAATCGACCGACCAAAATTTAA 59.582 34.615 0.00 0.00 0.00 1.52
3730 3784 5.915758 CACAAAATCGACCGACCAAAATTTA 59.084 36.000 0.00 0.00 0.00 1.40
3731 3785 4.742659 CACAAAATCGACCGACCAAAATTT 59.257 37.500 0.00 0.00 0.00 1.82
3732 3786 4.295051 CACAAAATCGACCGACCAAAATT 58.705 39.130 0.00 0.00 0.00 1.82
3733 3787 3.305064 CCACAAAATCGACCGACCAAAAT 60.305 43.478 0.00 0.00 0.00 1.82
3734 3788 2.033550 CCACAAAATCGACCGACCAAAA 59.966 45.455 0.00 0.00 0.00 2.44
3735 3789 1.604755 CCACAAAATCGACCGACCAAA 59.395 47.619 0.00 0.00 0.00 3.28
3736 3790 1.231221 CCACAAAATCGACCGACCAA 58.769 50.000 0.00 0.00 0.00 3.67
3737 3791 0.604243 CCCACAAAATCGACCGACCA 60.604 55.000 0.00 0.00 0.00 4.02
3738 3792 1.918868 GCCCACAAAATCGACCGACC 61.919 60.000 0.00 0.00 0.00 4.79
3739 3793 1.500396 GCCCACAAAATCGACCGAC 59.500 57.895 0.00 0.00 0.00 4.79
3740 3794 2.030401 CGCCCACAAAATCGACCGA 61.030 57.895 0.00 0.00 0.00 4.69
3741 3795 1.847890 AACGCCCACAAAATCGACCG 61.848 55.000 0.00 0.00 0.00 4.79
3742 3796 0.386731 CAACGCCCACAAAATCGACC 60.387 55.000 0.00 0.00 0.00 4.79
3743 3797 0.386731 CCAACGCCCACAAAATCGAC 60.387 55.000 0.00 0.00 0.00 4.20
3744 3798 0.535328 TCCAACGCCCACAAAATCGA 60.535 50.000 0.00 0.00 0.00 3.59
3745 3799 0.525761 ATCCAACGCCCACAAAATCG 59.474 50.000 0.00 0.00 0.00 3.34
3746 3800 1.543802 TGATCCAACGCCCACAAAATC 59.456 47.619 0.00 0.00 0.00 2.17
3747 3801 1.626686 TGATCCAACGCCCACAAAAT 58.373 45.000 0.00 0.00 0.00 1.82
3748 3802 1.271934 CATGATCCAACGCCCACAAAA 59.728 47.619 0.00 0.00 0.00 2.44
3749 3803 0.887247 CATGATCCAACGCCCACAAA 59.113 50.000 0.00 0.00 0.00 2.83
3750 3804 1.594194 GCATGATCCAACGCCCACAA 61.594 55.000 0.00 0.00 0.00 3.33
3751 3805 2.045708 GCATGATCCAACGCCCACA 61.046 57.895 0.00 0.00 0.00 4.17
3752 3806 1.315257 AAGCATGATCCAACGCCCAC 61.315 55.000 0.00 0.00 0.00 4.61
3753 3807 0.611618 AAAGCATGATCCAACGCCCA 60.612 50.000 0.00 0.00 0.00 5.36
3754 3808 0.532115 AAAAGCATGATCCAACGCCC 59.468 50.000 0.00 0.00 0.00 6.13
3755 3809 1.994779 CAAAAAGCATGATCCAACGCC 59.005 47.619 0.00 0.00 0.00 5.68
3756 3810 2.945278 TCAAAAAGCATGATCCAACGC 58.055 42.857 0.00 0.00 0.00 4.84
3757 3811 3.861113 CCATCAAAAAGCATGATCCAACG 59.139 43.478 0.00 0.00 35.38 4.10
3758 3812 4.628333 CACCATCAAAAAGCATGATCCAAC 59.372 41.667 0.00 0.00 35.38 3.77
3759 3813 4.322877 CCACCATCAAAAAGCATGATCCAA 60.323 41.667 0.00 0.00 35.38 3.53
3760 3814 3.196039 CCACCATCAAAAAGCATGATCCA 59.804 43.478 0.00 0.00 35.38 3.41
