Multiple sequence alignment - TraesCS2D01G210100
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 | TraesCS2D01G210100 | chr2D | 100.000 | 6153 | 0 | 0 | 1 | 6153 | 166104507 | 166110659 | 0.000000e+00 | 11363.0 |
1 | TraesCS2D01G210100 | chr2D | 100.000 | 56 | 0 | 0 | 5024 | 5079 | 166109478 | 166109533 | 3.030000e-18 | 104.0 |
2 | TraesCS2D01G210100 | chr2D | 100.000 | 56 | 0 | 0 | 4972 | 5027 | 166109530 | 166109585 | 3.030000e-18 | 104.0 |
3 | TraesCS2D01G210100 | chr2B | 97.313 | 1861 | 45 | 3 | 3170 | 5027 | 231666216 | 231664358 | 0.000000e+00 | 3155.0 |
4 | TraesCS2D01G210100 | chr2B | 94.691 | 1149 | 50 | 6 | 699 | 1841 | 231668918 | 231667775 | 0.000000e+00 | 1773.0 |
5 | TraesCS2D01G210100 | chr2B | 97.962 | 736 | 15 | 0 | 2371 | 3106 | 231666950 | 231666215 | 0.000000e+00 | 1277.0 |
6 | TraesCS2D01G210100 | chr2B | 96.264 | 455 | 17 | 0 | 5034 | 5488 | 231664403 | 231663949 | 0.000000e+00 | 747.0 |
7 | TraesCS2D01G210100 | chr2B | 90.566 | 477 | 24 | 7 | 5498 | 5954 | 231661652 | 231661177 | 4.080000e-171 | 612.0 |
8 | TraesCS2D01G210100 | chr2B | 97.110 | 346 | 8 | 2 | 2028 | 2373 | 231667416 | 231667073 | 3.200000e-162 | 582.0 |
9 | TraesCS2D01G210100 | chr2B | 97.938 | 194 | 3 | 1 | 1837 | 2029 | 231667733 | 231667540 | 9.880000e-88 | 335.0 |
10 | TraesCS2D01G210100 | chr2B | 87.209 | 172 | 14 | 3 | 5966 | 6135 | 231660950 | 231660785 | 8.140000e-44 | 189.0 |
11 | TraesCS2D01G210100 | chr2A | 96.948 | 1540 | 34 | 7 | 3492 | 5026 | 184559768 | 184558237 | 0.000000e+00 | 2571.0 |
12 | TraesCS2D01G210100 | chr2A | 96.602 | 1177 | 35 | 3 | 2351 | 3527 | 184560938 | 184559767 | 0.000000e+00 | 1947.0 |
13 | TraesCS2D01G210100 | chr2A | 96.956 | 1117 | 23 | 4 | 731 | 1841 | 184562842 | 184561731 | 0.000000e+00 | 1864.0 |
14 | TraesCS2D01G210100 | chr2A | 86.222 | 704 | 87 | 9 | 10 | 709 | 94004238 | 94003541 | 0.000000e+00 | 754.0 |
15 | TraesCS2D01G210100 | chr2A | 98.214 | 392 | 5 | 2 | 5024 | 5415 | 184558291 | 184557902 | 0.000000e+00 | 684.0 |
16 | TraesCS2D01G210100 | chr2A | 89.267 | 382 | 33 | 8 | 1837 | 2213 | 184561692 | 184561314 | 7.220000e-129 | 472.0 |
17 | TraesCS2D01G210100 | chr2A | 89.362 | 94 | 5 | 1 | 2263 | 2351 | 184561086 | 184560993 | 5.040000e-21 | 113.0 |
18 | TraesCS2D01G210100 | chr2A | 89.535 | 86 | 6 | 3 | 5934 | 6019 | 184555141 | 184555059 | 8.440000e-19 | 106.0 |
19 | TraesCS2D01G210100 | chr2A | 82.258 | 124 | 16 | 5 | 5693 | 5810 | 184555679 | 184555556 | 1.090000e-17 | 102.0 |
20 | TraesCS2D01G210100 | chr5D | 92.102 | 709 | 49 | 7 | 7 | 711 | 319427226 | 319427931 | 0.000000e+00 | 992.0 |
21 | TraesCS2D01G210100 | chr7D | 92.063 | 630 | 45 | 5 | 85 | 710 | 44657657 | 44657029 | 0.000000e+00 | 881.0 |
22 | TraesCS2D01G210100 | chr7D | 86.931 | 681 | 68 | 13 | 37 | 707 | 591859105 | 591858436 | 0.000000e+00 | 745.0 |
23 | TraesCS2D01G210100 | chr3A | 88.826 | 707 | 68 | 9 | 10 | 710 | 428800397 | 428799696 | 0.000000e+00 | 857.0 |
24 | TraesCS2D01G210100 | chr3A | 88.060 | 670 | 70 | 9 | 44 | 707 | 102832654 | 102833319 | 0.000000e+00 | 785.0 |
25 | TraesCS2D01G210100 | chr7A | 88.017 | 701 | 78 | 6 | 15 | 711 | 201967361 | 201966663 | 0.000000e+00 | 824.0 |
26 | TraesCS2D01G210100 | chr6A | 87.358 | 704 | 81 | 8 | 7 | 707 | 113540323 | 113541021 | 0.000000e+00 | 800.0 |
27 | TraesCS2D01G210100 | chrUn | 88.262 | 656 | 70 | 7 | 10 | 661 | 15332793 | 15333445 | 0.000000e+00 | 778.0 |
28 | TraesCS2D01G210100 | chr1D | 100.000 | 28 | 0 | 0 | 6021 | 6048 | 494868393 | 494868366 | 1.100000e-02 | 52.8 |
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 | TraesCS2D01G210100 | chr2D | 166104507 | 166110659 | 6152 | False | 3857.000 | 11363 | 100.000000 | 1 | 6153 | 3 | chr2D.!!$F1 | 6152 |
1 | TraesCS2D01G210100 | chr2B | 231660785 | 231668918 | 8133 | True | 1083.750 | 3155 | 94.881625 | 699 | 6135 | 8 | chr2B.!!$R1 | 5436 |
2 | TraesCS2D01G210100 | chr2A | 184555059 | 184562842 | 7783 | True | 982.375 | 2571 | 92.392750 | 731 | 6019 | 8 | chr2A.!!$R2 | 5288 |
3 | TraesCS2D01G210100 | chr2A | 94003541 | 94004238 | 697 | True | 754.000 | 754 | 86.222000 | 10 | 709 | 1 | chr2A.!!$R1 | 699 |
4 | TraesCS2D01G210100 | chr5D | 319427226 | 319427931 | 705 | False | 992.000 | 992 | 92.102000 | 7 | 711 | 1 | chr5D.!!$F1 | 704 |
5 | TraesCS2D01G210100 | chr7D | 44657029 | 44657657 | 628 | True | 881.000 | 881 | 92.063000 | 85 | 710 | 1 | chr7D.!!$R1 | 625 |
6 | TraesCS2D01G210100 | chr7D | 591858436 | 591859105 | 669 | True | 745.000 | 745 | 86.931000 | 37 | 707 | 1 | chr7D.!!$R2 | 670 |
7 | TraesCS2D01G210100 | chr3A | 428799696 | 428800397 | 701 | True | 857.000 | 857 | 88.826000 | 10 | 710 | 1 | chr3A.!!$R1 | 700 |
