Multiple sequence alignment - TraesCS5B01G426900
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 | TraesCS5B01G426900 | chr5B | 100.000 | 7077 | 0 | 0 | 1 | 7077 | 602830151 | 602837227 | 0.000000e+00 | 13069.0 |
1 | TraesCS5B01G426900 | chr5B | 85.455 | 110 | 16 | 0 | 666 | 775 | 444768826 | 444768935 | 1.610000e-21 | 115.0 |
2 | TraesCS5B01G426900 | chr5A | 93.301 | 6329 | 234 | 78 | 838 | 7077 | 610217787 | 610224014 | 0.000000e+00 | 9164.0 |
3 | TraesCS5B01G426900 | chr5A | 82.994 | 541 | 49 | 23 | 144 | 648 | 607624886 | 607625419 | 3.890000e-122 | 449.0 |
4 | TraesCS5B01G426900 | chr5A | 92.188 | 64 | 2 | 2 | 786 | 849 | 610209083 | 610209143 | 3.520000e-13 | 87.9 |
5 | TraesCS5B01G426900 | chr5D | 94.348 | 3450 | 124 | 26 | 1181 | 4610 | 489178177 | 489181575 | 0.000000e+00 | 5225.0 |
6 | TraesCS5B01G426900 | chr5D | 94.360 | 1773 | 53 | 22 | 5334 | 7077 | 489182318 | 489184072 | 0.000000e+00 | 2676.0 |
7 | TraesCS5B01G426900 | chr5D | 94.502 | 673 | 33 | 3 | 4660 | 5329 | 489181577 | 489182248 | 0.000000e+00 | 1035.0 |
8 | TraesCS5B01G426900 | chr5D | 94.139 | 273 | 10 | 4 | 778 | 1048 | 489177550 | 489177818 | 1.840000e-110 | 411.0 |
9 | TraesCS5B01G426900 | chr3B | 92.491 | 799 | 34 | 6 | 1 | 775 | 533448481 | 533447685 | 0.000000e+00 | 1120.0 |
10 | TraesCS5B01G426900 | chr3B | 91.479 | 798 | 42 | 7 | 1 | 775 | 225260425 | 225261219 | 0.000000e+00 | 1074.0 |
11 | TraesCS5B01G426900 | chr3B | 75.712 | 667 | 127 | 30 | 1 | 652 | 708229486 | 708228840 | 1.150000e-77 | 302.0 |
12 | TraesCS5B01G426900 | chr3B | 89.320 | 103 | 11 | 0 | 674 | 776 | 708228851 | 708228749 | 5.760000e-26 | 130.0 |
13 | TraesCS5B01G426900 | chr4A | 83.847 | 811 | 67 | 16 | 1 | 775 | 718148094 | 718147312 | 0.000000e+00 | 713.0 |
14 | TraesCS5B01G426900 | chr4A | 83.600 | 811 | 68 | 24 | 1 | 775 | 718042767 | 718041986 | 0.000000e+00 | 701.0 |
15 | TraesCS5B01G426900 | chr2B | 84.010 | 788 | 70 | 33 | 1 | 777 | 496952255 | 496951513 | 0.000000e+00 | 706.0 |
16 | TraesCS5B01G426900 | chr6B | 88.095 | 588 | 21 | 16 | 213 | 778 | 202506394 | 202505834 | 0.000000e+00 | 652.0 |
17 | TraesCS5B01G426900 | chr2A | 82.845 | 478 | 49 | 13 | 136 | 585 | 607871848 | 607872320 | 1.430000e-106 | 398.0 |
18 | TraesCS5B01G426900 | chr2D | 89.216 | 102 | 10 | 1 | 668 | 769 | 462783633 | 462783733 | 7.450000e-25 | 126.0 |
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 | TraesCS5B01G426900 | chr5B | 602830151 | 602837227 | 7076 | False | 13069.00 | 13069 | 100.00000 | 1 | 7077 | 1 | chr5B.!!$F2 | 7076 |
1 | TraesCS5B01G426900 | chr5A | 610217787 | 610224014 | 6227 | False | 9164.00 | 9164 | 93.30100 | 838 | 7077 | 1 | chr5A.!!$F3 | 6239 |
2 | TraesCS5B01G426900 | chr5A | 607624886 | 607625419 | 533 | False | 449.00 | 449 | 82.99400 | 144 | 648 | 1 | chr5A.!!$F1 | 504 |
3 | TraesCS5B01G426900 | chr5D | 489177550 | 489184072 | 6522 | False | 2336.75 | 5225 | 94.33725 | 778 | 7077 | 4 | chr5D.!!$F1 | 6299 |
4 | TraesCS5B01G426900 | chr3B | 533447685 | 533448481 | 796 | True | 1120.00 | 1120 | 92.49100 | 1 | 775 | 1 | chr3B.!!$R1 | 774 |
5 | TraesCS5B01G426900 | chr3B | 225260425 | 225261219 | 794 | False | 1074.00 | 1074 | 91.47900 | 1 | 775 | 1 | chr3B.!!$F1 | 774 |
6 | TraesCS5B01G426900 | chr3B | 708228749 | 708229486 | 737 | True | 216.00 | 302 | 82.51600 | 1 | 776 | 2 | chr3B.!!$R2 | 775 |
7 | TraesCS5B01G426900 | chr4A | 718147312 | 718148094 | 782 | True | 713.00 | 713 | 83.84700 | 1 | 775 | 1 | chr4A.!!$R2 | 774 |
8 | TraesCS5B01G426900 | chr4A | 718041986 | 718042767 | 781 | True | 701.00 | 701 | 83.60000 | 1 | 775 | 1 | chr4A.!!$R1 | 774 |
9 | TraesCS5B01G426900 | chr2B | 496951513 | 496952255 | 742 | True | 706.00 | 706 | 84.01000 | 1 | 777 | 1 | chr2B.!!$R1 | 776 |
10 | TraesCS5B01G426900 | chr6B | 202505834 | 202506394 | 560 | True | 652.00 | 652 | 88.09500 | 213 | 778 | 1 | chr6B.!!$R1 | 565 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
782 | 953 | 0.612453 | CTAGGACCTCCCGGCTATCC | 60.612 | 65.000 | 0.00 | 0.00 | 40.87 | 2.59 | F |
805 | 976 | 1.072331 | CCCACACCAACTACTTCTGCT | 59.928 | 52.381 | 0.00 | 0.00 | 0.00 | 4.24 | F |
2125 | 2550 | 1.588082 | GCCAACTTGATGCCCACTG | 59.412 | 57.895 | 0.00 | 0.00 | 0.00 | 3.66 | F |
2522 | 2947 | 1.066215 | TGCTTGTCTATCATGTGGCGT | 60.066 | 47.619 | 0.00 | 0.00 | 0.00 | 5.68 | F |
3410 | 3842 | 0.031857 | CAGCGAGGTCATGAGCTAGG | 59.968 | 60.000 | 28.64 | 22.75 | 39.57 | 3.02 | F |
