Multiple sequence alignment - TraesCS1D01G123300
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 | TraesCS1D01G123300 | chr1D | 100.000 | 3918 | 0 | 0 | 1 | 3918 | 124905716 | 124901799 | 0.000000e+00 | 7236.0 |
1 | TraesCS1D01G123300 | chr1A | 97.474 | 3722 | 67 | 13 | 1 | 3707 | 137408675 | 137404966 | 0.000000e+00 | 6327.0 |
2 | TraesCS1D01G123300 | chr1A | 88.000 | 125 | 12 | 2 | 3726 | 3850 | 137265466 | 137265345 | 1.130000e-30 | 145.0 |
3 | TraesCS1D01G123300 | chr1B | 97.957 | 3230 | 47 | 6 | 1 | 3225 | 188907518 | 188904303 | 0.000000e+00 | 5581.0 |
4 | TraesCS1D01G123300 | chr1B | 95.513 | 468 | 16 | 3 | 3247 | 3710 | 188828827 | 188828361 | 0.000000e+00 | 743.0 |
5 | TraesCS1D01G123300 | chr6D | 83.710 | 221 | 12 | 6 | 3722 | 3918 | 431254962 | 431255182 | 1.860000e-43 | 187.0 |
6 | TraesCS1D01G123300 | chr7B | 92.982 | 114 | 8 | 0 | 3726 | 3839 | 409792268 | 409792155 | 2.420000e-37 | 167.0 |
7 | TraesCS1D01G123300 | chr5D | 91.667 | 120 | 7 | 2 | 3726 | 3843 | 529748796 | 529748914 | 3.130000e-36 | 163.0 |
8 | TraesCS1D01G123300 | chr5D | 82.234 | 197 | 19 | 9 | 3726 | 3918 | 529743600 | 529743784 | 5.240000e-34 | 156.0 |
9 | TraesCS1D01G123300 | chrUn | 97.959 | 49 | 1 | 0 | 2699 | 2747 | 43370833 | 43370785 | 6.980000e-13 | 86.1 |
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 | TraesCS1D01G123300 | chr1D | 124901799 | 124905716 | 3917 | True | 7236 | 7236 | 100.000 | 1 | 3918 | 1 | chr1D.!!$R1 | 3917 |
1 | TraesCS1D01G123300 | chr1A | 137404966 | 137408675 | 3709 | True | 6327 | 6327 | 97.474 | 1 | 3707 | 1 | chr1A.!!$R2 | 3706 |
2 | TraesCS1D01G123300 | chr1B | 188904303 | 188907518 | 3215 | True | 5581 | 5581 | 97.957 | 1 | 3225 | 1 | chr1B.!!$R2 | 3224 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
956 | 958 | 0.179145 | GCATGTCTCATTGCAGCCAC | 60.179 | 55.0 | 0.00 | 0.00 | 38.72 | 5.01 | F |
968 | 970 | 0.673022 | GCAGCCACCTCAGTTCTCTG | 60.673 | 60.0 | 0.00 | 0.00 | 42.54 | 3.35 | F |
2628 | 2643 | 0.040157 | TTGCATCACTCGTGCTTTGC | 60.040 | 50.0 | 10.46 | 10.46 | 42.92 | 3.68 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2472 | 2487 | 0.969149 | AGGCAGGCAAAAGGTAAAGC | 59.031 | 50.000 | 0.00 | 0.0 | 0.00 | 3.51 | R |
2692 | 2707 | 1.153289 | GTGACCTGCGGCATCTGAT | 60.153 | 57.895 | 1.75 | 0.0 | 0.00 | 2.90 | R |
3874 | 3893 | 0.109342 | GCAAGATGGGGATGACCGAT | 59.891 | 55.000 | 0.00 | 0.0 | 40.82 | 4.18 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
562 | 564 | 9.291664 | CAGACGTGGTTTCTTTATTTGTAAAAA | 57.708 | 29.630 | 0.00 | 0.00 | 0.00 | 1.94 |
789 | 791 | 4.469657 | ACTTGCAGAATTTGTAGTTGGGA | 58.530 | 39.130 | 0.00 | 0.00 | 0.00 | 4.37 |
858 | 860 | 6.061022 | TGTTATGCTTTATTCACAGGAGGA | 57.939 | 37.500 | 0.00 | 0.00 | 0.00 | 3.71 |
870 | 872 | 7.578310 | ATTCACAGGAGGACATTATCAATTG | 57.422 | 36.000 | 0.00 | 0.00 | 0.00 | 2.32 |
956 | 958 | 0.179145 | GCATGTCTCATTGCAGCCAC | 60.179 | 55.000 | 0.00 | 0.00 | 38.72 | 5.01 |
968 | 970 | 0.673022 | GCAGCCACCTCAGTTCTCTG | 60.673 | 60.000 | 0.00 | 0.00 | 42.54 | 3.35 |
1692 | 1698 | 5.369699 | TCTTCTAGGCAAATATTAGGGTGCT | 59.630 | 40.000 | 9.17 | 0.50 | 37.17 | 4.40 |
1835 | 1841 | 6.041409 | TGCTGGGACTTTGTTTGATATTTGAA | 59.959 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
2387 | 2399 | 3.118112 | GGGTCTCATCACCACAGAATCAT | 60.118 | 47.826 | 0.00 | 0.00 | 38.32 | 2.45 |
2426 | 2441 | 8.206325 | ACATGATTTAAGAGTGCTTAGTGATG | 57.794 | 34.615 | 0.00 | 0.00 | 37.84 | 3.07 |
2472 | 2487 | 2.905075 | TGGAAATGCTATCACCGACAG | 58.095 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
2628 | 2643 | 0.040157 | TTGCATCACTCGTGCTTTGC | 60.040 | 50.000 | 10.46 | 10.46 | 42.92 | 3.68 |
2692 | 2707 | 0.106769 | AGTGTGTCCATGGTTGTGCA | 60.107 | 50.000 | 12.58 | 2.57 | 0.00 | 4.57 |
2777 | 2792 | 7.067494 | GCTGGAGTCATATTTTCAGGTACATTT | 59.933 | 37.037 | 0.00 | 0.00 | 0.00 | 2.32 |
3023 | 3038 | 2.480642 | TTAACCTGGGCCCTTTTGTT | 57.519 | 45.000 | 25.70 | 21.07 | 0.00 | 2.83 |
3138 | 3153 | 4.628766 | ACTCCTTTCTTTTACGAATACGCC | 59.371 | 41.667 | 0.00 | 0.00 | 43.96 | 5.68 |
3151 | 3166 | 1.533625 | ATACGCCAAGCTTGCTTTCA | 58.466 | 45.000 | 21.43 | 4.80 | 0.00 | 2.69 |
3159 | 3174 | 3.366679 | CCAAGCTTGCTTTCACGAATCAT | 60.367 | 43.478 | 21.43 | 0.00 | 0.00 | 2.45 |
3285 | 3300 | 6.149308 | TCGTTCAGATTACAAATCATTGCAGT | 59.851 | 34.615 | 2.74 | 0.00 | 40.34 | 4.40 |
3343 | 3358 | 6.327386 | AGGAATCATAAGCCTTTTACTCCA | 57.673 | 37.500 | 0.00 | 0.00 | 0.00 | 3.86 |
3364 | 3379 | 9.178758 | ACTCCATATTTTCTTAAACCTGATGTC | 57.821 | 33.333 | 0.00 | 0.00 | 0.00 | 3.06 |
