Multiple sequence alignment - TraesCS6B01G193100

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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 TraesCS6B01G193100 chr6B 100.000 4298 0 0 1 4298 227638337 227642634 0.000000e+00 7938
1 TraesCS6B01G193100 chr6D 94.913 1494 64 5 1 1493 129483155 129484637 0.000000e+00 2327
2 TraesCS6B01G193100 chr6D 95.144 1318 44 8 1490 2792 129484702 129486014 0.000000e+00 2061
3 TraesCS6B01G193100 chr6D 91.150 904 34 16 2915 3805 129486144 129487014 0.000000e+00 1184
4 TraesCS6B01G193100 chr6D 89.276 373 23 8 3926 4298 129487028 129487383 6.550000e-123 451
5 TraesCS6B01G193100 chr6A 92.696 1506 85 16 1 1493 166979018 166980511 0.000000e+00 2148
6 TraesCS6B01G193100 chr6A 95.747 1058 39 6 1738 2792 166980849 166981903 0.000000e+00 1700
7 TraesCS6B01G193100 chr6A 91.510 907 41 15 2915 3805 166982021 166982907 0.000000e+00 1216
8 TraesCS6B01G193100 chr6A 87.399 373 28 5 3926 4298 166982918 166983271 1.110000e-110 411
9 TraesCS6B01G193100 chr4B 95.536 112 4 1 3808 3919 575293485 575293595 1.230000e-40 178
10 TraesCS6B01G193100 chr5B 94.690 113 5 1 3811 3923 645367016 645367127 1.590000e-39 174
11 TraesCS6B01G193100 chr5B 94.643 112 5 1 3808 3919 534095037 534095147 5.710000e-39 172
12 TraesCS6B01G193100 chr5B 94.643 112 5 1 3808 3919 690809750 690809860 5.710000e-39 172
13 TraesCS6B01G193100 chr7B 94.643 112 5 1 3808 3919 252672994 252673104 5.710000e-39 172
14 TraesCS6B01G193100 chr7B 94.643 112 5 1 3808 3919 664227453 664227343 5.710000e-39 172
15 TraesCS6B01G193100 chr3B 94.643 112 5 1 3808 3919 361912367 361912257 5.710000e-39 172
16 TraesCS6B01G193100 chr2B 94.643 112 5 1 3808 3919 504661334 504661224 5.710000e-39 172
17 TraesCS6B01G193100 chr1B 94.643 112 5 1 3808 3919 640815115 640815005 5.710000e-39 172


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 TraesCS6B01G193100 chr6B 227638337 227642634 4297 False 7938.00 7938 100.00000 1 4298 1 chr6B.!!$F1 4297
1 TraesCS6B01G193100 chr6D 129483155 129487383 4228 False 1505.75 2327 92.62075 1 4298 4 chr6D.!!$F1 4297
2 TraesCS6B01G193100 chr6A 166979018 166983271 4253 False 1368.75 2148 91.83800 1 4298 4 chr6A.!!$F1 4297

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
725 753 1.326951 TGGCATGATGCTGCATTGCT 61.327 50.0 28.36 11.50 44.28 3.91 F
1155 1183 0.827507 TGGTGAAGCAGCTTTTCCCC 60.828 55.0 20.03 13.56 32.61 4.81 F
2771 2954 0.669625 GACGGTTAGTGCCACTCACC 60.670 60.0 16.67 16.67 46.81 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2578 2761 1.134759 GCTGCTGCATCTTCTCTCAGA 60.135 52.381 11.11 0.0 39.41 3.27 R
2838 3021 0.180406 GATGACCCAGGTGGCGTTAT 59.820 55.000 0.00 0.0 37.83 1.89 R
4264 4513 0.247736 GCCTTCGTCAGACAGGTGAT 59.752 55.000 8.41 0.0 31.58 3.06 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
34 35 2.026641 TGTACGATACCTTTCTCCCCG 58.973 52.381 0.00 0.00 0.00 5.73
82 88 5.915196 CCAAAAAGAACTCGTTCCAAATCTC 59.085 40.000 6.20 0.00 40.33 2.75
279 299 1.750682 GCCTCCACCTCTCTCTCTCTC 60.751 61.905 0.00 0.00 0.00 3.20
280 300 1.846439 CCTCCACCTCTCTCTCTCTCT 59.154 57.143 0.00 0.00 0.00 3.10
443 470 2.251893 CCGTCGTGCTTCTTAAGAGAC 58.748 52.381 5.12 8.28 0.00 3.36
475 502 4.160635 GTCGGTTCGGGCATTGCG 62.161 66.667 1.91 0.00 0.00 4.85
503 530 3.004951 CCAGCTGGATTCCTGGCT 58.995 61.111 29.88 14.81 41.86 4.75
585 612 1.374758 GGTGTCTGCCCTGTCGAAG 60.375 63.158 0.00 0.00 0.00 3.79
586 613 1.374758 GTGTCTGCCCTGTCGAAGG 60.375 63.158 6.66 6.66 46.94 3.46
633 661 1.755380 CCTCGATTAGGTCCGTTCCTT 59.245 52.381 1.09 0.00 40.94 3.36
660 688 4.379813 CGGACATGCTGCTTTTAGTTGATT 60.380 41.667 0.00 0.00 0.00 2.57
704 732 5.248248 TGTGGTCCTTGAATCTCAATGTCTA 59.752 40.000 0.00 0.00 35.59 2.59
725 753 1.326951 TGGCATGATGCTGCATTGCT 61.327 50.000 28.36 11.50 44.28 3.91
732 760 3.145551 GCTGCATTGCTCTGGGGG 61.146 66.667 10.49 0.00 0.00 5.40
