Multiple sequence alignment - TraesCS1D01G078300
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 | TraesCS1D01G078300 | chr1D | 100.000 | 2387 | 0 | 0 | 1 | 2387 | 60184867 | 60187253 | 0.000000e+00 | 4409.0 |
1 | TraesCS1D01G078300 | chr1D | 98.462 | 130 | 1 | 1 | 1763 | 1892 | 60186586 | 60186714 | 6.640000e-56 | 228.0 |
2 | TraesCS1D01G078300 | chr1D | 98.462 | 130 | 1 | 1 | 1720 | 1848 | 60186629 | 60186758 | 6.640000e-56 | 228.0 |
3 | TraesCS1D01G078300 | chr1D | 97.701 | 87 | 1 | 1 | 1806 | 1892 | 60186586 | 60186671 | 5.320000e-32 | 148.0 |
4 | TraesCS1D01G078300 | chr1D | 97.701 | 87 | 1 | 1 | 1720 | 1805 | 60186672 | 60186758 | 5.320000e-32 | 148.0 |
5 | TraesCS1D01G078300 | chr1D | 87.356 | 87 | 3 | 2 | 757 | 835 | 60185577 | 60185663 | 2.530000e-15 | 93.5 |
6 | TraesCS1D01G078300 | chr1D | 87.356 | 87 | 3 | 2 | 711 | 797 | 60185623 | 60185701 | 2.530000e-15 | 93.5 |
7 | TraesCS1D01G078300 | chr1D | 97.674 | 43 | 1 | 0 | 1850 | 1892 | 60186586 | 60186628 | 9.150000e-10 | 75.0 |
8 | TraesCS1D01G078300 | chr1D | 97.674 | 43 | 1 | 0 | 1720 | 1762 | 60186716 | 60186758 | 9.150000e-10 | 75.0 |
9 | TraesCS1D01G078300 | chr1A | 96.057 | 837 | 25 | 2 | 801 | 1629 | 58860060 | 58860896 | 0.000000e+00 | 1356.0 |
10 | TraesCS1D01G078300 | chr1A | 90.420 | 762 | 62 | 6 | 1 | 760 | 58859351 | 58860103 | 0.000000e+00 | 992.0 |
11 | TraesCS1D01G078300 | chr1A | 100.000 | 41 | 0 | 0 | 757 | 797 | 58860054 | 58860094 | 2.540000e-10 | 76.8 |
12 | TraesCS1D01G078300 | chr1A | 82.609 | 69 | 12 | 0 | 512 | 580 | 462135945 | 462135877 | 7.120000e-06 | 62.1 |
13 | TraesCS1D01G078300 | chr1B | 95.191 | 811 | 29 | 3 | 801 | 1602 | 96313915 | 96314724 | 0.000000e+00 | 1273.0 |
14 | TraesCS1D01G078300 | chr1B | 91.093 | 494 | 40 | 3 | 1806 | 2298 | 96314938 | 96315428 | 0.000000e+00 | 665.0 |
15 | TraesCS1D01G078300 | chr1B | 98.204 | 167 | 3 | 0 | 1639 | 1805 | 96314857 | 96315023 | 2.320000e-75 | 292.0 |
16 | TraesCS1D01G078300 | chr1B | 98.837 | 86 | 1 | 0 | 1763 | 1848 | 96314938 | 96315023 | 1.140000e-33 | 154.0 |
17 | TraesCS1D01G078300 | chr1B | 89.623 | 106 | 11 | 0 | 280 | 385 | 96313669 | 96313774 | 4.140000e-28 | 135.0 |
18 | TraesCS1D01G078300 | chr1B | 100.000 | 43 | 0 | 0 | 1720 | 1762 | 96314981 | 96315023 | 1.970000e-11 | 80.5 |
19 | TraesCS1D01G078300 | chr1B | 97.674 | 43 | 0 | 1 | 756 | 798 | 96313909 | 96313950 | 3.290000e-09 | 73.1 |
20 | TraesCS1D01G078300 | chr2B | 86.992 | 861 | 59 | 21 | 805 | 1616 | 62418516 | 62417660 | 0.000000e+00 | 920.0 |
21 | TraesCS1D01G078300 | chr2A | 90.075 | 534 | 42 | 7 | 990 | 1513 | 3755152 | 3754620 | 0.000000e+00 | 682.0 |
22 | TraesCS1D01G078300 | chr2D | 94.005 | 417 | 24 | 1 | 987 | 1403 | 5174619 | 5175034 | 4.330000e-177 | 630.0 |
23 | TraesCS1D01G078300 | chr2D | 81.618 | 544 | 87 | 12 | 1850 | 2387 | 322851021 | 322851557 | 2.820000e-119 | 438.0 |
24 | TraesCS1D01G078300 | chr3B | 79.602 | 402 | 67 | 14 | 1996 | 2387 | 564106960 | 564106564 | 8.410000e-70 | 274.0 |
25 | TraesCS1D01G078300 | chr4A | 80.233 | 344 | 58 | 10 | 2049 | 2387 | 176781304 | 176780966 | 1.420000e-62 | 250.0 |
26 | TraesCS1D01G078300 | chr4A | 77.841 | 352 | 66 | 10 | 2042 | 2386 | 454758360 | 454758014 | 8.650000e-50 | 207.0 |
27 | TraesCS1D01G078300 | chr7D | 81.579 | 266 | 42 | 7 | 2126 | 2387 | 127138438 | 127138176 | 1.860000e-51 | 213.0 |
28 | TraesCS1D01G078300 | chr3A | 79.514 | 288 | 44 | 12 | 2108 | 2387 | 161467861 | 161467581 | 8.710000e-45 | 191.0 |
29 | TraesCS1D01G078300 | chr5A | 74.498 | 498 | 98 | 24 | 1905 | 2387 | 645875525 | 645876008 | 3.130000e-44 | 189.0 |
30 | TraesCS1D01G078300 | chr5A | 74.424 | 434 | 88 | 19 | 1965 | 2387 | 377416633 | 377416212 | 5.280000e-37 | 165.0 |
31 | TraesCS1D01G078300 | chr5B | 82.323 | 198 | 30 | 5 | 2181 | 2377 | 549676936 | 549676743 | 1.470000e-37 | 167.0 |