3444 | 3461 | 8.150296 | TGTTGTTCTGTCAGAATTCATTAGAGA | 58.850 | 33.333 | 18.08 | 3.14 | 36.50 | 3.10 |
3445 | 3462 | 8.655092 | GTTGTTCTGTCAGAATTCATTAGAGAG | 58.345 | 37.037 | 18.08 | 7.89 | 36.50 | 3.20 |
3446 | 3463 | 8.127150 | TGTTCTGTCAGAATTCATTAGAGAGA | 57.873 | 34.615 | 18.08 | 9.90 | 36.50 | 3.10 |
3455 | 3472 | 6.533367 | AGAATTCATTAGAGAGAGCACGAAAC | 59.467 | 38.462 | 8.44 | 0.00 | 0.00 | 2.78 |
3482 | 3499 | 3.062774 | GCTGGACGAATCAAAAGTAGCTC | 59.937 | 47.826 | 0.00 | 0.00 | 0.00 | 4.09 |
3505 | 3522 | 2.851263 | TCCGTCAAATAGTTGGCAGT | 57.149 | 45.000 | 8.38 | 0.00 | 39.45 | 4.40 |
3512 | 3529 | 4.016444 | TCAAATAGTTGGCAGTGGATTCC | 58.984 | 43.478 | 2.65 | 0.00 | 35.29 | 3.01 |
3522 | 3539 | 2.357154 | GCAGTGGATTCCCTGGTATTGT | 60.357 | 50.000 | 17.62 | 0.00 | 0.00 | 2.71 |
3561 | 3578 | 4.943705 | ACATCCAATGATACCAACACTCAC | 59.056 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
3584 | 3601 | 5.297278 | ACATCAGACCGTGATACTAACTCTC | 59.703 | 44.000 | 0.00 | 0.00 | 44.73 | 3.20 |
3624 | 3641 | 9.696917 | GGAAGTTCTCAAAAATATTGTCAATGT | 57.303 | 29.630 | 8.39 | 0.00 | 0.00 | 2.71 |
3733 | 3752 | 9.696917 | AACTTTTAGTAATCAAATTGAAGGCAG | 57.303 | 29.630 | 0.00 | 0.00 | 0.00 | 4.85 |
3734 | 3753 | 8.860088 | ACTTTTAGTAATCAAATTGAAGGCAGT | 58.140 | 29.630 | 0.00 | 0.00 | 0.00 | 4.40 |
3737 | 3756 | 8.506168 | TTAGTAATCAAATTGAAGGCAGTAGG | 57.494 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
3738 | 3757 | 6.485171 | AGTAATCAAATTGAAGGCAGTAGGT | 58.515 | 36.000 | 0.00 | 0.00 | 0.00 | 3.08 |
3739 | 3758 | 6.948309 | AGTAATCAAATTGAAGGCAGTAGGTT | 59.052 | 34.615 | 0.00 | 0.00 | 0.00 | 3.50 |
3740 | 3759 | 5.649782 | ATCAAATTGAAGGCAGTAGGTTG | 57.350 | 39.130 | 0.00 | 0.00 | 0.00 | 3.77 |
3741 | 3760 | 3.826157 | TCAAATTGAAGGCAGTAGGTTGG | 59.174 | 43.478 | 0.00 | 0.00 | 0.00 | 3.77 |
3742 | 3761 | 3.806949 | AATTGAAGGCAGTAGGTTGGA | 57.193 | 42.857 | 0.00 | 0.00 | 0.00 | 3.53 |
3743 | 3762 | 2.859165 | TTGAAGGCAGTAGGTTGGAG | 57.141 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3744 | 3763 | 2.024176 | TGAAGGCAGTAGGTTGGAGA | 57.976 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
3745 | 3764 | 2.334977 | TGAAGGCAGTAGGTTGGAGAA | 58.665 | 47.619 | 0.00 | 0.00 | 0.00 | 2.87 |
3746 | 3765 | 2.708861 | TGAAGGCAGTAGGTTGGAGAAA | 59.291 | 45.455 | 0.00 | 0.00 | 0.00 | 2.52 |
3747 | 3766 | 3.137544 | TGAAGGCAGTAGGTTGGAGAAAA | 59.862 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
3748 | 3767 | 3.141767 | AGGCAGTAGGTTGGAGAAAAC | 57.858 | 47.619 | 0.00 | 0.00 | 0.00 | 2.43 |
3749 | 3768 | 2.711547 | AGGCAGTAGGTTGGAGAAAACT | 59.288 | 45.455 | 0.00 | 0.00 | 39.81 | 2.66 |
3750 | 3769 | 3.075148 | GGCAGTAGGTTGGAGAAAACTC | 58.925 | 50.000 | 0.00 | 0.00 | 36.99 | 3.01 |
3751 | 3770 | 3.244596 | GGCAGTAGGTTGGAGAAAACTCT | 60.245 | 47.826 | 0.00 | 0.00 | 36.99 | 3.24 |
3752 | 3771 | 4.020485 | GGCAGTAGGTTGGAGAAAACTCTA | 60.020 | 45.833 | 0.00 | 0.00 | 36.99 | 2.43 |
3753 | 3772 | 5.172205 | GCAGTAGGTTGGAGAAAACTCTAG | 58.828 | 45.833 | 0.00 | 0.00 | 36.99 | 2.43 |
3754 | 3773 | 5.047235 | GCAGTAGGTTGGAGAAAACTCTAGA | 60.047 | 44.000 | 0.00 | 0.00 | 36.99 | 2.43 |
3755 | 3774 | 6.518537 | GCAGTAGGTTGGAGAAAACTCTAGAA | 60.519 | 42.308 | 0.00 | 0.00 | 36.99 | 2.10 |
3756 | 3775 | 7.616313 | CAGTAGGTTGGAGAAAACTCTAGAAT | 58.384 | 38.462 | 0.00 | 0.00 | 36.99 | 2.40 |
3757 | 3776 | 7.762159 | CAGTAGGTTGGAGAAAACTCTAGAATC | 59.238 | 40.741 | 0.00 | 0.00 | 36.99 | 2.52 |
3758 | 3777 | 6.943899 | AGGTTGGAGAAAACTCTAGAATCT | 57.056 | 37.500 | 0.00 | 0.00 | 24.77 | 2.40 |
3759 | 3778 | 6.941857 | AGGTTGGAGAAAACTCTAGAATCTC | 58.058 | 40.000 | 12.64 | 12.64 | 24.77 | 2.75 |
3760 | 3779 | 6.728632 | AGGTTGGAGAAAACTCTAGAATCTCT | 59.271 | 38.462 | 17.25 | 8.10 | 37.33 | 3.10 |
3761 | 3780 | 7.896496 | AGGTTGGAGAAAACTCTAGAATCTCTA | 59.104 | 37.037 | 17.25 | 12.21 | 37.33 | 2.43 |
3762 | 3781 | 8.700973 | GGTTGGAGAAAACTCTAGAATCTCTAT | 58.299 | 37.037 | 17.25 | 0.00 | 37.33 | 1.98 |
3763 | 3782 | 9.744468 | GTTGGAGAAAACTCTAGAATCTCTATC | 57.256 | 37.037 | 17.25 | 10.87 | 37.33 | 2.08 |
3764 | 3783 | 8.472007 | TGGAGAAAACTCTAGAATCTCTATCC | 57.528 | 38.462 | 17.25 | 10.46 | 37.33 | 2.59 |
3765 | 3784 | 8.285891 | TGGAGAAAACTCTAGAATCTCTATCCT | 58.714 | 37.037 | 17.25 | 0.00 | 37.33 | 3.24 |
3766 | 3785 | 8.793592 | GGAGAAAACTCTAGAATCTCTATCCTC | 58.206 | 40.741 | 17.25 | 6.87 | 37.33 | 3.71 |
3767 | 3786 | 9.574516 | GAGAAAACTCTAGAATCTCTATCCTCT | 57.425 | 37.037 | 13.33 | 0.00 | 34.94 | 3.69 |