3668 | 4100 | 0.676736 | GAGGAATAGACCCAGCTCCG | 59.323 | 60.000 | 0.00 | 0.00 | 0.00 | 4.63 | F |
4618 | 5057 | 0.244178 | TATGCTGCGGACGTGTTACA | 59.756 | 50.000 | 0.00 | 0.00 | 0.00 | 2.41 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2449 | 2874 | 0.810648 | GGCCTCGCATTTGTCAATGA | 59.189 | 50.0 | 0.00 | 0.00 | 42.35 | 2.57 | R |
2463 | 2888 | 1.372087 | CGCCACATGAAAGAGGCCTC | 61.372 | 60.0 | 26.22 | 26.22 | 41.50 | 4.70 | R |
2984 | 3413 | 0.034670 | AGGCAGAGACAAGGGCAATC | 60.035 | 55.0 | 0.00 | 0.00 | 0.00 | 2.67 | R |
3623 | 4055 | 0.391661 | CAAGTGCACTACAGGCGGAT | 60.392 | 55.0 | 22.01 | 0.00 | 0.00 | 4.18 | R |
4426 | 4865 | 0.467844 | AGCATGTTCCAGCACCACAA | 60.468 | 50.0 | 0.00 | 0.00 | 0.00 | 3.33 | R |
5662 | 6179 | 0.902531 | GAGAGATTTGTCCCCGGTCA | 59.097 | 55.0 | 0.00 | 0.00 | 0.00 | 4.02 | R |
6612 | 7158 | 0.322546 | GAGAACAATTGTCCCGGCCT | 60.323 | 55.0 | 12.39 | 2.78 | 0.00 | 5.19 | 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 |
---|---|---|---|---|---|---|---|---|---|
513 | 682 | 9.750125 | GTCAAAGAGATGTTTTTCCTATTTGTT | 57.250 | 29.630 | 0.00 | 0.00 | 39.07 | 2.83 |
533 | 702 | 4.759183 | TGTTGTCAACGGAATGATCATGAA | 59.241 | 37.500 | 9.46 | 0.00 | 0.00 | 2.57 |
550 | 719 | 1.633432 | TGAACAGGTGGTTATGAGGGG | 59.367 | 52.381 | 0.00 | 0.00 | 40.63 | 4.79 |
595 | 764 | 2.358737 | CGAACCCCAGCACTCACC | 60.359 | 66.667 | 0.00 | 0.00 | 0.00 | 4.02 |
782 | 953 | 0.612453 | CTAGGACCTCCCGGCTATCC | 60.612 | 65.000 | 0.00 | 0.00 | 40.87 | 2.59 |
805 | 976 | 1.072331 | CCCACACCAACTACTTCTGCT | 59.928 | 52.381 | 0.00 | 0.00 | 0.00 | 4.24 |
835 | 1006 | 2.333014 | GCACGACAAGAGAAGAGGAAG | 58.667 | 52.381 | 0.00 | 0.00 | 0.00 | 3.46 |
886 | 1059 | 4.846779 | TGCTTCGTCTTTGCCTAAAAAT | 57.153 | 36.364 | 0.00 | 0.00 | 0.00 | 1.82 |
974 | 1147 | 3.175710 | AAACCACACCGCCCTCCT | 61.176 | 61.111 | 0.00 | 0.00 | 0.00 | 3.69 |
987 | 1160 | 4.410400 | CTCCTCACCCCCAACCGC | 62.410 | 72.222 | 0.00 | 0.00 | 0.00 | 5.68 |
1723 | 2122 | 2.492088 | TGGTCGTCTGGAGATGTAACAG | 59.508 | 50.000 | 0.00 | 0.00 | 33.00 | 3.16 |
1777 | 2176 | 4.833469 | GTTTGTTCCAAAACCAAGTTCG | 57.167 | 40.909 | 0.00 | 0.00 | 34.58 | 3.95 |
1794 | 2195 | 2.921754 | GTTCGCTCGCATTTAGTACAGT | 59.078 | 45.455 | 0.00 | 0.00 | 0.00 | 3.55 |
1842 | 2259 | 3.426159 | CGATGTGCTTACCATTGTTCACC | 60.426 | 47.826 | 0.00 | 0.00 | 0.00 | 4.02 |
1843 | 2260 | 2.937519 | TGTGCTTACCATTGTTCACCA | 58.062 | 42.857 | 0.00 | 0.00 | 0.00 | 4.17 |
2058 | 2483 | 9.167311 | TGCTTCTTATAGAATTTGGAGAAGTTC | 57.833 | 33.333 | 11.24 | 0.00 | 41.16 | 3.01 |
2070 | 2495 | 2.781646 | GGAGAAGTTCGTTTTGCAAACG | 59.218 | 45.455 | 12.39 | 17.77 | 44.29 | 3.60 |
2123 | 2548 | 1.907807 | TGGCCAACTTGATGCCCAC | 60.908 | 57.895 | 0.61 | 0.00 | 44.72 | 4.61 |
2124 | 2549 | 1.607467 | GGCCAACTTGATGCCCACT | 60.607 | 57.895 | 0.00 | 0.00 | 39.30 | 4.00 |
2125 | 2550 | 1.588082 | GCCAACTTGATGCCCACTG | 59.412 | 57.895 | 0.00 | 0.00 | 0.00 | 3.66 |
2154 | 2579 | 7.510549 | TTGGTTTAGAAGAACATCCTTTCTG | 57.489 | 36.000 | 0.00 | 0.00 | 35.92 | 3.02 |
2265 | 2690 | 5.278660 | CCTTCAGCAGCAGTCAATTAACTTT | 60.279 | 40.000 | 0.00 | 0.00 | 0.00 | 2.66 |
2267 | 2692 | 6.875948 | TCAGCAGCAGTCAATTAACTTTTA | 57.124 | 33.333 | 0.00 | 0.00 | 0.00 | 1.52 |
2276 | 2701 | 6.032775 | CAGTCAATTAACTTTTATGTGCTGCG | 59.967 | 38.462 | 0.00 | 0.00 | 0.00 | 5.18 |
2295 | 2720 | 2.476185 | GCGTGATTAGTGTTGTCATGGC | 60.476 | 50.000 | 0.00 | 0.00 | 31.25 | 4.40 |
2296 | 2721 | 2.095853 | CGTGATTAGTGTTGTCATGGCC | 59.904 | 50.000 | 0.00 | 0.00 | 0.00 | 5.36 |
2340 | 2765 | 7.789831 | AGATGTGTTCCTATTCTTAGGTGGATA | 59.210 | 37.037 | 0.00 | 0.00 | 44.75 | 2.59 |
2398 | 2823 | 2.591923 | TGCACCTTGTCAATTGCCTAA | 58.408 | 42.857 | 13.91 | 0.00 | 33.86 | 2.69 |
2399 | 2824 | 2.295909 | TGCACCTTGTCAATTGCCTAAC | 59.704 | 45.455 | 13.91 | 0.00 | 33.86 | 2.34 |
2409 | 2834 | 5.221224 | TGTCAATTGCCTAACCTTTGACTTG | 60.221 | 40.000 | 13.35 | 0.00 | 44.00 | 3.16 |
2449 | 2874 | 9.535878 | TTCGCTTTTAAGTTCAAAACCAAATAT | 57.464 | 25.926 | 0.00 | 0.00 | 0.00 | 1.28 |
2463 | 2888 | 6.890663 | AACCAAATATCATTGACAAATGCG | 57.109 | 33.333 | 0.00 | 0.00 | 42.55 | 4.73 |
2513 | 2938 | 8.883731 | TCTGTAGCTTTTAAATGCTTGTCTATC | 58.116 | 33.333 | 27.48 | 13.28 | 39.69 | 2.08 |
2519 | 2944 | 7.221452 | GCTTTTAAATGCTTGTCTATCATGTGG | 59.779 | 37.037 | 16.55 | 0.00 | 0.00 | 4.17 |
2520 | 2945 | 4.644103 | AAATGCTTGTCTATCATGTGGC | 57.356 | 40.909 | 0.00 | 0.00 | 0.00 | 5.01 |