8 | TraesCS2D01G210100 | chr3A | 102832654 | 102833319 | 665 | False | 785.000 | 785 | 88.060000 | 44 | 707 | 1 | chr3A.!!$F1 | 663 |
9 | TraesCS2D01G210100 | chr7A | 201966663 | 201967361 | 698 | True | 824.000 | 824 | 88.017000 | 15 | 711 | 1 | chr7A.!!$R1 | 696 |
10 | TraesCS2D01G210100 | chr6A | 113540323 | 113541021 | 698 | False | 800.000 | 800 | 87.358000 | 7 | 707 | 1 | chr6A.!!$F1 | 700 |
11 | TraesCS2D01G210100 | chrUn | 15332793 | 15333445 | 652 | False | 778.000 | 778 | 88.262000 | 10 | 661 | 1 | chrUn.!!$F1 | 651 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
617 | 636 | 0.875728 | CACGCCGACCCAAATACAAA | 59.124 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 | F |
1408 | 1437 | 0.390472 | GTGCAGAGTGACTAGTGCCC | 60.390 | 60.000 | 14.71 | 2.21 | 34.91 | 5.36 | F |
2113 | 2319 | 0.407139 | GGATGCCCTCCCATAATGCT | 59.593 | 55.000 | 0.00 | 0.00 | 38.19 | 3.79 | F |
3807 | 4476 | 1.112113 | GGAGTTGCAGGGATCGACTA | 58.888 | 55.000 | 0.00 | 0.00 | 0.00 | 2.59 | F |
4980 | 5654 | 1.005097 | TCCTACGGTGTTCCAGCTCTA | 59.995 | 52.381 | 0.00 | 0.00 | 0.00 | 2.43 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2081 | 2287 | 0.036388 | GGCATCCCACAAGACTTCGA | 60.036 | 55.000 | 0.0 | 0.0 | 0.0 | 3.71 | R |
3169 | 3804 | 0.636647 | TCCCCTCTATGTCTCAGGCA | 59.363 | 55.000 | 0.0 | 0.0 | 0.0 | 4.75 | R |
3907 | 4578 | 1.327303 | GAGACATGGCGAGGAGAGAT | 58.673 | 55.000 | 0.0 | 0.0 | 0.0 | 2.75 | R |
5070 | 5744 | 1.202371 | GCGACGAACACATGGAGGATA | 60.202 | 52.381 | 0.0 | 0.0 | 0.0 | 2.59 | R |
6128 | 11575 | 0.107459 | AGAGAGAAATTCCCGCTGCC | 60.107 | 55.000 | 0.0 | 0.0 | 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 |
---|---|---|---|---|---|---|---|---|---|
111 | 112 | 4.351054 | CCGTCCCTGCCCAAAGCT | 62.351 | 66.667 | 0.00 | 0.00 | 44.23 | 3.74 |
172 | 173 | 2.567049 | GAGTAGTGCGCGAGTGGT | 59.433 | 61.111 | 12.10 | 0.00 | 0.00 | 4.16 |
359 | 361 | 4.473520 | CCCGACATCGCTGCCCTT | 62.474 | 66.667 | 0.00 | 0.00 | 38.18 | 3.95 |
360 | 362 | 2.499205 | CCGACATCGCTGCCCTTA | 59.501 | 61.111 | 0.00 | 0.00 | 38.18 | 2.69 |
569 | 588 | 4.759516 | ACTTTTATTTTGTCACGCCGAT | 57.240 | 36.364 | 0.00 | 0.00 | 0.00 | 4.18 |
573 | 592 | 6.799925 | ACTTTTATTTTGTCACGCCGATAAAG | 59.200 | 34.615 | 0.00 | 0.00 | 36.27 | 1.85 |
617 | 636 | 0.875728 | CACGCCGACCCAAATACAAA | 59.124 | 50.000 | 0.00 | 0.00 | 0.00 | 2.83 |
635 | 654 | 2.116827 | AAACCAGACGTTTGTGTCCA | 57.883 | 45.000 | 5.27 | 0.00 | 43.21 | 4.02 |
675 | 695 | 2.266554 | CAAAAACAGACAAAAGCGCCA | 58.733 | 42.857 | 2.29 | 0.00 | 0.00 | 5.69 |
692 | 712 | 4.770874 | ATCCGTTTGGGTCGGCCG | 62.771 | 66.667 | 22.12 | 22.12 | 46.49 | 6.13 |
712 | 732 | 2.550208 | CGGTTGGAGTTGCTCTTAAGGT | 60.550 | 50.000 | 1.85 | 0.00 | 0.00 | 3.50 |
721 | 741 | 6.115448 | AGTTGCTCTTAAGGTGTCTGTAAT | 57.885 | 37.500 | 1.85 | 0.00 | 0.00 | 1.89 |
722 | 742 | 6.534634 | AGTTGCTCTTAAGGTGTCTGTAATT | 58.465 | 36.000 | 1.85 | 0.00 | 0.00 | 1.40 |
723 | 743 | 6.998673 | AGTTGCTCTTAAGGTGTCTGTAATTT | 59.001 | 34.615 | 1.85 | 0.00 | 0.00 | 1.82 |
724 | 744 | 7.502561 | AGTTGCTCTTAAGGTGTCTGTAATTTT | 59.497 | 33.333 | 1.85 | 0.00 | 0.00 | 1.82 |
725 | 745 | 7.817418 | TGCTCTTAAGGTGTCTGTAATTTTT | 57.183 | 32.000 | 1.85 | 0.00 | 0.00 | 1.94 |
861 | 881 | 4.216472 | CGAGATCGAGGATGGAGAATGTAA | 59.784 | 45.833 | 0.00 | 0.00 | 43.02 | 2.41 |
950 | 976 | 1.604593 | GTGCAGCCCAACCACATCT | 60.605 | 57.895 | 0.00 | 0.00 | 0.00 | 2.90 |
959 | 985 | 2.498481 | CCCAACCACATCTTCCGTACTA | 59.502 | 50.000 | 0.00 | 0.00 | 0.00 | 1.82 |
960 | 986 | 3.518590 | CCAACCACATCTTCCGTACTAC | 58.481 | 50.000 | 0.00 | 0.00 | 0.00 | 2.73 |
1233 | 1262 | 2.125832 | TCGACGGTCGCCAAATCC | 60.126 | 61.111 | 24.76 | 0.00 | 40.21 | 3.01 |
1299 | 1328 | 1.478510 | CTCTACTTCCCATGTGAGCGT | 59.521 | 52.381 | 0.00 | 0.00 | 0.00 | 5.07 |
1387 | 1416 | 1.503542 | CGAAAGCTGCGGATTTGCT | 59.496 | 52.632 | 14.59 | 0.00 | 38.87 | 3.91 |
1408 | 1437 | 0.390472 | GTGCAGAGTGACTAGTGCCC | 60.390 | 60.000 | 14.71 | 2.21 | 34.91 | 5.36 |
1578 | 1608 | 2.375173 | ACCGTAGTGGAATTTCCGTC | 57.625 | 50.000 | 10.79 | 6.64 | 40.17 | 4.79 |
1674 | 1704 | 9.984590 | ATTTTGGTAGGGTAGTTATAACATGTT | 57.015 | 29.630 | 16.68 | 16.68 | 0.00 | 2.71 |
1785 | 1815 | 4.823989 | GGAAACAGTGGAATCATAGGATGG | 59.176 | 45.833 | 0.00 | 0.00 | 32.92 | 3.51 |
2045 | 2251 | 9.955102 | TTAGTATCTATCTATCTAAAGCGGTCA | 57.045 | 33.333 | 0.00 | 0.00 | 0.00 | 4.02 |
2081 | 2287 | 2.577606 | TCCCATGACGGTTTGTGAAT | 57.422 | 45.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2113 | 2319 | 0.407139 | GGATGCCCTCCCATAATGCT | 59.593 | 55.000 | 0.00 | 0.00 | 38.19 | 3.79 |
