Multiple sequence alignment - TraesCS7A01G391600
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 | TraesCS7A01G391600 | chr7A | 100.000 | 4178 | 0 | 0 | 1 | 4178 | 567586762 | 567582585 | 0.000000e+00 | 7716 |
1 | TraesCS7A01G391600 | chr7B | 91.102 | 4248 | 249 | 71 | 4 | 4178 | 530382861 | 530378670 | 0.000000e+00 | 5631 |
2 | TraesCS7A01G391600 | chr7D | 92.063 | 3591 | 190 | 43 | 625 | 4178 | 501097978 | 501094446 | 0.000000e+00 | 4964 |
3 | TraesCS7A01G391600 | chr7D | 85.823 | 656 | 52 | 20 | 4 | 629 | 501098734 | 501098090 | 0.000000e+00 | 658 |
4 | TraesCS7A01G391600 | chr2B | 80.717 | 669 | 82 | 24 | 3315 | 3951 | 38033567 | 38032914 | 1.050000e-130 | 477 |
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 | TraesCS7A01G391600 | chr7A | 567582585 | 567586762 | 4177 | True | 7716 | 7716 | 100.000 | 1 | 4178 | 1 | chr7A.!!$R1 | 4177 |
1 | TraesCS7A01G391600 | chr7B | 530378670 | 530382861 | 4191 | True | 5631 | 5631 | 91.102 | 4 | 4178 | 1 | chr7B.!!$R1 | 4174 |
2 | TraesCS7A01G391600 | chr7D | 501094446 | 501098734 | 4288 | True | 2811 | 4964 | 88.943 | 4 | 4178 | 2 | chr7D.!!$R1 | 4174 |
3 | TraesCS7A01G391600 | chr2B | 38032914 | 38033567 | 653 | True | 477 | 477 | 80.717 | 3315 | 3951 | 1 | chr2B.!!$R1 | 636 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
218 | 240 | 0.036577 | TCTGCTGCTCTTCTGGCTTC | 60.037 | 55.000 | 0.0 | 0.0 | 0.0 | 3.86 | F |
1027 | 1195 | 0.178767 | CGGGAATGGATCAGCAGACA | 59.821 | 55.000 | 0.0 | 0.0 | 0.0 | 3.41 | F |
1028 | 1196 | 1.673168 | GGGAATGGATCAGCAGACAC | 58.327 | 55.000 | 0.0 | 0.0 | 0.0 | 3.67 | F |
1311 | 1479 | 1.726791 | CACCAAGGAAAGATCACGTCG | 59.273 | 52.381 | 0.0 | 0.0 | 0.0 | 5.12 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1311 | 1479 | 0.466189 | CACCCATCAGCCACCCATAC | 60.466 | 60.000 | 0.0 | 0.0 | 0.0 | 2.39 | R |
2365 | 2538 | 0.764369 | TGACAAGGACAGGGACAGCT | 60.764 | 55.000 | 0.0 | 0.0 | 0.0 | 4.24 | R |
2716 | 2890 | 1.837439 | ACGATGGGGAAGACAAGCATA | 59.163 | 47.619 | 0.0 | 0.0 | 0.0 | 3.14 | R |
3205 | 3380 | 0.035317 | TTTCCTGCATCAGTGACGCT | 59.965 | 50.000 | 13.0 | 0.0 | 0.0 | 5.07 | 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 |
---|---|---|---|---|---|---|---|---|---|
40 | 41 | 0.976641 | TGACAGCGAGAGGTTTGGAT | 59.023 | 50.000 | 0.00 | 0.00 | 41.81 | 3.41 |
41 | 42 | 1.338105 | TGACAGCGAGAGGTTTGGATG | 60.338 | 52.381 | 0.00 | 0.00 | 41.81 | 3.51 |
108 | 109 | 1.402968 | TCGTCGCTATAAAACGAGGCT | 59.597 | 47.619 | 0.00 | 0.00 | 42.24 | 4.58 |
111 | 112 | 0.582005 | CGCTATAAAACGAGGCTGGC | 59.418 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
112 | 113 | 1.806623 | CGCTATAAAACGAGGCTGGCT | 60.807 | 52.381 | 2.24 | 2.24 | 0.00 | 4.75 |
113 | 114 | 1.599542 | GCTATAAAACGAGGCTGGCTG | 59.400 | 52.381 | 9.06 | 3.76 | 0.00 | 4.85 |
114 | 115 | 2.213499 | CTATAAAACGAGGCTGGCTGG | 58.787 | 52.381 | 9.06 | 10.51 | 0.00 | 4.85 |
115 | 116 | 0.618458 | ATAAAACGAGGCTGGCTGGA | 59.382 | 50.000 | 19.55 | 0.00 | 0.00 | 3.86 |
116 | 117 | 0.321298 | TAAAACGAGGCTGGCTGGAC | 60.321 | 55.000 | 19.55 | 0.00 | 0.00 | 4.02 |
117 | 118 | 2.056906 | AAAACGAGGCTGGCTGGACT | 62.057 | 55.000 | 19.55 | 3.79 | 0.00 | 3.85 |
200 | 222 | 3.749064 | TCTGGCTCTGGTCGCGTC | 61.749 | 66.667 | 5.77 | 0.00 | 0.00 | 5.19 |
201 | 223 | 3.753434 | CTGGCTCTGGTCGCGTCT | 61.753 | 66.667 | 5.77 | 0.00 | 0.00 | 4.18 |
202 | 224 | 3.978723 | CTGGCTCTGGTCGCGTCTG | 62.979 | 68.421 | 5.77 | 4.41 | 0.00 | 3.51 |
218 | 240 | 0.036577 | TCTGCTGCTCTTCTGGCTTC | 60.037 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
238 | 260 | 1.787057 | CGGATCCCGGAGAGACTTCG | 61.787 | 65.000 | 0.73 | 0.00 | 44.15 | 3.79 |
317 | 343 | 4.380843 | TTCTTGCCTGGTATGGAGAAAA | 57.619 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
351 | 377 | 4.456566 | TCTTGTTGTGGATGTGTGATGATG | 59.543 | 41.667 | 0.00 | 0.00 | 0.00 | 3.07 |
356 | 382 | 2.292569 | GTGGATGTGTGATGATGATGGC | 59.707 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
360 | 386 | 3.353370 | TGTGTGATGATGATGGCTTCA | 57.647 | 42.857 | 5.47 | 5.47 | 39.12 | 3.02 |
366 | 392 | 0.256752 | TGATGATGGCTTCAGTGGGG | 59.743 | 55.000 | 9.09 | 0.00 | 37.89 | 4.96 |
372 | 398 | 2.360475 | GCTTCAGTGGGGGTGAGC | 60.360 | 66.667 | 0.00 | 0.00 | 0.00 | 4.26 |
385 | 411 | 1.576421 | GTGAGCTGCGGTGGAAAAG | 59.424 | 57.895 | 0.00 | 0.00 | 0.00 | 2.27 |
386 | 412 | 0.884704 | GTGAGCTGCGGTGGAAAAGA | 60.885 | 55.000 | 0.00 | 0.00 | 0.00 | 2.52 |