2521 | 2946 | 1.655484 | TGCTTGTCTATCATGTGGCG | 58.345 | 50.000 | 0.00 | 0.00 | 0.00 | 5.69 |
2522 | 2947 | 1.066215 | TGCTTGTCTATCATGTGGCGT | 60.066 | 47.619 | 0.00 | 0.00 | 0.00 | 5.68 |
2525 | 2950 | 3.430218 | GCTTGTCTATCATGTGGCGTATC | 59.570 | 47.826 | 0.00 | 0.00 | 0.00 | 2.24 |
2528 | 2953 | 4.145052 | TGTCTATCATGTGGCGTATCTCT | 58.855 | 43.478 | 0.00 | 0.00 | 0.00 | 3.10 |
2529 | 2954 | 4.022849 | TGTCTATCATGTGGCGTATCTCTG | 60.023 | 45.833 | 0.00 | 0.00 | 0.00 | 3.35 |
2530 | 2955 | 4.022762 | GTCTATCATGTGGCGTATCTCTGT | 60.023 | 45.833 | 0.00 | 0.00 | 0.00 | 3.41 |
2531 | 2956 | 5.181433 | GTCTATCATGTGGCGTATCTCTGTA | 59.819 | 44.000 | 0.00 | 0.00 | 0.00 | 2.74 |
2532 | 2957 | 3.990318 | TCATGTGGCGTATCTCTGTAG | 57.010 | 47.619 | 0.00 | 0.00 | 0.00 | 2.74 |
2533 | 2958 | 3.288092 | TCATGTGGCGTATCTCTGTAGT | 58.712 | 45.455 | 0.00 | 0.00 | 0.00 | 2.73 |
2534 | 2959 | 3.699538 | TCATGTGGCGTATCTCTGTAGTT | 59.300 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
2535 | 2960 | 3.777465 | TGTGGCGTATCTCTGTAGTTC | 57.223 | 47.619 | 0.00 | 0.00 | 0.00 | 3.01 |
2536 | 2961 | 3.086282 | TGTGGCGTATCTCTGTAGTTCA | 58.914 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
2537 | 2962 | 3.508402 | TGTGGCGTATCTCTGTAGTTCAA | 59.492 | 43.478 | 0.00 | 0.00 | 0.00 | 2.69 |
2538 | 2963 | 4.021807 | TGTGGCGTATCTCTGTAGTTCAAA | 60.022 | 41.667 | 0.00 | 0.00 | 0.00 | 2.69 |
2539 | 2964 | 4.927425 | GTGGCGTATCTCTGTAGTTCAAAA | 59.073 | 41.667 | 0.00 | 0.00 | 0.00 | 2.44 |
2540 | 2965 | 4.927425 | TGGCGTATCTCTGTAGTTCAAAAC | 59.073 | 41.667 | 0.00 | 0.00 | 0.00 | 2.43 |
2541 | 2966 | 4.329256 | GGCGTATCTCTGTAGTTCAAAACC | 59.671 | 45.833 | 0.00 | 0.00 | 0.00 | 3.27 |
2542 | 2967 | 4.927425 | GCGTATCTCTGTAGTTCAAAACCA | 59.073 | 41.667 | 0.00 | 0.00 | 0.00 | 3.67 |
2543 | 2968 | 5.407387 | GCGTATCTCTGTAGTTCAAAACCAA | 59.593 | 40.000 | 0.00 | 0.00 | 0.00 | 3.67 |
2544 | 2969 | 6.073440 | GCGTATCTCTGTAGTTCAAAACCAAA | 60.073 | 38.462 | 0.00 | 0.00 | 0.00 | 3.28 |
2545 | 2970 | 7.360946 | GCGTATCTCTGTAGTTCAAAACCAAAT | 60.361 | 37.037 | 0.00 | 0.00 | 0.00 | 2.32 |
2546 | 2971 | 9.146984 | CGTATCTCTGTAGTTCAAAACCAAATA | 57.853 | 33.333 | 0.00 | 0.00 | 0.00 | 1.40 |
2564 | 2989 | 9.889128 | AACCAAATATTTGAGTATTTCATTGGG | 57.111 | 29.630 | 26.32 | 9.28 | 41.84 | 4.12 |
2585 | 3010 | 2.872858 | GCTGTCCAAATAATCCGTCTCC | 59.127 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
2773 | 3198 | 7.390996 | ACATGTACGGTGGTTTATCAATGTTAA | 59.609 | 33.333 | 0.00 | 0.00 | 0.00 | 2.01 |
2880 | 3308 | 8.800370 | TTTGATCTATATTTGTTACTGGTGCA | 57.200 | 30.769 | 0.00 | 0.00 | 0.00 | 4.57 |
2881 | 3309 | 8.978874 | TTGATCTATATTTGTTACTGGTGCAT | 57.021 | 30.769 | 0.00 | 0.00 | 0.00 | 3.96 |
2926 | 3354 | 4.892934 | TGCACTATCTTTCCCAAACACTTT | 59.107 | 37.500 | 0.00 | 0.00 | 0.00 | 2.66 |
2983 | 3412 | 5.541868 | AGTGATATCTGAATGATTCCGGTCT | 59.458 | 40.000 | 0.00 | 0.00 | 36.65 | 3.85 |
2984 | 3413 | 5.636965 | GTGATATCTGAATGATTCCGGTCTG | 59.363 | 44.000 | 0.00 | 0.00 | 36.65 | 3.51 |
2985 | 3414 | 5.539955 | TGATATCTGAATGATTCCGGTCTGA | 59.460 | 40.000 | 0.00 | 0.00 | 36.65 | 3.27 |
3101 | 3532 | 5.333299 | TCGCTAAGGCATTTTACAGAGTA | 57.667 | 39.130 | 0.00 | 0.00 | 38.60 | 2.59 |
3192 | 3623 | 0.539438 | TGCAAGGTTTAGGCCACCAG | 60.539 | 55.000 | 12.97 | 6.24 | 36.67 | 4.00 |
3193 | 3624 | 1.877576 | GCAAGGTTTAGGCCACCAGC | 61.878 | 60.000 | 12.97 | 11.83 | 36.67 | 4.85 |
3201 | 3632 | 1.617018 | TAGGCCACCAGCAGTGCTAG | 61.617 | 60.000 | 19.26 | 13.93 | 45.83 | 3.42 |
3286 | 3718 | 6.530019 | GGAACACCAATTCCATTATCAGTT | 57.470 | 37.500 | 0.00 | 0.00 | 46.49 | 3.16 |
3287 | 3719 | 6.935167 | GGAACACCAATTCCATTATCAGTTT | 58.065 | 36.000 | 0.00 | 0.00 | 46.49 | 2.66 |
3288 | 3720 | 8.062065 | GGAACACCAATTCCATTATCAGTTTA | 57.938 | 34.615 | 0.00 | 0.00 | 46.49 | 2.01 |
3289 | 3721 | 8.695456 | GGAACACCAATTCCATTATCAGTTTAT | 58.305 | 33.333 | 0.00 | 0.00 | 46.49 | 1.40 |
3290 | 3722 | 9.736023 | GAACACCAATTCCATTATCAGTTTATC | 57.264 | 33.333 | 0.00 | 0.00 | 0.00 | 1.75 |
3291 | 3723 | 8.821686 | ACACCAATTCCATTATCAGTTTATCA | 57.178 | 30.769 | 0.00 | 0.00 | 0.00 | 2.15 |
3410 | 3842 | 0.031857 | CAGCGAGGTCATGAGCTAGG | 59.968 | 60.000 | 28.64 | 22.75 | 39.57 | 3.02 |
3623 | 4055 | 1.625759 | CTTCAGTACACGCATGCGCA | 61.626 | 55.000 | 38.15 | 21.69 | 44.19 | 6.09 |
3668 | 4100 | 0.676736 | GAGGAATAGACCCAGCTCCG | 59.323 | 60.000 | 0.00 | 0.00 | 0.00 | 4.63 |