2201 | 2407 | 4.689612 | AAGCAACACTGGAGTCTTCTAA | 57.310 | 40.909 | 0.00 | 0.00 | 0.00 | 2.10 |
2238 | 2604 | 4.452733 | CTCCGCAACTCCGACCCC | 62.453 | 72.222 | 0.00 | 0.00 | 0.00 | 4.95 |
2299 | 2683 | 4.696402 | TGTACGTTGTCTTTGGTGTTTCTT | 59.304 | 37.500 | 0.00 | 0.00 | 0.00 | 2.52 |
2300 | 2684 | 4.091453 | ACGTTGTCTTTGGTGTTTCTTG | 57.909 | 40.909 | 0.00 | 0.00 | 0.00 | 3.02 |
2807 | 3377 | 4.884164 | GGTCACATTGGATCCTTTCTTAGG | 59.116 | 45.833 | 14.23 | 0.00 | 46.27 | 2.69 |
2910 | 3480 | 6.517362 | CGAGCACCCAGAGAATAATGAGAATA | 60.517 | 42.308 | 0.00 | 0.00 | 0.00 | 1.75 |
3106 | 3741 | 9.570468 | CTACAGGTACTATAGTTATTGGAGTGA | 57.430 | 37.037 | 11.40 | 0.00 | 36.02 | 3.41 |
3107 | 3742 | 8.834004 | ACAGGTACTATAGTTATTGGAGTGAA | 57.166 | 34.615 | 11.40 | 0.00 | 36.02 | 3.18 |
3108 | 3743 | 9.263446 | ACAGGTACTATAGTTATTGGAGTGAAA | 57.737 | 33.333 | 11.40 | 0.00 | 36.02 | 2.69 |
3114 | 3749 | 9.780186 | ACTATAGTTATTGGAGTGAAATTAGGC | 57.220 | 33.333 | 0.00 | 0.00 | 0.00 | 3.93 |
3117 | 3752 | 7.631717 | AGTTATTGGAGTGAAATTAGGCTTC | 57.368 | 36.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3118 | 3753 | 7.406104 | AGTTATTGGAGTGAAATTAGGCTTCT | 58.594 | 34.615 | 0.00 | 0.00 | 0.00 | 2.85 |
3119 | 3754 | 7.890655 | AGTTATTGGAGTGAAATTAGGCTTCTT | 59.109 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
3120 | 3755 | 9.174166 | GTTATTGGAGTGAAATTAGGCTTCTTA | 57.826 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
3121 | 3756 | 7.872113 | ATTGGAGTGAAATTAGGCTTCTTAG | 57.128 | 36.000 | 0.00 | 0.00 | 0.00 | 2.18 |
3122 | 3757 | 6.620877 | TGGAGTGAAATTAGGCTTCTTAGA | 57.379 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
3123 | 3758 | 7.016153 | TGGAGTGAAATTAGGCTTCTTAGAA | 57.984 | 36.000 | 0.00 | 0.00 | 0.00 | 2.10 |
3124 | 3759 | 7.458397 | TGGAGTGAAATTAGGCTTCTTAGAAA | 58.542 | 34.615 | 0.00 | 0.00 | 0.00 | 2.52 |
3125 | 3760 | 8.109634 | TGGAGTGAAATTAGGCTTCTTAGAAAT | 58.890 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
3126 | 3761 | 8.616942 | GGAGTGAAATTAGGCTTCTTAGAAATC | 58.383 | 37.037 | 0.00 | 0.00 | 0.00 | 2.17 |
3127 | 3762 | 9.167311 | GAGTGAAATTAGGCTTCTTAGAAATCA | 57.833 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
3128 | 3763 | 9.520515 | AGTGAAATTAGGCTTCTTAGAAATCAA | 57.479 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
3148 | 3783 | 7.766219 | ATCAAAATAAATGTGCTTCTGATGC | 57.234 | 32.000 | 8.46 | 8.46 | 0.00 | 3.91 |
3149 | 3784 | 6.927416 | TCAAAATAAATGTGCTTCTGATGCT | 58.073 | 32.000 | 15.38 | 0.00 | 0.00 | 3.79 |
3150 | 3785 | 7.031372 | TCAAAATAAATGTGCTTCTGATGCTC | 58.969 | 34.615 | 15.38 | 12.48 | 0.00 | 4.26 |
3151 | 3786 | 5.511234 | AATAAATGTGCTTCTGATGCTCC | 57.489 | 39.130 | 15.38 | 7.66 | 0.00 | 4.70 |
3152 | 3787 | 2.502142 | AATGTGCTTCTGATGCTCCA | 57.498 | 45.000 | 15.38 | 12.17 | 0.00 | 3.86 |
3153 | 3788 | 2.502142 | ATGTGCTTCTGATGCTCCAA | 57.498 | 45.000 | 15.38 | 0.00 | 0.00 | 3.53 |
3154 | 3789 | 2.275134 | TGTGCTTCTGATGCTCCAAA | 57.725 | 45.000 | 15.38 | 0.00 | 0.00 | 3.28 |
3155 | 3790 | 2.799017 | TGTGCTTCTGATGCTCCAAAT | 58.201 | 42.857 | 15.38 | 0.00 | 0.00 | 2.32 |
3156 | 3791 | 2.490509 | TGTGCTTCTGATGCTCCAAATG | 59.509 | 45.455 | 15.38 | 0.00 | 0.00 | 2.32 |
3157 | 3792 | 2.751259 | GTGCTTCTGATGCTCCAAATGA | 59.249 | 45.455 | 15.38 | 0.00 | 0.00 | 2.57 |
3158 | 3793 | 3.192001 | GTGCTTCTGATGCTCCAAATGAA | 59.808 | 43.478 | 15.38 | 0.00 | 0.00 | 2.57 |
3159 | 3794 | 3.192001 | TGCTTCTGATGCTCCAAATGAAC | 59.808 | 43.478 | 15.38 | 0.00 | 0.00 | 3.18 |
3160 | 3795 | 3.442977 | GCTTCTGATGCTCCAAATGAACT | 59.557 | 43.478 | 8.16 | 0.00 | 0.00 | 3.01 |
3161 | 3796 | 4.438472 | GCTTCTGATGCTCCAAATGAACTC | 60.438 | 45.833 | 8.16 | 0.00 | 0.00 | 3.01 |
3162 | 3797 | 4.564782 | TCTGATGCTCCAAATGAACTCT | 57.435 | 40.909 | 0.00 | 0.00 | 0.00 | 3.24 |
3163 | 3798 | 4.914983 | TCTGATGCTCCAAATGAACTCTT | 58.085 | 39.130 | 0.00 | 0.00 | 0.00 | 2.85 |
3164 | 3799 | 4.940046 | TCTGATGCTCCAAATGAACTCTTC | 59.060 | 41.667 | 0.00 | 0.00 | 0.00 | 2.87 |
3165 | 3800 | 4.914983 | TGATGCTCCAAATGAACTCTTCT | 58.085 | 39.130 | 0.00 | 0.00 | 0.00 | 2.85 |
3166 | 3801 | 6.053632 | TGATGCTCCAAATGAACTCTTCTA | 57.946 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
3167 | 3802 | 6.475504 | TGATGCTCCAAATGAACTCTTCTAA | 58.524 | 36.000 | 0.00 | 0.00 | 0.00 | 2.10 |
3168 | 3803 | 6.372659 | TGATGCTCCAAATGAACTCTTCTAAC | 59.627 | 38.462 | 0.00 | 0.00 | 0.00 | 2.34 |
3169 | 3804 | 5.869579 | TGCTCCAAATGAACTCTTCTAACT | 58.130 | 37.500 | 0.00 | 0.00 | 0.00 | 2.24 |
3170 | 3805 | 5.702670 | TGCTCCAAATGAACTCTTCTAACTG | 59.297 | 40.000 | 0.00 | 0.00 | 0.00 | 3.16 |