768 796 2.304470 TGTGTTTCTAGTGGGCTATGCA 59.696 45.455 0.00 0.00 0.00 3.96
771 799 3.947196 TGTTTCTAGTGGGCTATGCATTG 59.053 43.478 3.54 3.55 0.00 2.82
784 812 6.767423 GGGCTATGCATTGTATCCAAAAATTT 59.233 34.615 3.54 0.00 33.44 1.82
896 924 3.085443 ACTTCTCGGAATATGCTGACG 57.915 47.619 0.00 0.00 0.00 4.35
1149 1177 0.990374 AGAGGATGGTGAAGCAGCTT 59.010 50.000 7.60 7.60 32.61 3.74
1155 1183 0.827507 TGGTGAAGCAGCTTTTCCCC 60.828 55.000 20.03 13.56 32.61 4.81
1236 1264 4.164221 TGGGAGACAAAGAACTCTTGTCTT 59.836 41.667 16.84 4.22 40.70 3.01
1495 1593 9.978044 GGATCTATAAACCGGTGTATATATTCC 57.022 37.037 22.25 21.45 0.00 3.01
1581 1682 6.952773 AGTTTGGTGACATTTAGCTTTGTA 57.047 33.333 0.00 0.00 42.32 2.41
1583 1684 7.777095 AGTTTGGTGACATTTAGCTTTGTAAA 58.223 30.769 0.00 0.00 42.32 2.01
1584 1685 8.254508 AGTTTGGTGACATTTAGCTTTGTAAAA 58.745 29.630 0.00 0.00 42.32 1.52
1616 1717 1.660333 GGAAAACGTGAGAGCTTTGCG 60.660 52.381 0.00 0.00 0.00 4.85
1623 1724 1.532868 GTGAGAGCTTTGCGTGTTGAT 59.467 47.619 0.00 0.00 0.00 2.57
1639 1740 5.281376 CGTGTTGATTCATTTAGCTTTGTCG 59.719 40.000 0.00 0.00 0.00 4.35
1652 1753 2.413371 GCTTTGTCGCCTCATTTCAGAC 60.413 50.000 0.00 0.00 0.00 3.51
1703 1805 8.680903 CAGCAATTCAACTTTCCATCTACTATT 58.319 33.333 0.00 0.00 0.00 1.73
1736 1848 7.693969 ATGGTGAGAGTTTTAGAATTTCTGG 57.306 36.000 9.22 0.00 0.00 3.86
1759 1939 7.140048 TGGTTTCATAATGTAACGTGTTTTCC 58.860 34.615 0.00 0.00 29.81 3.13
1799 1979 7.036996 TGTGTTGATGCTATGTTTTTCTTGA 57.963 32.000 0.00 0.00 0.00 3.02
1826 2006 9.490379 AAGTTCTCACTACGATTGTTTTCTTAT 57.510 29.630 0.00 0.00 30.68 1.73
2013 2193 4.974645 TGAGAGGTGAGGTTTGTACAAT 57.025 40.909 9.56 0.00 0.00 2.71
2040 2220 4.857037 GGTACCTTGCATTTTTGTCGATTC 59.143 41.667 4.06 0.00 0.00 2.52
2055 2235 2.501316 TCGATTCTCAATCTTCCTGGCA 59.499 45.455 0.00 0.00 35.73 4.92
2056 2236 3.055167 TCGATTCTCAATCTTCCTGGCAA 60.055 43.478 0.00 0.00 35.73 4.52
2188 2368 2.033065 CACTATTGATGAAGCTCGCAGC 60.033 50.000 0.00 0.00 42.84 5.25
2263 2443 3.134458 GCTCAGCATGGGTATGTACTTC 58.866 50.000 0.00 0.00 40.30 3.01
2297 2478 1.280421 GGAGTCCTTGCTTGTCTCCAT 59.720 52.381 0.41 0.00 42.72 3.41
2433 2615 6.338214 TGCCAGTTGTTTTCATAAGCATTA 57.662 33.333 0.00 0.00 33.48 1.90
2530 2713 1.199327 CTTGCTCCACATTCTGCTGTG 59.801 52.381 0.00 0.00 44.92 3.66
2649 2832 2.513666 TGCGGCATCCGGAATCAC 60.514 61.111 9.01 0.00 45.82 3.06
2719 2902 1.829222 GTCACTCGATTTCCCCTACCA 59.171 52.381 0.00 0.00 0.00 3.25
2752 2935 1.522258 GCTGTCATTTTTGTTGGTGCG 59.478 47.619 0.00 0.00 0.00 5.34
2764 2947 3.116531 GGTGCGACGGTTAGTGCC 61.117 66.667 0.00 0.00 0.00 5.01
2771 2954 0.669625 GACGGTTAGTGCCACTCACC 60.670 60.000 16.67 16.67 46.81 4.02
2776 2959 2.572290 GTTAGTGCCACTCACCTGTTT 58.428 47.619 0.00 0.00 46.81 2.83
2787 2970 5.710099 CCACTCACCTGTTTTGTACCATATT 59.290 40.000 0.00 0.00 0.00 1.28
2788 2971 6.882140 CCACTCACCTGTTTTGTACCATATTA 59.118 38.462 0.00 0.00 0.00 0.98
2789 2972 7.556275 CCACTCACCTGTTTTGTACCATATTAT 59.444 37.037 0.00 0.00 0.00 1.28
2790 2973 9.607988 CACTCACCTGTTTTGTACCATATTATA 57.392 33.333 0.00 0.00 0.00 0.98
2855 3038 1.502690 ATATAACGCCACCTGGGTCA 58.497 50.000 0.00 0.00 39.59 4.02
2859 3042 1.779061 AACGCCACCTGGGTCATCTT 61.779 55.000 0.00 0.00 39.59 2.40
2863 3046 1.272147 GCCACCTGGGTCATCTTCTTT 60.272 52.381 0.00 0.00 39.65 2.52
2870 3053 3.754965 TGGGTCATCTTCTTTCAACCTG 58.245 45.455 0.00 0.00 0.00 4.00
2871 3054 2.489722 GGGTCATCTTCTTTCAACCTGC 59.510 50.000 0.00 0.00 0.00 4.85
2893 3076 7.502895 CCTGCTAGGTAGATTTCTTACAGAGTA 59.497 40.741 0.00 0.00 0.00 2.59
2894 3077 8.223177 TGCTAGGTAGATTTCTTACAGAGTAC 57.777 38.462 0.00 0.00 0.00 2.73
2895 3078 7.284944 TGCTAGGTAGATTTCTTACAGAGTACC 59.715 40.741 0.00 0.00 0.00 3.34
2912 3095 4.511527 AGTACCATCTCACAATCAGCTTG 58.488 43.478 0.00 0.00 40.90 4.01