3768 | 3787 | 9.936329 | AGAAAACTCTAGAATCTCTATCCTCTT | 57.064 | 33.333 | 0.00 | 0.00 | 0.00 | 2.85 |
3773 | 3792 | 9.166222 | ACTCTAGAATCTCTATCCTCTTACTCA | 57.834 | 37.037 | 0.00 | 0.00 | 0.00 | 3.41 |
3774 | 3793 | 9.658799 | CTCTAGAATCTCTATCCTCTTACTCAG | 57.341 | 40.741 | 0.00 | 0.00 | 0.00 | 3.35 |
3775 | 3794 | 8.100791 | TCTAGAATCTCTATCCTCTTACTCAGC | 58.899 | 40.741 | 0.00 | 0.00 | 0.00 | 4.26 |
3776 | 3795 | 6.852404 | AGAATCTCTATCCTCTTACTCAGCT | 58.148 | 40.000 | 0.00 | 0.00 | 0.00 | 4.24 |
3777 | 3796 | 6.716628 | AGAATCTCTATCCTCTTACTCAGCTG | 59.283 | 42.308 | 7.63 | 7.63 | 0.00 | 4.24 |
3778 | 3797 | 4.141287 | TCTCTATCCTCTTACTCAGCTGC | 58.859 | 47.826 | 9.47 | 0.00 | 0.00 | 5.25 |
3779 | 3798 | 4.141274 | TCTCTATCCTCTTACTCAGCTGCT | 60.141 | 45.833 | 9.47 | 0.00 | 0.00 | 4.24 |
3780 | 3799 | 5.072464 | TCTCTATCCTCTTACTCAGCTGCTA | 59.928 | 44.000 | 9.47 | 0.00 | 0.00 | 3.49 |
3781 | 3800 | 5.886609 | TCTATCCTCTTACTCAGCTGCTAT | 58.113 | 41.667 | 9.47 | 0.00 | 0.00 | 2.97 |
3782 | 3801 | 7.021998 | TCTATCCTCTTACTCAGCTGCTATA | 57.978 | 40.000 | 9.47 | 0.00 | 0.00 | 1.31 |
3783 | 3802 | 5.975693 | ATCCTCTTACTCAGCTGCTATAC | 57.024 | 43.478 | 9.47 | 0.00 | 0.00 | 1.47 |
3784 | 3803 | 4.793201 | TCCTCTTACTCAGCTGCTATACA | 58.207 | 43.478 | 9.47 | 0.00 | 0.00 | 2.29 |
3785 | 3804 | 5.389520 | TCCTCTTACTCAGCTGCTATACAT | 58.610 | 41.667 | 9.47 | 0.00 | 0.00 | 2.29 |
3786 | 3805 | 6.543735 | TCCTCTTACTCAGCTGCTATACATA | 58.456 | 40.000 | 9.47 | 0.00 | 0.00 | 2.29 |
3787 | 3806 | 7.178573 | TCCTCTTACTCAGCTGCTATACATAT | 58.821 | 38.462 | 9.47 | 0.00 | 0.00 | 1.78 |
3788 | 3807 | 8.329502 | TCCTCTTACTCAGCTGCTATACATATA | 58.670 | 37.037 | 9.47 | 0.00 | 0.00 | 0.86 |
3789 | 3808 | 8.620416 | CCTCTTACTCAGCTGCTATACATATAG | 58.380 | 40.741 | 9.47 | 0.00 | 38.89 | 1.31 |
3790 | 3809 | 9.389755 | CTCTTACTCAGCTGCTATACATATAGA | 57.610 | 37.037 | 9.47 | 0.33 | 38.30 | 1.98 |
3791 | 3810 | 9.913310 | TCTTACTCAGCTGCTATACATATAGAT | 57.087 | 33.333 | 9.47 | 0.00 | 38.30 | 1.98 |
3810 | 3829 | 5.878406 | AGATATATGCTACAGGTATGGGC | 57.122 | 43.478 | 0.00 | 0.00 | 0.00 | 5.36 |
3811 | 3830 | 4.656112 | AGATATATGCTACAGGTATGGGCC | 59.344 | 45.833 | 0.00 | 0.00 | 0.00 | 5.80 |
3812 | 3831 | 1.358152 | TATGCTACAGGTATGGGCCC | 58.642 | 55.000 | 17.59 | 17.59 | 0.00 | 5.80 |
3813 | 3832 | 0.401979 | ATGCTACAGGTATGGGCCCT | 60.402 | 55.000 | 25.70 | 11.37 | 0.00 | 5.19 |
3814 | 3833 | 0.623324 | TGCTACAGGTATGGGCCCTT | 60.623 | 55.000 | 25.70 | 20.41 | 0.00 | 3.95 |
3815 | 3834 | 0.551396 | GCTACAGGTATGGGCCCTTT | 59.449 | 55.000 | 25.70 | 13.47 | 0.00 | 3.11 |
3816 | 3835 | 1.750682 | GCTACAGGTATGGGCCCTTTG | 60.751 | 57.143 | 25.70 | 14.59 | 0.00 | 2.77 |
3817 | 3836 | 0.923358 | TACAGGTATGGGCCCTTTGG | 59.077 | 55.000 | 25.70 | 10.21 | 0.00 | 3.28 |
3828 | 3847 | 3.372557 | CCCTTTGGGCCATAACACA | 57.627 | 52.632 | 7.26 | 0.00 | 35.35 | 3.72 |
3829 | 3848 | 0.894835 | CCCTTTGGGCCATAACACAC | 59.105 | 55.000 | 7.26 | 0.00 | 35.35 | 3.82 |
3830 | 3849 | 1.626686 | CCTTTGGGCCATAACACACA | 58.373 | 50.000 | 7.26 | 0.00 | 0.00 | 3.72 |
3831 | 3850 | 1.272212 | CCTTTGGGCCATAACACACAC | 59.728 | 52.381 | 7.26 | 0.00 | 0.00 | 3.82 |
3832 | 3851 | 1.959985 | CTTTGGGCCATAACACACACA | 59.040 | 47.619 | 7.26 | 0.00 | 0.00 | 3.72 |
3833 | 3852 | 1.323412 | TTGGGCCATAACACACACAC | 58.677 | 50.000 | 7.26 | 0.00 | 0.00 | 3.82 |
3834 | 3853 | 0.183731 | TGGGCCATAACACACACACA | 59.816 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
3835 | 3854 | 1.323412 | GGGCCATAACACACACACAA | 58.677 | 50.000 | 4.39 | 0.00 | 0.00 | 3.33 |
3836 | 3855 | 1.683917 | GGGCCATAACACACACACAAA | 59.316 | 47.619 | 4.39 | 0.00 | 0.00 | 2.83 |
3837 | 3856 | 2.544903 | GGGCCATAACACACACACAAAC | 60.545 | 50.000 | 4.39 | 0.00 | 0.00 | 2.93 |
3838 | 3857 | 2.099921 | GGCCATAACACACACACAAACA | 59.900 | 45.455 | 0.00 | 0.00 | 0.00 | 2.83 |
3839 | 3858 | 3.112580 | GCCATAACACACACACAAACAC | 58.887 | 45.455 | 0.00 | 0.00 | 0.00 | 3.32 |
3840 | 3859 | 3.428180 | GCCATAACACACACACAAACACA | 60.428 | 43.478 | 0.00 | 0.00 | 0.00 | 3.72 |
3841 | 3860 | 4.738124 | CCATAACACACACACAAACACAA | 58.262 | 39.130 | 0.00 | 0.00 | 0.00 | 3.33 |
3842 | 3861 | 4.560819 | CCATAACACACACACAAACACAAC | 59.439 | 41.667 | 0.00 | 0.00 | 0.00 | 3.32 |
3843 | 3862 | 2.715737 | ACACACACACAAACACAACC | 57.284 | 45.000 | 0.00 | 0.00 | 0.00 | 3.77 |
3844 | 3863 | 1.271102 | ACACACACACAAACACAACCC | 59.729 | 47.619 | 0.00 | 0.00 | 0.00 | 4.11 |
3845 | 3864 | 1.270826 | CACACACACAAACACAACCCA | 59.729 | 47.619 | 0.00 | 0.00 | 0.00 | 4.51 |