399 | 427 | 5.174943 | CGGTGGAAAAGAATGTTGCTTTTAC | 59.825 | 40.000 | 0.00 | 0.00 | 38.09 | 2.01 |
401 | 429 | 5.174943 | GTGGAAAAGAATGTTGCTTTTACGG | 59.825 | 40.000 | 0.00 | 0.00 | 38.09 | 4.02 |
408 | 436 | 2.017782 | TGTTGCTTTTACGGCAGTTGA | 58.982 | 42.857 | 0.00 | 0.00 | 40.90 | 3.18 |
416 | 444 | 2.309528 | TACGGCAGTTGATGGATGTC | 57.690 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
419 | 447 | 1.405933 | CGGCAGTTGATGGATGTCTGA | 60.406 | 52.381 | 0.00 | 0.00 | 0.00 | 3.27 |
434 | 462 | 1.065854 | GTCTGAGCTAGTTGGGCATGT | 60.066 | 52.381 | 0.00 | 0.00 | 0.00 | 3.21 |
458 | 486 | 8.892723 | TGTACTGCATTTCTTTGATTATGTAGG | 58.107 | 33.333 | 0.00 | 0.00 | 35.76 | 3.18 |
459 | 487 | 9.109393 | GTACTGCATTTCTTTGATTATGTAGGA | 57.891 | 33.333 | 0.00 | 0.00 | 35.76 | 2.94 |
461 | 489 | 8.462016 | ACTGCATTTCTTTGATTATGTAGGAAC | 58.538 | 33.333 | 0.00 | 0.00 | 35.76 | 3.62 |
462 | 490 | 8.579850 | TGCATTTCTTTGATTATGTAGGAACT | 57.420 | 30.769 | 0.00 | 0.00 | 46.37 | 3.01 |
463 | 491 | 9.023962 | TGCATTTCTTTGATTATGTAGGAACTT | 57.976 | 29.630 | 0.00 | 0.00 | 41.75 | 2.66 |
464 | 492 | 9.860898 | GCATTTCTTTGATTATGTAGGAACTTT | 57.139 | 29.630 | 0.00 | 0.00 | 41.75 | 2.66 |
559 | 593 | 5.009010 | GTGCTTGGGTCATATAGTTTGGATG | 59.991 | 44.000 | 0.00 | 0.00 | 0.00 | 3.51 |
567 | 601 | 7.307989 | GGGTCATATAGTTTGGATGTCATTTCG | 60.308 | 40.741 | 0.00 | 0.00 | 0.00 | 3.46 |
647 | 797 | 9.838339 | ACTTATTAGTGAATCATGGTCCTTAAG | 57.162 | 33.333 | 0.00 | 0.00 | 31.99 | 1.85 |
655 | 805 | 6.599244 | TGAATCATGGTCCTTAAGTTCATCAC | 59.401 | 38.462 | 0.97 | 0.00 | 0.00 | 3.06 |
658 | 808 | 4.286297 | TGGTCCTTAAGTTCATCACCTG | 57.714 | 45.455 | 0.97 | 0.00 | 0.00 | 4.00 |
680 | 830 | 3.083293 | GCCCTTTGGTTCCGTAATTGTA | 58.917 | 45.455 | 0.00 | 0.00 | 0.00 | 2.41 |
688 | 838 | 4.155099 | TGGTTCCGTAATTGTATGTTGCTG | 59.845 | 41.667 | 0.00 | 0.00 | 0.00 | 4.41 |
689 | 839 | 4.155280 | GGTTCCGTAATTGTATGTTGCTGT | 59.845 | 41.667 | 0.00 | 0.00 | 0.00 | 4.40 |
690 | 840 | 5.352016 | GGTTCCGTAATTGTATGTTGCTGTA | 59.648 | 40.000 | 0.00 | 0.00 | 0.00 | 2.74 |
691 | 841 | 6.456449 | GGTTCCGTAATTGTATGTTGCTGTAG | 60.456 | 42.308 | 0.00 | 0.00 | 0.00 | 2.74 |
692 | 842 | 4.569162 | TCCGTAATTGTATGTTGCTGTAGC | 59.431 | 41.667 | 0.00 | 0.00 | 42.50 | 3.58 |
693 | 843 | 4.260620 | CCGTAATTGTATGTTGCTGTAGCC | 60.261 | 45.833 | 0.80 | 0.00 | 41.18 | 3.93 |
694 | 844 | 4.260620 | CGTAATTGTATGTTGCTGTAGCCC | 60.261 | 45.833 | 0.80 | 0.00 | 41.18 | 5.19 |
695 | 845 | 3.652057 | ATTGTATGTTGCTGTAGCCCT | 57.348 | 42.857 | 0.80 | 0.00 | 41.18 | 5.19 |
711 | 861 | 2.019156 | GCCCTGTAGGATGCTTTGGTC | 61.019 | 57.143 | 0.00 | 0.00 | 38.24 | 4.02 |
775 | 925 | 8.359642 | TGCTAGCTATCAAAATTGTCTTGTTTT | 58.640 | 29.630 | 17.23 | 0.00 | 0.00 | 2.43 |
927 | 1095 | 6.099341 | AGAAAACACAAAGCTACTGGTTTTG | 58.901 | 36.000 | 20.39 | 10.09 | 46.69 | 2.44 |
942 | 1110 | 6.223120 | ACTGGTTTTGGTCAAATCAAATAGC | 58.777 | 36.000 | 0.00 | 0.00 | 34.93 | 2.97 |
1027 | 1195 | 0.178767 | CGGGAATGGATCAGCAGACA | 59.821 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1028 | 1196 | 1.673168 | GGGAATGGATCAGCAGACAC | 58.327 | 55.000 | 0.00 | 0.00 | 0.00 | 3.67 |
1104 | 1272 | 1.997874 | CAAGGTGGAGGAGGAGGGG | 60.998 | 68.421 | 0.00 | 0.00 | 0.00 | 4.79 |
1128 | 1296 | 4.191544 | TCCATGAGTTTAATGGAGCTTCG | 58.808 | 43.478 | 0.98 | 0.00 | 46.88 | 3.79 |
1137 | 1305 | 2.509561 | GGAGCTTCGTTCTCCGGC | 60.510 | 66.667 | 0.00 | 0.00 | 40.51 | 6.13 |
1311 | 1479 | 1.726791 | CACCAAGGAAAGATCACGTCG | 59.273 | 52.381 | 0.00 | 0.00 | 0.00 | 5.12 |
1505 | 1673 | 5.119125 | GTGATGCAACTTAAATTCACCAAGC | 59.881 | 40.000 | 0.00 | 0.00 | 0.00 | 4.01 |
1592 | 1761 | 3.157087 | CACACTTCAGGGCCTATGTTTT | 58.843 | 45.455 | 5.28 | 0.00 | 0.00 | 2.43 |
1593 | 1762 | 4.331968 | CACACTTCAGGGCCTATGTTTTA | 58.668 | 43.478 | 5.28 | 0.00 | 0.00 | 1.52 |
1623 | 1792 | 7.413000 | CGAGTCACGAATAATTCCAAGATGTTT | 60.413 | 37.037 | 0.00 | 0.00 | 45.77 | 2.83 |
1796 | 1969 | 5.612725 | AGCTCCCTCTCTGAAGAAATAAG | 57.387 | 43.478 | 0.00 | 0.00 | 0.00 | 1.73 |
1849 | 2022 | 8.548877 | ACATAATATACCAGGTTGAACTTGAGT | 58.451 | 33.333 | 9.16 | 7.72 | 0.00 | 3.41 |
1952 | 2125 | 3.120130 | GCGATTGACGGTGGTTATTGAAA | 60.120 | 43.478 | 0.00 | 0.00 | 42.83 | 2.69 |
2050 | 2223 | 3.149196 | AGCACATTTGTGGAATTCTCGT | 58.851 | 40.909 | 12.32 | 0.00 | 45.72 | 4.18 |
2184 | 2357 | 6.741109 | TGGTTGCTGCATGATATTAATCTTG | 58.259 | 36.000 | 1.84 | 0.00 | 39.26 | 3.02 |
2295 | 2468 | 6.444633 | GGATTGCCATAATCAAAGTCATCAG | 58.555 | 40.000 | 0.00 | 0.00 | 0.00 | 2.90 |