2926 3155 4.277257 TCAGCTTGCATTATTTACAGCG 57.723 40.909 0.00 0.00 0.00 5.18
2980 3209 5.396484 CATCAGTTTTGTTGTAGCATGAGG 58.604 41.667 0.00 0.00 0.00 3.86
2996 3225 3.238788 TGAGGGTTATCCGAGCTGATA 57.761 47.619 0.00 0.00 41.52 2.15
3003 3232 6.080173 GGGTTATCCGAGCTGATACATTCAG 61.080 48.000 0.00 0.00 43.72 3.02
3034 3263 4.318332 CACACCTCTGTTCATTAGCTTGA 58.682 43.478 0.00 0.00 0.00 3.02
3062 3298 2.820059 TCTGTGCTCTGTAGTGTTGG 57.180 50.000 0.00 0.00 0.00 3.77
3171 3417 5.562307 CGGTTATATTCCTAGACACTCGGTG 60.562 48.000 0.00 2.92 39.75 4.94
3276 3522 1.154225 GTTTCGCAAGGCCATCGTG 60.154 57.895 5.01 0.00 38.47 4.35
3294 3540 2.419990 CGTGGATGCCCTTGACAGATTA 60.420 50.000 0.00 0.00 0.00 1.75
3303 3549 4.137543 CCCTTGACAGATTATAACAGGGC 58.862 47.826 0.00 0.00 0.00 5.19
3324 3570 2.936498 CGATTCTTGTGTACCCATGGTC 59.064 50.000 11.73 1.38 37.09 4.02
3325 3571 3.618752 CGATTCTTGTGTACCCATGGTCA 60.619 47.826 11.73 4.21 37.09 4.02
3326 3572 3.417069 TTCTTGTGTACCCATGGTCAG 57.583 47.619 11.73 0.00 37.09 3.51
3327 3573 1.628340 TCTTGTGTACCCATGGTCAGG 59.372 52.381 11.73 0.00 37.09 3.86
3344 3590 4.331968 GTCAGGGATACACACCAATTGAA 58.668 43.478 7.12 0.00 39.74 2.69
3346 3592 4.042809 TCAGGGATACACACCAATTGAACT 59.957 41.667 7.12 0.00 39.74 3.01
3356 3602 2.555757 ACCAATTGAACTCTGCAAGCTC 59.444 45.455 7.12 0.00 0.00 4.09
3357 3603 2.555325 CCAATTGAACTCTGCAAGCTCA 59.445 45.455 7.12 0.00 0.00 4.26
3358 3604 3.192844 CCAATTGAACTCTGCAAGCTCAT 59.807 43.478 7.12 0.00 0.00 2.90
3359 3605 4.166523 CAATTGAACTCTGCAAGCTCATG 58.833 43.478 0.00 0.00 0.00 3.07
3361 3607 2.420642 TGAACTCTGCAAGCTCATGAC 58.579 47.619 0.00 0.00 0.00 3.06
3362 3608 1.392853 GAACTCTGCAAGCTCATGACG 59.607 52.381 0.00 0.00 0.00 4.35
3363 3609 0.390866 ACTCTGCAAGCTCATGACGG 60.391 55.000 0.00 0.00 0.00 4.79
3364 3610 0.108472 CTCTGCAAGCTCATGACGGA 60.108 55.000 0.00 0.00 0.00 4.69
3365 3611 0.538584 TCTGCAAGCTCATGACGGAT 59.461 50.000 0.00 0.00 0.00 4.18
3371 3617 1.590932 AGCTCATGACGGATTGCATC 58.409 50.000 5.32 0.00 0.00 3.91
3386 3632 6.470235 CGGATTGCATCTCTTGTTGTATTTTC 59.530 38.462 0.00 0.00 0.00 2.29
3389 3635 9.415544 GATTGCATCTCTTGTTGTATTTTCTTT 57.584 29.630 0.00 0.00 0.00 2.52
3390 3636 9.768662 ATTGCATCTCTTGTTGTATTTTCTTTT 57.231 25.926 0.00 0.00 0.00 2.27
3469 3715 2.887151 AACAAGTGGGAGAATGAGGG 57.113 50.000 0.00 0.00 0.00 4.30
3613 3860 4.609947 CAGAGTCAGTCTAGCATAGCAAG 58.390 47.826 0.00 0.00 38.99 4.01
3620 3867 2.349886 GTCTAGCATAGCAAGCACACAC 59.650 50.000 0.00 0.00 38.99 3.82
3630 3877 4.326826 AGCAAGCACACACATTACAGTAT 58.673 39.130 0.00 0.00 0.00 2.12
3680 3929 2.969443 ATTGTCAGCTGCACGTTAAC 57.031 45.000 9.47 0.04 0.00 2.01
3691 3940 4.025145 GCTGCACGTTAACACTTACTCTTT 60.025 41.667 6.39 0.00 0.00 2.52
3692 3941 5.176223 GCTGCACGTTAACACTTACTCTTTA 59.824 40.000 6.39 0.00 0.00 1.85
3693 3942 6.128634 GCTGCACGTTAACACTTACTCTTTAT 60.129 38.462 6.39 0.00 0.00 1.40
3694 3943 7.062605 GCTGCACGTTAACACTTACTCTTTATA 59.937 37.037 6.39 0.00 0.00 0.98
3695 3944 8.991243 TGCACGTTAACACTTACTCTTTATAT 57.009 30.769 6.39 0.00 0.00 0.86
3796 4045 5.929992 TGACCTCTACGTGAAAACCTAATTG 59.070 40.000 0.00 0.00 0.00 2.32
3805 4054 8.441312 ACGTGAAAACCTAATTGTCTTTTCTA 57.559 30.769 13.22 3.36 34.87 2.10
3806 4055 8.895737 ACGTGAAAACCTAATTGTCTTTTCTAA 58.104 29.630 13.22 0.00 34.87 2.10
3817 4066 8.713737 AATTGTCTTTTCTAATACGTACTCCC 57.286 34.615 0.00 0.00 0.00 4.30
3818 4067 7.472334 TTGTCTTTTCTAATACGTACTCCCT 57.528 36.000 0.00 0.00 0.00 4.20
3819 4068 7.093322 TGTCTTTTCTAATACGTACTCCCTC 57.907 40.000 0.00 0.00 0.00 4.30
3820 4069 6.096001 TGTCTTTTCTAATACGTACTCCCTCC 59.904 42.308 0.00 0.00 0.00 4.30
3821 4070 5.297776 TCTTTTCTAATACGTACTCCCTCCG 59.702 44.000 0.00 0.00 0.00 4.63
3822 4071 3.845781 TCTAATACGTACTCCCTCCGT 57.154 47.619 0.00 0.00 38.53 4.69