3846 | 3865 | 1.964223 | ACACACACAAACACAACCCAA | 59.036 | 42.857 | 0.00 | 0.00 | 0.00 | 4.12 |
3847 | 3866 | 2.288518 | ACACACACAAACACAACCCAAC | 60.289 | 45.455 | 0.00 | 0.00 | 0.00 | 3.77 |
3848 | 3867 | 1.964223 | ACACACAAACACAACCCAACA | 59.036 | 42.857 | 0.00 | 0.00 | 0.00 | 3.33 |
3849 | 3868 | 2.564947 | ACACACAAACACAACCCAACAT | 59.435 | 40.909 | 0.00 | 0.00 | 0.00 | 2.71 |
3850 | 3869 | 3.007398 | ACACACAAACACAACCCAACATT | 59.993 | 39.130 | 0.00 | 0.00 | 0.00 | 2.71 |
3851 | 3870 | 3.616379 | CACACAAACACAACCCAACATTC | 59.384 | 43.478 | 0.00 | 0.00 | 0.00 | 2.67 |
3852 | 3871 | 3.194062 | CACAAACACAACCCAACATTCC | 58.806 | 45.455 | 0.00 | 0.00 | 0.00 | 3.01 |
3853 | 3872 | 2.169561 | ACAAACACAACCCAACATTCCC | 59.830 | 45.455 | 0.00 | 0.00 | 0.00 | 3.97 |
3854 | 3873 | 1.419381 | AACACAACCCAACATTCCCC | 58.581 | 50.000 | 0.00 | 0.00 | 0.00 | 4.81 |
3855 | 3874 | 0.471022 | ACACAACCCAACATTCCCCC | 60.471 | 55.000 | 0.00 | 0.00 | 0.00 | 5.40 |
3856 | 3875 | 0.178935 | CACAACCCAACATTCCCCCT | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
3857 | 3876 | 0.114364 | ACAACCCAACATTCCCCCTC | 59.886 | 55.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3858 | 3877 | 0.114168 | CAACCCAACATTCCCCCTCA | 59.886 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3859 | 3878 | 0.863956 | AACCCAACATTCCCCCTCAA | 59.136 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3860 | 3879 | 0.409484 | ACCCAACATTCCCCCTCAAG | 59.591 | 55.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3861 | 3880 | 0.704076 | CCCAACATTCCCCCTCAAGA | 59.296 | 55.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3862 | 3881 | 1.288932 | CCCAACATTCCCCCTCAAGAT | 59.711 | 52.381 | 0.00 | 0.00 | 0.00 | 2.40 |
3863 | 3882 | 2.381911 | CCAACATTCCCCCTCAAGATG | 58.618 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
3864 | 3883 | 2.381911 | CAACATTCCCCCTCAAGATGG | 58.618 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
3865 | 3884 | 0.929244 | ACATTCCCCCTCAAGATGGG | 59.071 | 55.000 | 3.64 | 3.64 | 44.19 | 4.00 |
3866 | 3885 | 0.929244 | CATTCCCCCTCAAGATGGGT | 59.071 | 55.000 | 9.22 | 0.00 | 43.09 | 4.51 |
3867 | 3886 | 0.929244 | ATTCCCCCTCAAGATGGGTG | 59.071 | 55.000 | 9.22 | 2.24 | 43.09 | 4.61 |
3868 | 3887 | 0.178846 | TTCCCCCTCAAGATGGGTGA | 60.179 | 55.000 | 9.22 | 4.25 | 43.09 | 4.02 |
3869 | 3888 | 0.046242 | TCCCCCTCAAGATGGGTGAT | 59.954 | 55.000 | 9.22 | 0.00 | 43.09 | 3.06 |
3870 | 3889 | 1.296832 | TCCCCCTCAAGATGGGTGATA | 59.703 | 52.381 | 9.22 | 0.00 | 43.09 | 2.15 |
3871 | 3890 | 1.701847 | CCCCCTCAAGATGGGTGATAG | 59.298 | 57.143 | 9.22 | 0.00 | 43.09 | 2.08 |
3872 | 3891 | 2.694397 | CCCCTCAAGATGGGTGATAGA | 58.306 | 52.381 | 2.54 | 0.00 | 43.09 | 1.98 |
3873 | 3892 | 3.254960 | CCCCTCAAGATGGGTGATAGAT | 58.745 | 50.000 | 2.54 | 0.00 | 43.09 | 1.98 |
3874 | 3893 | 4.429505 | CCCCTCAAGATGGGTGATAGATA | 58.570 | 47.826 | 2.54 | 0.00 | 43.09 | 1.98 |
3875 | 3894 | 5.035556 | CCCCTCAAGATGGGTGATAGATAT | 58.964 | 45.833 | 2.54 | 0.00 | 43.09 | 1.63 |
3876 | 3895 | 5.130145 | CCCCTCAAGATGGGTGATAGATATC | 59.870 | 48.000 | 2.54 | 0.00 | 43.09 | 1.63 |
3877 | 3896 | 5.163468 | CCCTCAAGATGGGTGATAGATATCG | 60.163 | 48.000 | 0.00 | 0.00 | 39.82 | 2.92 |
3878 | 3897 | 5.163468 | CCTCAAGATGGGTGATAGATATCGG | 60.163 | 48.000 | 0.00 | 0.00 | 35.48 | 4.18 |
3879 | 3898 | 5.333581 | TCAAGATGGGTGATAGATATCGGT | 58.666 | 41.667 | 0.00 | 0.00 | 35.48 | 4.69 |
3880 | 3899 | 5.419155 | TCAAGATGGGTGATAGATATCGGTC | 59.581 | 44.000 | 0.00 | 0.51 | 35.48 | 4.79 |
3881 | 3900 | 4.935578 | AGATGGGTGATAGATATCGGTCA | 58.064 | 43.478 | 8.45 | 8.45 | 35.48 | 4.02 |
3882 | 3901 | 5.523588 | AGATGGGTGATAGATATCGGTCAT | 58.476 | 41.667 | 13.73 | 5.74 | 35.48 | 3.06 |
3883 | 3902 | 5.596361 | AGATGGGTGATAGATATCGGTCATC | 59.404 | 44.000 | 13.73 | 13.13 | 36.34 | 2.92 |
3884 | 3903 | 4.023980 | TGGGTGATAGATATCGGTCATCC | 58.976 | 47.826 | 24.50 | 24.50 | 41.28 | 3.51 |
3885 | 3904 | 3.385111 | GGGTGATAGATATCGGTCATCCC | 59.615 | 52.174 | 22.37 | 21.57 | 36.15 | 3.85 |
3886 | 3905 | 3.385111 | GGTGATAGATATCGGTCATCCCC | 59.615 | 52.174 | 13.73 | 8.63 | 35.48 | 4.81 |
3887 | 3906 | 4.023980 | GTGATAGATATCGGTCATCCCCA | 58.976 | 47.826 | 13.73 | 0.00 | 35.48 | 4.96 |
3888 | 3907 | 4.651503 | GTGATAGATATCGGTCATCCCCAT | 59.348 | 45.833 | 13.73 | 0.00 | 35.48 | 4.00 |
3889 | 3908 | 4.895889 | TGATAGATATCGGTCATCCCCATC | 59.104 | 45.833 | 8.45 | 0.00 | 35.48 | 3.51 |
3890 | 3909 | 3.481559 | AGATATCGGTCATCCCCATCT | 57.518 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