2365 | 2538 | 5.437060 | AGTTCTGTCTGGAAGCTTTTTACA | 58.563 | 37.500 | 0.00 | 2.69 | 0.00 | 2.41 |
2444 | 2617 | 2.091939 | TGCCCAGCTATTCTTGCCATTA | 60.092 | 45.455 | 0.00 | 0.00 | 0.00 | 1.90 |
2530 | 2704 | 5.009610 | TGAGCTTGAGGATAAAACACAAACC | 59.990 | 40.000 | 0.00 | 0.00 | 0.00 | 3.27 |
2716 | 2890 | 2.434884 | AGCTATGCTGCGCACGTT | 60.435 | 55.556 | 5.66 | 0.00 | 43.04 | 3.99 |
2767 | 2941 | 2.025887 | CCTTAGGCTCAACTTGGATGGT | 60.026 | 50.000 | 0.00 | 0.00 | 0.00 | 3.55 |
2981 | 3155 | 6.396829 | ACCTAAATAATGCTTCTGATTGGC | 57.603 | 37.500 | 0.00 | 0.00 | 0.00 | 4.52 |
3010 | 3184 | 2.172717 | TCCCTATTTGCTAAGCACTCCC | 59.827 | 50.000 | 0.00 | 0.00 | 38.71 | 4.30 |
3030 | 3204 | 5.964758 | TCCCGTATTAACACATAAACTCGT | 58.035 | 37.500 | 0.00 | 0.00 | 0.00 | 4.18 |
3031 | 3205 | 6.397272 | TCCCGTATTAACACATAAACTCGTT | 58.603 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3032 | 3206 | 6.531240 | TCCCGTATTAACACATAAACTCGTTC | 59.469 | 38.462 | 0.00 | 0.00 | 0.00 | 3.95 |
3144 | 3319 | 2.238395 | TGTTGCCCTATACAGTGATGCA | 59.762 | 45.455 | 0.00 | 0.00 | 0.00 | 3.96 |
3205 | 3380 | 4.339247 | CAGGCTTCAAAGTTCAAAGGAAGA | 59.661 | 41.667 | 0.00 | 0.00 | 37.70 | 2.87 |
3207 | 3382 | 4.294232 | GCTTCAAAGTTCAAAGGAAGAGC | 58.706 | 43.478 | 0.00 | 0.00 | 37.70 | 4.09 |
3224 | 3399 | 0.035317 | AGCGTCACTGATGCAGGAAA | 59.965 | 50.000 | 22.49 | 0.00 | 45.92 | 3.13 |
3345 | 3520 | 5.248248 | TGAGACCTGTCACATGGAAGAATTA | 59.752 | 40.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3377 | 3552 | 7.220740 | TGAAATTGTCAGGTCTTGTGTACATA | 58.779 | 34.615 | 0.00 | 0.00 | 0.00 | 2.29 |
3389 | 3564 | 4.220693 | TGTGTACATAAGCTGGCTCAAT | 57.779 | 40.909 | 0.00 | 0.00 | 0.00 | 2.57 |
3465 | 3642 | 0.469144 | GCCCACCCCAGACAGAAAAA | 60.469 | 55.000 | 0.00 | 0.00 | 0.00 | 1.94 |
3494 | 3671 | 1.397692 | GCTGCAGAAAGCTTGCTCTAG | 59.602 | 52.381 | 20.43 | 7.03 | 45.94 | 2.43 |
3529 | 3721 | 9.912634 | ACATTGAGTTGAGTTAAATATGTTTGG | 57.087 | 29.630 | 0.00 | 0.00 | 0.00 | 3.28 |
3549 | 3741 | 3.999046 | GGTTTGAACCTAAACTCGAGGA | 58.001 | 45.455 | 18.41 | 0.24 | 45.75 | 3.71 |
3563 | 3755 | 6.604735 | AACTCGAGGATCCGAATAAAAATG | 57.395 | 37.500 | 18.41 | 0.00 | 38.17 | 2.32 |
3568 | 3760 | 6.821665 | TCGAGGATCCGAATAAAAATGAAGTT | 59.178 | 34.615 | 5.98 | 0.00 | 35.42 | 2.66 |
3583 | 3775 | 5.743636 | ATGAAGTTGCCATTGTTACCATT | 57.256 | 34.783 | 0.00 | 0.00 | 0.00 | 3.16 |
3592 | 3789 | 4.096984 | GCCATTGTTACCATTCTTCTGAGG | 59.903 | 45.833 | 0.00 | 0.00 | 0.00 | 3.86 |
3596 | 3793 | 4.906618 | TGTTACCATTCTTCTGAGGGAAC | 58.093 | 43.478 | 0.00 | 0.00 | 0.00 | 3.62 |
3654 | 3858 | 4.780815 | TGAACTGTTGAACTCTGTTCCAT | 58.219 | 39.130 | 18.53 | 0.00 | 40.47 | 3.41 |
3656 | 3860 | 5.066375 | TGAACTGTTGAACTCTGTTCCATTG | 59.934 | 40.000 | 18.53 | 0.40 | 40.47 | 2.82 |
3657 | 3861 | 4.526970 | ACTGTTGAACTCTGTTCCATTGT | 58.473 | 39.130 | 7.81 | 0.91 | 0.00 | 2.71 |
3663 | 3867 | 3.045601 | ACTCTGTTCCATTGTTCTCCG | 57.954 | 47.619 | 0.00 | 0.00 | 0.00 | 4.63 |
3664 | 3868 | 1.734465 | CTCTGTTCCATTGTTCTCCGC | 59.266 | 52.381 | 0.00 | 0.00 | 0.00 | 5.54 |
3668 | 3872 | 3.270027 | TGTTCCATTGTTCTCCGCATAG | 58.730 | 45.455 | 0.00 | 0.00 | 0.00 | 2.23 |
3672 | 3876 | 2.419990 | CCATTGTTCTCCGCATAGTGGA | 60.420 | 50.000 | 0.00 | 0.00 | 40.17 | 4.02 |
3677 | 3881 | 2.364973 | TCCGCATAGTGGAGCCCA | 60.365 | 61.111 | 0.00 | 0.00 | 37.29 | 5.36 |
3678 | 3882 | 1.992834 | TCCGCATAGTGGAGCCCAA | 60.993 | 57.895 | 0.00 | 0.00 | 37.29 | 4.12 |
3685 | 3889 | 3.685550 | GCATAGTGGAGCCCAACTACATT | 60.686 | 47.826 | 0.00 | 0.00 | 42.79 | 2.71 |
3686 | 3890 | 2.496899 | AGTGGAGCCCAACTACATTG | 57.503 | 50.000 | 0.00 | 0.00 | 42.79 | 2.82 |
3687 | 3891 | 1.985159 | AGTGGAGCCCAACTACATTGA | 59.015 | 47.619 | 0.00 | 0.00 | 42.79 | 2.57 |
3688 | 3892 | 2.578021 | AGTGGAGCCCAACTACATTGAT | 59.422 | 45.455 | 0.00 | 0.00 | 42.79 | 2.57 |
3689 | 3893 | 3.010584 | AGTGGAGCCCAACTACATTGATT | 59.989 | 43.478 | 0.00 | 0.00 | 42.79 | 2.57 |
3692 | 3896 | 3.381590 | GGAGCCCAACTACATTGATTTCC | 59.618 | 47.826 | 0.00 | 0.00 | 41.23 | 3.13 |
3693 | 3897 | 4.016444 | GAGCCCAACTACATTGATTTCCA | 58.984 | 43.478 | 0.00 | 0.00 | 41.23 | 3.53 |
3695 | 3899 | 5.025453 | AGCCCAACTACATTGATTTCCAAT | 58.975 | 37.500 | 0.00 | 0.00 | 45.88 | 3.16 |
3714 | 3918 | 9.739276 | TTTCCAATGATGTTAAGAGTAATGTCT | 57.261 | 29.630 | 0.00 | 0.00 | 0.00 | 3.41 |
3715 | 3919 | 9.739276 | TTCCAATGATGTTAAGAGTAATGTCTT | 57.261 | 29.630 | 0.00 | 0.00 | 40.07 | 3.01 |