3823 4072 3.733337 TCTAATACGTACTCCCTCCGTC 58.267 50.000 0.00 0.00 36.12 4.79
3824 4073 1.685148 AATACGTACTCCCTCCGTCC 58.315 55.000 0.00 0.00 36.12 4.79
3825 4074 0.533755 ATACGTACTCCCTCCGTCCG 60.534 60.000 0.00 0.00 36.12 4.79
3826 4075 1.613317 TACGTACTCCCTCCGTCCGA 61.613 60.000 0.00 0.00 36.12 4.55
3827 4076 1.746615 CGTACTCCCTCCGTCCGAA 60.747 63.158 0.00 0.00 0.00 4.30
3828 4077 1.308069 CGTACTCCCTCCGTCCGAAA 61.308 60.000 0.00 0.00 0.00 3.46
3829 4078 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
3830 4079 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
3831 4080 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
3832 4081 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
3833 4082 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
3834 4083 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
3835 4084 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
3836 4085 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
3837 4086 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
3838 4087 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
3839 4088 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
3840 4089 4.571919 TCCGTCCGAAAATACTTGTCATT 58.428 39.130 0.00 0.00 0.00 2.57
3841 4090 4.390603 TCCGTCCGAAAATACTTGTCATTG 59.609 41.667 0.00 0.00 0.00 2.82
3842 4091 4.390603 CCGTCCGAAAATACTTGTCATTGA 59.609 41.667 0.00 0.00 0.00 2.57
3843 4092 5.106869 CCGTCCGAAAATACTTGTCATTGAA 60.107 40.000 0.00 0.00 0.00 2.69
3844 4093 6.367421 CGTCCGAAAATACTTGTCATTGAAA 58.633 36.000 0.00 0.00 0.00 2.69
3845 4094 7.021196 CGTCCGAAAATACTTGTCATTGAAAT 58.979 34.615 0.00 0.00 0.00 2.17
3846 4095 8.172484 CGTCCGAAAATACTTGTCATTGAAATA 58.828 33.333 0.00 0.00 0.00 1.40
3847 4096 9.490663 GTCCGAAAATACTTGTCATTGAAATAG 57.509 33.333 0.00 0.00 0.00 1.73
3848 4097 9.443323 TCCGAAAATACTTGTCATTGAAATAGA 57.557 29.630 0.00 0.00 0.00 1.98
3904 4153 9.616634 CATCCATTTTGATGATAAGTATTTCCG 57.383 33.333 0.00 0.00 43.94 4.30
3905 4154 8.165239 TCCATTTTGATGATAAGTATTTCCGG 57.835 34.615 0.00 0.00 0.00 5.14
3906 4155 7.996066 TCCATTTTGATGATAAGTATTTCCGGA 59.004 33.333 0.00 0.00 0.00 5.14
3907 4156 8.076178 CCATTTTGATGATAAGTATTTCCGGAC 58.924 37.037 1.83 0.00 0.00 4.79
3908 4157 8.620416 CATTTTGATGATAAGTATTTCCGGACA 58.380 33.333 1.83 0.00 0.00 4.02
3909 4158 7.786178 TTTGATGATAAGTATTTCCGGACAG 57.214 36.000 1.83 0.00 0.00 3.51
3910 4159 6.724893 TGATGATAAGTATTTCCGGACAGA 57.275 37.500 1.83 0.00 0.00 3.41
3911 4160 6.749139 TGATGATAAGTATTTCCGGACAGAG 58.251 40.000 1.83 0.00 0.00 3.35
3912 4161 5.531122 TGATAAGTATTTCCGGACAGAGG 57.469 43.478 1.83 0.00 0.00 3.69
3913 4162 4.344102 TGATAAGTATTTCCGGACAGAGGG 59.656 45.833 1.83 0.00 0.00 4.30
3914 4163 2.544844 AGTATTTCCGGACAGAGGGA 57.455 50.000 1.83 0.00 0.00 4.20
3915 4164 2.389715 AGTATTTCCGGACAGAGGGAG 58.610 52.381 1.83 0.00 33.01 4.30
3916 4165 2.108970 GTATTTCCGGACAGAGGGAGT 58.891 52.381 1.83 0.00 33.01 3.85
3917 4166 2.544844 ATTTCCGGACAGAGGGAGTA 57.455 50.000 1.83 0.00 33.01 2.59
3918 4167 2.544844 TTTCCGGACAGAGGGAGTAT 57.455 50.000 1.83 0.00 33.01 2.12
3919 4168 1.776662 TTCCGGACAGAGGGAGTATG 58.223 55.000 1.83 0.00 33.01 2.39
3920 4169 0.629596 TCCGGACAGAGGGAGTATGT 59.370 55.000 0.00 0.00 31.51 2.29
3921 4170 1.006758 TCCGGACAGAGGGAGTATGTT 59.993 52.381 0.00 0.00 27.90 2.71
3922 4171 1.137086 CCGGACAGAGGGAGTATGTTG 59.863 57.143 0.00 0.00 27.90 3.33
3923 4172 1.471676 CGGACAGAGGGAGTATGTTGC 60.472 57.143 0.00 0.00 27.90 4.17
3924 4173 1.555075 GGACAGAGGGAGTATGTTGCA 59.445 52.381 0.00 0.00 27.90 4.08
3968 4217 1.341531 GCTAGGTGACGATGTAGGCAT 59.658 52.381 0.00 0.00 38.18 4.40
3974 4223 3.627577 GGTGACGATGTAGGCATGATTTT 59.372 43.478 0.00 0.00 35.07 1.82
4176 4425 2.012237 CGTCTGCCTGCATCATCAC 58.988 57.895 0.00 0.00 0.00 3.06
4177 4426 0.741927 CGTCTGCCTGCATCATCACA 60.742 55.000 0.00 0.00 0.00 3.58