3891 | 3910 | 3.796111 | AGATATCGGTCATCCCCATCTT | 58.204 | 45.455 | 0.00 | 0.00 | 0.00 | 2.40 |
3892 | 3911 | 3.517100 | AGATATCGGTCATCCCCATCTTG | 59.483 | 47.826 | 0.00 | 0.00 | 0.00 | 3.02 |
3893 | 3912 | 0.109342 | ATCGGTCATCCCCATCTTGC | 59.891 | 55.000 | 0.00 | 0.00 | 0.00 | 4.01 |
3894 | 3913 | 0.982852 | TCGGTCATCCCCATCTTGCT | 60.983 | 55.000 | 0.00 | 0.00 | 0.00 | 3.91 |
3895 | 3914 | 0.758734 | CGGTCATCCCCATCTTGCTA | 59.241 | 55.000 | 0.00 | 0.00 | 0.00 | 3.49 |
3896 | 3915 | 1.541233 | CGGTCATCCCCATCTTGCTAC | 60.541 | 57.143 | 0.00 | 0.00 | 0.00 | 3.58 |
3897 | 3916 | 1.490490 | GGTCATCCCCATCTTGCTACA | 59.510 | 52.381 | 0.00 | 0.00 | 0.00 | 2.74 |
3898 | 3917 | 2.107204 | GGTCATCCCCATCTTGCTACAT | 59.893 | 50.000 | 0.00 | 0.00 | 0.00 | 2.29 |
3899 | 3918 | 3.144506 | GTCATCCCCATCTTGCTACATG | 58.855 | 50.000 | 0.00 | 0.00 | 0.00 | 3.21 |
3900 | 3919 | 1.884579 | CATCCCCATCTTGCTACATGC | 59.115 | 52.381 | 0.00 | 0.00 | 43.25 | 4.06 |
3901 | 3920 | 1.216064 | TCCCCATCTTGCTACATGCT | 58.784 | 50.000 | 0.00 | 0.00 | 43.37 | 3.79 |
3902 | 3921 | 1.134007 | TCCCCATCTTGCTACATGCTG | 60.134 | 52.381 | 0.00 | 0.00 | 43.37 | 4.41 |
3903 | 3922 | 1.134007 | CCCCATCTTGCTACATGCTGA | 60.134 | 52.381 | 0.00 | 0.00 | 43.37 | 4.26 |
3904 | 3923 | 2.646930 | CCCATCTTGCTACATGCTGAA | 58.353 | 47.619 | 0.00 | 0.00 | 43.37 | 3.02 |
3905 | 3924 | 3.220110 | CCCATCTTGCTACATGCTGAAT | 58.780 | 45.455 | 0.00 | 0.00 | 43.37 | 2.57 |
3906 | 3925 | 3.252701 | CCCATCTTGCTACATGCTGAATC | 59.747 | 47.826 | 0.00 | 0.00 | 43.37 | 2.52 |
3907 | 3926 | 3.881089 | CCATCTTGCTACATGCTGAATCA | 59.119 | 43.478 | 0.00 | 0.00 | 43.37 | 2.57 |
3908 | 3927 | 4.261072 | CCATCTTGCTACATGCTGAATCAC | 60.261 | 45.833 | 0.00 | 0.00 | 43.37 | 3.06 |
3909 | 3928 | 3.941573 | TCTTGCTACATGCTGAATCACA | 58.058 | 40.909 | 0.00 | 0.00 | 43.37 | 3.58 |
3910 | 3929 | 3.686241 | TCTTGCTACATGCTGAATCACAC | 59.314 | 43.478 | 0.00 | 0.00 | 43.37 | 3.82 |
3911 | 3930 | 3.339253 | TGCTACATGCTGAATCACACT | 57.661 | 42.857 | 0.00 | 0.00 | 43.37 | 3.55 |
3912 | 3931 | 3.678289 | TGCTACATGCTGAATCACACTT | 58.322 | 40.909 | 0.00 | 0.00 | 43.37 | 3.16 |
3913 | 3932 | 3.686241 | TGCTACATGCTGAATCACACTTC | 59.314 | 43.478 | 0.00 | 0.00 | 43.37 | 3.01 |
3914 | 3933 | 3.064545 | GCTACATGCTGAATCACACTTCC | 59.935 | 47.826 | 0.00 | 0.00 | 38.95 | 3.46 |
3915 | 3934 | 3.430042 | ACATGCTGAATCACACTTCCT | 57.570 | 42.857 | 0.00 | 0.00 | 0.00 | 3.36 |
3916 | 3935 | 4.558226 | ACATGCTGAATCACACTTCCTA | 57.442 | 40.909 | 0.00 | 0.00 | 0.00 | 2.94 |
3917 | 3936 | 4.910195 | ACATGCTGAATCACACTTCCTAA | 58.090 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
147 | 148 | 5.912149 | ATGAATCTCCAGGGCATAGTTTA | 57.088 | 39.130 | 0.00 | 0.00 | 0.00 | 2.01 |
956 | 958 | 1.069823 | AGCACACACAGAGAACTGAGG | 59.930 | 52.381 | 0.00 | 0.00 | 46.03 | 3.86 |
968 | 970 | 6.036083 | CCTTATATGTCAGTACAAGCACACAC | 59.964 | 42.308 | 0.00 | 0.00 | 39.58 | 3.82 |
1282 | 1287 | 7.443575 | CACCAGAGAGAAACTCCATATATTTGG | 59.556 | 40.741 | 5.88 | 5.88 | 45.96 | 3.28 |
2424 | 2439 | 9.764363 | TTGCTAATAATATTCGTTCTCTCACAT | 57.236 | 29.630 | 0.00 | 0.00 | 0.00 | 3.21 |
2425 | 2440 | 9.594478 | TTTGCTAATAATATTCGTTCTCTCACA | 57.406 | 29.630 | 0.00 | 0.00 | 0.00 | 3.58 |
2472 | 2487 | 0.969149 | AGGCAGGCAAAAGGTAAAGC | 59.031 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2628 | 2643 | 2.005451 | CCTGGCGACAAGAGATGAAAG | 58.995 | 52.381 | 0.00 | 0.00 | 42.06 | 2.62 |
2692 | 2707 | 1.153289 | GTGACCTGCGGCATCTGAT | 60.153 | 57.895 | 1.75 | 0.00 | 0.00 | 2.90 |
2777 | 2792 | 4.803452 | AGATTTTCAAGGGAAAGGTGTCA | 58.197 | 39.130 | 0.00 | 0.00 | 43.47 | 3.58 |
3023 | 3038 | 1.004277 | GAACTAGGCCACCCATGAACA | 59.996 | 52.381 | 5.01 | 0.00 | 0.00 | 3.18 |
3138 | 3153 | 3.272439 | TGATTCGTGAAAGCAAGCTTG | 57.728 | 42.857 | 22.44 | 22.44 | 36.26 | 4.01 |
3285 | 3300 | 5.818678 | TTACTCCTGAGTTTGAAGGCTAA | 57.181 | 39.130 | 4.94 | 0.00 | 42.54 | 3.09 |
3343 | 3358 | 7.336931 | ACAGCGACATCAGGTTTAAGAAAATAT | 59.663 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
3362 | 3377 | 4.725556 | TGAAAGTATGAAACACAGCGAC | 57.274 | 40.909 | 0.00 | 0.00 | 0.00 | 5.19 |
3364 | 3379 | 5.281693 | TCATGAAAGTATGAAACACAGCG | 57.718 | 39.130 | 0.00 | 0.00 | 34.32 | 5.18 |
3460 | 3477 | 3.003480 | AGCTACTTTTGATTCGTCCAGC | 58.997 | 45.455 | 0.00 | 0.00 | 0.00 | 4.85 |
3461 | 3478 | 4.245660 | TGAGCTACTTTTGATTCGTCCAG | 58.754 | 43.478 | 0.00 | 0.00 | 0.00 | 3.86 |
3471 | 3488 | 5.356882 | TTGACGGAAATGAGCTACTTTTG | 57.643 | 39.130 | 0.00 | 0.00 | 0.00 | 2.44 |
3472 | 3489 | 6.575162 | ATTTGACGGAAATGAGCTACTTTT | 57.425 | 33.333 | 0.00 | 0.00 | 32.69 | 2.27 |