3794 | 4232 | 1.675310 | CTGCCATTGCTCCGGTTGA | 60.675 | 57.895 | 0.00 | 0.00 | 38.71 | 3.18 |
3843 | 4281 | 4.934356 | TGGTTTTTCTTCTGCATATCCCT | 58.066 | 39.130 | 0.00 | 0.00 | 0.00 | 4.20 |
4045 | 4483 | 4.227300 | TGTCTGTTGCCCTTAGTCCATAAT | 59.773 | 41.667 | 0.00 | 0.00 | 0.00 | 1.28 |
4063 | 4501 | 5.361857 | CCATAATCAACCTCCAGCATTTCTT | 59.638 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
4073 | 4511 | 5.065731 | CCTCCAGCATTTCTTGAGTATGTTC | 59.934 | 44.000 | 0.00 | 0.00 | 33.86 | 3.18 |
4135 | 4573 | 8.902806 | TGCAAATGTCTAATTTAATCTCGGAAT | 58.097 | 29.630 | 0.00 | 0.00 | 0.00 | 3.01 |
4177 | 4616 | 6.216569 | CCGTTCTGTTAGCTGATGTATATGT | 58.783 | 40.000 | 0.00 | 0.00 | 0.00 | 2.29 |
4179 | 4618 | 6.697455 | CGTTCTGTTAGCTGATGTATATGTGT | 59.303 | 38.462 | 0.00 | 0.00 | 0.00 | 3.72 |
4426 | 4865 | 6.839124 | TCAATTGTGAATATGCCTTGTTCT | 57.161 | 33.333 | 5.13 | 0.00 | 0.00 | 3.01 |
4595 | 5034 | 7.282224 | TGTGTGCTTGATATTTTACTGTATCCC | 59.718 | 37.037 | 0.00 | 0.00 | 0.00 | 3.85 |
4611 | 5050 | 0.317160 | TCCCTATTATGCTGCGGACG | 59.683 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
4618 | 5057 | 0.244178 | TATGCTGCGGACGTGTTACA | 59.756 | 50.000 | 0.00 | 0.00 | 0.00 | 2.41 |
4631 | 5078 | 5.064707 | GGACGTGTTACATTAATGTCATGCT | 59.935 | 40.000 | 24.00 | 12.29 | 41.97 | 3.79 |
4654 | 5101 | 9.225436 | TGCTTTTTATCTAATGTGACATGTACA | 57.775 | 29.630 | 0.00 | 0.00 | 0.00 | 2.90 |
4655 | 5102 | 9.708222 | GCTTTTTATCTAATGTGACATGTACAG | 57.292 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
4695 | 5142 | 2.942376 | TGTACTGAACACTTGGTGCTTG | 59.058 | 45.455 | 0.00 | 0.00 | 36.98 | 4.01 |
4803 | 5250 | 3.916761 | TGTGTTGACGTGGATAGTTACC | 58.083 | 45.455 | 0.00 | 0.00 | 0.00 | 2.85 |
4831 | 5278 | 7.862873 | GGGCATTTATAACTCTTTATCTTGTGC | 59.137 | 37.037 | 0.00 | 0.00 | 0.00 | 4.57 |
4834 | 5281 | 7.548196 | TTTATAACTCTTTATCTTGTGCCCG | 57.452 | 36.000 | 0.00 | 0.00 | 0.00 | 6.13 |
4944 | 5391 | 9.502091 | TGCAGTTATGAGTTAAGATTTAGTTGT | 57.498 | 29.630 | 0.00 | 0.00 | 0.00 | 3.32 |
4961 | 5408 | 8.450578 | TTTAGTTGTCAACAGAACAGATTCAT | 57.549 | 30.769 | 17.78 | 0.00 | 37.29 | 2.57 |
5034 | 5481 | 4.718961 | ACTGAGCAACTAAGTCATTTGGT | 58.281 | 39.130 | 0.00 | 0.00 | 33.77 | 3.67 |
5053 | 5500 | 9.695526 | CATTTGGTTTCAACTCAATTATTCTCA | 57.304 | 29.630 | 0.00 | 0.00 | 31.78 | 3.27 |
5059 | 5506 | 9.897744 | GTTTCAACTCAATTATTCTCAATCACA | 57.102 | 29.630 | 0.00 | 0.00 | 0.00 | 3.58 |
5121 | 5569 | 2.949177 | TTAACCGGATATGCATGGCT | 57.051 | 45.000 | 9.46 | 0.00 | 0.00 | 4.75 |
5181 | 5631 | 8.551682 | TTCCAAATCTTAAATTGGCCTGATAT | 57.448 | 30.769 | 3.32 | 0.00 | 44.63 | 1.63 |
5182 | 5632 | 8.551682 | TCCAAATCTTAAATTGGCCTGATATT | 57.448 | 30.769 | 3.32 | 0.00 | 44.63 | 1.28 |
5183 | 5633 | 8.423349 | TCCAAATCTTAAATTGGCCTGATATTG | 58.577 | 33.333 | 3.32 | 0.00 | 44.63 | 1.90 |
5198 | 5648 | 6.016276 | GCCTGATATTGTTTAACTGGGTATGG | 60.016 | 42.308 | 0.00 | 0.00 | 0.00 | 2.74 |
5207 | 5657 | 1.595311 | ACTGGGTATGGATGGCTGAA | 58.405 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
5233 | 5683 | 7.505585 | AGTGTTTTTCTTTCATGGTATCTGGAA | 59.494 | 33.333 | 0.00 | 0.00 | 0.00 | 3.53 |
5412 | 5927 | 4.272504 | TCGAAATTACCCGAAATGATCTGC | 59.727 | 41.667 | 0.00 | 0.00 | 0.00 | 4.26 |
5544 | 6061 | 3.220110 | CAACTGATGCTAGGATGCCATT | 58.780 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
5662 | 6179 | 6.773976 | TTTCATGTCTTTCTCTTGGTGTTT | 57.226 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
5905 | 6422 | 1.002087 | CCTTACTCTGACAAAGGCGGT | 59.998 | 52.381 | 1.48 | 0.00 | 33.84 | 5.68 |
5909 | 6426 | 0.895530 | CTCTGACAAAGGCGGTAGGA | 59.104 | 55.000 | 0.00 | 0.00 | 0.00 | 2.94 |
6099 | 6616 | 2.358737 | GGTGCCCCTGTGAACTCG | 60.359 | 66.667 | 0.00 | 0.00 | 0.00 | 4.18 |
6139 | 6656 | 2.869801 | TGCTGTACGAAACTTGGACAAG | 59.130 | 45.455 | 10.34 | 10.34 | 43.79 | 3.16 |
6217 | 6734 | 3.609853 | TGCCACTATTTAGTTCCAGCAG | 58.390 | 45.455 | 0.00 | 0.00 | 33.46 | 4.24 |
6227 | 6744 | 0.804989 | GTTCCAGCAGACGGGATTTG | 59.195 | 55.000 | 0.00 | 0.00 | 40.09 | 2.32 |
6242 | 6759 | 5.418840 | ACGGGATTTGCTTTTGATATCTTGT | 59.581 | 36.000 | 3.98 | 0.00 | 0.00 | 3.16 |
6330 | 6847 | 4.158394 | TGAACAAGAGAAAGCCATTATGCC | 59.842 | 41.667 | 0.00 | 0.00 | 0.00 | 4.40 |
6338 | 6855 | 4.652421 | AGAAAGCCATTATGCCATGTTCAT | 59.348 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