32 | TraesCS1D01G078300 | chr4D | 90.769 | 65 | 6 | 0 | 501 | 565 | 416090935 | 416090999 | 1.180000e-13 | 87.9 |
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 | TraesCS1D01G078300 | chr1D | 60184867 | 60187253 | 2386 | False | 610.888889 | 4409 | 95.820667 | 1 | 2387 | 9 | chr1D.!!$F1 | 2386 |
1 | TraesCS1D01G078300 | chr1A | 58859351 | 58860896 | 1545 | False | 808.266667 | 1356 | 95.492333 | 1 | 1629 | 3 | chr1A.!!$F1 | 1628 |
2 | TraesCS1D01G078300 | chr1B | 96313669 | 96315428 | 1759 | False | 381.800000 | 1273 | 95.803143 | 280 | 2298 | 7 | chr1B.!!$F1 | 2018 |
3 | TraesCS1D01G078300 | chr2B | 62417660 | 62418516 | 856 | True | 920.000000 | 920 | 86.992000 | 805 | 1616 | 1 | chr2B.!!$R1 | 811 |
4 | TraesCS1D01G078300 | chr2A | 3754620 | 3755152 | 532 | True | 682.000000 | 682 | 90.075000 | 990 | 1513 | 1 | chr2A.!!$R1 | 523 |
5 | TraesCS1D01G078300 | chr2D | 322851021 | 322851557 | 536 | False | 438.000000 | 438 | 81.618000 | 1850 | 2387 | 1 | chr2D.!!$F2 | 537 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
102 | 104 | 0.099968 | CTCCAATGCAACTGCCATCG | 59.900 | 55.0 | 0.0 | 0.0 | 41.18 | 3.84 | F |
496 | 498 | 0.109086 | ACAGTGACCTGAATCGCTCG | 60.109 | 55.0 | 0.0 | 0.0 | 41.50 | 5.03 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1372 | 1407 | 0.039617 | GCGAGCTAGACGATGCAGAT | 60.040 | 55.0 | 12.59 | 0.00 | 0.0 | 2.90 | R |
1616 | 1678 | 0.107993 | TTTCCGAGAGATGCTGCAGG | 60.108 | 55.0 | 17.12 | 2.49 | 0.0 | 4.85 | 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 |
---|---|---|---|---|---|---|---|---|---|
36 | 37 | 0.871057 | GAATATCGCCAGAAGCAGCC | 59.129 | 55.000 | 0.00 | 0.00 | 44.04 | 4.85 |
44 | 45 | 2.433318 | AGAAGCAGCCGCGAAGAC | 60.433 | 61.111 | 8.23 | 0.00 | 45.49 | 3.01 |
58 | 60 | 1.656095 | CGAAGACCTTGCGAAGATGAC | 59.344 | 52.381 | 0.00 | 0.00 | 0.00 | 3.06 |
62 | 64 | 0.389948 | ACCTTGCGAAGATGACGGTC | 60.390 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
76 | 78 | 5.357032 | AGATGACGGTCAAAAACAAAGAGTT | 59.643 | 36.000 | 15.72 | 0.00 | 43.89 | 3.01 |
83 | 85 | 5.289595 | GTCAAAAACAAAGAGTTGATCCCC | 58.710 | 41.667 | 0.00 | 0.00 | 41.19 | 4.81 |
93 | 95 | 1.358787 | AGTTGATCCCCTCCAATGCAA | 59.641 | 47.619 | 0.00 | 0.00 | 0.00 | 4.08 |
97 | 99 | 0.685458 | ATCCCCTCCAATGCAACTGC | 60.685 | 55.000 | 0.00 | 0.00 | 42.50 | 4.40 |
102 | 104 | 0.099968 | CTCCAATGCAACTGCCATCG | 59.900 | 55.000 | 0.00 | 0.00 | 41.18 | 3.84 |
110 | 112 | 1.586422 | CAACTGCCATCGGATAGGTG | 58.414 | 55.000 | 0.00 | 0.00 | 0.00 | 4.00 |
123 | 125 | 3.477530 | GGATAGGTGGACAATAGCCAAC | 58.522 | 50.000 | 0.00 | 0.00 | 43.57 | 3.77 |
137 | 139 | 0.727398 | GCCAACAGTATCAGCGAACC | 59.273 | 55.000 | 0.00 | 0.00 | 0.00 | 3.62 |
151 | 153 | 2.247311 | CGAACCGCCAAATGAAGAAG | 57.753 | 50.000 | 0.00 | 0.00 | 0.00 | 2.85 |
170 | 172 | 3.443045 | GCCGCCAACATCACCCTG | 61.443 | 66.667 | 0.00 | 0.00 | 0.00 | 4.45 |
208 | 210 | 2.223618 | GCTCCAGCAAACCGTAACAAAA | 60.224 | 45.455 | 0.00 | 0.00 | 41.59 | 2.44 |
210 | 212 | 2.099427 | TCCAGCAAACCGTAACAAAACC | 59.901 | 45.455 | 0.00 | 0.00 | 0.00 | 3.27 |
214 | 216 | 3.054166 | GCAAACCGTAACAAAACCCATC | 58.946 | 45.455 | 0.00 | 0.00 | 0.00 | 3.51 |
240 | 242 | 1.619432 | GCACATCAAATCCCTCCCCAA | 60.619 | 52.381 | 0.00 | 0.00 | 0.00 | 4.12 |
242 | 244 | 1.340991 | ACATCAAATCCCTCCCCAACG | 60.341 | 52.381 | 0.00 | 0.00 | 0.00 | 4.10 |
271 | 273 | 2.066999 | CCCCTCTGTAGACAGCCCC | 61.067 | 68.421 | 4.72 | 0.00 | 43.46 | 5.80 |
272 | 274 | 1.306141 | CCCTCTGTAGACAGCCCCA | 60.306 | 63.158 | 4.72 | 0.00 | 43.46 | 4.96 |
278 | 280 | 0.766674 | TGTAGACAGCCCCAACTGGT | 60.767 | 55.000 | 0.00 | 0.00 | 42.21 | 4.00 |
322 | 324 | 3.695606 | GCCCTCTCAGTCGCCACA | 61.696 | 66.667 | 0.00 | 0.00 | 0.00 | 4.17 |
360 | 362 | 1.825474 | AGACTTACGGTCCCACTCATG | 59.175 | 52.381 | 0.00 | 0.00 | 45.54 | 3.07 |
392 | 394 | 2.683859 | CCATGCGTCCACACAGCTG | 61.684 | 63.158 | 13.48 | 13.48 | 0.00 | 4.24 |