3716 | 3920 | 9.383519 | TCCAATGATGTTAAGAGTAATGTCTTC | 57.616 | 33.333 | 0.00 | 0.00 | 37.89 | 2.87 |
3717 | 3921 | 9.166173 | CCAATGATGTTAAGAGTAATGTCTTCA | 57.834 | 33.333 | 0.00 | 0.00 | 37.89 | 3.02 |
3718 | 3922 | 9.979270 | CAATGATGTTAAGAGTAATGTCTTCAC | 57.021 | 33.333 | 0.00 | 0.00 | 37.89 | 3.18 |
3719 | 3923 | 9.950496 | AATGATGTTAAGAGTAATGTCTTCACT | 57.050 | 29.630 | 0.00 | 0.00 | 37.89 | 3.41 |
3720 | 3924 | 8.763049 | TGATGTTAAGAGTAATGTCTTCACTG | 57.237 | 34.615 | 0.00 | 0.00 | 37.89 | 3.66 |
3721 | 3925 | 7.331934 | TGATGTTAAGAGTAATGTCTTCACTGC | 59.668 | 37.037 | 0.00 | 0.00 | 37.89 | 4.40 |
3724 | 3928 | 4.623932 | AGAGTAATGTCTTCACTGCCAA | 57.376 | 40.909 | 0.00 | 0.00 | 0.00 | 4.52 |
3726 | 3930 | 4.940046 | AGAGTAATGTCTTCACTGCCAATG | 59.060 | 41.667 | 0.00 | 0.00 | 0.00 | 2.82 |
3728 | 3932 | 5.503927 | AGTAATGTCTTCACTGCCAATGAT | 58.496 | 37.500 | 0.00 | 0.00 | 0.00 | 2.45 |
3730 | 3934 | 1.814394 | TGTCTTCACTGCCAATGATGC | 59.186 | 47.619 | 0.00 | 0.00 | 0.00 | 3.91 |
3736 | 3940 | 2.892215 | TCACTGCCAATGATGCTCAAAA | 59.108 | 40.909 | 0.00 | 0.00 | 0.00 | 2.44 |
3748 | 3952 | 3.138884 | TGCTCAAAAGTAGCATGGTCA | 57.861 | 42.857 | 0.00 | 0.00 | 44.78 | 4.02 |
3749 | 3953 | 2.813754 | TGCTCAAAAGTAGCATGGTCAC | 59.186 | 45.455 | 0.00 | 0.00 | 44.78 | 3.67 |
3752 | 3956 | 4.832248 | CTCAAAAGTAGCATGGTCACCTA | 58.168 | 43.478 | 0.00 | 0.00 | 0.00 | 3.08 |
3759 | 3963 | 3.204306 | AGCATGGTCACCTATGATGTG | 57.796 | 47.619 | 9.69 | 0.00 | 37.14 | 3.21 |
3761 | 3965 | 3.711190 | AGCATGGTCACCTATGATGTGTA | 59.289 | 43.478 | 9.69 | 0.00 | 37.14 | 2.90 |
3762 | 3966 | 4.164030 | AGCATGGTCACCTATGATGTGTAA | 59.836 | 41.667 | 9.69 | 0.00 | 37.14 | 2.41 |
3795 | 4002 | 6.625873 | AGTGAAATTCAGAAACACCTCTTC | 57.374 | 37.500 | 0.00 | 0.00 | 32.76 | 2.87 |
3806 | 4013 | 3.452098 | ACCTCTTCGTACAGGTGGT | 57.548 | 52.632 | 1.94 | 0.74 | 41.79 | 4.16 |
3814 | 4021 | 2.867624 | TCGTACAGGTGGTCTACAAGT | 58.132 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
3849 | 4057 | 3.504906 | ACAGATTGTCTTCCAACTGCATG | 59.495 | 43.478 | 0.00 | 0.00 | 36.49 | 4.06 |
3853 | 4061 | 5.479375 | AGATTGTCTTCCAACTGCATGATTT | 59.521 | 36.000 | 0.00 | 0.00 | 35.44 | 2.17 |
3868 | 4076 | 8.916062 | ACTGCATGATTTTATATTGTCAATGGA | 58.084 | 29.630 | 8.39 | 0.00 | 0.00 | 3.41 |
3885 | 4093 | 7.770433 | TGTCAATGGATGATAAAGGTAGAACTG | 59.230 | 37.037 | 0.00 | 0.00 | 40.97 | 3.16 |
3886 | 4094 | 7.770897 | GTCAATGGATGATAAAGGTAGAACTGT | 59.229 | 37.037 | 0.00 | 0.00 | 40.97 | 3.55 |
3888 | 4096 | 9.046296 | CAATGGATGATAAAGGTAGAACTGTAC | 57.954 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
3893 | 4101 | 8.596781 | ATGATAAAGGTAGAACTGTACAGAGT | 57.403 | 34.615 | 29.30 | 15.97 | 0.00 | 3.24 |
3945 | 4155 | 1.073722 | CCTTCTGCTGTGGCCAAGA | 59.926 | 57.895 | 7.24 | 3.18 | 37.74 | 3.02 |
3947 | 4157 | 0.035881 | CTTCTGCTGTGGCCAAGAGA | 59.964 | 55.000 | 7.24 | 3.27 | 37.74 | 3.10 |
3948 | 4158 | 0.250467 | TTCTGCTGTGGCCAAGAGAC | 60.250 | 55.000 | 7.24 | 3.86 | 37.74 | 3.36 |
3949 | 4159 | 1.071987 | CTGCTGTGGCCAAGAGACA | 59.928 | 57.895 | 7.24 | 8.32 | 37.74 | 3.41 |
3950 | 4160 | 0.535780 | CTGCTGTGGCCAAGAGACAA | 60.536 | 55.000 | 7.24 | 0.00 | 37.74 | 3.18 |
3951 | 4161 | 0.535780 | TGCTGTGGCCAAGAGACAAG | 60.536 | 55.000 | 7.24 | 0.00 | 37.74 | 3.16 |
3952 | 4162 | 0.250467 | GCTGTGGCCAAGAGACAAGA | 60.250 | 55.000 | 7.24 | 0.00 | 0.00 | 3.02 |
3953 | 4163 | 1.805869 | CTGTGGCCAAGAGACAAGAG | 58.194 | 55.000 | 7.24 | 0.00 | 0.00 | 2.85 |
3954 | 4164 | 1.345741 | CTGTGGCCAAGAGACAAGAGA | 59.654 | 52.381 | 7.24 | 0.00 | 0.00 | 3.10 |
3995 | 4205 | 4.715527 | ATCTTTCTGCATCTTGAAAGGC | 57.284 | 40.909 | 20.04 | 0.00 | 45.28 | 4.35 |
3999 | 4209 | 0.815734 | CTGCATCTTGAAAGGCCAGG | 59.184 | 55.000 | 5.01 | 0.00 | 0.00 | 4.45 |
4000 | 4210 | 0.112995 | TGCATCTTGAAAGGCCAGGT | 59.887 | 50.000 | 5.01 | 0.00 | 0.00 | 4.00 |
4002 | 4212 | 1.887956 | GCATCTTGAAAGGCCAGGTGA | 60.888 | 52.381 | 5.01 | 0.00 | 0.00 | 4.02 |
4006 | 4216 | 0.260230 | TTGAAAGGCCAGGTGACCAA | 59.740 | 50.000 | 5.01 | 0.00 | 0.00 | 3.67 |
4007 | 4217 | 0.482446 | TGAAAGGCCAGGTGACCAAT | 59.518 | 50.000 | 5.01 | 0.00 | 0.00 | 3.16 |
4010 | 4220 | 3.525609 | TGAAAGGCCAGGTGACCAATATA | 59.474 | 43.478 | 5.01 | 0.00 | 0.00 | 0.86 |
4011 | 4221 | 4.167892 | TGAAAGGCCAGGTGACCAATATAT | 59.832 | 41.667 | 5.01 | 0.00 | 0.00 | 0.86 |
4012 | 4222 | 4.814224 | AAGGCCAGGTGACCAATATATT | 57.186 | 40.909 | 5.01 | 0.00 | 0.00 | 1.28 |