3761 3815 3.431207 CCCACCATCAAAAAGCATGATCC 60.431 47.826 0.00 0.00 35.38 3.36
3762 3816 3.431207 CCCCACCATCAAAAAGCATGATC 60.431 47.826 0.00 0.00 35.38 2.92
3763 3817 2.502538 CCCCACCATCAAAAAGCATGAT 59.497 45.455 0.00 0.00 38.02 2.45
3764 3818 1.901159 CCCCACCATCAAAAAGCATGA 59.099 47.619 0.00 0.00 0.00 3.07
3765 3819 1.901159 TCCCCACCATCAAAAAGCATG 59.099 47.619 0.00 0.00 0.00 4.06
3766 3820 2.181975 CTCCCCACCATCAAAAAGCAT 58.818 47.619 0.00 0.00 0.00 3.79
3767 3821 1.631405 CTCCCCACCATCAAAAAGCA 58.369 50.000 0.00 0.00 0.00 3.91
3768 3822 0.897621 CCTCCCCACCATCAAAAAGC 59.102 55.000 0.00 0.00 0.00 3.51
3769 3823 2.603075 TCCTCCCCACCATCAAAAAG 57.397 50.000 0.00 0.00 0.00 2.27
3770 3824 2.620367 CGATCCTCCCCACCATCAAAAA 60.620 50.000 0.00 0.00 0.00 1.94
3771 3825 1.064758 CGATCCTCCCCACCATCAAAA 60.065 52.381 0.00 0.00 0.00 2.44
3772 3826 0.546122 CGATCCTCCCCACCATCAAA 59.454 55.000 0.00 0.00 0.00 2.69
3773 3827 0.326143 TCGATCCTCCCCACCATCAA 60.326 55.000 0.00 0.00 0.00 2.57
3774 3828 0.760567 CTCGATCCTCCCCACCATCA 60.761 60.000 0.00 0.00 0.00 3.07
3775 3829 0.760945 ACTCGATCCTCCCCACCATC 60.761 60.000 0.00 0.00 0.00 3.51
3776 3830 1.050988 CACTCGATCCTCCCCACCAT 61.051 60.000 0.00 0.00 0.00 3.55
3777 3831 1.685765 CACTCGATCCTCCCCACCA 60.686 63.158 0.00 0.00 0.00 4.17
3778 3832 0.760945 ATCACTCGATCCTCCCCACC 60.761 60.000 0.00 0.00 0.00 4.61
3779 3833 0.676736 GATCACTCGATCCTCCCCAC 59.323 60.000 0.00 0.00 42.03 4.61
3780 3834 3.133437 GATCACTCGATCCTCCCCA 57.867 57.895 0.00 0.00 42.03 4.96
3804 3858 2.413837 GTCAGCTGGTACGAACACATT 58.586 47.619 15.13 0.00 0.00 2.71
3813 3867 1.376037 GTGCCAGGTCAGCTGGTAC 60.376 63.158 25.75 25.75 46.82 3.34
3842 3896 8.165239 TCTTTATGTTTGATGCTAAGTTGTGT 57.835 30.769 0.00 0.00 0.00 3.72
3845 3899 9.844790 TGATTCTTTATGTTTGATGCTAAGTTG 57.155 29.630 0.00 0.00 0.00 3.16
3869 3923 1.404717 GGATCTGCAAAGCGAGTCTGA 60.405 52.381 0.00 0.00 0.00 3.27
3875 3929 4.009675 AGTAATTTGGATCTGCAAAGCGA 58.990 39.130 3.32 0.00 0.00 4.93
3997 4053 1.202475 TGCCCCTGCTTTTTCGAAAAC 60.202 47.619 22.41 12.81 38.71 2.43
4083 4181 6.700960 TCGATTTTGTTCACATGCTCAAAAAT 59.299 30.769 16.00 11.55 41.07 1.82
4092 4190 4.984161 AGCCTTTTCGATTTTGTTCACATG 59.016 37.500 0.00 0.00 0.00 3.21
4252 4352 6.128145 TGTTCTGACTTTCGAAATGTGTTCAA 60.128 34.615 11.70 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.