400 | 402 | 2.791158 | CGTCCACACAGCTGAACAAAAC | 60.791 | 50.000 | 23.35 | 9.93 | 0.00 | 2.43 |
412 | 414 | 5.638234 | AGCTGAACAAAACGACCTATAGAAC | 59.362 | 40.000 | 0.00 | 0.00 | 0.00 | 3.01 |
414 | 416 | 6.073440 | GCTGAACAAAACGACCTATAGAACAA | 60.073 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
431 | 433 | 1.071605 | CAAGCTAACTCACGCAGTCC | 58.928 | 55.000 | 0.00 | 0.00 | 41.61 | 3.85 |
434 | 436 | 1.355066 | GCTAACTCACGCAGTCCAGC | 61.355 | 60.000 | 6.13 | 6.13 | 41.61 | 4.85 |
455 | 457 | 1.341852 | TCACATTTGGACGACCGAGAA | 59.658 | 47.619 | 0.00 | 0.00 | 39.42 | 2.87 |
496 | 498 | 0.109086 | ACAGTGACCTGAATCGCTCG | 60.109 | 55.000 | 0.00 | 0.00 | 41.50 | 5.03 |
498 | 500 | 0.109086 | AGTGACCTGAATCGCTCGTG | 60.109 | 55.000 | 0.00 | 0.00 | 34.24 | 4.35 |
517 | 519 | 1.810151 | TGGGAGTTTAACGAGCAATGC | 59.190 | 47.619 | 0.00 | 0.00 | 0.00 | 3.56 |
522 | 524 | 4.435651 | GGAGTTTAACGAGCAATGCTACAC | 60.436 | 45.833 | 8.12 | 0.00 | 39.88 | 2.90 |
547 | 549 | 6.537660 | CCTACGAAAGGTTAGGTAAGGAATTG | 59.462 | 42.308 | 0.00 | 0.00 | 40.94 | 2.32 |
572 | 574 | 7.067737 | TGACGTAATTGATGATGTGGAGTACTA | 59.932 | 37.037 | 0.00 | 0.00 | 0.00 | 1.82 |
574 | 576 | 8.082852 | ACGTAATTGATGATGTGGAGTACTATC | 58.917 | 37.037 | 0.00 | 0.00 | 0.00 | 2.08 |
580 | 582 | 6.554605 | TGATGATGTGGAGTACTATCATTGGA | 59.445 | 38.462 | 16.40 | 5.47 | 37.51 | 3.53 |
582 | 584 | 5.305386 | TGATGTGGAGTACTATCATTGGAGG | 59.695 | 44.000 | 0.00 | 0.00 | 0.00 | 4.30 |
583 | 585 | 3.967326 | TGTGGAGTACTATCATTGGAGGG | 59.033 | 47.826 | 0.00 | 0.00 | 0.00 | 4.30 |
584 | 586 | 3.325135 | GTGGAGTACTATCATTGGAGGGG | 59.675 | 52.174 | 0.00 | 0.00 | 0.00 | 4.79 |
585 | 587 | 2.907042 | GGAGTACTATCATTGGAGGGGG | 59.093 | 54.545 | 0.00 | 0.00 | 0.00 | 5.40 |
586 | 588 | 3.439558 | GGAGTACTATCATTGGAGGGGGA | 60.440 | 52.174 | 0.00 | 0.00 | 0.00 | 4.81 |
587 | 589 | 3.835395 | GAGTACTATCATTGGAGGGGGAG | 59.165 | 52.174 | 0.00 | 0.00 | 0.00 | 4.30 |
611 | 613 | 4.041075 | GGGGGCAAAAGAATTAGTTGGAAA | 59.959 | 41.667 | 0.00 | 0.00 | 0.00 | 3.13 |
645 | 648 | 8.857098 | GGTGTCCAGTAGATGTAGTATTATTCA | 58.143 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
682 | 685 | 7.439108 | ACTAGGGTGCTTAGTGATTTAGAAT | 57.561 | 36.000 | 0.00 | 0.00 | 30.46 | 2.40 |
711 | 714 | 1.135333 | GCCCAAACCAAAACTCGTCAA | 59.865 | 47.619 | 0.00 | 0.00 | 0.00 | 3.18 |
712 | 715 | 2.223947 | GCCCAAACCAAAACTCGTCAAT | 60.224 | 45.455 | 0.00 | 0.00 | 0.00 | 2.57 |
713 | 716 | 3.739830 | GCCCAAACCAAAACTCGTCAATT | 60.740 | 43.478 | 0.00 | 0.00 | 0.00 | 2.32 |
714 | 717 | 4.438148 | CCCAAACCAAAACTCGTCAATTT | 58.562 | 39.130 | 0.00 | 0.00 | 0.00 | 1.82 |
715 | 718 | 4.873259 | CCCAAACCAAAACTCGTCAATTTT | 59.127 | 37.500 | 0.00 | 0.00 | 0.00 | 1.82 |
716 | 719 | 5.352846 | CCCAAACCAAAACTCGTCAATTTTT | 59.647 | 36.000 | 0.00 | 0.00 | 0.00 | 1.94 |
741 | 744 | 9.463902 | TTTGTAACTTCTCTATAGTCTAGCAGT | 57.536 | 33.333 | 0.00 | 0.00 | 0.00 | 4.40 |
742 | 745 | 9.463902 | TTGTAACTTCTCTATAGTCTAGCAGTT | 57.536 | 33.333 | 9.02 | 9.02 | 0.00 | 3.16 |
745 | 748 | 7.739498 | ACTTCTCTATAGTCTAGCAGTTAGC | 57.261 | 40.000 | 0.00 | 0.00 | 46.19 | 3.09 |
962 | 975 | 1.071385 | AGTCACAGTGAGGAAAGCAGG | 59.929 | 52.381 | 2.53 | 0.00 | 0.00 | 4.85 |
970 | 983 | 0.405973 | GAGGAAAGCAGGGAAAGGGT | 59.594 | 55.000 | 0.00 | 0.00 | 0.00 | 4.34 |
1372 | 1407 | 3.989838 | ATCGTCCTCGGCGTCTGGA | 62.990 | 63.158 | 6.85 | 10.75 | 37.69 | 3.86 |
1522 | 1583 | 6.121590 | TGTGCCTTTGATGCTGATATTTAGA | 58.878 | 36.000 | 0.00 | 0.00 | 0.00 | 2.10 |
1602 | 1664 | 6.601613 | GGGAACTTGGTAATTGTATCACATGA | 59.398 | 38.462 | 0.00 | 0.00 | 0.00 | 3.07 |
1616 | 1678 | 2.937591 | CACATGATGTGCTGAACAACC | 58.062 | 47.619 | 13.15 | 0.00 | 41.89 | 3.77 |
1629 | 1691 | 0.403271 | AACAACCCTGCAGCATCTCT | 59.597 | 50.000 | 8.66 | 0.00 | 0.00 | 3.10 |
1630 | 1692 | 0.035630 | ACAACCCTGCAGCATCTCTC | 60.036 | 55.000 | 8.66 | 0.00 | 0.00 | 3.20 |