4013 | 4223 | 4.373156 | AGGCCAGGTGACCAATATATTC | 57.627 | 45.455 | 5.01 | 0.00 | 0.00 | 1.75 |
4014 | 4224 | 3.721575 | AGGCCAGGTGACCAATATATTCA | 59.278 | 43.478 | 5.01 | 0.00 | 0.00 | 2.57 |
4015 | 4225 | 4.074970 | GGCCAGGTGACCAATATATTCAG | 58.925 | 47.826 | 3.63 | 0.00 | 0.00 | 3.02 |
4020 | 4230 | 6.833416 | CCAGGTGACCAATATATTCAGGAAAA | 59.167 | 38.462 | 3.63 | 0.00 | 0.00 | 2.29 |
4031 | 4241 | 1.961793 | TCAGGAAAACCAACTGGACG | 58.038 | 50.000 | 1.86 | 0.00 | 38.94 | 4.79 |
4034 | 4244 | 1.418637 | AGGAAAACCAACTGGACGCTA | 59.581 | 47.619 | 1.86 | 0.00 | 38.94 | 4.26 |
4056 | 4266 | 0.106015 | GGCCCAGGTATGCTCCAAAT | 60.106 | 55.000 | 0.00 | 0.00 | 0.00 | 2.32 |
4058 | 4268 | 2.424234 | GGCCCAGGTATGCTCCAAATAA | 60.424 | 50.000 | 0.00 | 0.00 | 0.00 | 1.40 |
4064 | 4274 | 3.954258 | AGGTATGCTCCAAATAAACTGCC | 59.046 | 43.478 | 0.00 | 0.00 | 0.00 | 4.85 |
4066 | 4276 | 4.159506 | GGTATGCTCCAAATAAACTGCCAA | 59.840 | 41.667 | 0.00 | 0.00 | 0.00 | 4.52 |
4068 | 4278 | 3.495331 | TGCTCCAAATAAACTGCCAAGA | 58.505 | 40.909 | 0.00 | 0.00 | 0.00 | 3.02 |
4093 | 4303 | 3.834231 | AGGTCCCCATGAAAGAAACATTG | 59.166 | 43.478 | 0.00 | 0.00 | 0.00 | 2.82 |
4096 | 4306 | 5.245075 | GGTCCCCATGAAAGAAACATTGTTA | 59.755 | 40.000 | 1.76 | 0.00 | 0.00 | 2.41 |
4099 | 4309 | 7.877612 | GTCCCCATGAAAGAAACATTGTTATTT | 59.122 | 33.333 | 1.76 | 7.32 | 0.00 | 1.40 |
4100 | 4310 | 8.435982 | TCCCCATGAAAGAAACATTGTTATTTT | 58.564 | 29.630 | 1.76 | 6.67 | 0.00 | 1.82 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 2.369001 | GCTACAGGTCCCCTCCCT | 59.631 | 66.667 | 0.00 | 0.00 | 0.00 | 4.20 |
1 | 2 | 3.155167 | CGCTACAGGTCCCCTCCC | 61.155 | 72.222 | 0.00 | 0.00 | 0.00 | 4.30 |
40 | 41 | 1.026584 | CCAATCAATCAGCGCATCCA | 58.973 | 50.000 | 11.47 | 0.00 | 0.00 | 3.41 |
41 | 42 | 0.318445 | GCCAATCAATCAGCGCATCC | 60.318 | 55.000 | 11.47 | 0.00 | 0.00 | 3.51 |
91 | 92 | 1.805120 | GCCAGCCTCGTTTTATAGCGA | 60.805 | 52.381 | 0.00 | 0.00 | 35.70 | 4.93 |
94 | 95 | 2.158957 | TCCAGCCAGCCTCGTTTTATAG | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 1.31 |
155 | 177 | 2.805099 | CAGAGAAGAACTTGTGGACTGC | 59.195 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
200 | 222 | 1.025647 | GGAAGCCAGAAGAGCAGCAG | 61.026 | 60.000 | 0.00 | 0.00 | 0.00 | 4.24 |
201 | 223 | 1.002868 | GGAAGCCAGAAGAGCAGCA | 60.003 | 57.895 | 0.00 | 0.00 | 0.00 | 4.41 |
202 | 224 | 2.105466 | CGGAAGCCAGAAGAGCAGC | 61.105 | 63.158 | 0.00 | 0.00 | 0.00 | 5.25 |
238 | 260 | 0.251033 | AGGGCGTTACCTTTCCAACC | 60.251 | 55.000 | 0.00 | 0.00 | 37.69 | 3.77 |
317 | 343 | 2.620115 | CCACAACAAGAACAGATGCAGT | 59.380 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
351 | 377 | 1.379044 | CACCCCCACTGAAGCCATC | 60.379 | 63.158 | 0.00 | 0.00 | 0.00 | 3.51 |
356 | 382 | 1.002868 | CAGCTCACCCCCACTGAAG | 60.003 | 63.158 | 0.00 | 0.00 | 31.67 | 3.02 |
366 | 392 | 1.856265 | CTTTTCCACCGCAGCTCACC | 61.856 | 60.000 | 0.00 | 0.00 | 0.00 | 4.02 |
372 | 398 | 2.664916 | CAACATTCTTTTCCACCGCAG | 58.335 | 47.619 | 0.00 | 0.00 | 0.00 | 5.18 |
376 | 402 | 5.174943 | CGTAAAAGCAACATTCTTTTCCACC | 59.825 | 40.000 | 4.27 | 0.00 | 41.32 | 4.61 |
385 | 411 | 3.282831 | ACTGCCGTAAAAGCAACATTC | 57.717 | 42.857 | 0.00 | 0.00 | 40.35 | 2.67 |
386 | 412 | 3.067461 | TCAACTGCCGTAAAAGCAACATT | 59.933 | 39.130 | 0.00 | 0.00 | 40.35 | 2.71 |
399 | 427 | 1.012086 | CAGACATCCATCAACTGCCG | 58.988 | 55.000 | 0.00 | 0.00 | 0.00 | 5.69 |
401 | 429 | 1.669779 | GCTCAGACATCCATCAACTGC | 59.330 | 52.381 | 0.00 | 0.00 | 0.00 | 4.40 |
408 | 436 | 2.437281 | CCCAACTAGCTCAGACATCCAT | 59.563 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
416 | 444 | 2.169352 | AGTACATGCCCAACTAGCTCAG | 59.831 | 50.000 | 0.00 | 0.00 | 0.00 | 3.35 |
419 | 447 | 2.698855 | CAGTACATGCCCAACTAGCT | 57.301 | 50.000 | 0.00 | 0.00 | 0.00 | 3.32 |
434 | 462 | 9.679661 | TTCCTACATAATCAAAGAAATGCAGTA | 57.320 | 29.630 | 0.00 | 0.00 | 0.00 | 2.74 |
455 | 483 | 8.385898 | ACACAACATTCGATTAAAAGTTCCTA | 57.614 | 30.769 | 0.00 | 0.00 | 0.00 | 2.94 |
458 | 486 | 8.803799 | ACAAACACAACATTCGATTAAAAGTTC | 58.196 | 29.630 | 0.00 | 0.00 | 0.00 | 3.01 |
459 | 487 | 8.696410 | ACAAACACAACATTCGATTAAAAGTT | 57.304 | 26.923 | 0.00 | 0.00 | 0.00 | 2.66 |
461 | 489 | 8.471457 | CAGACAAACACAACATTCGATTAAAAG | 58.529 | 33.333 | 0.00 | 0.00 | 0.00 | 2.27 |
462 | 490 | 7.971168 | ACAGACAAACACAACATTCGATTAAAA | 59.029 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
463 | 491 | 7.476667 | ACAGACAAACACAACATTCGATTAAA | 58.523 | 30.769 | 0.00 | 0.00 | 0.00 | 1.52 |