4178 4427 1.676746 GTCTGCCTGCATCATCACAT 58.323 50.000 0.00 0.00 0.00 3.21
4179 4428 1.602851 GTCTGCCTGCATCATCACATC 59.397 52.381 0.00 0.00 0.00 3.06
4180 4429 1.210967 TCTGCCTGCATCATCACATCA 59.789 47.619 0.00 0.00 0.00 3.07
4190 4439 5.823570 TGCATCATCACATCACATCACATAA 59.176 36.000 0.00 0.00 0.00 1.90
4201 4450 5.436410 TCACATCACATAACAAACGAAACG 58.564 37.500 0.00 0.00 0.00 3.60
4202 4451 5.234543 TCACATCACATAACAAACGAAACGA 59.765 36.000 0.00 0.00 0.00 3.85
4203 4452 5.904630 CACATCACATAACAAACGAAACGAA 59.095 36.000 0.00 0.00 0.00 3.85
4204 4453 6.412362 CACATCACATAACAAACGAAACGAAA 59.588 34.615 0.00 0.00 0.00 3.46
4205 4454 6.412653 ACATCACATAACAAACGAAACGAAAC 59.587 34.615 0.00 0.00 0.00 2.78
4215 4464 4.385244 ACGAAACGAAACAGTTATCAGC 57.615 40.909 0.00 0.00 33.41 4.26
4252 4501 1.587034 GCGTAAATCACTCGTGTAGGC 59.413 52.381 0.00 0.00 0.00 3.93
4254 4503 1.587034 GTAAATCACTCGTGTAGGCGC 59.413 52.381 0.00 0.00 0.00 6.53
4261 4510 2.486504 CGTGTAGGCGCGGTCTAA 59.513 61.111 8.83 0.00 44.04 2.10
4262 4511 1.065273 CGTGTAGGCGCGGTCTAAT 59.935 57.895 8.83 0.00 44.04 1.73
4263 4512 0.933509 CGTGTAGGCGCGGTCTAATC 60.934 60.000 8.83 0.00 44.04 1.75
4264 4513 0.101759 GTGTAGGCGCGGTCTAATCA 59.898 55.000 8.83 0.00 0.00 2.57
4265 4514 1.037493 TGTAGGCGCGGTCTAATCAT 58.963 50.000 8.83 0.00 0.00 2.45
4284 4533 0.827925 TCACCTGTCTGACGAAGGCT 60.828 55.000 12.68 0.00 34.18 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 2.424956 GGAGAAAGGTATCGTACACGGT 59.575 50.000 1.39 0.00 40.29 4.83
19 20 0.032267 CGAGCGGGGAGAAAGGTATC 59.968 60.000 0.00 0.00 0.00 2.24
100 106 4.096003 ATTCTCGCCGGGTGTGGG 62.096 66.667 2.18 0.02 0.00 4.61
202 221 2.520741 GAGGAGGAGGAGGCGAGG 60.521 72.222 0.00 0.00 0.00 4.63
213 232 2.146061 GGGCAGATGGAGGAGGAGG 61.146 68.421 0.00 0.00 0.00 4.30
214 233 2.146061 GGGGCAGATGGAGGAGGAG 61.146 68.421 0.00 0.00 0.00 3.69
215 234 2.040464 GGGGCAGATGGAGGAGGA 60.040 66.667 0.00 0.00 0.00 3.71
482 509 1.302285 CAGGAATCCAGCTGGCTGT 59.698 57.895 28.91 15.02 42.15 4.40
487 514 1.035932 CCAAGCCAGGAATCCAGCTG 61.036 60.000 16.06 6.78 35.93 4.24
503 530 6.220930 GGCGTCACATCTAATAAGTATCCAA 58.779 40.000 0.00 0.00 0.00 3.53
585 612 6.328641 TCTGTAAGATAATTACTCGAGGCC 57.671 41.667 18.41 0.00 38.67 5.19
633 661 1.462731 AAAAGCAGCATGTCCGCCAA 61.463 50.000 0.00 0.00 39.31 4.52
641 669 4.628333 CCCAAATCAACTAAAAGCAGCATG 59.372 41.667 0.00 0.00 40.87 4.06
660 688 3.769844 ACAACCACATTACACAAACCCAA 59.230 39.130 0.00 0.00 0.00 4.12
704 732 1.810031 GCAATGCAGCATCATGCCATT 60.810 47.619 17.99 7.15 46.52 3.16
732 760 7.824779 ACTAGAAACACAACTATGGAAGGAATC 59.175 37.037 0.00 0.00 0.00 2.52
784 812 7.817418 AAAATGAAGCAAGACCACTAGTTTA 57.183 32.000 0.00 0.00 0.00 2.01
795 823 8.143193 TGAAAGCAAGAATAAAATGAAGCAAGA 58.857 29.630 0.00 0.00 0.00 3.02
826 854 2.731572 CAGGAGAATGGTTTCCAGCAT 58.268 47.619 0.00 0.00 43.24 3.79
827 855 1.887956 GCAGGAGAATGGTTTCCAGCA 60.888 52.381 3.43 0.00 43.26 4.41
910 938 2.237393 TGCCTGCACCAACAAAATTC 57.763 45.000 0.00 0.00 0.00 2.17
1053 1081 0.888619 TCGTGCGATGAAGGAGAGTT 59.111 50.000 0.00 0.00 0.00 3.01
1149 1177 1.901464 GCAAGGTGCTTCGGGGAAA 60.901 57.895 0.00 0.00 40.96 3.13
1155 1183 0.886490 AGTTCTGGCAAGGTGCTTCG 60.886 55.000 0.00 0.00 44.28 3.79
1236 1264 0.828762 TCCGGAAAACACCCTCTCGA 60.829 55.000 0.00 0.00 0.00 4.04
1447 1475 5.186797 TCCCGCCAAACATTAATTCAAAGAT 59.813 36.000 0.00 0.00 0.00 2.40
1591 1692 1.822990 AGCTCTCACGTTTTCCGGATA 59.177 47.619 4.15 0.00 42.24 2.59
1595 1696 1.660333 GCAAAGCTCTCACGTTTTCCG 60.660 52.381 0.00 0.00 44.03 4.30
1604 1705 1.882912 ATCAACACGCAAAGCTCTCA 58.117 45.000 0.00 0.00 0.00 3.27
1605 1706 2.224079 TGAATCAACACGCAAAGCTCTC 59.776 45.455 0.00 0.00 0.00 3.20
1616 1717 5.059710 GCGACAAAGCTAAATGAATCAACAC 59.940 40.000 0.00 0.00 0.00 3.32