3482 | 3499 | 4.082787 | ACTGCCAACTATTTGACGGAAATG | 60.083 | 41.667 | 5.24 | 0.00 | 35.74 | 2.32 |
3505 | 3522 | 3.189606 | AGTGACAATACCAGGGAATCCA | 58.810 | 45.455 | 0.09 | 0.00 | 34.83 | 3.41 |
3512 | 3529 | 4.759782 | CTCCACTTAGTGACAATACCAGG | 58.240 | 47.826 | 14.66 | 0.00 | 35.23 | 4.45 |
3522 | 3539 | 2.028112 | GGATGTGTGCTCCACTTAGTGA | 60.028 | 50.000 | 14.66 | 0.00 | 44.81 | 3.41 |
3561 | 3578 | 5.559225 | CGAGAGTTAGTATCACGGTCTGATG | 60.559 | 48.000 | 0.00 | 0.00 | 40.12 | 3.07 |
3584 | 3601 | 5.050363 | TGAGAACTTCCGAGTTTGAAATTCG | 60.050 | 40.000 | 14.70 | 14.70 | 45.88 | 3.34 |
3707 | 3726 | 9.696917 | CTGCCTTCAATTTGATTACTAAAAGTT | 57.303 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
3708 | 3727 | 8.860088 | ACTGCCTTCAATTTGATTACTAAAAGT | 58.140 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
3711 | 3730 | 8.956426 | CCTACTGCCTTCAATTTGATTACTAAA | 58.044 | 33.333 | 0.00 | 0.00 | 0.00 | 1.85 |
3712 | 3731 | 8.107095 | ACCTACTGCCTTCAATTTGATTACTAA | 58.893 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
3713 | 3732 | 7.630082 | ACCTACTGCCTTCAATTTGATTACTA | 58.370 | 34.615 | 0.00 | 0.00 | 0.00 | 1.82 |
3714 | 3733 | 6.485171 | ACCTACTGCCTTCAATTTGATTACT | 58.515 | 36.000 | 0.00 | 0.00 | 0.00 | 2.24 |
3715 | 3734 | 6.759497 | ACCTACTGCCTTCAATTTGATTAC | 57.241 | 37.500 | 0.00 | 0.00 | 0.00 | 1.89 |
3716 | 3735 | 6.152661 | CCAACCTACTGCCTTCAATTTGATTA | 59.847 | 38.462 | 0.00 | 0.00 | 0.00 | 1.75 |
3717 | 3736 | 5.047092 | CCAACCTACTGCCTTCAATTTGATT | 60.047 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3718 | 3737 | 4.463891 | CCAACCTACTGCCTTCAATTTGAT | 59.536 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
3719 | 3738 | 3.826157 | CCAACCTACTGCCTTCAATTTGA | 59.174 | 43.478 | 0.00 | 0.00 | 0.00 | 2.69 |
3720 | 3739 | 3.826157 | TCCAACCTACTGCCTTCAATTTG | 59.174 | 43.478 | 0.00 | 0.00 | 0.00 | 2.32 |
3721 | 3740 | 4.082125 | CTCCAACCTACTGCCTTCAATTT | 58.918 | 43.478 | 0.00 | 0.00 | 0.00 | 1.82 |
3722 | 3741 | 3.330701 | TCTCCAACCTACTGCCTTCAATT | 59.669 | 43.478 | 0.00 | 0.00 | 0.00 | 2.32 |
3723 | 3742 | 2.912956 | TCTCCAACCTACTGCCTTCAAT | 59.087 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
3724 | 3743 | 2.334977 | TCTCCAACCTACTGCCTTCAA | 58.665 | 47.619 | 0.00 | 0.00 | 0.00 | 2.69 |
3725 | 3744 | 2.024176 | TCTCCAACCTACTGCCTTCA | 57.976 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3726 | 3745 | 3.418684 | TTTCTCCAACCTACTGCCTTC | 57.581 | 47.619 | 0.00 | 0.00 | 0.00 | 3.46 |
3727 | 3746 | 3.138468 | AGTTTTCTCCAACCTACTGCCTT | 59.862 | 43.478 | 0.00 | 0.00 | 0.00 | 4.35 |
3728 | 3747 | 2.711547 | AGTTTTCTCCAACCTACTGCCT | 59.288 | 45.455 | 0.00 | 0.00 | 0.00 | 4.75 |
3729 | 3748 | 3.075148 | GAGTTTTCTCCAACCTACTGCC | 58.925 | 50.000 | 0.00 | 0.00 | 40.79 | 4.85 |
3741 | 3760 | 9.574516 | AGAGGATAGAGATTCTAGAGTTTTCTC | 57.425 | 37.037 | 12.56 | 12.56 | 46.50 | 2.87 |
3742 | 3761 | 9.936329 | AAGAGGATAGAGATTCTAGAGTTTTCT | 57.064 | 33.333 | 0.00 | 0.97 | 31.67 | 2.52 |
3747 | 3766 | 9.166222 | TGAGTAAGAGGATAGAGATTCTAGAGT | 57.834 | 37.037 | 0.00 | 0.00 | 31.67 | 3.24 |
3748 | 3767 | 9.658799 | CTGAGTAAGAGGATAGAGATTCTAGAG | 57.341 | 40.741 | 0.00 | 0.00 | 31.67 | 2.43 |
3749 | 3768 | 8.100791 | GCTGAGTAAGAGGATAGAGATTCTAGA | 58.899 | 40.741 | 0.00 | 0.00 | 31.67 | 2.43 |
3750 | 3769 | 8.103305 | AGCTGAGTAAGAGGATAGAGATTCTAG | 58.897 | 40.741 | 0.00 | 0.00 | 31.67 | 2.43 |
3751 | 3770 | 7.882791 | CAGCTGAGTAAGAGGATAGAGATTCTA | 59.117 | 40.741 | 8.42 | 0.00 | 32.87 | 2.10 |
3752 | 3771 | 6.716628 | CAGCTGAGTAAGAGGATAGAGATTCT | 59.283 | 42.308 | 8.42 | 0.00 | 0.00 | 2.40 |
3753 | 3772 | 6.570378 | GCAGCTGAGTAAGAGGATAGAGATTC | 60.570 | 46.154 | 20.43 | 0.00 | 0.00 | 2.52 |
3754 | 3773 | 5.243730 | GCAGCTGAGTAAGAGGATAGAGATT | 59.756 | 44.000 | 20.43 | 0.00 | 0.00 | 2.40 |
3755 | 3774 | 4.766891 | GCAGCTGAGTAAGAGGATAGAGAT | 59.233 | 45.833 | 20.43 | 0.00 | 0.00 | 2.75 |
3756 | 3775 | 4.141274 | AGCAGCTGAGTAAGAGGATAGAGA | 60.141 | 45.833 | 20.43 | 0.00 | 0.00 | 3.10 |
3757 | 3776 | 4.144297 | AGCAGCTGAGTAAGAGGATAGAG | 58.856 | 47.826 | 20.43 | 0.00 | 0.00 | 2.43 |
3758 | 3777 | 4.177537 | AGCAGCTGAGTAAGAGGATAGA | 57.822 | 45.455 | 20.43 | 0.00 | 0.00 | 1.98 |
3759 | 3778 | 6.657117 | TGTATAGCAGCTGAGTAAGAGGATAG | 59.343 | 42.308 | 20.43 | 0.00 | 0.00 | 2.08 |
3760 | 3779 | 6.543735 | TGTATAGCAGCTGAGTAAGAGGATA | 58.456 | 40.000 | 20.43 | 0.00 | 0.00 | 2.59 |
3761 | 3780 | 5.389520 | TGTATAGCAGCTGAGTAAGAGGAT | 58.610 | 41.667 | 20.43 | 0.00 | 0.00 | 3.24 |