464 | 492 | 7.022055 | ACAGACAAACACAACATTCGATTAA | 57.978 | 32.000 | 0.00 | 0.00 | 0.00 | 1.40 |
518 | 552 | 4.292977 | AGCACAACAAAGTCAGCTAAAC | 57.707 | 40.909 | 0.00 | 0.00 | 0.00 | 2.01 |
521 | 555 | 2.618241 | CCAAGCACAACAAAGTCAGCTA | 59.382 | 45.455 | 0.00 | 0.00 | 0.00 | 3.32 |
524 | 558 | 1.750778 | ACCCAAGCACAACAAAGTCAG | 59.249 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
559 | 593 | 2.599973 | GCAAATCACATGGCGAAATGAC | 59.400 | 45.455 | 0.00 | 0.00 | 0.00 | 3.06 |
567 | 601 | 2.029623 | AGATGAGGCAAATCACATGGC | 58.970 | 47.619 | 0.00 | 0.00 | 43.17 | 4.40 |
636 | 786 | 4.324563 | CCAGGTGATGAACTTAAGGACCAT | 60.325 | 45.833 | 7.53 | 6.80 | 0.00 | 3.55 |
647 | 797 | 0.890683 | CAAAGGGCCAGGTGATGAAC | 59.109 | 55.000 | 6.18 | 0.00 | 0.00 | 3.18 |
655 | 805 | 2.132089 | TACGGAACCAAAGGGCCAGG | 62.132 | 60.000 | 6.18 | 7.28 | 37.90 | 4.45 |
658 | 808 | 1.203758 | CAATTACGGAACCAAAGGGCC | 59.796 | 52.381 | 0.00 | 0.00 | 37.90 | 5.80 |
680 | 830 | 1.210478 | CCTACAGGGCTACAGCAACAT | 59.790 | 52.381 | 3.24 | 0.00 | 44.36 | 2.71 |
688 | 838 | 2.565841 | CAAAGCATCCTACAGGGCTAC | 58.434 | 52.381 | 0.18 | 0.00 | 32.63 | 3.58 |
689 | 839 | 1.490490 | CCAAAGCATCCTACAGGGCTA | 59.510 | 52.381 | 0.18 | 0.00 | 32.63 | 3.93 |
690 | 840 | 0.257039 | CCAAAGCATCCTACAGGGCT | 59.743 | 55.000 | 0.00 | 0.00 | 34.78 | 5.19 |
691 | 841 | 0.034089 | ACCAAAGCATCCTACAGGGC | 60.034 | 55.000 | 0.00 | 0.00 | 35.41 | 5.19 |
692 | 842 | 1.561542 | AGACCAAAGCATCCTACAGGG | 59.438 | 52.381 | 0.00 | 0.00 | 35.41 | 4.45 |
693 | 843 | 2.026822 | ACAGACCAAAGCATCCTACAGG | 60.027 | 50.000 | 0.00 | 0.00 | 0.00 | 4.00 |
694 | 844 | 3.340814 | ACAGACCAAAGCATCCTACAG | 57.659 | 47.619 | 0.00 | 0.00 | 0.00 | 2.74 |
695 | 845 | 5.661312 | AGTATACAGACCAAAGCATCCTACA | 59.339 | 40.000 | 5.50 | 0.00 | 0.00 | 2.74 |
775 | 925 | 4.965814 | TGCCTTGTTTAATGCAAATTCCA | 58.034 | 34.783 | 0.00 | 0.00 | 35.03 | 3.53 |
867 | 1035 | 8.988060 | TCTTATGGTGAGATCCAGTTTGTTATA | 58.012 | 33.333 | 0.00 | 0.00 | 41.05 | 0.98 |
927 | 1095 | 5.215160 | CGCAATAGGCTATTTGATTTGACC | 58.785 | 41.667 | 16.95 | 0.00 | 41.67 | 4.02 |
942 | 1110 | 7.889589 | TGAGTCAATGATATAACGCAATAGG | 57.110 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
958 | 1126 | 7.224522 | CTGAAAGGAAAGGATTTGAGTCAAT | 57.775 | 36.000 | 6.36 | 0.00 | 39.27 | 2.57 |
1128 | 1296 | 1.206831 | GAAAACTGCGCCGGAGAAC | 59.793 | 57.895 | 14.02 | 0.00 | 0.00 | 3.01 |
1137 | 1305 | 2.092838 | GGTCGAGAGATTGAAAACTGCG | 59.907 | 50.000 | 0.00 | 0.00 | 45.19 | 5.18 |
1311 | 1479 | 0.466189 | CACCCATCAGCCACCCATAC | 60.466 | 60.000 | 0.00 | 0.00 | 0.00 | 2.39 |
1416 | 1584 | 9.331282 | GTATTGAGCTTAGATGAAGTACCAATT | 57.669 | 33.333 | 0.00 | 0.00 | 37.49 | 2.32 |
1424 | 1592 | 7.725251 | AGGAGAAGTATTGAGCTTAGATGAAG | 58.275 | 38.462 | 0.00 | 0.00 | 38.30 | 3.02 |
1505 | 1673 | 3.750371 | TGGATTATCCATAACAAGCCCG | 58.250 | 45.455 | 10.29 | 0.00 | 42.67 | 6.13 |
1592 | 1761 | 6.198650 | TGGAATTATTCGTGACTCGTCTTA | 57.801 | 37.500 | 0.00 | 0.00 | 40.80 | 2.10 |
1593 | 1762 | 5.068234 | TGGAATTATTCGTGACTCGTCTT | 57.932 | 39.130 | 0.00 | 0.00 | 40.80 | 3.01 |
1671 | 1843 | 6.838382 | AGTAATGTACTGAAGAAACCCAAGT | 58.162 | 36.000 | 0.00 | 0.00 | 37.69 | 3.16 |
1746 | 1918 | 6.925165 | GGTTCCATTTGCCATTTGATAGTATG | 59.075 | 38.462 | 0.00 | 0.00 | 0.00 | 2.39 |
1796 | 1969 | 8.722342 | TTTACTAAATTGCTCAAAATGACGAC | 57.278 | 30.769 | 0.00 | 0.00 | 0.00 | 4.34 |
1829 | 2002 | 7.549147 | ACTAACTCAAGTTCAACCTGGTATA | 57.451 | 36.000 | 0.00 | 0.00 | 39.31 | 1.47 |
1831 | 2004 | 5.881923 | ACTAACTCAAGTTCAACCTGGTA | 57.118 | 39.130 | 0.00 | 0.00 | 39.31 | 3.25 |
1837 | 2010 | 8.644318 | TGACTTCTAACTAACTCAAGTTCAAC | 57.356 | 34.615 | 0.00 | 0.00 | 40.20 | 3.18 |
1839 | 2012 | 6.924060 | GCTGACTTCTAACTAACTCAAGTTCA | 59.076 | 38.462 | 0.00 | 0.00 | 40.20 | 3.18 |
1994 | 2167 | 3.814842 | TCCAATATGCCACGATGATGAAC | 59.185 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
2050 | 2223 | 3.286353 | TGTCACAAGAAGAACAATGGCA | 58.714 | 40.909 | 0.00 | 0.00 | 0.00 | 4.92 |
2184 | 2357 | 8.394121 | GTGAATCTGTAGGAAATGACAAGATTC | 58.606 | 37.037 | 13.11 | 13.11 | 38.70 | 2.52 |
2194 | 2367 | 5.690464 | AGCTCAGTGAATCTGTAGGAAAT | 57.310 | 39.130 | 0.00 | 0.00 | 43.97 | 2.17 |
2202 | 2375 | 4.804665 | CAGATGTGTAGCTCAGTGAATCTG | 59.195 | 45.833 | 12.14 | 12.14 | 44.85 | 2.90 |
2295 | 2468 | 0.811281 | GGGCATTGCTACAGTTCCAC | 59.189 | 55.000 | 8.82 | 0.00 | 0.00 | 4.02 |