1623 1724 3.407698 TGAGGCGACAAAGCTAAATGAA 58.592 40.909 0.00 0.00 37.29 2.57
1639 1740 3.614092 TGATTCTGGTCTGAAATGAGGC 58.386 45.455 0.00 0.00 0.00 4.70
1652 1753 6.238593 GCATTTTAGAAGCCTACTGATTCTGG 60.239 42.308 3.16 0.00 35.09 3.86
1736 1848 7.988547 GTGGAAAACACGTTACATTATGAAAC 58.011 34.615 0.00 0.00 40.85 2.78
1759 1939 5.761003 TCAACACAATCATGCTTGTTAGTG 58.239 37.500 12.11 10.30 37.25 2.74
1799 1979 7.787725 AGAAAACAATCGTAGTGAGAACTTT 57.212 32.000 0.00 0.00 0.00 2.66
1826 2006 5.523588 AGAACTGGAGATCATCTCAGGTAA 58.476 41.667 16.76 0.00 45.12 2.85
1894 2074 6.127730 CCGGTGCCTAAAATATTGAAGAAAGT 60.128 38.462 0.00 0.00 0.00 2.66
1955 2135 6.095377 GCAATATTGTCCTTCAAAAGAGGTG 58.905 40.000 16.61 0.00 39.62 4.00
2013 2193 4.083565 GACAAAAATGCAAGGTACCCCTA 58.916 43.478 8.74 0.00 41.56 3.53
2040 2220 3.439476 CAGTTCTTGCCAGGAAGATTGAG 59.561 47.826 2.25 0.00 31.98 3.02
2055 2235 8.963725 TGCATTTCATTTGAGATATCAGTTCTT 58.036 29.630 5.32 0.00 0.00 2.52
2056 2236 8.515695 TGCATTTCATTTGAGATATCAGTTCT 57.484 30.769 5.32 0.00 0.00 3.01
2188 2368 2.171448 AGCCTGCAACCAGTATAAGAGG 59.829 50.000 0.00 0.00 37.38 3.69
2433 2615 5.706369 TGTACACCGCCTGTTATTAACAAAT 59.294 36.000 10.32 0.00 41.61 2.32
2530 2713 4.353383 AAGTCCTTCACAGAAAGGTACC 57.647 45.455 2.73 2.73 45.16 3.34
2578 2761 1.134759 GCTGCTGCATCTTCTCTCAGA 60.135 52.381 11.11 0.00 39.41 3.27
2644 2827 6.265196 TGTCTTTTACTTGCTCAATGGTGATT 59.735 34.615 0.00 0.00 31.85 2.57
2649 2832 5.947228 TCTGTCTTTTACTTGCTCAATGG 57.053 39.130 0.00 0.00 0.00 3.16
2719 2902 2.957402 TGACAGCCTGTGGATTCTTT 57.043 45.000 0.00 0.00 0.00 2.52
2752 2935 0.669625 GGTGAGTGGCACTAACCGTC 60.670 60.000 33.16 14.97 39.83 4.79
2828 3011 8.967779 ACCCAGGTGGCGTTATATATATATAT 57.032 34.615 17.37 17.37 37.83 0.86
2831 3014 6.196434 TGACCCAGGTGGCGTTATATATATA 58.804 40.000 0.00 0.00 37.83 0.86
2834 3017 3.244582 TGACCCAGGTGGCGTTATATAT 58.755 45.455 0.00 0.00 37.83 0.86
2836 3019 1.502690 TGACCCAGGTGGCGTTATAT 58.497 50.000 0.00 0.00 37.83 0.86
2837 3020 1.414919 GATGACCCAGGTGGCGTTATA 59.585 52.381 0.00 0.00 37.83 0.98
2838 3021 0.180406 GATGACCCAGGTGGCGTTAT 59.820 55.000 0.00 0.00 37.83 1.89
2842 3025 1.450312 GAAGATGACCCAGGTGGCG 60.450 63.158 0.00 0.00 37.83 5.69
2845 3028 3.423539 TGAAAGAAGATGACCCAGGTG 57.576 47.619 0.00 0.00 0.00 4.00
2863 3046 7.363880 CTGTAAGAAATCTACCTAGCAGGTTGA 60.364 40.741 16.86 16.86 41.35 3.18
2870 3053 7.284944 TGGTACTCTGTAAGAAATCTACCTAGC 59.715 40.741 0.00 0.00 46.34 3.42
2871 3054 8.749026 TGGTACTCTGTAAGAAATCTACCTAG 57.251 38.462 0.00 0.00 46.34 3.02
2884 3067 6.628175 GCTGATTGTGAGATGGTACTCTGTAA 60.628 42.308 0.00 0.00 37.73 2.41
2893 3076 2.089980 GCAAGCTGATTGTGAGATGGT 58.910 47.619 7.54 0.00 41.29 3.55
2894 3077 2.089201 TGCAAGCTGATTGTGAGATGG 58.911 47.619 7.54 0.00 41.29 3.51
2895 3078 4.371855 AATGCAAGCTGATTGTGAGATG 57.628 40.909 7.54 0.00 41.29 2.90
2912 3095 6.020678 CACTTTTTAGGCGCTGTAAATAATGC 60.021 38.462 7.64 0.00 0.00 3.56
2962 3191 4.584327 AACCCTCATGCTACAACAAAAC 57.416 40.909 0.00 0.00 0.00 2.43
2969 3198 2.628178 CTCGGATAACCCTCATGCTACA 59.372 50.000 0.00 0.00 0.00 2.74
2980 3209 4.883083 TGAATGTATCAGCTCGGATAACC 58.117 43.478 0.00 0.00 31.90 2.85
2996 3225 3.265221 AGGTGTGGATGATCACTGAATGT 59.735 43.478 0.00 0.00 38.40 2.71
3003 3232 3.265791 GAACAGAGGTGTGGATGATCAC 58.734 50.000 0.00 0.00 36.84 3.06
3034 3263 6.071108 ACACTACAGAGCACAGATTACAGAAT 60.071 38.462 0.00 0.00 0.00 2.40
3087 3323 5.648092 GGAACCAAGCTTCAATAGTACACAT 59.352 40.000 0.00 0.00 0.00 3.21
3088 3324 5.001232 GGAACCAAGCTTCAATAGTACACA 58.999 41.667 0.00 0.00 0.00 3.72
3089 3325 5.001232 TGGAACCAAGCTTCAATAGTACAC 58.999 41.667 0.00 0.00 0.00 2.90
3090 3326 5.221843 ACTGGAACCAAGCTTCAATAGTACA 60.222 40.000 0.00 0.00 0.00 2.90
3091 3327 5.246307 ACTGGAACCAAGCTTCAATAGTAC 58.754 41.667 0.00 0.00 0.00 2.73