1631 | 1693 | 1.088340 | CAACCCTGCAGCATCTCTCG | 61.088 | 60.000 | 8.66 | 0.00 | 0.00 | 4.04 |
1632 | 1694 | 2.108566 | CCCTGCAGCATCTCTCGG | 59.891 | 66.667 | 8.66 | 0.00 | 0.00 | 4.63 |
1633 | 1695 | 2.429767 | CCCTGCAGCATCTCTCGGA | 61.430 | 63.158 | 8.66 | 0.00 | 0.00 | 4.55 |
1635 | 1697 | 0.107993 | CCTGCAGCATCTCTCGGAAA | 60.108 | 55.000 | 8.66 | 0.00 | 0.00 | 3.13 |
1636 | 1698 | 1.676916 | CCTGCAGCATCTCTCGGAAAA | 60.677 | 52.381 | 8.66 | 0.00 | 0.00 | 2.29 |
1680 | 1844 | 1.451067 | CTCAGAAGGAGCTTGCTTGG | 58.549 | 55.000 | 0.00 | 0.00 | 36.69 | 3.61 |
1730 | 1894 | 3.084786 | CCTCAGGTCCAAAAATGTCCTC | 58.915 | 50.000 | 0.00 | 0.00 | 0.00 | 3.71 |
1802 | 1966 | 9.878667 | ACATGAAAATGATTATGAATGCAAAGA | 57.121 | 25.926 | 0.00 | 0.00 | 0.00 | 2.52 |
1834 | 1998 | 6.867662 | GTCCTCGGACATGAAAATGATTAT | 57.132 | 37.500 | 11.12 | 0.00 | 44.02 | 1.28 |
1835 | 1999 | 6.662616 | GTCCTCGGACATGAAAATGATTATG | 58.337 | 40.000 | 11.12 | 0.00 | 44.02 | 1.90 |
1836 | 2000 | 6.483307 | GTCCTCGGACATGAAAATGATTATGA | 59.517 | 38.462 | 11.12 | 0.00 | 44.02 | 2.15 |
1837 | 2001 | 7.012327 | GTCCTCGGACATGAAAATGATTATGAA | 59.988 | 37.037 | 11.12 | 0.00 | 44.02 | 2.57 |
1838 | 2002 | 7.720957 | TCCTCGGACATGAAAATGATTATGAAT | 59.279 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
1839 | 2003 | 7.806487 | CCTCGGACATGAAAATGATTATGAATG | 59.194 | 37.037 | 0.00 | 0.00 | 0.00 | 2.67 |
1840 | 2004 | 7.140705 | TCGGACATGAAAATGATTATGAATGC | 58.859 | 34.615 | 0.00 | 0.00 | 0.00 | 3.56 |
1841 | 2005 | 6.919115 | CGGACATGAAAATGATTATGAATGCA | 59.081 | 34.615 | 0.00 | 0.00 | 0.00 | 3.96 |
1842 | 2006 | 7.435784 | CGGACATGAAAATGATTATGAATGCAA | 59.564 | 33.333 | 0.00 | 0.00 | 0.00 | 4.08 |
1843 | 2007 | 9.100554 | GGACATGAAAATGATTATGAATGCAAA | 57.899 | 29.630 | 0.00 | 0.00 | 0.00 | 3.68 |
1845 | 2009 | 9.878667 | ACATGAAAATGATTATGAATGCAAAGA | 57.121 | 25.926 | 0.00 | 0.00 | 0.00 | 2.52 |
1882 | 2046 | 7.720957 | TCCTCGGACATGAAAATGATTATGAAT | 59.279 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
1883 | 2047 | 7.806487 | CCTCGGACATGAAAATGATTATGAATG | 59.194 | 37.037 | 0.00 | 0.00 | 0.00 | 2.67 |
1886 | 2050 | 7.597369 | CGGACATGAAAATGATTATGAATGCAT | 59.403 | 33.333 | 0.00 | 0.00 | 38.54 | 3.96 |
1887 | 2051 | 9.917129 | GGACATGAAAATGATTATGAATGCATA | 57.083 | 29.630 | 0.00 | 0.00 | 35.94 | 3.14 |
1928 | 2092 | 1.135199 | CGCCTACGAAGCCAAAGACTA | 60.135 | 52.381 | 0.00 | 0.00 | 43.93 | 2.59 |
1946 | 2110 | 5.542779 | AGACTAAAGATGAAGCAACGACTT | 58.457 | 37.500 | 0.00 | 0.00 | 0.00 | 3.01 |
1969 | 2133 | 1.112113 | GGAGCCGAGTAATGTCCTCA | 58.888 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
1981 | 2145 | 6.102663 | AGTAATGTCCTCAGTTTGAAGATCG | 58.897 | 40.000 | 0.00 | 0.00 | 0.00 | 3.69 |
2036 | 2200 | 1.041447 | ATACTAACTGCGTCGGCCCT | 61.041 | 55.000 | 0.00 | 0.00 | 38.85 | 5.19 |
2078 | 2244 | 3.053842 | ACCCCTAGACGATCAACTAGTGA | 60.054 | 47.826 | 16.65 | 0.00 | 41.67 | 3.41 |
2106 | 2272 | 1.462035 | GCCAGGCCCCATGATGTAT | 59.538 | 57.895 | 0.00 | 0.00 | 0.00 | 2.29 |
2139 | 2305 | 0.669318 | TTCCTAAGACTTGGCGCACG | 60.669 | 55.000 | 10.83 | 0.00 | 0.00 | 5.34 |
2150 | 2316 | 4.077188 | GCGCACGCTCCAAGACAC | 62.077 | 66.667 | 7.96 | 0.00 | 38.26 | 3.67 |
2151 | 2317 | 3.767230 | CGCACGCTCCAAGACACG | 61.767 | 66.667 | 0.00 | 0.00 | 0.00 | 4.49 |
2168 | 2334 | 1.958579 | CACGATGTAATCCTCGGGGTA | 59.041 | 52.381 | 0.00 | 0.00 | 41.39 | 3.69 |
2178 | 2344 | 1.639628 | TCCTCGGGGTATCTATCTCCC | 59.360 | 57.143 | 0.00 | 0.00 | 40.41 | 4.30 |
2193 | 2359 | 0.822164 | CTCCCGATGTAACCGACCTT | 59.178 | 55.000 | 0.00 | 0.00 | 0.00 | 3.50 |
2207 | 2373 | 2.824341 | CCGACCTTGGTGTAACTCTAGT | 59.176 | 50.000 | 0.00 | 0.00 | 36.74 | 2.57 |
2208 | 2374 | 4.012374 | CCGACCTTGGTGTAACTCTAGTA | 58.988 | 47.826 | 0.00 | 0.00 | 36.74 | 1.82 |