3675 | 4344 | 7.021196 | CACGATTTTTATCAACGGAGACAATT | 58.979 | 34.615 | 0.00 | 0.00 | 0.00 | 2.32 |
3807 | 4476 | 1.112113 | GGAGTTGCAGGGATCGACTA | 58.888 | 55.000 | 0.00 | 0.00 | 0.00 | 2.59 |
3907 | 4578 | 5.575157 | ACTGATCCTAGAGAAGACTTGACA | 58.425 | 41.667 | 0.00 | 0.00 | 0.00 | 3.58 |
4168 | 4840 | 3.713826 | TTTTGTACTTGAGGGCTAGGG | 57.286 | 47.619 | 0.00 | 0.00 | 0.00 | 3.53 |
4515 | 5189 | 1.082117 | GCAATGCTCATGCTGTTGGC | 61.082 | 55.000 | 0.00 | 0.00 | 40.64 | 4.52 |
4778 | 5452 | 5.511386 | AGAACTTTCTTCCATGGACAGAT | 57.489 | 39.130 | 15.91 | 5.80 | 32.55 | 2.90 |
4780 | 5454 | 6.310149 | AGAACTTTCTTCCATGGACAGATTT | 58.690 | 36.000 | 15.91 | 12.82 | 32.55 | 2.17 |
4980 | 5654 | 1.005097 | TCCTACGGTGTTCCAGCTCTA | 59.995 | 52.381 | 0.00 | 0.00 | 0.00 | 2.43 |
5026 | 5700 | 4.968719 | TCCAGTGCTAAAATCTATCCTCCA | 59.031 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
5027 | 5701 | 5.070981 | TCCAGTGCTAAAATCTATCCTCCAG | 59.929 | 44.000 | 0.00 | 0.00 | 0.00 | 3.86 |
5028 | 5702 | 4.754114 | CAGTGCTAAAATCTATCCTCCAGC | 59.246 | 45.833 | 0.00 | 0.00 | 0.00 | 4.85 |
5029 | 5703 | 4.657969 | AGTGCTAAAATCTATCCTCCAGCT | 59.342 | 41.667 | 0.00 | 0.00 | 0.00 | 4.24 |
5030 | 5704 | 4.994217 | GTGCTAAAATCTATCCTCCAGCTC | 59.006 | 45.833 | 0.00 | 0.00 | 0.00 | 4.09 |
5031 | 5705 | 4.904251 | TGCTAAAATCTATCCTCCAGCTCT | 59.096 | 41.667 | 0.00 | 0.00 | 0.00 | 4.09 |
5032 | 5706 | 6.015010 | GTGCTAAAATCTATCCTCCAGCTCTA | 60.015 | 42.308 | 0.00 | 0.00 | 0.00 | 2.43 |
5033 | 5707 | 6.728164 | TGCTAAAATCTATCCTCCAGCTCTAT | 59.272 | 38.462 | 0.00 | 0.00 | 0.00 | 1.98 |
5034 | 5708 | 7.041107 | GCTAAAATCTATCCTCCAGCTCTATG | 58.959 | 42.308 | 0.00 | 0.00 | 0.00 | 2.23 |
5035 | 5709 | 7.310361 | GCTAAAATCTATCCTCCAGCTCTATGT | 60.310 | 40.741 | 0.00 | 0.00 | 0.00 | 2.29 |
5036 | 5710 | 7.385894 | AAAATCTATCCTCCAGCTCTATGTT | 57.614 | 36.000 | 0.00 | 0.00 | 0.00 | 2.71 |
5037 | 5711 | 7.385894 | AAATCTATCCTCCAGCTCTATGTTT | 57.614 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
5038 | 5712 | 7.385894 | AATCTATCCTCCAGCTCTATGTTTT | 57.614 | 36.000 | 0.00 | 0.00 | 0.00 | 2.43 |
5039 | 5713 | 6.412362 | TCTATCCTCCAGCTCTATGTTTTC | 57.588 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
5040 | 5714 | 6.139671 | TCTATCCTCCAGCTCTATGTTTTCT | 58.860 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
5041 | 5715 | 5.707066 | ATCCTCCAGCTCTATGTTTTCTT | 57.293 | 39.130 | 0.00 | 0.00 | 0.00 | 2.52 |
5042 | 5716 | 4.836825 | TCCTCCAGCTCTATGTTTTCTTG | 58.163 | 43.478 | 0.00 | 0.00 | 0.00 | 3.02 |
5043 | 5717 | 4.287067 | TCCTCCAGCTCTATGTTTTCTTGT | 59.713 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
5044 | 5718 | 4.394300 | CCTCCAGCTCTATGTTTTCTTGTG | 59.606 | 45.833 | 0.00 | 0.00 | 0.00 | 3.33 |
5045 | 5719 | 5.227569 | TCCAGCTCTATGTTTTCTTGTGA | 57.772 | 39.130 | 0.00 | 0.00 | 0.00 | 3.58 |
5046 | 5720 | 5.620206 | TCCAGCTCTATGTTTTCTTGTGAA | 58.380 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
5047 | 5721 | 6.061441 | TCCAGCTCTATGTTTTCTTGTGAAA | 58.939 | 36.000 | 0.00 | 0.00 | 40.08 | 2.69 |
5048 | 5722 | 6.716628 | TCCAGCTCTATGTTTTCTTGTGAAAT | 59.283 | 34.615 | 0.00 | 0.00 | 41.24 | 2.17 |
5049 | 5723 | 7.231317 | TCCAGCTCTATGTTTTCTTGTGAAATT | 59.769 | 33.333 | 0.00 | 0.00 | 41.24 | 1.82 |
5050 | 5724 | 7.540055 | CCAGCTCTATGTTTTCTTGTGAAATTC | 59.460 | 37.037 | 0.00 | 0.00 | 41.24 | 2.17 |
5051 | 5725 | 7.540055 | CAGCTCTATGTTTTCTTGTGAAATTCC | 59.460 | 37.037 | 0.00 | 0.00 | 41.24 | 3.01 |
5052 | 5726 | 7.449704 | AGCTCTATGTTTTCTTGTGAAATTCCT | 59.550 | 33.333 | 0.00 | 0.00 | 41.24 | 3.36 |
5053 | 5727 | 8.084684 | GCTCTATGTTTTCTTGTGAAATTCCTT | 58.915 | 33.333 | 0.00 | 0.00 | 41.24 | 3.36 |
5054 | 5728 | 9.971922 | CTCTATGTTTTCTTGTGAAATTCCTTT | 57.028 | 29.630 | 0.00 | 0.00 | 41.24 | 3.11 |
5057 | 5731 | 7.841915 | TGTTTTCTTGTGAAATTCCTTTTCC | 57.158 | 32.000 | 0.00 | 0.00 | 42.63 | 3.13 |
5058 | 5732 | 7.390027 | TGTTTTCTTGTGAAATTCCTTTTCCA | 58.610 | 30.769 | 0.00 | 0.00 | 42.63 | 3.53 |
5059 | 5733 | 7.548780 | TGTTTTCTTGTGAAATTCCTTTTCCAG | 59.451 | 33.333 | 0.00 | 0.00 | 42.63 | 3.86 |
5060 | 5734 | 6.790232 | TTCTTGTGAAATTCCTTTTCCAGT | 57.210 | 33.333 | 0.00 | 0.00 | 42.63 | 4.00 |
5061 | 5735 | 6.147864 | TCTTGTGAAATTCCTTTTCCAGTG | 57.852 | 37.500 | 0.00 | 0.00 | 42.63 | 3.66 |
5062 | 5736 | 4.320608 | TGTGAAATTCCTTTTCCAGTGC | 57.679 | 40.909 | 0.00 | 0.00 | 42.63 | 4.40 |
5063 | 5737 | 3.960102 | TGTGAAATTCCTTTTCCAGTGCT | 59.040 | 39.130 | 0.00 | 0.00 | 42.63 | 4.40 |
5064 | 5738 | 5.136828 | TGTGAAATTCCTTTTCCAGTGCTA | 58.863 | 37.500 | 0.00 | 0.00 | 42.63 | 3.49 |
5065 | 5739 | 5.596361 | TGTGAAATTCCTTTTCCAGTGCTAA | 59.404 | 36.000 | 0.00 | 0.00 | 42.63 | 3.09 |