2365 | 2538 | 0.764369 | TGACAAGGACAGGGACAGCT | 60.764 | 55.000 | 0.00 | 0.00 | 0.00 | 4.24 |
2475 | 2649 | 3.503363 | GCTGTGAACTGTGGAATCATGAA | 59.497 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
2530 | 2704 | 3.182173 | GTGATGTTCGCACAATTGGTTTG | 59.818 | 43.478 | 10.83 | 0.00 | 41.36 | 2.93 |
2716 | 2890 | 1.837439 | ACGATGGGGAAGACAAGCATA | 59.163 | 47.619 | 0.00 | 0.00 | 0.00 | 3.14 |
2767 | 2941 | 2.082231 | CTCGACGTGGGAAAGAGTAGA | 58.918 | 52.381 | 0.00 | 0.00 | 0.00 | 2.59 |
3010 | 3184 | 9.801714 | AAAAGAACGAGTTTATGTGTTAATACG | 57.198 | 29.630 | 0.00 | 0.00 | 0.00 | 3.06 |
3144 | 3319 | 6.049955 | TCTTTCCTACGGAAGATGTTCATT | 57.950 | 37.500 | 4.83 | 0.00 | 43.06 | 2.57 |
3205 | 3380 | 0.035317 | TTTCCTGCATCAGTGACGCT | 59.965 | 50.000 | 13.00 | 0.00 | 0.00 | 5.07 |
3207 | 3382 | 0.439985 | CGTTTCCTGCATCAGTGACG | 59.560 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
3224 | 3399 | 8.296713 | ACTGAATTTTGTAATATGAAACTGCGT | 58.703 | 29.630 | 0.00 | 0.00 | 0.00 | 5.24 |
3330 | 3505 | 6.720309 | TCAACCATCTAATTCTTCCATGTGA | 58.280 | 36.000 | 0.00 | 0.00 | 0.00 | 3.58 |
3345 | 3520 | 4.990526 | AGACCTGACAATTTCAACCATCT | 58.009 | 39.130 | 0.00 | 0.00 | 32.21 | 2.90 |
3377 | 3552 | 2.119801 | ATTCGACATTGAGCCAGCTT | 57.880 | 45.000 | 0.00 | 0.00 | 0.00 | 3.74 |
3389 | 3564 | 0.874390 | GCAAGTGGCTCAATTCGACA | 59.126 | 50.000 | 0.00 | 0.00 | 40.25 | 4.35 |
3434 | 3609 | 1.073284 | GGGGTGGGCACATATATTCGT | 59.927 | 52.381 | 0.00 | 0.00 | 0.00 | 3.85 |
3465 | 3642 | 2.140717 | GCTTTCTGCAGCAATGCTTTT | 58.859 | 42.857 | 9.47 | 0.00 | 42.31 | 2.27 |
3480 | 3657 | 8.425577 | TGTACATTATTCTAGAGCAAGCTTTC | 57.574 | 34.615 | 0.00 | 0.00 | 0.00 | 2.62 |
3529 | 3721 | 4.630505 | GGATCCTCGAGTTTAGGTTCAAAC | 59.369 | 45.833 | 12.31 | 0.00 | 38.44 | 2.93 |
3549 | 3741 | 6.279513 | TGGCAACTTCATTTTTATTCGGAT | 57.720 | 33.333 | 0.00 | 0.00 | 37.61 | 4.18 |
3583 | 3775 | 3.827817 | TCTACAGGTTCCCTCAGAAGA | 57.172 | 47.619 | 0.00 | 0.00 | 34.29 | 2.87 |
3663 | 3867 | 1.209504 | TGTAGTTGGGCTCCACTATGC | 59.790 | 52.381 | 0.12 | 0.00 | 30.78 | 3.14 |
3664 | 3868 | 3.845781 | ATGTAGTTGGGCTCCACTATG | 57.154 | 47.619 | 0.12 | 0.00 | 30.78 | 2.23 |
3668 | 3872 | 2.489938 | TCAATGTAGTTGGGCTCCAC | 57.510 | 50.000 | 0.00 | 0.00 | 38.39 | 4.02 |
3672 | 3876 | 4.046286 | TGGAAATCAATGTAGTTGGGCT | 57.954 | 40.909 | 0.00 | 0.00 | 38.39 | 5.19 |
3673 | 3877 | 4.799564 | TTGGAAATCAATGTAGTTGGGC | 57.200 | 40.909 | 0.00 | 0.00 | 38.39 | 5.36 |
3688 | 3892 | 9.739276 | AGACATTACTCTTAACATCATTGGAAA | 57.261 | 29.630 | 0.00 | 0.00 | 0.00 | 3.13 |
3689 | 3893 | 9.739276 | AAGACATTACTCTTAACATCATTGGAA | 57.261 | 29.630 | 0.00 | 0.00 | 0.00 | 3.53 |
3692 | 3896 | 9.979270 | GTGAAGACATTACTCTTAACATCATTG | 57.021 | 33.333 | 0.00 | 0.00 | 33.27 | 2.82 |
3693 | 3897 | 9.950496 | AGTGAAGACATTACTCTTAACATCATT | 57.050 | 29.630 | 0.35 | 0.00 | 34.92 | 2.57 |
3695 | 3899 | 7.331934 | GCAGTGAAGACATTACTCTTAACATCA | 59.668 | 37.037 | 0.00 | 0.00 | 34.92 | 3.07 |
3696 | 3900 | 7.201565 | GGCAGTGAAGACATTACTCTTAACATC | 60.202 | 40.741 | 0.00 | 0.00 | 34.92 | 3.06 |
3697 | 3901 | 6.595716 | GGCAGTGAAGACATTACTCTTAACAT | 59.404 | 38.462 | 0.00 | 0.00 | 34.92 | 2.71 |
3698 | 3902 | 5.932303 | GGCAGTGAAGACATTACTCTTAACA | 59.068 | 40.000 | 0.00 | 0.00 | 34.92 | 2.41 |
3700 | 3904 | 6.109156 | TGGCAGTGAAGACATTACTCTTAA | 57.891 | 37.500 | 0.00 | 0.00 | 30.21 | 1.85 |
3701 | 3905 | 5.738619 | TGGCAGTGAAGACATTACTCTTA | 57.261 | 39.130 | 0.00 | 0.00 | 30.21 | 2.10 |
3704 | 3908 | 4.937620 | TCATTGGCAGTGAAGACATTACTC | 59.062 | 41.667 | 10.53 | 0.00 | 0.00 | 2.59 |
3706 | 3910 | 5.575957 | CATCATTGGCAGTGAAGACATTAC | 58.424 | 41.667 | 16.91 | 0.00 | 0.00 | 1.89 |
3708 | 3912 | 3.119245 | GCATCATTGGCAGTGAAGACATT | 60.119 | 43.478 | 16.91 | 0.00 | 0.00 | 2.71 |
3709 | 3913 | 2.426024 | GCATCATTGGCAGTGAAGACAT | 59.574 | 45.455 | 16.91 | 0.00 | 0.00 | 3.06 |
3710 | 3914 | 1.814394 | GCATCATTGGCAGTGAAGACA | 59.186 | 47.619 | 16.91 | 0.00 | 0.00 | 3.41 |
3711 | 3915 | 2.089980 | AGCATCATTGGCAGTGAAGAC | 58.910 | 47.619 | 16.91 | 9.11 | 0.00 | 3.01 |
3712 | 3916 | 2.290450 | TGAGCATCATTGGCAGTGAAGA | 60.290 | 45.455 | 16.91 | 0.00 | 42.56 | 2.87 |
3713 | 3917 | 2.089201 | TGAGCATCATTGGCAGTGAAG | 58.911 | 47.619 | 16.91 | 13.46 | 42.56 | 3.02 |
3714 | 3918 | 2.203470 | TGAGCATCATTGGCAGTGAA | 57.797 | 45.000 | 16.91 | 0.00 | 42.56 | 3.18 |
3715 | 3919 | 3.961582 | TGAGCATCATTGGCAGTGA | 57.038 | 47.368 | 15.35 | 15.35 | 42.56 | 3.41 |