2212 | 2379 | 4.202760 | ACCTTGGTGTAACTCTAGTACCCT | 60.203 | 45.833 | 0.00 | 0.00 | 36.74 | 4.34 |
2243 | 2410 | 7.665145 | GTCTATATAAGTCGAGGGGTTTAGACT | 59.335 | 40.741 | 12.01 | 0.00 | 44.81 | 3.24 |
2301 | 2468 | 7.066404 | CGAGGTAGATCAGCATGTACTATGTAT | 59.934 | 40.741 | 0.00 | 0.00 | 37.40 | 2.29 |
2303 | 2470 | 8.112822 | AGGTAGATCAGCATGTACTATGTATCT | 58.887 | 37.037 | 0.00 | 8.86 | 37.40 | 1.98 |
2304 | 2471 | 8.402472 | GGTAGATCAGCATGTACTATGTATCTC | 58.598 | 40.741 | 0.00 | 10.76 | 37.40 | 2.75 |
2305 | 2472 | 7.403312 | AGATCAGCATGTACTATGTATCTCC | 57.597 | 40.000 | 0.00 | 0.00 | 37.40 | 3.71 |
2306 | 2473 | 5.984695 | TCAGCATGTACTATGTATCTCCC | 57.015 | 43.478 | 0.00 | 0.00 | 37.40 | 4.30 |
2310 | 2477 | 4.322801 | GCATGTACTATGTATCTCCCCCAC | 60.323 | 50.000 | 0.00 | 0.00 | 0.00 | 4.61 |
2322 | 2489 | 4.879295 | TCTCCCCCACAATCAATACAAT | 57.121 | 40.909 | 0.00 | 0.00 | 0.00 | 2.71 |
2324 | 2491 | 5.690865 | TCTCCCCCACAATCAATACAATAC | 58.309 | 41.667 | 0.00 | 0.00 | 0.00 | 1.89 |
2328 | 2495 | 5.451798 | CCCCCACAATCAATACAATACAAGC | 60.452 | 44.000 | 0.00 | 0.00 | 0.00 | 4.01 |
2329 | 2496 | 5.273170 | CCCACAATCAATACAATACAAGCG | 58.727 | 41.667 | 0.00 | 0.00 | 0.00 | 4.68 |
2357 | 2524 | 5.915758 | CGTAGGATTTTACATCTTCGAGAGG | 59.084 | 44.000 | 0.00 | 0.00 | 31.33 | 3.69 |
2361 | 2528 | 1.120530 | TTACATCTTCGAGAGGGCCC | 58.879 | 55.000 | 16.46 | 16.46 | 28.79 | 5.80 |
2363 | 2530 | 2.127869 | CATCTTCGAGAGGGCCCGA | 61.128 | 63.158 | 18.44 | 6.98 | 0.00 | 5.14 |
2366 | 2533 | 3.372554 | CTTCGAGAGGGCCCGAACC | 62.373 | 68.421 | 18.44 | 7.31 | 39.49 | 3.62 |
2377 | 2544 | 2.936928 | CCCGAACCTGGGTAAACAC | 58.063 | 57.895 | 0.00 | 0.00 | 44.76 | 3.32 |
2379 | 2546 | 1.624813 | CCCGAACCTGGGTAAACACTA | 59.375 | 52.381 | 0.00 | 0.00 | 44.76 | 2.74 |
2383 | 2550 | 3.930848 | CGAACCTGGGTAAACACTATGTC | 59.069 | 47.826 | 0.00 | 0.00 | 0.00 | 3.06 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
39 | 40 | 1.656095 | CGTCATCTTCGCAAGGTCTTC | 59.344 | 52.381 | 0.00 | 0.00 | 38.47 | 2.87 |
44 | 45 | 0.389817 | TGACCGTCATCTTCGCAAGG | 60.390 | 55.000 | 0.00 | 0.00 | 38.47 | 3.61 |
50 | 51 | 5.816919 | TCTTTGTTTTTGACCGTCATCTTC | 58.183 | 37.500 | 1.09 | 0.00 | 0.00 | 2.87 |
58 | 60 | 4.976116 | GGATCAACTCTTTGTTTTTGACCG | 59.024 | 41.667 | 0.00 | 0.00 | 36.63 | 4.79 |
62 | 64 | 5.509670 | GGAGGGGATCAACTCTTTGTTTTTG | 60.510 | 44.000 | 13.51 | 0.00 | 36.63 | 2.44 |
76 | 78 | 1.002069 | AGTTGCATTGGAGGGGATCA | 58.998 | 50.000 | 0.00 | 0.00 | 0.00 | 2.92 |
83 | 85 | 0.099968 | CGATGGCAGTTGCATTGGAG | 59.900 | 55.000 | 6.43 | 0.00 | 44.36 | 3.86 |
93 | 95 | 0.398522 | TCCACCTATCCGATGGCAGT | 60.399 | 55.000 | 0.00 | 0.00 | 33.20 | 4.40 |
97 | 99 | 3.617531 | GCTATTGTCCACCTATCCGATGG | 60.618 | 52.174 | 0.00 | 0.00 | 34.58 | 3.51 |
102 | 104 | 3.118038 | TGTTGGCTATTGTCCACCTATCC | 60.118 | 47.826 | 0.00 | 0.00 | 32.45 | 2.59 |
110 | 112 | 3.561725 | GCTGATACTGTTGGCTATTGTCC | 59.438 | 47.826 | 0.00 | 0.00 | 0.00 | 4.02 |
180 | 182 | 4.344865 | TTTGCTGGAGCGGGGGTC | 62.345 | 66.667 | 0.00 | 0.00 | 45.83 | 4.46 |
208 | 210 | 3.338250 | ATGTGCGGTGGGATGGGT | 61.338 | 61.111 | 0.00 | 0.00 | 0.00 | 4.51 |
210 | 212 | 0.964860 | TTTGATGTGCGGTGGGATGG | 60.965 | 55.000 | 0.00 | 0.00 | 0.00 | 3.51 |
214 | 216 | 1.666209 | GGGATTTGATGTGCGGTGGG | 61.666 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
252 | 254 | 1.001760 | GGGCTGTCTACAGAGGGGA | 59.998 | 63.158 | 14.21 | 0.00 | 46.59 | 4.81 |
254 | 256 | 0.909610 | TTGGGGCTGTCTACAGAGGG | 60.910 | 60.000 | 14.21 | 0.00 | 46.59 | 4.30 |
271 | 273 | 1.300620 | TCGCTCGGTTGACCAGTTG | 60.301 | 57.895 | 0.51 | 0.00 | 35.14 | 3.16 |
272 | 274 | 1.300697 | GTCGCTCGGTTGACCAGTT | 60.301 | 57.895 | 0.51 | 0.00 | 35.14 | 3.16 |
278 | 280 | 2.354188 | CACGTGTCGCTCGGTTGA | 60.354 | 61.111 | 7.58 | 0.00 | 0.00 | 3.18 |
322 | 324 | 5.053978 | AGTCTTTCTTGGTCAAAGGTGAT | 57.946 | 39.130 | 0.00 | 0.00 | 35.80 | 3.06 |