3762 | 3781 | 4.793201 | TGTATAGCAGCTGAGTAAGAGGA | 58.207 | 43.478 | 20.43 | 0.00 | 0.00 | 3.71 |
3763 | 3782 | 5.720371 | ATGTATAGCAGCTGAGTAAGAGG | 57.280 | 43.478 | 20.43 | 0.00 | 0.00 | 3.69 |
3764 | 3783 | 9.389755 | TCTATATGTATAGCAGCTGAGTAAGAG | 57.610 | 37.037 | 20.43 | 1.42 | 36.47 | 2.85 |
3765 | 3784 | 9.913310 | ATCTATATGTATAGCAGCTGAGTAAGA | 57.087 | 33.333 | 20.43 | 6.16 | 36.47 | 2.10 |
3784 | 3803 | 9.261035 | GCCCATACCTGTAGCATATATCTATAT | 57.739 | 37.037 | 0.00 | 0.00 | 0.00 | 0.86 |
3785 | 3804 | 7.674348 | GGCCCATACCTGTAGCATATATCTATA | 59.326 | 40.741 | 0.00 | 0.00 | 0.00 | 1.31 |
3786 | 3805 | 6.498651 | GGCCCATACCTGTAGCATATATCTAT | 59.501 | 42.308 | 0.00 | 0.00 | 0.00 | 1.98 |
3787 | 3806 | 5.839063 | GGCCCATACCTGTAGCATATATCTA | 59.161 | 44.000 | 0.00 | 0.00 | 0.00 | 1.98 |
3788 | 3807 | 4.656112 | GGCCCATACCTGTAGCATATATCT | 59.344 | 45.833 | 0.00 | 0.00 | 0.00 | 1.98 |
3789 | 3808 | 4.202367 | GGGCCCATACCTGTAGCATATATC | 60.202 | 50.000 | 19.95 | 0.00 | 0.00 | 1.63 |
3790 | 3809 | 3.716872 | GGGCCCATACCTGTAGCATATAT | 59.283 | 47.826 | 19.95 | 0.00 | 0.00 | 0.86 |
3791 | 3810 | 3.112263 | GGGCCCATACCTGTAGCATATA | 58.888 | 50.000 | 19.95 | 0.00 | 0.00 | 0.86 |
3792 | 3811 | 1.916181 | GGGCCCATACCTGTAGCATAT | 59.084 | 52.381 | 19.95 | 0.00 | 0.00 | 1.78 |
3793 | 3812 | 1.132527 | AGGGCCCATACCTGTAGCATA | 60.133 | 52.381 | 27.56 | 0.00 | 36.85 | 3.14 |
3794 | 3813 | 0.401979 | AGGGCCCATACCTGTAGCAT | 60.402 | 55.000 | 27.56 | 0.00 | 36.85 | 3.79 |
3795 | 3814 | 0.623324 | AAGGGCCCATACCTGTAGCA | 60.623 | 55.000 | 27.56 | 0.00 | 38.63 | 3.49 |
3796 | 3815 | 0.551396 | AAAGGGCCCATACCTGTAGC | 59.449 | 55.000 | 27.56 | 0.00 | 38.63 | 3.58 |
3797 | 3816 | 1.133792 | CCAAAGGGCCCATACCTGTAG | 60.134 | 57.143 | 27.56 | 2.48 | 38.63 | 2.74 |
3798 | 3817 | 0.923358 | CCAAAGGGCCCATACCTGTA | 59.077 | 55.000 | 27.56 | 0.00 | 38.63 | 2.74 |
3799 | 3818 | 1.697297 | CCAAAGGGCCCATACCTGT | 59.303 | 57.895 | 27.56 | 0.00 | 38.63 | 4.00 |
3800 | 3819 | 1.076044 | CCCAAAGGGCCCATACCTG | 60.076 | 63.158 | 27.56 | 12.85 | 38.63 | 4.00 |
3801 | 3820 | 3.438822 | CCCAAAGGGCCCATACCT | 58.561 | 61.111 | 27.56 | 0.00 | 40.96 | 3.08 |
3811 | 3830 | 1.272212 | GTGTGTGTTATGGCCCAAAGG | 59.728 | 52.381 | 0.00 | 0.00 | 0.00 | 3.11 |
3812 | 3831 | 1.959985 | TGTGTGTGTTATGGCCCAAAG | 59.040 | 47.619 | 0.00 | 0.00 | 0.00 | 2.77 |
3813 | 3832 | 1.683917 | GTGTGTGTGTTATGGCCCAAA | 59.316 | 47.619 | 0.00 | 0.00 | 0.00 | 3.28 |
3814 | 3833 | 1.323412 | GTGTGTGTGTTATGGCCCAA | 58.677 | 50.000 | 0.00 | 0.00 | 0.00 | 4.12 |
3815 | 3834 | 0.183731 | TGTGTGTGTGTTATGGCCCA | 59.816 | 50.000 | 0.00 | 0.00 | 0.00 | 5.36 |
3816 | 3835 | 1.323412 | TTGTGTGTGTGTTATGGCCC | 58.677 | 50.000 | 0.00 | 0.00 | 0.00 | 5.80 |
3817 | 3836 | 2.099921 | TGTTTGTGTGTGTGTTATGGCC | 59.900 | 45.455 | 0.00 | 0.00 | 0.00 | 5.36 |
3818 | 3837 | 3.112580 | GTGTTTGTGTGTGTGTTATGGC | 58.887 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
3819 | 3838 | 4.362932 | TGTGTTTGTGTGTGTGTTATGG | 57.637 | 40.909 | 0.00 | 0.00 | 0.00 | 2.74 |
3820 | 3839 | 4.560819 | GGTTGTGTTTGTGTGTGTGTTATG | 59.439 | 41.667 | 0.00 | 0.00 | 0.00 | 1.90 |
3821 | 3840 | 4.381079 | GGGTTGTGTTTGTGTGTGTGTTAT | 60.381 | 41.667 | 0.00 | 0.00 | 0.00 | 1.89 |
3822 | 3841 | 3.057456 | GGGTTGTGTTTGTGTGTGTGTTA | 60.057 | 43.478 | 0.00 | 0.00 | 0.00 | 2.41 |
3823 | 3842 | 2.288518 | GGGTTGTGTTTGTGTGTGTGTT | 60.289 | 45.455 | 0.00 | 0.00 | 0.00 | 3.32 |
3824 | 3843 | 1.271102 | GGGTTGTGTTTGTGTGTGTGT | 59.729 | 47.619 | 0.00 | 0.00 | 0.00 | 3.72 |
3825 | 3844 | 1.270826 | TGGGTTGTGTTTGTGTGTGTG | 59.729 | 47.619 | 0.00 | 0.00 | 0.00 | 3.82 |
3826 | 3845 | 1.621992 | TGGGTTGTGTTTGTGTGTGT | 58.378 | 45.000 | 0.00 | 0.00 | 0.00 | 3.72 |
3827 | 3846 | 2.288457 | TGTTGGGTTGTGTTTGTGTGTG | 60.288 | 45.455 | 0.00 | 0.00 | 0.00 | 3.82 |
3828 | 3847 | 1.964223 | TGTTGGGTTGTGTTTGTGTGT | 59.036 | 42.857 | 0.00 | 0.00 | 0.00 | 3.72 |
3829 | 3848 | 2.732412 | TGTTGGGTTGTGTTTGTGTG | 57.268 | 45.000 | 0.00 | 0.00 | 0.00 | 3.82 |
3830 | 3849 | 3.368948 | GGAATGTTGGGTTGTGTTTGTGT | 60.369 | 43.478 | 0.00 | 0.00 | 0.00 | 3.72 |
3831 | 3850 | 3.194062 | GGAATGTTGGGTTGTGTTTGTG | 58.806 | 45.455 | 0.00 | 0.00 | 0.00 | 3.33 |
3832 | 3851 | 2.169561 | GGGAATGTTGGGTTGTGTTTGT | 59.830 | 45.455 | 0.00 | 0.00 | 0.00 | 2.83 |
3833 | 3852 | 2.484594 | GGGGAATGTTGGGTTGTGTTTG | 60.485 | 50.000 | 0.00 | 0.00 | 0.00 | 2.93 |
3834 | 3853 | 1.765904 | GGGGAATGTTGGGTTGTGTTT | 59.234 | 47.619 | 0.00 | 0.00 | 0.00 | 2.83 |