6447 | 6964 | 6.655078 | ATGTTGCTGTTTCCTTTGAATACT | 57.345 | 33.333 | 0.00 | 0.00 | 0.00 | 2.12 |
6448 | 6965 | 6.463995 | TGTTGCTGTTTCCTTTGAATACTT | 57.536 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
6480 | 6997 | 3.056821 | GGGTGTTCCTTTGAATACTTGCC | 60.057 | 47.826 | 2.91 | 0.00 | 41.05 | 4.52 |
6482 | 6999 | 4.546570 | GTGTTCCTTTGAATACTTGCCAC | 58.453 | 43.478 | 0.00 | 0.00 | 38.96 | 5.01 |
6483 | 7000 | 3.252215 | TGTTCCTTTGAATACTTGCCACG | 59.748 | 43.478 | 0.00 | 0.00 | 31.98 | 4.94 |
6521 | 7041 | 7.961351 | AGTTTGAGATGGAGTTAGATAGGATG | 58.039 | 38.462 | 0.00 | 0.00 | 0.00 | 3.51 |
6555 | 7075 | 1.287146 | GACCCTGGACCCTGTACTCTA | 59.713 | 57.143 | 0.00 | 0.00 | 0.00 | 2.43 |
6556 | 7076 | 1.006878 | ACCCTGGACCCTGTACTCTAC | 59.993 | 57.143 | 0.00 | 0.00 | 0.00 | 2.59 |
6557 | 7077 | 1.288335 | CCCTGGACCCTGTACTCTACT | 59.712 | 57.143 | 0.00 | 0.00 | 0.00 | 2.57 |
6569 | 7089 | 9.183368 | ACCCTGTACTCTACTACAACTAAATAC | 57.817 | 37.037 | 0.00 | 0.00 | 0.00 | 1.89 |
6570 | 7090 | 9.182214 | CCCTGTACTCTACTACAACTAAATACA | 57.818 | 37.037 | 0.00 | 0.00 | 0.00 | 2.29 |
6575 | 7121 | 6.666546 | ACTCTACTACAACTAAATACAGCCCA | 59.333 | 38.462 | 0.00 | 0.00 | 0.00 | 5.36 |
6614 | 7160 | 1.829849 | TCATCAAGTGAGGCAGAGAGG | 59.170 | 52.381 | 0.00 | 0.00 | 31.80 | 3.69 |
6615 | 7161 | 0.540923 | ATCAAGTGAGGCAGAGAGGC | 59.459 | 55.000 | 0.00 | 0.00 | 44.61 | 4.70 |
6640 | 7194 | 3.935828 | GGACAATTGTTCTCTGTAGAGGC | 59.064 | 47.826 | 13.36 | 3.85 | 42.30 | 4.70 |
6693 | 7247 | 5.724854 | ACACTTAGGACCCAGCTATTAAAGA | 59.275 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
6695 | 7249 | 6.539103 | CACTTAGGACCCAGCTATTAAAGAAC | 59.461 | 42.308 | 0.00 | 0.00 | 0.00 | 3.01 |
6765 | 7338 | 1.270550 | GGAAGTTGCACATGGTTCCTG | 59.729 | 52.381 | 0.00 | 0.00 | 34.89 | 3.86 |
6769 | 7342 | 3.766545 | AGTTGCACATGGTTCCTGTATT | 58.233 | 40.909 | 0.00 | 0.00 | 0.00 | 1.89 |
6771 | 7344 | 3.719268 | TGCACATGGTTCCTGTATTCT | 57.281 | 42.857 | 0.00 | 0.00 | 0.00 | 2.40 |
6774 | 7347 | 3.346315 | CACATGGTTCCTGTATTCTGCA | 58.654 | 45.455 | 0.00 | 0.00 | 0.00 | 4.41 |
6775 | 7348 | 3.376234 | CACATGGTTCCTGTATTCTGCAG | 59.624 | 47.826 | 7.63 | 7.63 | 0.00 | 4.41 |
6776 | 7349 | 3.009473 | ACATGGTTCCTGTATTCTGCAGT | 59.991 | 43.478 | 14.67 | 0.00 | 32.41 | 4.40 |
6790 | 7363 | 3.196463 | TCTGCAGTAGTAGTACGAGCTC | 58.804 | 50.000 | 14.67 | 2.73 | 36.55 | 4.09 |
6861 | 7434 | 4.379243 | CGCGGCTGTCCTGTCCTT | 62.379 | 66.667 | 0.00 | 0.00 | 0.00 | 3.36 |
6927 | 7500 | 1.068055 | CAGTTCAACTGCAGGAATGGC | 60.068 | 52.381 | 19.93 | 10.30 | 39.62 | 4.40 |
7040 | 7613 | 4.576374 | GCGGTCCCCTATCCCCCT | 62.576 | 72.222 | 0.00 | 0.00 | 0.00 | 4.79 |
7045 | 7618 | 0.841158 | GTCCCCTATCCCCCTTAGCC | 60.841 | 65.000 | 0.00 | 0.00 | 0.00 | 3.93 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
121 | 124 | 9.657121 | GTTCAACAATTTTGAAAACAAAACTCA | 57.343 | 25.926 | 13.68 | 0.00 | 39.76 | 3.41 |
164 | 232 | 8.833231 | AAAGTTCATCATCTCGAGAAAAAGTA | 57.167 | 30.769 | 20.91 | 1.31 | 0.00 | 2.24 |
497 | 665 | 6.037098 | CCGTTGACAACAAATAGGAAAAACA | 58.963 | 36.000 | 18.09 | 0.00 | 37.77 | 2.83 |
513 | 682 | 4.322567 | TGTTCATGATCATTCCGTTGACA | 58.677 | 39.130 | 5.16 | 1.08 | 0.00 | 3.58 |
533 | 702 | 0.550147 | AGCCCCTCATAACCACCTGT | 60.550 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
550 | 719 | 1.638467 | CGCGAGGTTTGATAGCAGC | 59.362 | 57.895 | 0.00 | 0.00 | 0.00 | 5.25 |
595 | 764 | 2.229675 | TCATACTCCTGCAGCGATTG | 57.770 | 50.000 | 8.66 | 1.93 | 0.00 | 2.67 |
652 | 821 | 7.576236 | TGCTCTTAAAAACTGATTCTCGAAAG | 58.424 | 34.615 | 0.00 | 0.00 | 0.00 | 2.62 |
671 | 842 | 2.692557 | ACATCGCTCACTATCTGCTCTT | 59.307 | 45.455 | 0.00 | 0.00 | 0.00 | 2.85 |
724 | 895 | 2.436115 | GGACAAGTGGCGCCTACC | 60.436 | 66.667 | 29.70 | 15.51 | 0.00 | 3.18 |
782 | 953 | 1.072331 | AGAAGTAGTTGGTGTGGGCTG | 59.928 | 52.381 | 0.00 | 0.00 | 0.00 | 4.85 |
835 | 1006 | 2.586357 | GAACGCGGGGATGCTCTC | 60.586 | 66.667 | 12.47 | 0.00 | 0.00 | 3.20 |
886 | 1059 | 4.657075 | GGAAGACGAAGCGAAATGTTTA | 57.343 | 40.909 | 0.00 | 0.00 | 0.00 | 2.01 |
987 | 1160 | 4.530857 | GACATGGTCGAGGCGGGG | 62.531 | 72.222 | 0.00 | 0.00 | 0.00 | 5.73 |
1410 | 1809 | 2.203195 | GCATCCACATAGCCGCCA | 60.203 | 61.111 | 0.00 | 0.00 | 0.00 | 5.69 |
1777 | 2176 | 7.695869 | ACTATAAACTGTACTAAATGCGAGC | 57.304 | 36.000 | 0.00 | 0.00 | 0.00 | 5.03 |
1842 | 2259 | 8.610896 | CAATAGCAGGAGAAGTAAAGATTTCTG | 58.389 | 37.037 | 0.00 | 0.00 | 32.16 | 3.02 |