3171 3417 0.473326 ATGCCTTCTGGAGCTCCATC 59.527 55.000 35.11 20.52 46.46 3.51
3201 3447 2.571216 CGTCACCCACCGGACTTCT 61.571 63.158 9.46 0.00 31.88 2.85
3276 3522 5.376625 TGTTATAATCTGTCAAGGGCATCC 58.623 41.667 0.00 0.00 0.00 3.51
3294 3540 3.350219 ACACAAGAATCGCCCTGTTAT 57.650 42.857 0.00 0.00 0.00 1.89
3303 3549 2.936498 GACCATGGGTACACAAGAATCG 59.064 50.000 18.09 0.00 35.25 3.34
3324 3570 4.335416 AGTTCAATTGGTGTGTATCCCTG 58.665 43.478 5.42 0.00 0.00 4.45
3325 3571 4.289672 AGAGTTCAATTGGTGTGTATCCCT 59.710 41.667 5.42 0.00 0.00 4.20
3326 3572 4.396166 CAGAGTTCAATTGGTGTGTATCCC 59.604 45.833 5.42 0.00 0.00 3.85
3327 3573 4.142600 GCAGAGTTCAATTGGTGTGTATCC 60.143 45.833 5.42 0.00 0.00 2.59
3328 3574 4.455533 TGCAGAGTTCAATTGGTGTGTATC 59.544 41.667 5.42 0.00 0.00 2.24
3329 3575 4.397420 TGCAGAGTTCAATTGGTGTGTAT 58.603 39.130 5.42 0.00 0.00 2.29
3330 3576 3.814625 TGCAGAGTTCAATTGGTGTGTA 58.185 40.909 5.42 0.00 0.00 2.90
3331 3577 2.653726 TGCAGAGTTCAATTGGTGTGT 58.346 42.857 5.42 0.00 0.00 3.72
3344 3590 0.390866 CCGTCATGAGCTTGCAGAGT 60.391 55.000 0.00 0.00 0.00 3.24
3346 3592 0.538584 ATCCGTCATGAGCTTGCAGA 59.461 50.000 0.00 0.00 0.00 4.26
3363 3609 8.976986 AAGAAAATACAACAAGAGATGCAATC 57.023 30.769 0.00 0.00 46.04 2.67
3364 3610 9.768662 AAAAGAAAATACAACAAGAGATGCAAT 57.231 25.926 0.00 0.00 0.00 3.56
3386 3632 7.360438 GCCATATCACGGCTCTTCTTATAAAAG 60.360 40.741 0.00 0.00 46.56 2.27
3389 3635 5.479306 GCCATATCACGGCTCTTCTTATAA 58.521 41.667 0.00 0.00 46.56 0.98
3390 3636 5.073311 GCCATATCACGGCTCTTCTTATA 57.927 43.478 0.00 0.00 46.56 0.98
3392 3638 3.386768 GCCATATCACGGCTCTTCTTA 57.613 47.619 0.00 0.00 46.56 2.10
3393 3639 2.246719 GCCATATCACGGCTCTTCTT 57.753 50.000 0.00 0.00 46.56 2.52
3394 3640 3.997672 GCCATATCACGGCTCTTCT 57.002 52.632 0.00 0.00 46.56 2.85
3402 3648 5.163764 ACAACAACTAATGTGCCATATCACG 60.164 40.000 0.00 0.00 42.99 4.35
3404 3650 7.609918 AGTTACAACAACTAATGTGCCATATCA 59.390 33.333 0.00 0.00 42.99 2.15
3469 3715 5.880332 TCCACTAATTTTGATACTCACTGCC 59.120 40.000 0.00 0.00 0.00 4.85
3602 3849 2.470983 TGTGTGTGCTTGCTATGCTA 57.529 45.000 0.00 0.00 0.00 3.49
3613 3860 6.128309 TGACATTCATACTGTAATGTGTGTGC 60.128 38.462 11.10 0.00 44.27 4.57
3773 4022 5.930569 ACAATTAGGTTTTCACGTAGAGGTC 59.069 40.000 0.00 0.00 0.00 3.85
3781 4030 9.893305 ATTAGAAAAGACAATTAGGTTTTCACG 57.107 29.630 15.36 0.00 40.05 4.35
3796 4045 6.502652 GGAGGGAGTACGTATTAGAAAAGAC 58.497 44.000 0.00 0.00 0.00 3.01
3805 4054 1.685148 GGACGGAGGGAGTACGTATT 58.315 55.000 0.00 0.00 41.40 1.89
3806 4055 0.533755 CGGACGGAGGGAGTACGTAT 60.534 60.000 0.00 0.00 40.75 3.06
3809 4058 1.308069 TTTCGGACGGAGGGAGTACG 61.308 60.000 0.00 0.00 46.50 3.67
3811 4060 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
3812 4061 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
3813 4062 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
3815 4064 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
3817 4066 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
3818 4067 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
3819 4068 4.390603 TCAATGACAAGTATTTTCGGACGG 59.609 41.667 0.00 0.00 0.00 4.79
3820 4069 5.524511 TCAATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
3821 4070 9.490663 CTATTTCAATGACAAGTATTTTCGGAC 57.509 33.333 0.00 0.00 0.00 4.79
3822 4071 9.443323 TCTATTTCAATGACAAGTATTTTCGGA 57.557 29.630 0.00 0.00 0.00 4.55
3878 4127 9.616634 CGGAAATACTTATCATCAAAATGGATG 57.383 33.333 0.00 0.00 44.78 3.51
3879 4128 8.796475 CCGGAAATACTTATCATCAAAATGGAT 58.204 33.333 0.00 0.00 33.42 3.41
3880 4129 7.996066 TCCGGAAATACTTATCATCAAAATGGA 59.004 33.333 0.00 0.00 33.42 3.41
3881 4130 8.076178 GTCCGGAAATACTTATCATCAAAATGG 58.924 37.037 5.23 0.00 33.42 3.16
3882 4131 8.620416 TGTCCGGAAATACTTATCATCAAAATG 58.380 33.333 5.23 0.00 0.00 2.32