3835 | 3854 | 1.419381 | GGGGAATGTTGGGTTGTGTT | 58.581 | 50.000 | 0.00 | 0.00 | 0.00 | 3.32 |
3836 | 3855 | 0.471022 | GGGGGAATGTTGGGTTGTGT | 60.471 | 55.000 | 0.00 | 0.00 | 0.00 | 3.72 |
3837 | 3856 | 0.178935 | AGGGGGAATGTTGGGTTGTG | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 3.33 |
3838 | 3857 | 0.114364 | GAGGGGGAATGTTGGGTTGT | 59.886 | 55.000 | 0.00 | 0.00 | 0.00 | 3.32 |
3839 | 3858 | 0.114168 | TGAGGGGGAATGTTGGGTTG | 59.886 | 55.000 | 0.00 | 0.00 | 0.00 | 3.77 |
3840 | 3859 | 0.863956 | TTGAGGGGGAATGTTGGGTT | 59.136 | 50.000 | 0.00 | 0.00 | 0.00 | 4.11 |
3841 | 3860 | 0.409484 | CTTGAGGGGGAATGTTGGGT | 59.591 | 55.000 | 0.00 | 0.00 | 0.00 | 4.51 |
3842 | 3861 | 0.704076 | TCTTGAGGGGGAATGTTGGG | 59.296 | 55.000 | 0.00 | 0.00 | 0.00 | 4.12 |
3843 | 3862 | 2.381911 | CATCTTGAGGGGGAATGTTGG | 58.618 | 52.381 | 0.00 | 0.00 | 0.00 | 3.77 |
3844 | 3863 | 2.381911 | CCATCTTGAGGGGGAATGTTG | 58.618 | 52.381 | 0.00 | 0.00 | 0.00 | 3.33 |
3845 | 3864 | 1.288932 | CCCATCTTGAGGGGGAATGTT | 59.711 | 52.381 | 12.16 | 0.00 | 45.08 | 2.71 |
3846 | 3865 | 0.929244 | CCCATCTTGAGGGGGAATGT | 59.071 | 55.000 | 12.16 | 0.00 | 45.08 | 2.71 |
3847 | 3866 | 3.835810 | CCCATCTTGAGGGGGAATG | 57.164 | 57.895 | 12.16 | 0.00 | 45.08 | 2.67 |
3854 | 3873 | 5.163468 | CCGATATCTATCACCCATCTTGAGG | 60.163 | 48.000 | 0.34 | 0.00 | 32.98 | 3.86 |
3855 | 3874 | 5.420421 | ACCGATATCTATCACCCATCTTGAG | 59.580 | 44.000 | 0.34 | 0.00 | 32.98 | 3.02 |
3856 | 3875 | 5.333581 | ACCGATATCTATCACCCATCTTGA | 58.666 | 41.667 | 0.34 | 0.00 | 32.98 | 3.02 |
3857 | 3876 | 5.185828 | TGACCGATATCTATCACCCATCTTG | 59.814 | 44.000 | 0.34 | 0.00 | 32.98 | 3.02 |
3858 | 3877 | 5.333581 | TGACCGATATCTATCACCCATCTT | 58.666 | 41.667 | 0.34 | 0.00 | 32.98 | 2.40 |
3859 | 3878 | 4.935578 | TGACCGATATCTATCACCCATCT | 58.064 | 43.478 | 0.34 | 0.00 | 32.98 | 2.90 |
3860 | 3879 | 5.221342 | GGATGACCGATATCTATCACCCATC | 60.221 | 48.000 | 10.35 | 8.24 | 34.31 | 3.51 |
3861 | 3880 | 4.651503 | GGATGACCGATATCTATCACCCAT | 59.348 | 45.833 | 10.35 | 1.29 | 32.98 | 4.00 |
3862 | 3881 | 4.023980 | GGATGACCGATATCTATCACCCA | 58.976 | 47.826 | 10.35 | 0.00 | 32.98 | 4.51 |
3863 | 3882 | 3.385111 | GGGATGACCGATATCTATCACCC | 59.615 | 52.174 | 17.78 | 17.78 | 36.97 | 4.61 |
3864 | 3883 | 3.385111 | GGGGATGACCGATATCTATCACC | 59.615 | 52.174 | 7.68 | 8.93 | 41.60 | 4.02 |
3865 | 3884 | 4.023980 | TGGGGATGACCGATATCTATCAC | 58.976 | 47.826 | 7.68 | 4.56 | 41.60 | 3.06 |
3866 | 3885 | 4.331159 | TGGGGATGACCGATATCTATCA | 57.669 | 45.455 | 7.90 | 7.90 | 41.60 | 2.15 |
3867 | 3886 | 5.144100 | AGATGGGGATGACCGATATCTATC | 58.856 | 45.833 | 0.34 | 0.00 | 37.86 | 2.08 |
3868 | 3887 | 5.149584 | AGATGGGGATGACCGATATCTAT | 57.850 | 43.478 | 0.34 | 0.00 | 37.86 | 1.98 |
3869 | 3888 | 4.609866 | AGATGGGGATGACCGATATCTA | 57.390 | 45.455 | 0.34 | 0.00 | 37.86 | 1.98 |
3870 | 3889 | 3.481559 | AGATGGGGATGACCGATATCT | 57.518 | 47.619 | 0.34 | 0.00 | 37.86 | 1.98 |
3871 | 3890 | 3.866651 | CAAGATGGGGATGACCGATATC | 58.133 | 50.000 | 0.00 | 0.00 | 37.86 | 1.63 |
3872 | 3891 | 2.026822 | GCAAGATGGGGATGACCGATAT | 60.027 | 50.000 | 0.00 | 0.00 | 37.86 | 1.63 |
3873 | 3892 | 1.347707 | GCAAGATGGGGATGACCGATA | 59.652 | 52.381 | 0.00 | 0.00 | 37.86 | 2.92 |
3874 | 3893 | 0.109342 | GCAAGATGGGGATGACCGAT | 59.891 | 55.000 | 0.00 | 0.00 | 40.82 | 4.18 |
3875 | 3894 | 0.982852 | AGCAAGATGGGGATGACCGA | 60.983 | 55.000 | 0.00 | 0.00 | 41.60 | 4.69 |
3876 | 3895 | 0.758734 | TAGCAAGATGGGGATGACCG | 59.241 | 55.000 | 0.00 | 0.00 | 41.60 | 4.79 |
3877 | 3896 | 1.490490 | TGTAGCAAGATGGGGATGACC | 59.510 | 52.381 | 0.00 | 0.00 | 39.11 | 4.02 |
3878 | 3897 | 3.144506 | CATGTAGCAAGATGGGGATGAC | 58.855 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
3879 | 3898 | 2.487805 | GCATGTAGCAAGATGGGGATGA | 60.488 | 50.000 | 0.00 | 0.00 | 44.79 | 2.92 |
3880 | 3899 | 1.884579 | GCATGTAGCAAGATGGGGATG | 59.115 | 52.381 | 0.00 | 0.00 | 44.79 | 3.51 |
3881 | 3900 | 2.283145 | GCATGTAGCAAGATGGGGAT | 57.717 | 50.000 | 0.00 | 0.00 | 44.79 | 3.85 |
3882 | 3901 | 3.806941 | GCATGTAGCAAGATGGGGA | 57.193 | 52.632 | 0.00 | 0.00 | 44.79 | 4.81 |
3892 | 3911 | 3.064545 | GGAAGTGTGATTCAGCATGTAGC | 59.935 | 47.826 | 0.00 | 0.00 | 46.19 | 3.58 |
3893 | 3912 | 4.511527 | AGGAAGTGTGATTCAGCATGTAG | 58.488 | 43.478 | 0.00 | 0.00 | 37.40 | 2.74 |
3894 | 3913 | 4.558226 | AGGAAGTGTGATTCAGCATGTA | 57.442 | 40.909 | 0.00 | 0.00 | 37.40 | 2.29 |
3895 | 3914 | 3.430042 | AGGAAGTGTGATTCAGCATGT | 57.570 | 42.857 | 0.00 | 0.00 | 37.40 | 3.21 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.