360 | 362 | 3.171388 | ATGGGGCCCGATCTGTCC | 61.171 | 66.667 | 19.83 | 0.00 | 0.00 | 4.02 |
392 | 394 | 6.147328 | AGCTTGTTCTATAGGTCGTTTTGTTC | 59.853 | 38.462 | 0.00 | 0.00 | 0.00 | 3.18 |
400 | 402 | 5.972382 | GTGAGTTAGCTTGTTCTATAGGTCG | 59.028 | 44.000 | 0.00 | 0.00 | 0.00 | 4.79 |
412 | 414 | 1.071605 | GGACTGCGTGAGTTAGCTTG | 58.928 | 55.000 | 0.00 | 0.00 | 33.83 | 4.01 |
414 | 416 | 0.244994 | CTGGACTGCGTGAGTTAGCT | 59.755 | 55.000 | 0.00 | 0.00 | 33.83 | 3.32 |
429 | 431 | 0.684535 | TCGTCCAAATGTGAGCTGGA | 59.315 | 50.000 | 0.00 | 0.00 | 36.89 | 3.86 |
431 | 433 | 0.798776 | GGTCGTCCAAATGTGAGCTG | 59.201 | 55.000 | 0.00 | 0.00 | 0.00 | 4.24 |
434 | 436 | 1.067846 | TCTCGGTCGTCCAAATGTGAG | 60.068 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
496 | 498 | 2.414161 | GCATTGCTCGTTAAACTCCCAC | 60.414 | 50.000 | 0.16 | 0.00 | 0.00 | 4.61 |
498 | 500 | 2.084546 | AGCATTGCTCGTTAAACTCCC | 58.915 | 47.619 | 5.03 | 0.00 | 30.62 | 4.30 |
534 | 536 | 8.479689 | TCATCAATTACGTCAATTCCTTACCTA | 58.520 | 33.333 | 0.00 | 0.00 | 34.49 | 3.08 |
535 | 537 | 7.335627 | TCATCAATTACGTCAATTCCTTACCT | 58.664 | 34.615 | 0.00 | 0.00 | 34.49 | 3.08 |
536 | 538 | 7.548196 | TCATCAATTACGTCAATTCCTTACC | 57.452 | 36.000 | 0.00 | 0.00 | 34.49 | 2.85 |
537 | 539 | 8.612619 | ACATCATCAATTACGTCAATTCCTTAC | 58.387 | 33.333 | 0.00 | 0.00 | 34.49 | 2.34 |
538 | 540 | 8.611757 | CACATCATCAATTACGTCAATTCCTTA | 58.388 | 33.333 | 0.00 | 0.00 | 34.49 | 2.69 |
547 | 549 | 6.273825 | AGTACTCCACATCATCAATTACGTC | 58.726 | 40.000 | 0.00 | 0.00 | 0.00 | 4.34 |
572 | 574 | 1.387926 | CCCCTCCCCCTCCAATGAT | 60.388 | 63.158 | 0.00 | 0.00 | 0.00 | 2.45 |
574 | 576 | 3.105928 | CCCCCTCCCCCTCCAATG | 61.106 | 72.222 | 0.00 | 0.00 | 0.00 | 2.82 |
611 | 613 | 5.828871 | ACATCTACTGGACACCTACTAACT | 58.171 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
682 | 685 | 6.426646 | AGTTTTGGTTTGGGCATGTTAATA | 57.573 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
687 | 690 | 1.068434 | CGAGTTTTGGTTTGGGCATGT | 59.932 | 47.619 | 0.00 | 0.00 | 0.00 | 3.21 |
691 | 694 | 0.741915 | TGACGAGTTTTGGTTTGGGC | 59.258 | 50.000 | 0.00 | 0.00 | 0.00 | 5.36 |
715 | 718 | 9.463902 | ACTGCTAGACTATAGAGAAGTTACAAA | 57.536 | 33.333 | 6.78 | 0.00 | 0.00 | 2.83 |
716 | 719 | 9.463902 | AACTGCTAGACTATAGAGAAGTTACAA | 57.536 | 33.333 | 6.78 | 0.00 | 0.00 | 2.41 |
719 | 722 | 9.275398 | GCTAACTGCTAGACTATAGAGAAGTTA | 57.725 | 37.037 | 15.12 | 15.12 | 38.95 | 2.24 |
720 | 723 | 7.229907 | GGCTAACTGCTAGACTATAGAGAAGTT | 59.770 | 40.741 | 14.63 | 14.63 | 42.39 | 2.66 |
721 | 724 | 6.713450 | GGCTAACTGCTAGACTATAGAGAAGT | 59.287 | 42.308 | 6.78 | 0.56 | 42.39 | 3.01 |
722 | 725 | 6.712998 | TGGCTAACTGCTAGACTATAGAGAAG | 59.287 | 42.308 | 6.78 | 0.00 | 42.39 | 2.85 |
723 | 726 | 6.602278 | TGGCTAACTGCTAGACTATAGAGAA | 58.398 | 40.000 | 6.78 | 0.00 | 42.39 | 2.87 |
724 | 727 | 6.189036 | TGGCTAACTGCTAGACTATAGAGA | 57.811 | 41.667 | 6.78 | 0.00 | 42.39 | 3.10 |
725 | 728 | 6.885952 | TTGGCTAACTGCTAGACTATAGAG | 57.114 | 41.667 | 6.78 | 0.00 | 42.39 | 2.43 |
726 | 729 | 7.841282 | ATTTGGCTAACTGCTAGACTATAGA | 57.159 | 36.000 | 6.78 | 0.00 | 42.39 | 1.98 |
727 | 730 | 8.894768 | AAATTTGGCTAACTGCTAGACTATAG | 57.105 | 34.615 | 0.00 | 0.00 | 42.39 | 1.31 |
728 | 731 | 9.109393 | CAAAATTTGGCTAACTGCTAGACTATA | 57.891 | 33.333 | 0.00 | 0.00 | 42.39 | 1.31 |
729 | 732 | 7.829211 | TCAAAATTTGGCTAACTGCTAGACTAT | 59.171 | 33.333 | 5.83 | 0.00 | 42.39 | 2.12 |
730 | 733 | 7.165485 | TCAAAATTTGGCTAACTGCTAGACTA | 58.835 | 34.615 | 5.83 | 0.00 | 42.39 | 2.59 |
731 | 734 | 6.003950 | TCAAAATTTGGCTAACTGCTAGACT | 58.996 | 36.000 | 5.83 | 0.00 | 42.39 | 3.24 |
732 | 735 | 6.254281 | TCAAAATTTGGCTAACTGCTAGAC | 57.746 | 37.500 | 5.83 | 0.00 | 42.39 | 2.59 |
733 | 736 | 6.892658 | TTCAAAATTTGGCTAACTGCTAGA | 57.107 | 33.333 | 5.83 | 0.00 | 42.39 | 2.43 |