1843 | 2260 | 8.543774 | TCAATAGCAGGAGAAGTAAAGATTTCT | 58.456 | 33.333 | 0.00 | 0.00 | 34.54 | 2.52 |
2100 | 2525 | 3.055719 | ATCAAGTTGGCCACCGCG | 61.056 | 61.111 | 3.88 | 0.00 | 35.02 | 6.46 |
2110 | 2535 | 3.508845 | AACTACAGTGGGCATCAAGTT | 57.491 | 42.857 | 0.00 | 0.00 | 0.00 | 2.66 |
2115 | 2540 | 2.200373 | ACCAAACTACAGTGGGCATC | 57.800 | 50.000 | 0.00 | 0.00 | 39.39 | 3.91 |
2123 | 2548 | 7.661847 | AGGATGTTCTTCTAAACCAAACTACAG | 59.338 | 37.037 | 0.00 | 0.00 | 0.00 | 2.74 |
2124 | 2549 | 7.514721 | AGGATGTTCTTCTAAACCAAACTACA | 58.485 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
2125 | 2550 | 7.981102 | AGGATGTTCTTCTAAACCAAACTAC | 57.019 | 36.000 | 0.00 | 0.00 | 0.00 | 2.73 |
2265 | 2690 | 3.595173 | ACACTAATCACGCAGCACATAA | 58.405 | 40.909 | 0.00 | 0.00 | 0.00 | 1.90 |
2267 | 2692 | 2.099141 | ACACTAATCACGCAGCACAT | 57.901 | 45.000 | 0.00 | 0.00 | 0.00 | 3.21 |
2276 | 2701 | 2.095853 | CGGCCATGACAACACTAATCAC | 59.904 | 50.000 | 2.24 | 0.00 | 0.00 | 3.06 |
2295 | 2720 | 4.471904 | TCTTATATAGCCCATCAAGCGG | 57.528 | 45.455 | 0.00 | 0.00 | 34.64 | 5.52 |
2296 | 2721 | 5.292834 | CACATCTTATATAGCCCATCAAGCG | 59.707 | 44.000 | 0.00 | 0.00 | 34.64 | 4.68 |
2340 | 2765 | 9.971922 | GAAGCTGAAAACAAATTATGCCTATAT | 57.028 | 29.630 | 0.00 | 0.00 | 0.00 | 0.86 |
2346 | 2771 | 9.667989 | AAAAATGAAGCTGAAAACAAATTATGC | 57.332 | 25.926 | 0.00 | 0.00 | 0.00 | 3.14 |
2360 | 2785 | 4.494526 | GGTGCAACAACAAAAATGAAGCTG | 60.495 | 41.667 | 0.00 | 0.00 | 39.98 | 4.24 |
2398 | 2823 | 7.539034 | AACCTAAAATATGCAAGTCAAAGGT | 57.461 | 32.000 | 0.00 | 0.00 | 35.18 | 3.50 |
2399 | 2824 | 8.831715 | AAAACCTAAAATATGCAAGTCAAAGG | 57.168 | 30.769 | 0.00 | 0.00 | 0.00 | 3.11 |
2409 | 2834 | 9.135843 | ACTTAAAAGCGAAAACCTAAAATATGC | 57.864 | 29.630 | 0.00 | 0.00 | 0.00 | 3.14 |
2449 | 2874 | 0.810648 | GGCCTCGCATTTGTCAATGA | 59.189 | 50.000 | 0.00 | 0.00 | 42.35 | 2.57 |
2463 | 2888 | 1.372087 | CGCCACATGAAAGAGGCCTC | 61.372 | 60.000 | 26.22 | 26.22 | 41.50 | 4.70 |
2513 | 2938 | 3.717400 | ACTACAGAGATACGCCACATG | 57.283 | 47.619 | 0.00 | 0.00 | 0.00 | 3.21 |
2519 | 2944 | 4.927425 | TGGTTTTGAACTACAGAGATACGC | 59.073 | 41.667 | 0.00 | 0.00 | 0.00 | 4.42 |
2520 | 2945 | 7.416154 | TTTGGTTTTGAACTACAGAGATACG | 57.584 | 36.000 | 0.00 | 0.00 | 0.00 | 3.06 |
2538 | 2963 | 9.889128 | CCCAATGAAATACTCAAATATTTGGTT | 57.111 | 29.630 | 24.40 | 15.32 | 37.44 | 3.67 |
2539 | 2964 | 7.986889 | GCCCAATGAAATACTCAAATATTTGGT | 59.013 | 33.333 | 24.40 | 21.60 | 37.44 | 3.67 |
2540 | 2965 | 8.206189 | AGCCCAATGAAATACTCAAATATTTGG | 58.794 | 33.333 | 24.40 | 17.88 | 38.28 | 3.28 |
2541 | 2966 | 9.037737 | CAGCCCAATGAAATACTCAAATATTTG | 57.962 | 33.333 | 20.13 | 20.13 | 37.67 | 2.32 |
2542 | 2967 | 8.761689 | ACAGCCCAATGAAATACTCAAATATTT | 58.238 | 29.630 | 0.00 | 0.00 | 37.67 | 1.40 |
2543 | 2968 | 8.310122 | ACAGCCCAATGAAATACTCAAATATT | 57.690 | 30.769 | 0.00 | 0.00 | 37.67 | 1.28 |
2544 | 2969 | 7.014615 | GGACAGCCCAATGAAATACTCAAATAT | 59.985 | 37.037 | 0.00 | 0.00 | 34.25 | 1.28 |
2545 | 2970 | 6.321181 | GGACAGCCCAATGAAATACTCAAATA | 59.679 | 38.462 | 0.00 | 0.00 | 34.25 | 1.40 |
2546 | 2971 | 5.127682 | GGACAGCCCAATGAAATACTCAAAT | 59.872 | 40.000 | 0.00 | 0.00 | 34.25 | 2.32 |
2547 | 2972 | 4.462483 | GGACAGCCCAATGAAATACTCAAA | 59.538 | 41.667 | 0.00 | 0.00 | 34.25 | 2.69 |
2548 | 2973 | 4.016444 | GGACAGCCCAATGAAATACTCAA | 58.984 | 43.478 | 0.00 | 0.00 | 34.25 | 3.02 |
2549 | 2974 | 3.010027 | TGGACAGCCCAATGAAATACTCA | 59.990 | 43.478 | 0.00 | 0.00 | 43.29 | 3.41 |
2550 | 2975 | 3.620488 | TGGACAGCCCAATGAAATACTC | 58.380 | 45.455 | 0.00 | 0.00 | 43.29 | 2.59 |
2564 | 2989 | 2.872858 | GGAGACGGATTATTTGGACAGC | 59.127 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2880 | 3308 | 7.394359 | TGCAAGAAAAGAATACCTAAGCTGAAT | 59.606 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
2881 | 3309 | 6.714810 | TGCAAGAAAAGAATACCTAAGCTGAA | 59.285 | 34.615 | 0.00 | 0.00 | 0.00 | 3.02 |
2926 | 3354 | 3.011257 | CCTATTCCAAGGTCTTTTGGGGA | 59.989 | 47.826 | 5.06 | 0.00 | 46.16 | 4.81 |
2972 | 3401 | 0.107214 | GGGCAATCAGACCGGAATCA | 60.107 | 55.000 | 9.46 | 0.00 | 34.00 | 2.57 |
2983 | 3412 | 0.322816 | GGCAGAGACAAGGGCAATCA | 60.323 | 55.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2984 | 3413 | 0.034670 | AGGCAGAGACAAGGGCAATC | 60.035 | 55.000 | 0.00 | 0.00 | 0.00 | 2.67 |
2985 | 3414 | 0.407139 | AAGGCAGAGACAAGGGCAAT | 59.593 | 50.000 | 0.00 | 0.00 | 0.00 | 3.56 |