5066 | 5740 | 6.097554 | TGTGAAATTCCTTTTCCAGTGCTAAA | 59.902 | 34.615 | 0.00 | 0.00 | 42.63 | 1.85 |
5067 | 5741 | 6.983890 | GTGAAATTCCTTTTCCAGTGCTAAAA | 59.016 | 34.615 | 0.00 | 2.74 | 42.63 | 1.52 |
5068 | 5742 | 7.657354 | GTGAAATTCCTTTTCCAGTGCTAAAAT | 59.343 | 33.333 | 3.06 | 0.00 | 42.63 | 1.82 |
5069 | 5743 | 7.872483 | TGAAATTCCTTTTCCAGTGCTAAAATC | 59.128 | 33.333 | 3.06 | 0.00 | 42.63 | 2.17 |
5070 | 5744 | 7.544804 | AATTCCTTTTCCAGTGCTAAAATCT | 57.455 | 32.000 | 3.06 | 0.00 | 0.00 | 2.40 |
5073 | 5747 | 7.865706 | TCCTTTTCCAGTGCTAAAATCTATC | 57.134 | 36.000 | 3.06 | 0.00 | 0.00 | 2.08 |
5116 | 5790 | 3.922375 | AGAGAGGAGGGAAAGATACCTG | 58.078 | 50.000 | 0.00 | 0.00 | 37.18 | 4.00 |
5454 | 6141 | 3.741476 | GCTGCTCCCAAGTTGCGG | 61.741 | 66.667 | 0.00 | 0.58 | 36.28 | 5.69 |
5469 | 6156 | 0.803117 | TGCGGTGTTGTTTTGTCGAA | 59.197 | 45.000 | 0.00 | 0.00 | 0.00 | 3.71 |
5479 | 6166 | 7.095982 | GGTGTTGTTTTGTCGAAAAAGAGAAAA | 60.096 | 33.333 | 0.20 | 0.00 | 39.84 | 2.29 |
5483 | 6170 | 8.623310 | TGTTTTGTCGAAAAAGAGAAAATACC | 57.377 | 30.769 | 0.20 | 0.00 | 42.55 | 2.73 |
5488 | 6175 | 8.391075 | TGTCGAAAAAGAGAAAATACCTGAAT | 57.609 | 30.769 | 0.00 | 0.00 | 0.00 | 2.57 |
5489 | 6176 | 8.289618 | TGTCGAAAAAGAGAAAATACCTGAATG | 58.710 | 33.333 | 0.00 | 0.00 | 0.00 | 2.67 |
5490 | 6177 | 7.271438 | GTCGAAAAAGAGAAAATACCTGAATGC | 59.729 | 37.037 | 0.00 | 0.00 | 0.00 | 3.56 |
5491 | 6178 | 7.040755 | TCGAAAAAGAGAAAATACCTGAATGCA | 60.041 | 33.333 | 0.00 | 0.00 | 0.00 | 3.96 |
5533 | 8508 | 5.105228 | CGGGTCTTTTAGGATTGTACTACCA | 60.105 | 44.000 | 0.00 | 0.00 | 0.00 | 3.25 |
5687 | 9920 | 3.067106 | ACCTCGACACTGCAATAACTTG | 58.933 | 45.455 | 0.00 | 0.00 | 35.36 | 3.16 |
5811 | 10825 | 4.697828 | GGAGGAAGAGAAAGGTAAAGCTTG | 59.302 | 45.833 | 0.00 | 0.00 | 0.00 | 4.01 |
5813 | 10827 | 3.191581 | GGAAGAGAAAGGTAAAGCTTGCC | 59.808 | 47.826 | 0.00 | 5.92 | 35.41 | 4.52 |
5819 | 10833 | 2.498644 | AGGTAAAGCTTGCCTTCTCC | 57.501 | 50.000 | 14.95 | 4.46 | 43.78 | 3.71 |
5820 | 10834 | 1.087501 | GGTAAAGCTTGCCTTCTCCG | 58.912 | 55.000 | 0.00 | 0.00 | 31.99 | 4.63 |
5891 | 10916 | 0.309922 | ACGTACCTGTCGACACACAG | 59.690 | 55.000 | 15.76 | 4.71 | 43.13 | 3.66 |
5909 | 10937 | 2.251600 | GCAGTTGCTGGAACTCCTG | 58.748 | 57.895 | 11.86 | 3.66 | 43.52 | 3.86 |
5914 | 10942 | 0.183492 | TTGCTGGAACTCCTGTGCTT | 59.817 | 50.000 | 4.75 | 0.00 | 37.30 | 3.91 |
6019 | 11466 | 1.141185 | GAATTACCCTCCTCCCCCTG | 58.859 | 60.000 | 0.00 | 0.00 | 0.00 | 4.45 |
6098 | 11545 | 2.358984 | CACCCCCACCGGTAAACG | 60.359 | 66.667 | 6.87 | 0.00 | 43.80 | 3.60 |
6142 | 11589 | 4.193334 | GGCGGCAGCGGGAATTTC | 62.193 | 66.667 | 3.07 | 0.00 | 46.35 | 2.17 |
6143 | 11590 | 3.134127 | GCGGCAGCGGGAATTTCT | 61.134 | 61.111 | 1.63 | 0.00 | 0.00 | 2.52 |
6144 | 11591 | 3.102097 | CGGCAGCGGGAATTTCTC | 58.898 | 61.111 | 0.00 | 0.00 | 0.00 | 2.87 |
6145 | 11592 | 1.450312 | CGGCAGCGGGAATTTCTCT | 60.450 | 57.895 | 0.00 | 0.00 | 0.00 | 3.10 |
6146 | 11593 | 1.432270 | CGGCAGCGGGAATTTCTCTC | 61.432 | 60.000 | 0.00 | 0.00 | 0.00 | 3.20 |
6147 | 11594 | 0.107459 | GGCAGCGGGAATTTCTCTCT | 60.107 | 55.000 | 0.00 | 0.00 | 0.00 | 3.10 |
6148 | 11595 | 1.294857 | GCAGCGGGAATTTCTCTCTC | 58.705 | 55.000 | 0.00 | 0.00 | 0.00 | 3.20 |
6149 | 11596 | 1.565305 | CAGCGGGAATTTCTCTCTCG | 58.435 | 55.000 | 0.00 | 0.00 | 0.00 | 4.04 |
6150 | 11597 | 0.179097 | AGCGGGAATTTCTCTCTCGC | 60.179 | 55.000 | 8.98 | 8.98 | 37.81 | 5.03 |
6151 | 11598 | 1.154814 | GCGGGAATTTCTCTCTCGCC | 61.155 | 60.000 | 5.80 | 0.00 | 34.41 | 5.54 |
6152 | 11599 | 0.461961 | CGGGAATTTCTCTCTCGCCT | 59.538 | 55.000 | 0.00 | 0.00 | 0.00 | 5.52 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
6 | 7 | 3.978571 | GAAAGCCGCCTCCTCCACC | 62.979 | 68.421 | 0.00 | 0.00 | 0.00 | 4.61 |
7 | 8 | 2.436824 | GAAAGCCGCCTCCTCCAC | 60.437 | 66.667 | 0.00 | 0.00 | 0.00 | 4.02 |
8 | 9 | 3.717294 | GGAAAGCCGCCTCCTCCA | 61.717 | 66.667 | 2.42 | 0.00 | 0.00 | 3.86 |
129 | 130 | 2.516460 | GAGTAGCGCTCGAGGGGA | 60.516 | 66.667 | 28.26 | 0.00 | 34.13 | 4.81 |
353 | 355 | 0.390124 | AACGTCGTGTTCTAAGGGCA | 59.610 | 50.000 | 0.00 | 0.00 | 35.27 | 5.36 |
428 | 437 | 2.823147 | CTAGGCGTCCTCGTCGGT | 60.823 | 66.667 | 1.46 | 0.00 | 46.96 | 4.69 |
488 | 503 | 1.663695 | CCGGCGAAAGTCCACATTAT | 58.336 | 50.000 | 9.30 | 0.00 | 0.00 | 1.28 |
547 | 563 | 5.866335 | ATCGGCGTGACAAAATAAAAGTA | 57.134 | 34.783 | 6.85 | 0.00 | 0.00 | 2.24 |
554 | 572 | 3.119990 | CCACTTTATCGGCGTGACAAAAT | 60.120 | 43.478 | 6.85 | 0.00 | 0.00 | 1.82 |
555 | 573 | 2.224549 | CCACTTTATCGGCGTGACAAAA | 59.775 | 45.455 | 6.85 | 1.11 | 0.00 | 2.44 |