734 | 737 | 8.538409 | AATTTCAAAATTTGGCTAACTGCTAG | 57.462 | 30.769 | 5.83 | 0.00 | 37.28 | 3.42 |
735 | 738 | 8.900983 | AAATTTCAAAATTTGGCTAACTGCTA | 57.099 | 26.923 | 11.58 | 0.00 | 44.46 | 3.49 |
736 | 739 | 7.806409 | AAATTTCAAAATTTGGCTAACTGCT | 57.194 | 28.000 | 11.58 | 0.00 | 44.46 | 4.24 |
737 | 740 | 8.854979 | AAAAATTTCAAAATTTGGCTAACTGC | 57.145 | 26.923 | 12.78 | 0.00 | 45.16 | 4.40 |
798 | 801 | 8.569641 | CCGCTAGACTATAGAGAAGTTACAATT | 58.430 | 37.037 | 6.78 | 0.00 | 0.00 | 2.32 |
799 | 802 | 7.720515 | ACCGCTAGACTATAGAGAAGTTACAAT | 59.279 | 37.037 | 6.78 | 0.00 | 0.00 | 2.71 |
800 | 803 | 7.052873 | ACCGCTAGACTATAGAGAAGTTACAA | 58.947 | 38.462 | 6.78 | 0.00 | 0.00 | 2.41 |
801 | 804 | 6.590068 | ACCGCTAGACTATAGAGAAGTTACA | 58.410 | 40.000 | 6.78 | 0.00 | 0.00 | 2.41 |
802 | 805 | 7.495135 | AACCGCTAGACTATAGAGAAGTTAC | 57.505 | 40.000 | 6.78 | 0.00 | 0.00 | 2.50 |
803 | 806 | 7.387397 | GCTAACCGCTAGACTATAGAGAAGTTA | 59.613 | 40.741 | 6.78 | 4.87 | 35.14 | 2.24 |
1208 | 1243 | 3.771160 | GGAGGCGGAAGAAGGCGA | 61.771 | 66.667 | 0.00 | 0.00 | 39.33 | 5.54 |
1372 | 1407 | 0.039617 | GCGAGCTAGACGATGCAGAT | 60.040 | 55.000 | 12.59 | 0.00 | 0.00 | 2.90 |
1522 | 1583 | 5.509670 | GCTAAAGGCCAAAATGAGAAACAGT | 60.510 | 40.000 | 5.01 | 0.00 | 34.27 | 3.55 |
1602 | 1664 | 0.467844 | TGCAGGGTTGTTCAGCACAT | 60.468 | 50.000 | 0.00 | 0.00 | 34.43 | 3.21 |
1616 | 1678 | 0.107993 | TTTCCGAGAGATGCTGCAGG | 60.108 | 55.000 | 17.12 | 2.49 | 0.00 | 4.85 |
1629 | 1691 | 0.536460 | GCTCCACCCAGTTTTTCCGA | 60.536 | 55.000 | 0.00 | 0.00 | 0.00 | 4.55 |
1630 | 1692 | 1.524008 | GGCTCCACCCAGTTTTTCCG | 61.524 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1631 | 1693 | 0.178961 | AGGCTCCACCCAGTTTTTCC | 60.179 | 55.000 | 0.00 | 0.00 | 40.58 | 3.13 |
1632 | 1694 | 2.579410 | TAGGCTCCACCCAGTTTTTC | 57.421 | 50.000 | 0.00 | 0.00 | 40.58 | 2.29 |
1633 | 1695 | 4.668138 | TTATAGGCTCCACCCAGTTTTT | 57.332 | 40.909 | 0.00 | 0.00 | 40.58 | 1.94 |
1635 | 1697 | 3.785887 | TCATTATAGGCTCCACCCAGTTT | 59.214 | 43.478 | 0.00 | 0.00 | 40.58 | 2.66 |
1636 | 1698 | 3.392616 | CTCATTATAGGCTCCACCCAGTT | 59.607 | 47.826 | 0.00 | 0.00 | 40.58 | 3.16 |
1680 | 1844 | 0.462759 | CGAATGGGTCCCTTGAGAGC | 60.463 | 60.000 | 10.00 | 0.00 | 0.00 | 4.09 |
1690 | 1854 | 1.712018 | GCCTTTACGCCGAATGGGTC | 61.712 | 60.000 | 0.00 | 0.00 | 41.04 | 4.46 |
1730 | 1894 | 6.919115 | TGCATTCATAATCATTTTCATGTCCG | 59.081 | 34.615 | 0.00 | 0.00 | 0.00 | 4.79 |
1811 | 1975 | 6.483307 | TCATAATCATTTTCATGTCCGAGGAC | 59.517 | 38.462 | 14.98 | 14.98 | 44.77 | 3.85 |
1812 | 1976 | 6.591001 | TCATAATCATTTTCATGTCCGAGGA | 58.409 | 36.000 | 0.00 | 0.00 | 0.00 | 3.71 |
1813 | 1977 | 6.866010 | TCATAATCATTTTCATGTCCGAGG | 57.134 | 37.500 | 0.00 | 0.00 | 0.00 | 4.63 |
1814 | 1978 | 7.325338 | GCATTCATAATCATTTTCATGTCCGAG | 59.675 | 37.037 | 0.00 | 0.00 | 0.00 | 4.63 |
1815 | 1979 | 7.140705 | GCATTCATAATCATTTTCATGTCCGA | 58.859 | 34.615 | 0.00 | 0.00 | 0.00 | 4.55 |
1816 | 1980 | 6.919115 | TGCATTCATAATCATTTTCATGTCCG | 59.081 | 34.615 | 0.00 | 0.00 | 0.00 | 4.79 |
1817 | 1981 | 8.651391 | TTGCATTCATAATCATTTTCATGTCC | 57.349 | 30.769 | 0.00 | 0.00 | 0.00 | 4.02 |
1819 | 1983 | 9.878667 | TCTTTGCATTCATAATCATTTTCATGT | 57.121 | 25.926 | 0.00 | 0.00 | 0.00 | 3.21 |
1855 | 2019 | 6.483307 | TCATAATCATTTTCATGTCCGAGGAC | 59.517 | 38.462 | 14.98 | 14.98 | 44.77 | 3.85 |
1861 | 2025 | 8.827177 | ATGCATTCATAATCATTTTCATGTCC | 57.173 | 30.769 | 0.00 | 0.00 | 0.00 | 4.02 |
1870 | 2034 | 9.281371 | CCCGATATCTATGCATTCATAATCATT | 57.719 | 33.333 | 3.54 | 0.00 | 34.97 | 2.57 |
1871 | 2035 | 8.435187 | ACCCGATATCTATGCATTCATAATCAT | 58.565 | 33.333 | 3.54 | 0.00 | 34.97 | 2.45 |
1873 | 2037 | 8.668510 | AACCCGATATCTATGCATTCATAATC | 57.331 | 34.615 | 3.54 | 1.81 | 34.97 | 1.75 |
1875 | 2039 | 7.882791 | ACAAACCCGATATCTATGCATTCATAA | 59.117 | 33.333 | 3.54 | 0.00 | 34.97 | 1.90 |