3056 | 3487 | 3.052490 | ACTGGATGCTAGAGTTAGGGACT | 60.052 | 47.826 | 0.00 | 0.00 | 46.37 | 3.85 |
3192 | 3623 | 8.928270 | TTATAAGACTTAGTTTCTAGCACTGC | 57.072 | 34.615 | 0.73 | 0.00 | 0.00 | 4.40 |
3284 | 3716 | 4.829064 | TTGTTGTGCCTGAGTGATAAAC | 57.171 | 40.909 | 0.00 | 0.00 | 0.00 | 2.01 |
3285 | 3717 | 4.260990 | CGTTTGTTGTGCCTGAGTGATAAA | 60.261 | 41.667 | 0.00 | 0.00 | 0.00 | 1.40 |
3286 | 3718 | 3.249799 | CGTTTGTTGTGCCTGAGTGATAA | 59.750 | 43.478 | 0.00 | 0.00 | 0.00 | 1.75 |
3287 | 3719 | 2.805671 | CGTTTGTTGTGCCTGAGTGATA | 59.194 | 45.455 | 0.00 | 0.00 | 0.00 | 2.15 |
3288 | 3720 | 1.603802 | CGTTTGTTGTGCCTGAGTGAT | 59.396 | 47.619 | 0.00 | 0.00 | 0.00 | 3.06 |
3289 | 3721 | 1.013596 | CGTTTGTTGTGCCTGAGTGA | 58.986 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
3290 | 3722 | 0.732571 | ACGTTTGTTGTGCCTGAGTG | 59.267 | 50.000 | 0.00 | 0.00 | 0.00 | 3.51 |
3291 | 3723 | 0.732571 | CACGTTTGTTGTGCCTGAGT | 59.267 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
3315 | 3747 | 3.448686 | CTGATGTAAGCTACGTTGAGGG | 58.551 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3384 | 3816 | 2.343426 | ATGACCTCGCTGCTGTCGA | 61.343 | 57.895 | 0.00 | 9.06 | 34.52 | 4.20 |
3410 | 3842 | 5.484715 | TGTGTGCCTAGAGGTTGTATTAAC | 58.515 | 41.667 | 0.00 | 0.00 | 37.57 | 2.01 |
3504 | 3936 | 4.037208 | GCAATCCACCGATTTTGATCTGAT | 59.963 | 41.667 | 0.00 | 0.00 | 36.54 | 2.90 |
3517 | 3949 | 2.514592 | AGGCGATGCAATCCACCG | 60.515 | 61.111 | 0.00 | 0.00 | 41.39 | 4.94 |
3623 | 4055 | 0.391661 | CAAGTGCACTACAGGCGGAT | 60.392 | 55.000 | 22.01 | 0.00 | 0.00 | 4.18 |
3703 | 4135 | 0.984961 | CAGAGGAGGCTGGGGATTCA | 60.985 | 60.000 | 0.00 | 0.00 | 32.26 | 2.57 |
3794 | 4232 | 2.334006 | ACTCTGGATCAGGGACAGTT | 57.666 | 50.000 | 1.38 | 0.00 | 35.18 | 3.16 |
4045 | 4483 | 3.415212 | CTCAAGAAATGCTGGAGGTTGA | 58.585 | 45.455 | 0.00 | 0.00 | 40.46 | 3.18 |
4063 | 4501 | 3.496884 | GTGAAGGCAAACGAACATACTCA | 59.503 | 43.478 | 0.00 | 0.00 | 0.00 | 3.41 |
4073 | 4511 | 1.532868 | CTCTGAAGGTGAAGGCAAACG | 59.467 | 52.381 | 0.00 | 0.00 | 0.00 | 3.60 |
4130 | 4568 | 4.362279 | CCCTTATTGATTTGCACATTCCG | 58.638 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
4135 | 4573 | 1.476085 | CGGCCCTTATTGATTTGCACA | 59.524 | 47.619 | 0.00 | 0.00 | 0.00 | 4.57 |
4177 | 4616 | 3.192541 | AGCCGAATGTACATGCATACA | 57.807 | 42.857 | 14.37 | 0.90 | 39.35 | 2.29 |
4179 | 4618 | 4.062293 | GGTTAGCCGAATGTACATGCATA | 58.938 | 43.478 | 14.37 | 0.97 | 0.00 | 3.14 |
4274 | 4713 | 1.055849 | ACATCAGCACCACAGGTACA | 58.944 | 50.000 | 0.00 | 0.00 | 32.11 | 2.90 |
4426 | 4865 | 0.467844 | AGCATGTTCCAGCACCACAA | 60.468 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
4595 | 5034 | 1.852942 | ACACGTCCGCAGCATAATAG | 58.147 | 50.000 | 0.00 | 0.00 | 0.00 | 1.73 |
4675 | 5122 | 2.943033 | ACAAGCACCAAGTGTTCAGTAC | 59.057 | 45.455 | 0.00 | 0.00 | 35.75 | 2.73 |
4769 | 5216 | 2.423538 | GTCAACACAGCAACTTCCAACT | 59.576 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
4803 | 5250 | 9.125026 | ACAAGATAAAGAGTTATAAATGCCCAG | 57.875 | 33.333 | 0.00 | 0.00 | 29.69 | 4.45 |
4831 | 5278 | 6.633856 | TGATATGATAGTCATGAATCACGGG | 58.366 | 40.000 | 11.41 | 0.00 | 37.70 | 5.28 |
4834 | 5281 | 7.042858 | GCGGATGATATGATAGTCATGAATCAC | 60.043 | 40.741 | 11.41 | 3.00 | 35.73 | 3.06 |
4944 | 5391 | 9.681692 | CATTAAAACATGAATCTGTTCTGTTGA | 57.318 | 29.630 | 0.00 | 0.00 | 38.38 | 3.18 |
4961 | 5408 | 7.384439 | TGAAGATATGAACCGCATTAAAACA | 57.616 | 32.000 | 0.00 | 0.00 | 38.44 | 2.83 |
5024 | 5471 | 9.696917 | GAATAATTGAGTTGAAACCAAATGACT | 57.303 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
5053 | 5500 | 4.536765 | ACAGAAACCACTTCCTTGTGATT | 58.463 | 39.130 | 0.00 | 0.00 | 40.12 | 2.57 |
5121 | 5569 | 6.037062 | CAGATACCACGAAATAAAGCATGTCA | 59.963 | 38.462 | 0.00 | 0.00 | 0.00 | 3.58 |
5132 | 5580 | 4.056050 | GCGTATTCCAGATACCACGAAAT | 58.944 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
5181 | 5631 | 4.020543 | GCCATCCATACCCAGTTAAACAA | 58.979 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
5182 | 5632 | 3.268334 | AGCCATCCATACCCAGTTAAACA | 59.732 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
5183 | 5633 | 3.632145 | CAGCCATCCATACCCAGTTAAAC | 59.368 | 47.826 | 0.00 | 0.00 | 0.00 | 2.01 |
5198 | 5648 | 5.591099 | TGAAAGAAAAACACTTCAGCCATC | 58.409 | 37.500 | 0.00 | 0.00 | 0.00 | 3.51 |