560 | 579 | 0.108520 | GACCCACTTTATCGGCGTGA | 60.109 | 55.000 | 6.85 | 0.00 | 0.00 | 4.35 |
569 | 588 | 1.675219 | GCTGGTCCGACCCACTTTA | 59.325 | 57.895 | 15.24 | 0.00 | 37.50 | 1.85 |
573 | 592 | 4.309950 | AACGCTGGTCCGACCCAC | 62.310 | 66.667 | 15.24 | 6.02 | 37.50 | 4.61 |
597 | 616 | 0.956410 | TTGTATTTGGGTCGGCGTGG | 60.956 | 55.000 | 6.85 | 0.00 | 0.00 | 4.94 |
617 | 636 | 1.375551 | GTGGACACAAACGTCTGGTT | 58.624 | 50.000 | 0.00 | 0.00 | 41.76 | 3.67 |
692 | 712 | 2.814336 | CACCTTAAGAGCAACTCCAACC | 59.186 | 50.000 | 3.36 | 0.00 | 0.00 | 3.77 |
725 | 745 | 1.638589 | ACCCCGGATGGATCTGAAAAA | 59.361 | 47.619 | 0.73 | 0.00 | 37.49 | 1.94 |
729 | 749 | 2.443394 | GCACCCCGGATGGATCTGA | 61.443 | 63.158 | 0.73 | 0.00 | 37.49 | 3.27 |
736 | 756 | 1.202806 | ACTAATCATGCACCCCGGATG | 60.203 | 52.381 | 0.73 | 1.21 | 44.44 | 3.51 |
861 | 881 | 1.550524 | TCACCTCAGCTTTCGCTACAT | 59.449 | 47.619 | 0.00 | 0.00 | 46.99 | 2.29 |
950 | 976 | 0.166597 | CGAGCGTGTGTAGTACGGAA | 59.833 | 55.000 | 0.00 | 0.00 | 41.56 | 4.30 |
959 | 985 | 0.596600 | CAGTTACCACGAGCGTGTGT | 60.597 | 55.000 | 19.99 | 18.19 | 44.02 | 3.72 |
960 | 986 | 1.282248 | CCAGTTACCACGAGCGTGTG | 61.282 | 60.000 | 19.99 | 14.06 | 44.02 | 3.82 |
1387 | 1416 | 0.318441 | GCACTAGTCACTCTGCACCA | 59.682 | 55.000 | 0.00 | 0.00 | 0.00 | 4.17 |
1395 | 1424 | 1.853963 | ATCGAAGGGCACTAGTCACT | 58.146 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1408 | 1437 | 2.222729 | CCGGAACTTAACGCAATCGAAG | 60.223 | 50.000 | 0.00 | 0.00 | 39.41 | 3.79 |
1578 | 1608 | 5.733373 | GCAAACCCTGTCAAAAACTCTACAG | 60.733 | 44.000 | 0.00 | 0.00 | 39.22 | 2.74 |
1674 | 1704 | 6.239600 | CCCTAATACTGCATTGAAGGCTACTA | 60.240 | 42.308 | 2.79 | 0.00 | 0.00 | 1.82 |
1785 | 1815 | 8.419076 | ACAAACTGATGTGTAAAATTGGTTTC | 57.581 | 30.769 | 0.00 | 0.00 | 30.82 | 2.78 |
1963 | 2044 | 4.787280 | AGACTCCCTCGCCCTGGG | 62.787 | 72.222 | 8.86 | 8.86 | 45.90 | 4.45 |
2042 | 2248 | 4.176271 | GGATGCTTGCCTATTTGTTTGAC | 58.824 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
2045 | 2251 | 3.172339 | TGGGATGCTTGCCTATTTGTTT | 58.828 | 40.909 | 11.49 | 0.00 | 33.70 | 2.83 |
2081 | 2287 | 0.036388 | GGCATCCCACAAGACTTCGA | 60.036 | 55.000 | 0.00 | 0.00 | 0.00 | 3.71 |
2113 | 2319 | 7.760794 | GCATCACAAAATCAAATAGTCCATTCA | 59.239 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
2238 | 2604 | 2.161486 | GCAGCGCCTACTGAAGACG | 61.161 | 63.158 | 2.29 | 0.00 | 40.25 | 4.18 |
2657 | 3227 | 9.300681 | TCAAAAGGATGATAACAGTCAGAAAAT | 57.699 | 29.630 | 0.00 | 0.00 | 0.00 | 1.82 |
2807 | 3377 | 5.238583 | ACATACTGAGTAACCTTGCTGTTC | 58.761 | 41.667 | 0.00 | 0.00 | 0.00 | 3.18 |
3020 | 3590 | 3.492421 | AGAAATAACAAGCATGCGTGG | 57.508 | 42.857 | 32.14 | 19.10 | 0.00 | 4.94 |
3122 | 3757 | 8.662141 | GCATCAGAAGCACATTTATTTTGATTT | 58.338 | 29.630 | 0.00 | 0.00 | 0.00 | 2.17 |
3123 | 3758 | 8.038944 | AGCATCAGAAGCACATTTATTTTGATT | 58.961 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
3124 | 3759 | 7.553334 | AGCATCAGAAGCACATTTATTTTGAT | 58.447 | 30.769 | 0.00 | 0.00 | 0.00 | 2.57 |
3125 | 3760 | 6.927416 | AGCATCAGAAGCACATTTATTTTGA | 58.073 | 32.000 | 0.00 | 0.00 | 0.00 | 2.69 |
3126 | 3761 | 6.255020 | GGAGCATCAGAAGCACATTTATTTTG | 59.745 | 38.462 | 0.00 | 0.00 | 36.25 | 2.44 |
3127 | 3762 | 6.071221 | TGGAGCATCAGAAGCACATTTATTTT | 60.071 | 34.615 | 0.00 | 0.00 | 36.25 | 1.82 |
3128 | 3763 | 5.419788 | TGGAGCATCAGAAGCACATTTATTT | 59.580 | 36.000 | 0.00 | 0.00 | 36.25 | 1.40 |
3129 | 3764 | 4.951715 | TGGAGCATCAGAAGCACATTTATT | 59.048 | 37.500 | 0.00 | 0.00 | 36.25 | 1.40 |
3130 | 3765 | 4.529897 | TGGAGCATCAGAAGCACATTTAT | 58.470 | 39.130 | 0.00 | 0.00 | 36.25 | 1.40 |
3131 | 3766 | 3.954200 | TGGAGCATCAGAAGCACATTTA | 58.046 | 40.909 | 0.00 | 0.00 | 36.25 | 1.40 |
3132 | 3767 | 2.799017 | TGGAGCATCAGAAGCACATTT | 58.201 | 42.857 | 0.00 | 0.00 | 36.25 | 2.32 |
3133 | 3768 | 2.502142 | TGGAGCATCAGAAGCACATT | 57.498 | 45.000 | 0.00 | 0.00 | 36.25 | 2.71 |
3134 | 3769 | 2.502142 | TTGGAGCATCAGAAGCACAT | 57.498 | 45.000 | 0.00 | 0.00 | 36.25 | 3.21 |
3135 | 3770 | 2.275134 | TTTGGAGCATCAGAAGCACA | 57.725 | 45.000 | 0.00 | 0.00 | 36.25 | 4.57 |
3136 | 3771 | 2.751259 | TCATTTGGAGCATCAGAAGCAC | 59.249 | 45.455 | 0.00 | 0.00 | 36.25 | 4.40 |
3137 | 3772 | 3.076079 | TCATTTGGAGCATCAGAAGCA | 57.924 | 42.857 | 0.00 | 0.00 | 36.25 | 3.91 |
3138 | 3773 | 3.442977 | AGTTCATTTGGAGCATCAGAAGC | 59.557 | 43.478 | 0.00 | 0.00 | 36.25 | 3.86 |
3139 | 3774 | 4.942483 | AGAGTTCATTTGGAGCATCAGAAG | 59.058 | 41.667 | 0.00 | 0.00 | 36.25 | 2.85 |
3140 | 3775 | 4.914983 | AGAGTTCATTTGGAGCATCAGAA | 58.085 | 39.130 | 0.00 | 0.00 | 36.25 | 3.02 |