1877 | 2041 | 6.240894 | ACAAACCCGATATCTATGCATTCAT | 58.759 | 36.000 | 3.54 | 0.00 | 36.73 | 2.57 |
1882 | 2046 | 7.051623 | AGTTTAACAAACCCGATATCTATGCA | 58.948 | 34.615 | 0.34 | 0.00 | 42.34 | 3.96 |
1883 | 2047 | 7.492352 | AGTTTAACAAACCCGATATCTATGC | 57.508 | 36.000 | 0.34 | 0.00 | 42.34 | 3.14 |
1886 | 2050 | 5.750067 | GCGAGTTTAACAAACCCGATATCTA | 59.250 | 40.000 | 9.45 | 0.00 | 44.05 | 1.98 |
1887 | 2051 | 4.569564 | GCGAGTTTAACAAACCCGATATCT | 59.430 | 41.667 | 9.45 | 0.00 | 44.05 | 1.98 |
1921 | 2085 | 5.992217 | AGTCGTTGCTTCATCTTTAGTCTTT | 59.008 | 36.000 | 0.00 | 0.00 | 0.00 | 2.52 |
1928 | 2092 | 3.476552 | TCCAAGTCGTTGCTTCATCTTT | 58.523 | 40.909 | 0.00 | 0.00 | 31.64 | 2.52 |
1946 | 2110 | 1.112113 | GACATTACTCGGCTCCTCCA | 58.888 | 55.000 | 0.00 | 0.00 | 34.01 | 3.86 |
1959 | 2123 | 5.046591 | ACCGATCTTCAAACTGAGGACATTA | 60.047 | 40.000 | 0.00 | 0.00 | 35.26 | 1.90 |
1969 | 2133 | 3.872630 | GCCCCTAAACCGATCTTCAAACT | 60.873 | 47.826 | 0.00 | 0.00 | 0.00 | 2.66 |
1981 | 2145 | 0.753111 | CCATCAGCAGCCCCTAAACC | 60.753 | 60.000 | 0.00 | 0.00 | 0.00 | 3.27 |
2026 | 2190 | 4.301027 | CCATCCTAGGGCCGACGC | 62.301 | 72.222 | 9.46 | 0.00 | 0.00 | 5.19 |
2036 | 2200 | 1.457643 | CTCGACCCAGCCCATCCTA | 60.458 | 63.158 | 0.00 | 0.00 | 0.00 | 2.94 |
2061 | 2227 | 3.377485 | GTGGCTCACTAGTTGATCGTCTA | 59.623 | 47.826 | 0.00 | 0.00 | 32.17 | 2.59 |
2123 | 2289 | 1.687494 | GAGCGTGCGCCAAGTCTTAG | 61.687 | 60.000 | 13.21 | 0.00 | 43.17 | 2.18 |
2124 | 2290 | 1.736645 | GAGCGTGCGCCAAGTCTTA | 60.737 | 57.895 | 13.21 | 0.00 | 43.17 | 2.10 |
2139 | 2305 | 2.866762 | GGATTACATCGTGTCTTGGAGC | 59.133 | 50.000 | 0.00 | 0.00 | 0.00 | 4.70 |
2151 | 2317 | 6.130569 | AGATAGATACCCCGAGGATTACATC | 58.869 | 44.000 | 0.00 | 0.00 | 36.73 | 3.06 |
2178 | 2344 | 1.337447 | ACACCAAGGTCGGTTACATCG | 60.337 | 52.381 | 0.00 | 0.00 | 37.07 | 3.84 |
2193 | 2359 | 3.614092 | CGAGGGTACTAGAGTTACACCA | 58.386 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
2207 | 2373 | 5.012046 | TCGACTTATATAGACACCGAGGGTA | 59.988 | 44.000 | 0.00 | 0.00 | 32.11 | 3.69 |
2208 | 2374 | 4.070716 | CGACTTATATAGACACCGAGGGT | 58.929 | 47.826 | 0.00 | 0.00 | 35.62 | 4.34 |
2212 | 2379 | 4.321718 | CCCTCGACTTATATAGACACCGA | 58.678 | 47.826 | 0.00 | 0.00 | 0.00 | 4.69 |
2261 | 2428 | 5.205759 | TCTACCTCGAGATCGTATGTGTA | 57.794 | 43.478 | 15.71 | 3.17 | 40.80 | 2.90 |
2287 | 2454 | 3.838317 | TGGGGGAGATACATAGTACATGC | 59.162 | 47.826 | 0.00 | 0.00 | 0.00 | 4.06 |
2301 | 2468 | 4.879295 | ATTGTATTGATTGTGGGGGAGA | 57.121 | 40.909 | 0.00 | 0.00 | 0.00 | 3.71 |
2303 | 2470 | 5.458451 | TGTATTGTATTGATTGTGGGGGA | 57.542 | 39.130 | 0.00 | 0.00 | 0.00 | 4.81 |
2304 | 2471 | 5.451798 | GCTTGTATTGTATTGATTGTGGGGG | 60.452 | 44.000 | 0.00 | 0.00 | 0.00 | 5.40 |
2305 | 2472 | 5.591099 | GCTTGTATTGTATTGATTGTGGGG | 58.409 | 41.667 | 0.00 | 0.00 | 0.00 | 4.96 |
2306 | 2473 | 5.273170 | CGCTTGTATTGTATTGATTGTGGG | 58.727 | 41.667 | 0.00 | 0.00 | 0.00 | 4.61 |
2310 | 2477 | 5.510671 | GTCCCGCTTGTATTGTATTGATTG | 58.489 | 41.667 | 0.00 | 0.00 | 0.00 | 2.67 |
2322 | 2489 | 1.477553 | AATCCTACGTCCCGCTTGTA | 58.522 | 50.000 | 0.00 | 0.00 | 0.00 | 2.41 |
2324 | 2491 | 1.734163 | AAAATCCTACGTCCCGCTTG | 58.266 | 50.000 | 0.00 | 0.00 | 0.00 | 4.01 |
2328 | 2495 | 4.317671 | AGATGTAAAATCCTACGTCCCG | 57.682 | 45.455 | 0.00 | 0.00 | 38.19 | 5.14 |
2329 | 2496 | 4.743644 | CGAAGATGTAAAATCCTACGTCCC | 59.256 | 45.833 | 0.00 | 0.00 | 38.19 | 4.46 |
2339 | 2506 | 3.433740 | GGGCCCTCTCGAAGATGTAAAAT | 60.434 | 47.826 | 17.04 | 0.00 | 33.89 | 1.82 |
2346 | 2513 | 1.381327 | TTCGGGCCCTCTCGAAGAT | 60.381 | 57.895 | 22.43 | 0.00 | 39.94 | 2.40 |
2361 | 2528 | 3.930848 | GACATAGTGTTTACCCAGGTTCG | 59.069 | 47.826 | 0.00 | 0.00 | 0.00 | 3.95 |
2363 | 2530 | 3.009805 | GGGACATAGTGTTTACCCAGGTT | 59.990 | 47.826 | 0.00 | 0.00 | 33.45 | 3.50 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.