5207 | 5657 | 7.004086 | TCCAGATACCATGAAAGAAAAACACT | 58.996 | 34.615 | 0.00 | 0.00 | 0.00 | 3.55 |
5233 | 5683 | 2.238646 | TGACAGGTTGTGGAAAGAGTGT | 59.761 | 45.455 | 0.00 | 0.00 | 0.00 | 3.55 |
5247 | 5697 | 1.271379 | CAGTTGCATTGCATGACAGGT | 59.729 | 47.619 | 12.95 | 0.00 | 38.76 | 4.00 |
5412 | 5927 | 6.738114 | TCTTTAAGCAGATTTTGTTCACCAG | 58.262 | 36.000 | 0.00 | 0.00 | 0.00 | 4.00 |
5444 | 5959 | 2.938956 | ACTGCATATAGGAACTGCCC | 57.061 | 50.000 | 0.00 | 0.00 | 41.52 | 5.36 |
5662 | 6179 | 0.902531 | GAGAGATTTGTCCCCGGTCA | 59.097 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
5905 | 6422 | 5.012664 | TGAGGTTGCTGAACTTAATGTCCTA | 59.987 | 40.000 | 0.00 | 0.00 | 32.15 | 2.94 |
5909 | 6426 | 5.413833 | CAGATGAGGTTGCTGAACTTAATGT | 59.586 | 40.000 | 0.00 | 0.00 | 32.15 | 2.71 |
6099 | 6616 | 1.061131 | CATGTCCGCGTCAGTTCAATC | 59.939 | 52.381 | 4.92 | 0.00 | 0.00 | 2.67 |
6217 | 6734 | 5.757850 | AGATATCAAAAGCAAATCCCGTC | 57.242 | 39.130 | 5.32 | 0.00 | 0.00 | 4.79 |
6227 | 6744 | 7.041508 | CCAGGATAGACACAAGATATCAAAAGC | 60.042 | 40.741 | 5.32 | 0.00 | 0.00 | 3.51 |
6242 | 6759 | 1.977854 | ACACAGCAACCAGGATAGACA | 59.022 | 47.619 | 0.00 | 0.00 | 0.00 | 3.41 |
6316 | 6833 | 4.389890 | TGAACATGGCATAATGGCTTTC | 57.610 | 40.909 | 0.00 | 0.00 | 44.10 | 2.62 |
6330 | 6847 | 2.809446 | CAAGGCATGCTGATGAACATG | 58.191 | 47.619 | 18.92 | 0.00 | 45.19 | 3.21 |
6370 | 6887 | 8.641498 | AAAAAGAGATAACATGAACATGGAGT | 57.359 | 30.769 | 17.25 | 6.48 | 42.91 | 3.85 |
6406 | 6923 | 7.549134 | CAGCAACATAAAGATCAAGTAGTACCA | 59.451 | 37.037 | 0.00 | 0.00 | 0.00 | 3.25 |
6407 | 6924 | 7.549488 | ACAGCAACATAAAGATCAAGTAGTACC | 59.451 | 37.037 | 0.00 | 0.00 | 0.00 | 3.34 |
6408 | 6925 | 8.480643 | ACAGCAACATAAAGATCAAGTAGTAC | 57.519 | 34.615 | 0.00 | 0.00 | 0.00 | 2.73 |
6409 | 6926 | 9.502091 | AAACAGCAACATAAAGATCAAGTAGTA | 57.498 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
6410 | 6927 | 7.986085 | AACAGCAACATAAAGATCAAGTAGT | 57.014 | 32.000 | 0.00 | 0.00 | 0.00 | 2.73 |
6411 | 6928 | 7.965107 | GGAAACAGCAACATAAAGATCAAGTAG | 59.035 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
6412 | 6929 | 7.665559 | AGGAAACAGCAACATAAAGATCAAGTA | 59.334 | 33.333 | 0.00 | 0.00 | 0.00 | 2.24 |
6416 | 6933 | 6.899393 | AAGGAAACAGCAACATAAAGATCA | 57.101 | 33.333 | 0.00 | 0.00 | 0.00 | 2.92 |
6420 | 6937 | 7.951530 | ATTCAAAGGAAACAGCAACATAAAG | 57.048 | 32.000 | 0.00 | 0.00 | 36.43 | 1.85 |
6480 | 6997 | 6.333416 | TCTCAAACTCCAGAAATATCTCGTG | 58.667 | 40.000 | 0.00 | 0.00 | 32.03 | 4.35 |
6482 | 6999 | 6.423302 | CCATCTCAAACTCCAGAAATATCTCG | 59.577 | 42.308 | 0.00 | 0.00 | 32.03 | 4.04 |
6483 | 7000 | 7.504403 | TCCATCTCAAACTCCAGAAATATCTC | 58.496 | 38.462 | 0.00 | 0.00 | 32.03 | 2.75 |
6521 | 7041 | 5.821470 | GGTCCAGGGTCTAACTTTAAATAGC | 59.179 | 44.000 | 0.00 | 0.00 | 0.00 | 2.97 |
6555 | 7075 | 5.013808 | AGGTTGGGCTGTATTTAGTTGTAGT | 59.986 | 40.000 | 0.00 | 0.00 | 0.00 | 2.73 |
6556 | 7076 | 5.497474 | AGGTTGGGCTGTATTTAGTTGTAG | 58.503 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
6557 | 7077 | 5.508280 | AGGTTGGGCTGTATTTAGTTGTA | 57.492 | 39.130 | 0.00 | 0.00 | 0.00 | 2.41 |
6569 | 7089 | 3.483954 | CCTGTCATAGGTTGGGCTG | 57.516 | 57.895 | 0.00 | 0.00 | 42.00 | 4.85 |
6612 | 7158 | 0.322546 | GAGAACAATTGTCCCGGCCT | 60.323 | 55.000 | 12.39 | 2.78 | 0.00 | 5.19 |
6613 | 7159 | 0.322546 | AGAGAACAATTGTCCCGGCC | 60.323 | 55.000 | 12.39 | 0.00 | 0.00 | 6.13 |
6614 | 7160 | 0.804989 | CAGAGAACAATTGTCCCGGC | 59.195 | 55.000 | 12.39 | 5.39 | 0.00 | 6.13 |
6615 | 7161 | 2.185004 | ACAGAGAACAATTGTCCCGG | 57.815 | 50.000 | 12.39 | 7.37 | 0.00 | 5.73 |
6640 | 7194 | 5.305585 | ACAGTGGGTGTGAGTAATAAGTTG | 58.694 | 41.667 | 0.00 | 0.00 | 38.28 | 3.16 |
6693 | 7247 | 4.280929 | GGTCAGCCTTAATTTGTTCCTGTT | 59.719 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
6695 | 7249 | 3.193479 | GGGTCAGCCTTAATTTGTTCCTG | 59.807 | 47.826 | 0.00 | 0.00 | 34.45 | 3.86 |
6765 | 7338 | 5.236911 | AGCTCGTACTACTACTGCAGAATAC | 59.763 | 44.000 | 23.35 | 11.32 | 0.00 | 1.89 |
6769 | 7342 | 3.196463 | GAGCTCGTACTACTACTGCAGA | 58.804 | 50.000 | 23.35 | 2.95 | 0.00 | 4.26 |
6771 | 7344 | 1.931841 | CGAGCTCGTACTACTACTGCA | 59.068 | 52.381 | 27.79 | 0.00 | 34.11 | 4.41 |
6860 | 7433 | 2.409651 | GACCACGCACGCCAAAAA | 59.590 | 55.556 | 0.00 | 0.00 | 0.00 | 1.94 |
6861 | 7434 | 3.587933 | GGACCACGCACGCCAAAA | 61.588 | 61.111 | 0.00 | 0.00 | 0.00 | 2.44 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.