3883 4132 8.746052 TGTCCGGAAATACTTATCATCAAAAT 57.254 30.769 5.23 0.00 0.00 1.82
3884 4133 8.044309 TCTGTCCGGAAATACTTATCATCAAAA 58.956 33.333 5.23 0.00 0.00 2.44
3885 4134 7.561251 TCTGTCCGGAAATACTTATCATCAAA 58.439 34.615 5.23 0.00 0.00 2.69
3886 4135 7.119709 TCTGTCCGGAAATACTTATCATCAA 57.880 36.000 5.23 0.00 0.00 2.57
3887 4136 6.239317 CCTCTGTCCGGAAATACTTATCATCA 60.239 42.308 5.23 0.00 0.00 3.07
3888 4137 6.159988 CCTCTGTCCGGAAATACTTATCATC 58.840 44.000 5.23 0.00 0.00 2.92
3889 4138 5.012148 CCCTCTGTCCGGAAATACTTATCAT 59.988 44.000 5.23 0.00 0.00 2.45
3890 4139 4.344102 CCCTCTGTCCGGAAATACTTATCA 59.656 45.833 5.23 0.00 0.00 2.15
3891 4140 4.587684 TCCCTCTGTCCGGAAATACTTATC 59.412 45.833 5.23 0.00 0.00 1.75
3892 4141 4.553678 TCCCTCTGTCCGGAAATACTTAT 58.446 43.478 5.23 0.00 0.00 1.73
3893 4142 3.958798 CTCCCTCTGTCCGGAAATACTTA 59.041 47.826 5.23 0.00 0.00 2.24
3894 4143 2.766828 CTCCCTCTGTCCGGAAATACTT 59.233 50.000 5.23 0.00 0.00 2.24
3895 4144 2.292323 ACTCCCTCTGTCCGGAAATACT 60.292 50.000 5.23 0.00 0.00 2.12
3896 4145 2.108970 ACTCCCTCTGTCCGGAAATAC 58.891 52.381 5.23 0.00 0.00 1.89
3897 4146 2.544844 ACTCCCTCTGTCCGGAAATA 57.455 50.000 5.23 0.00 0.00 1.40
3898 4147 2.544844 TACTCCCTCTGTCCGGAAAT 57.455 50.000 5.23 0.00 0.00 2.17
3899 4148 2.108168 CATACTCCCTCTGTCCGGAAA 58.892 52.381 5.23 0.00 0.00 3.13
3900 4149 1.006758 ACATACTCCCTCTGTCCGGAA 59.993 52.381 5.23 0.00 0.00 4.30
3901 4150 0.629596 ACATACTCCCTCTGTCCGGA 59.370 55.000 0.00 0.00 0.00 5.14
3902 4151 1.137086 CAACATACTCCCTCTGTCCGG 59.863 57.143 0.00 0.00 0.00 5.14
3903 4152 1.471676 GCAACATACTCCCTCTGTCCG 60.472 57.143 0.00 0.00 0.00 4.79
3904 4153 1.555075 TGCAACATACTCCCTCTGTCC 59.445 52.381 0.00 0.00 0.00 4.02
3905 4154 2.234908 ACTGCAACATACTCCCTCTGTC 59.765 50.000 0.00 0.00 0.00 3.51
3906 4155 2.260822 ACTGCAACATACTCCCTCTGT 58.739 47.619 0.00 0.00 0.00 3.41
3907 4156 4.679373 ATACTGCAACATACTCCCTCTG 57.321 45.455 0.00 0.00 0.00 3.35
3908 4157 6.352016 CATATACTGCAACATACTCCCTCT 57.648 41.667 0.00 0.00 0.00 3.69
3922 4171 4.499019 GCTAGCTAGCTAGGCATATACTGC 60.499 50.000 39.60 24.90 46.76 4.40
3923 4172 5.181690 GCTAGCTAGCTAGGCATATACTG 57.818 47.826 39.60 20.42 45.62 2.74
3950 4199 2.661718 TCATGCCTACATCGTCACCTA 58.338 47.619 0.00 0.00 32.87 3.08
3968 4217 3.951037 CGGGTGTTCCATCCATAAAATCA 59.049 43.478 0.00 0.00 33.50 2.57
3974 4223 1.990160 GCCCGGGTGTTCCATCCATA 61.990 60.000 24.63 0.00 33.50 2.74
4176 4425 6.031314 CGTTTCGTTTGTTATGTGATGTGATG 59.969 38.462 0.00 0.00 0.00 3.07
4177 4426 6.073494 TCGTTTCGTTTGTTATGTGATGTGAT 60.073 34.615 0.00 0.00 0.00 3.06
4178 4427 5.234543 TCGTTTCGTTTGTTATGTGATGTGA 59.765 36.000 0.00 0.00 0.00 3.58
4179 4428 5.436410 TCGTTTCGTTTGTTATGTGATGTG 58.564 37.500 0.00 0.00 0.00 3.21
4180 4429 5.660629 TCGTTTCGTTTGTTATGTGATGT 57.339 34.783 0.00 0.00 0.00 3.06
4190 4439 6.109320 TGATAACTGTTTCGTTTCGTTTGT 57.891 33.333 0.00 0.00 0.00 2.83
4252 4501 1.202417 ACAGGTGATGATTAGACCGCG 60.202 52.381 0.00 0.00 34.72 6.46
4254 4503 3.381590 TCAGACAGGTGATGATTAGACCG 59.618 47.826 0.00 0.00 34.72 4.79
4255 4504 4.688021 GTCAGACAGGTGATGATTAGACC 58.312 47.826 0.00 0.00 0.00 3.85
4258 4507 4.639135 TCGTCAGACAGGTGATGATTAG 57.361 45.455 0.41 0.00 37.52 1.73
4259 4508 4.142160 CCTTCGTCAGACAGGTGATGATTA 60.142 45.833 0.41 0.00 41.17 1.75
4260 4509 3.368843 CCTTCGTCAGACAGGTGATGATT 60.369 47.826 0.41 0.00 41.17 2.57
4261 4510 2.167281 CCTTCGTCAGACAGGTGATGAT 59.833 50.000 0.41 0.00 41.17 2.45
4262 4511 1.546029 CCTTCGTCAGACAGGTGATGA 59.454 52.381 0.41 0.00 40.10 2.92
4263 4512 2.001812 CCTTCGTCAGACAGGTGATG 57.998 55.000 0.41 0.00 35.14 3.07
4264 4513 0.247736 GCCTTCGTCAGACAGGTGAT 59.752 55.000 8.41 0.00 31.58 3.06
4265 4514 0.827925 AGCCTTCGTCAGACAGGTGA 60.828 55.000 8.41 0.00 31.58 4.02


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

AutoCloner maintained by Alex Coulton.