3730 | 3934 | 3.679389 | AGGTGACCATGCTACTTTTGAG | 58.321 | 45.455 | 3.63 | 0.00 | 0.00 | 3.02 |
3736 | 3940 | 3.969976 | ACATCATAGGTGACCATGCTACT | 59.030 | 43.478 | 3.63 | 0.00 | 37.14 | 2.57 |
3744 | 3948 | 7.174946 | CCCATATTTTACACATCATAGGTGACC | 59.825 | 40.741 | 0.00 | 0.00 | 39.53 | 4.02 |
3745 | 3949 | 7.936847 | TCCCATATTTTACACATCATAGGTGAC | 59.063 | 37.037 | 0.00 | 0.00 | 39.53 | 3.67 |
3747 | 3951 | 8.690203 | TTCCCATATTTTACACATCATAGGTG | 57.310 | 34.615 | 0.00 | 0.00 | 41.95 | 4.00 |
3748 | 3952 | 8.502738 | ACTTCCCATATTTTACACATCATAGGT | 58.497 | 33.333 | 0.00 | 0.00 | 0.00 | 3.08 |
3749 | 3953 | 8.786898 | CACTTCCCATATTTTACACATCATAGG | 58.213 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
3752 | 3956 | 8.821686 | TTCACTTCCCATATTTTACACATCAT | 57.178 | 30.769 | 0.00 | 0.00 | 0.00 | 2.45 |
3761 | 3965 | 9.710900 | GTTTCTGAATTTCACTTCCCATATTTT | 57.289 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
3762 | 3966 | 8.869109 | TGTTTCTGAATTTCACTTCCCATATTT | 58.131 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
3795 | 4002 | 4.157289 | ACATACTTGTAGACCACCTGTACG | 59.843 | 45.833 | 0.00 | 0.00 | 33.16 | 3.67 |
3806 | 4013 | 5.326900 | TGTGTACAGGGACATACTTGTAGA | 58.673 | 41.667 | 0.00 | 0.00 | 35.79 | 2.59 |
3814 | 4021 | 5.023452 | AGACAATCTGTGTACAGGGACATA | 58.977 | 41.667 | 11.76 | 0.00 | 41.96 | 2.29 |
3868 | 4076 | 8.596781 | ACTCTGTACAGTTCTACCTTTATCAT | 57.403 | 34.615 | 21.99 | 0.00 | 0.00 | 2.45 |
3874 | 4082 | 8.474710 | TTTCTAACTCTGTACAGTTCTACCTT | 57.525 | 34.615 | 21.99 | 7.07 | 37.75 | 3.50 |
3876 | 4084 | 8.574737 | TCTTTTCTAACTCTGTACAGTTCTACC | 58.425 | 37.037 | 21.99 | 0.00 | 37.75 | 3.18 |
3885 | 4093 | 9.862371 | TGATGAATCTCTTTTCTAACTCTGTAC | 57.138 | 33.333 | 0.00 | 0.00 | 0.00 | 2.90 |
3886 | 4094 | 9.862371 | GTGATGAATCTCTTTTCTAACTCTGTA | 57.138 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
3888 | 4096 | 8.768957 | TGTGATGAATCTCTTTTCTAACTCTG | 57.231 | 34.615 | 0.00 | 0.00 | 0.00 | 3.35 |
3893 | 4101 | 9.159364 | CACTGATGTGATGAATCTCTTTTCTAA | 57.841 | 33.333 | 0.00 | 0.00 | 46.55 | 2.10 |
3945 | 4155 | 2.042433 | AGGAGCTAGGTGTCTCTTGTCT | 59.958 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
3947 | 4157 | 2.175202 | CAGGAGCTAGGTGTCTCTTGT | 58.825 | 52.381 | 0.00 | 0.00 | 33.42 | 3.16 |
3948 | 4158 | 2.426738 | CTCAGGAGCTAGGTGTCTCTTG | 59.573 | 54.545 | 0.00 | 0.00 | 37.65 | 3.02 |
3949 | 4159 | 2.733956 | CTCAGGAGCTAGGTGTCTCTT | 58.266 | 52.381 | 0.00 | 0.00 | 0.00 | 2.85 |
3950 | 4160 | 2.435372 | CTCAGGAGCTAGGTGTCTCT | 57.565 | 55.000 | 0.00 | 0.00 | 0.00 | 3.10 |
3978 | 4188 | 2.165167 | CTGGCCTTTCAAGATGCAGAA | 58.835 | 47.619 | 3.32 | 0.00 | 0.00 | 3.02 |
3995 | 4205 | 5.567037 | TCCTGAATATATTGGTCACCTGG | 57.433 | 43.478 | 1.78 | 1.49 | 0.00 | 4.45 |
3999 | 4209 | 7.639113 | TGGTTTTCCTGAATATATTGGTCAC | 57.361 | 36.000 | 1.78 | 0.00 | 41.38 | 3.67 |
4000 | 4210 | 7.893302 | AGTTGGTTTTCCTGAATATATTGGTCA | 59.107 | 33.333 | 1.78 | 0.00 | 41.38 | 4.02 |
4002 | 4212 | 7.124147 | CCAGTTGGTTTTCCTGAATATATTGGT | 59.876 | 37.037 | 1.78 | 0.00 | 41.38 | 3.67 |
4006 | 4216 | 6.542370 | CGTCCAGTTGGTTTTCCTGAATATAT | 59.458 | 38.462 | 0.00 | 0.00 | 41.38 | 0.86 |
4007 | 4217 | 5.878116 | CGTCCAGTTGGTTTTCCTGAATATA | 59.122 | 40.000 | 0.00 | 0.00 | 41.38 | 0.86 |
4010 | 4220 | 2.884639 | CGTCCAGTTGGTTTTCCTGAAT | 59.115 | 45.455 | 0.00 | 0.00 | 41.38 | 2.57 |
4011 | 4221 | 2.294074 | CGTCCAGTTGGTTTTCCTGAA | 58.706 | 47.619 | 0.00 | 0.00 | 41.38 | 3.02 |
4012 | 4222 | 1.961793 | CGTCCAGTTGGTTTTCCTGA | 58.038 | 50.000 | 0.00 | 0.00 | 41.38 | 3.86 |
4013 | 4223 | 0.310854 | GCGTCCAGTTGGTTTTCCTG | 59.689 | 55.000 | 0.00 | 0.00 | 41.38 | 3.86 |
4014 | 4224 | 0.182775 | AGCGTCCAGTTGGTTTTCCT | 59.817 | 50.000 | 0.00 | 0.00 | 41.38 | 3.36 |
4015 | 4225 | 1.534163 | GTAGCGTCCAGTTGGTTTTCC | 59.466 | 52.381 | 0.00 | 0.00 | 41.14 | 3.13 |
4020 | 4230 | 1.671742 | CCTGTAGCGTCCAGTTGGT | 59.328 | 57.895 | 0.00 | 0.00 | 36.34 | 3.67 |
4031 | 4241 | 1.227973 | GCATACCTGGGCCTGTAGC | 60.228 | 63.158 | 4.53 | 8.41 | 42.60 | 3.58 |
4034 | 4244 | 2.378634 | GGAGCATACCTGGGCCTGT | 61.379 | 63.158 | 4.53 | 4.64 | 0.00 | 4.00 |
4056 | 4266 | 2.026262 | GGGACCTCATCTTGGCAGTTTA | 60.026 | 50.000 | 0.00 | 0.00 | 0.00 | 2.01 |
4058 | 4268 | 0.329596 | GGGACCTCATCTTGGCAGTT | 59.670 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
4127 | 4337 | 4.348168 | GGCCTGGATACTAAGAATCCTGAA | 59.652 | 45.833 | 0.00 | 0.00 | 42.20 | 3.02 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.