3141 | 3776 | 4.564782 | AGAGTTCATTTGGAGCATCAGA | 57.435 | 40.909 | 0.00 | 0.00 | 36.25 | 3.27 |
3142 | 3777 | 4.942483 | AGAAGAGTTCATTTGGAGCATCAG | 59.058 | 41.667 | 0.00 | 0.00 | 36.25 | 2.90 |
3143 | 3778 | 4.914983 | AGAAGAGTTCATTTGGAGCATCA | 58.085 | 39.130 | 0.00 | 0.00 | 36.25 | 3.07 |
3144 | 3779 | 6.597280 | AGTTAGAAGAGTTCATTTGGAGCATC | 59.403 | 38.462 | 0.00 | 0.00 | 0.00 | 3.91 |
3145 | 3780 | 6.373774 | CAGTTAGAAGAGTTCATTTGGAGCAT | 59.626 | 38.462 | 0.00 | 0.00 | 0.00 | 3.79 |
3146 | 3781 | 5.702670 | CAGTTAGAAGAGTTCATTTGGAGCA | 59.297 | 40.000 | 0.00 | 0.00 | 0.00 | 4.26 |
3147 | 3782 | 5.391416 | GCAGTTAGAAGAGTTCATTTGGAGC | 60.391 | 44.000 | 0.00 | 0.00 | 0.00 | 4.70 |
3148 | 3783 | 5.123027 | GGCAGTTAGAAGAGTTCATTTGGAG | 59.877 | 44.000 | 0.00 | 0.00 | 0.00 | 3.86 |
3149 | 3784 | 5.003804 | GGCAGTTAGAAGAGTTCATTTGGA | 58.996 | 41.667 | 0.00 | 0.00 | 0.00 | 3.53 |
3150 | 3785 | 5.006386 | AGGCAGTTAGAAGAGTTCATTTGG | 58.994 | 41.667 | 0.00 | 0.00 | 0.00 | 3.28 |
3151 | 3786 | 5.702670 | TCAGGCAGTTAGAAGAGTTCATTTG | 59.297 | 40.000 | 0.00 | 0.00 | 0.00 | 2.32 |
3152 | 3787 | 5.869579 | TCAGGCAGTTAGAAGAGTTCATTT | 58.130 | 37.500 | 0.00 | 0.00 | 0.00 | 2.32 |
3153 | 3788 | 5.247110 | TCTCAGGCAGTTAGAAGAGTTCATT | 59.753 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3154 | 3789 | 4.774726 | TCTCAGGCAGTTAGAAGAGTTCAT | 59.225 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
3155 | 3790 | 4.021894 | GTCTCAGGCAGTTAGAAGAGTTCA | 60.022 | 45.833 | 0.00 | 0.00 | 0.00 | 3.18 |
3156 | 3791 | 4.021894 | TGTCTCAGGCAGTTAGAAGAGTTC | 60.022 | 45.833 | 0.00 | 0.00 | 0.00 | 3.01 |
3157 | 3792 | 3.898123 | TGTCTCAGGCAGTTAGAAGAGTT | 59.102 | 43.478 | 0.00 | 0.00 | 0.00 | 3.01 |
3158 | 3793 | 3.501349 | TGTCTCAGGCAGTTAGAAGAGT | 58.499 | 45.455 | 0.00 | 0.00 | 0.00 | 3.24 |
3159 | 3794 | 4.734398 | ATGTCTCAGGCAGTTAGAAGAG | 57.266 | 45.455 | 0.00 | 0.00 | 0.00 | 2.85 |
3160 | 3795 | 5.510430 | TCTATGTCTCAGGCAGTTAGAAGA | 58.490 | 41.667 | 0.00 | 0.00 | 0.00 | 2.87 |
3161 | 3796 | 5.221224 | CCTCTATGTCTCAGGCAGTTAGAAG | 60.221 | 48.000 | 0.00 | 0.00 | 0.00 | 2.85 |
3162 | 3797 | 4.646945 | CCTCTATGTCTCAGGCAGTTAGAA | 59.353 | 45.833 | 0.00 | 0.00 | 0.00 | 2.10 |
3163 | 3798 | 4.211125 | CCTCTATGTCTCAGGCAGTTAGA | 58.789 | 47.826 | 0.00 | 0.00 | 0.00 | 2.10 |
3164 | 3799 | 3.320541 | CCCTCTATGTCTCAGGCAGTTAG | 59.679 | 52.174 | 0.00 | 0.00 | 0.00 | 2.34 |
3165 | 3800 | 3.300388 | CCCTCTATGTCTCAGGCAGTTA | 58.700 | 50.000 | 0.00 | 0.00 | 0.00 | 2.24 |
3166 | 3801 | 2.114616 | CCCTCTATGTCTCAGGCAGTT | 58.885 | 52.381 | 0.00 | 0.00 | 0.00 | 3.16 |
3167 | 3802 | 1.690845 | CCCCTCTATGTCTCAGGCAGT | 60.691 | 57.143 | 0.00 | 0.00 | 0.00 | 4.40 |
3168 | 3803 | 1.047002 | CCCCTCTATGTCTCAGGCAG | 58.953 | 60.000 | 0.00 | 0.00 | 0.00 | 4.85 |
3169 | 3804 | 0.636647 | TCCCCTCTATGTCTCAGGCA | 59.363 | 55.000 | 0.00 | 0.00 | 0.00 | 4.75 |
3170 | 3805 | 1.337118 | CTCCCCTCTATGTCTCAGGC | 58.663 | 60.000 | 0.00 | 0.00 | 0.00 | 4.85 |
3675 | 4344 | 1.448497 | GGACACGGTTGACCCTTCA | 59.552 | 57.895 | 0.00 | 0.00 | 31.90 | 3.02 |
3807 | 4476 | 1.927487 | TGGAGCTGCCATCACAAAAT | 58.073 | 45.000 | 1.53 | 0.00 | 43.33 | 1.82 |
3907 | 4578 | 1.327303 | GAGACATGGCGAGGAGAGAT | 58.673 | 55.000 | 0.00 | 0.00 | 0.00 | 2.75 |
4168 | 4840 | 5.470098 | TCTTGTAAGTGGAGATGAGCAAAAC | 59.530 | 40.000 | 0.00 | 0.00 | 0.00 | 2.43 |
4386 | 5060 | 8.531146 | CAACATTTACCCTATCAAGTTCCATTT | 58.469 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
4570 | 5244 | 9.431887 | ACAAGTATGTTACTGTTCGTTATGAAT | 57.568 | 29.630 | 0.00 | 0.00 | 39.39 | 2.57 |
5026 | 5700 | 7.449704 | AGGAATTTCACAAGAAAACATAGAGCT | 59.550 | 33.333 | 0.00 | 0.00 | 46.06 | 4.09 |
5027 | 5701 | 7.597386 | AGGAATTTCACAAGAAAACATAGAGC | 58.403 | 34.615 | 0.00 | 0.00 | 46.06 | 4.09 |
5028 | 5702 | 9.971922 | AAAGGAATTTCACAAGAAAACATAGAG | 57.028 | 29.630 | 0.00 | 0.00 | 46.06 | 2.43 |
5044 | 5718 | 8.090831 | AGATTTTAGCACTGGAAAAGGAATTTC | 58.909 | 33.333 | 0.00 | 0.00 | 45.55 | 2.17 |
5045 | 5719 | 7.966812 | AGATTTTAGCACTGGAAAAGGAATTT | 58.033 | 30.769 | 0.00 | 0.00 | 0.00 | 1.82 |
5046 | 5720 | 7.544804 | AGATTTTAGCACTGGAAAAGGAATT | 57.455 | 32.000 | 0.00 | 0.00 | 0.00 | 2.17 |
5047 | 5721 | 8.829373 | ATAGATTTTAGCACTGGAAAAGGAAT | 57.171 | 30.769 | 0.00 | 0.00 | 0.00 | 3.01 |
5048 | 5722 | 7.339466 | GGATAGATTTTAGCACTGGAAAAGGAA | 59.661 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
5049 | 5723 | 6.828785 | GGATAGATTTTAGCACTGGAAAAGGA | 59.171 | 38.462 | 0.00 | 0.00 | 0.00 | 3.36 |
5050 | 5724 | 6.830838 | AGGATAGATTTTAGCACTGGAAAAGG | 59.169 | 38.462 | 0.00 | 0.00 | 0.00 | 3.11 |
5051 | 5725 | 7.012799 | GGAGGATAGATTTTAGCACTGGAAAAG | 59.987 | 40.741 | 0.00 | 0.00 | 0.00 | 2.27 |
5052 | 5726 | 6.828785 | GGAGGATAGATTTTAGCACTGGAAAA | 59.171 | 38.462 | 0.00 | 0.00 | 0.00 | 2.29 |
5053 | 5727 | 6.069673 | TGGAGGATAGATTTTAGCACTGGAAA | 60.070 | 38.462 | 0.00 | 0.00 | 0.00 | 3.13 |
5054 | 5728 | 5.428457 | TGGAGGATAGATTTTAGCACTGGAA | 59.572 | 40.000 | 0.00 | 0.00 | 0.00 | 3.53 |
5055 | 5729 | 4.968719 | TGGAGGATAGATTTTAGCACTGGA | 59.031 | 41.667 | 0.00 | 0.00 | 0.00 | 3.86 |
5056 | 5730 | 5.296151 | TGGAGGATAGATTTTAGCACTGG | 57.704 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
5057 | 5731 | 6.204301 | CACATGGAGGATAGATTTTAGCACTG | 59.796 | 42.308 | 0.00 | 0.00 | 0.00 | 3.66 |
5058 | 5732 | 6.126652 | ACACATGGAGGATAGATTTTAGCACT | 60.127 | 38.462 | 0.00 | 0.00 | 0.00 | 4.40 |
5059 | 5733 | 6.058183 | ACACATGGAGGATAGATTTTAGCAC | 58.942 | 40.000 | 0.00 | 0.00 | 0.00 | 4.40 |
5060 | 5734 | 6.252599 | ACACATGGAGGATAGATTTTAGCA | 57.747 | 37.500 | 0.00 | 0.00 | 0.00 | 3.49 |
5061 | 5735 | 6.073548 | CGAACACATGGAGGATAGATTTTAGC | 60.074 | 42.308 | 0.00 | 0.00 | 0.00 | 3.09 |
5062 | 5736 | 6.986817 | ACGAACACATGGAGGATAGATTTTAG | 59.013 | 38.462 | 0.00 | 0.00 | 0.00 | 1.85 |
5063 | 5737 | 6.884832 | ACGAACACATGGAGGATAGATTTTA | 58.115 | 36.000 | 0.00 | 0.00 | 0.00 | 1.52 |
5064 | 5738 | 5.745227 | ACGAACACATGGAGGATAGATTTT | 58.255 | 37.500 | 0.00 | 0.00 | 0.00 | 1.82 |
5065 | 5739 | 5.359194 | ACGAACACATGGAGGATAGATTT | 57.641 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
5066 | 5740 | 4.499865 | CGACGAACACATGGAGGATAGATT | 60.500 | 45.833 | 0.00 | 0.00 | 0.00 | 2.40 |
5067 | 5741 | 3.004839 | CGACGAACACATGGAGGATAGAT | 59.995 | 47.826 | 0.00 | 0.00 | 0.00 | 1.98 |
5068 | 5742 | 2.357952 | CGACGAACACATGGAGGATAGA | 59.642 | 50.000 | 0.00 | 0.00 | 0.00 | 1.98 |
5069 | 5743 | 2.732366 | CGACGAACACATGGAGGATAG | 58.268 | 52.381 | 0.00 | 0.00 | 0.00 | 2.08 |
5070 | 5744 | 1.202371 | GCGACGAACACATGGAGGATA | 60.202 | 52.381 | 0.00 | 0.00 | 0.00 | 2.59 |
5073 | 5747 | 1.354337 | CTGCGACGAACACATGGAGG | 61.354 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
5454 | 6141 | 6.921332 | TTCTCTTTTTCGACAAAACAACAC | 57.079 | 33.333 | 0.00 | 0.00 | 30.89 | 3.32 |
5469 | 6156 | 7.288810 | TGTGCATTCAGGTATTTTCTCTTTT | 57.711 | 32.000 | 0.00 | 0.00 | 0.00 | 2.27 |
5479 | 6166 | 7.173907 | GCAGAAGTTATATGTGCATTCAGGTAT | 59.826 | 37.037 | 0.00 | 0.00 | 37.07 | 2.73 |
5483 | 6170 | 6.427974 | CAGCAGAAGTTATATGTGCATTCAG | 58.572 | 40.000 | 0.00 | 0.00 | 39.36 | 3.02 |
5488 | 6175 | 2.945008 | GGCAGCAGAAGTTATATGTGCA | 59.055 | 45.455 | 0.00 | 0.00 | 39.36 | 4.57 |
5489 | 6176 | 2.032549 | CGGCAGCAGAAGTTATATGTGC | 60.033 | 50.000 | 0.00 | 0.00 | 37.34 | 4.57 |
5490 | 6177 | 2.545526 | CCGGCAGCAGAAGTTATATGTG | 59.454 | 50.000 | 0.00 | 0.00 | 0.00 | 3.21 |
5491 | 6178 | 2.485479 | CCCGGCAGCAGAAGTTATATGT | 60.485 | 50.000 | 0.00 | 0.00 | 0.00 | 2.29 |
5687 | 9920 | 8.383318 | TCCTTATCTTGCATAAGAAATACTGC | 57.617 | 34.615 | 7.06 | 0.00 | 45.47 | 4.40 |
5732 | 10702 | 8.450578 | TTGACAAAATCTCTGATGTAAACAGT | 57.549 | 30.769 | 0.00 | 0.00 | 38.02 | 3.55 |
5819 | 10833 | 6.102663 | GGTGGATGTAGGATATTTCTCATCG | 58.897 | 44.000 | 0.00 | 0.00 | 34.43 | 3.84 |
5820 | 10834 | 6.102663 | CGGTGGATGTAGGATATTTCTCATC | 58.897 | 44.000 | 0.00 | 0.00 | 0.00 | 2.92 |
5866 | 10891 | 1.160137 | GTCGACAGGTACGTGTAGGT | 58.840 | 55.000 | 20.41 | 0.00 | 0.00 | 3.08 |
5906 | 10934 | 4.636206 | GGATTAAACTAGACCAAGCACAGG | 59.364 | 45.833 | 0.00 | 0.00 | 0.00 | 4.00 |
5909 | 10937 | 4.844884 | AGGGATTAAACTAGACCAAGCAC | 58.155 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
5914 | 10942 | 6.443849 | ACTGATGAAGGGATTAAACTAGACCA | 59.556 | 38.462 | 0.00 | 0.00 | 0.00 | 4.02 |
6009 | 11456 | 2.285668 | CCTCTTGCAGGGGGAGGA | 60.286 | 66.667 | 9.70 | 0.00 | 46.82 | 3.71 |
6037 | 11484 | 3.798511 | GAGCTACCTGGGGTGCCC | 61.799 | 72.222 | 0.00 | 0.00 | 45.71 | 5.36 |
6079 | 11526 | 3.969119 | TTTACCGGTGGGGGTGGC | 61.969 | 66.667 | 19.93 | 0.00 | 41.41 | 5.01 |
6081 | 11528 | 2.358984 | CGTTTACCGGTGGGGGTG | 60.359 | 66.667 | 19.93 | 0.00 | 41.41 | 4.61 |
6082 | 11529 | 2.451191 | AACGTTTACCGGTGGGGGT | 61.451 | 57.895 | 19.93 | 7.39 | 44.23 | 4.95 |
6083 | 11530 | 2.431244 | AACGTTTACCGGTGGGGG | 59.569 | 61.111 | 19.93 | 6.68 | 42.24 | 5.40 |
6098 | 11545 | 1.204312 | GCGAGGTTTGCTCGACAAC | 59.796 | 57.895 | 0.00 | 0.00 | 46.06 | 3.32 |
6128 | 11575 | 0.107459 | AGAGAGAAATTCCCGCTGCC | 60.107 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
6130 | 11577 | 1.565305 | CGAGAGAGAAATTCCCGCTG | 58.435 | 55.000 | 0.00 | 0.00 | 0.00 | 5.18 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.