Multiple sequence alignment - TraesCS3D01G170600
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 | TraesCS3D01G170600 | chr3D | 100.000 | 3206 | 0 | 0 | 1 | 3206 | 149608055 | 149611260 | 0.000000e+00 | 5921.0 |
1 | TraesCS3D01G170600 | chr3D | 78.442 | 886 | 151 | 23 | 1445 | 2306 | 147321675 | 147322544 | 2.810000e-150 | 542.0 |
2 | TraesCS3D01G170600 | chr3D | 81.991 | 211 | 30 | 5 | 2953 | 3157 | 149234704 | 149234496 | 4.250000e-39 | 172.0 |
3 | TraesCS3D01G170600 | chr3D | 81.977 | 172 | 24 | 6 | 1445 | 1611 | 147323720 | 147323889 | 4.310000e-29 | 139.0 |
4 | TraesCS3D01G170600 | chr3D | 80.226 | 177 | 26 | 6 | 3018 | 3190 | 147324920 | 147325091 | 1.210000e-24 | 124.0 |
5 | TraesCS3D01G170600 | chr3D | 81.884 | 138 | 21 | 2 | 2810 | 2945 | 149235231 | 149235096 | 2.610000e-21 | 113.0 |
6 | TraesCS3D01G170600 | chr3D | 81.119 | 143 | 20 | 5 | 2810 | 2948 | 147324353 | 147324492 | 1.220000e-19 | 108.0 |
7 | TraesCS3D01G170600 | chr3D | 89.831 | 59 | 3 | 2 | 2847 | 2905 | 149758382 | 149758437 | 4.440000e-09 | 73.1 |
8 | TraesCS3D01G170600 | chr3A | 95.642 | 1790 | 58 | 9 | 1367 | 3150 | 167883954 | 167885729 | 0.000000e+00 | 2856.0 |
9 | TraesCS3D01G170600 | chr3A | 88.519 | 601 | 52 | 9 | 41 | 635 | 167676393 | 167676982 | 0.000000e+00 | 712.0 |
10 | TraesCS3D01G170600 | chr3A | 91.961 | 510 | 26 | 6 | 751 | 1247 | 167877081 | 167877588 | 0.000000e+00 | 701.0 |
11 | TraesCS3D01G170600 | chr3A | 95.455 | 132 | 6 | 0 | 1245 | 1376 | 167883645 | 167883776 | 9.010000e-51 | 211.0 |
12 | TraesCS3D01G170600 | chr3A | 86.441 | 59 | 5 | 2 | 2847 | 2905 | 181136697 | 181136642 | 9.600000e-06 | 62.1 |
13 | TraesCS3D01G170600 | chr3B | 81.944 | 360 | 53 | 8 | 2813 | 3164 | 215589699 | 215589344 | 8.700000e-76 | 294.0 |
14 | TraesCS3D01G170600 | chr3B | 94.872 | 39 | 2 | 0 | 8 | 46 | 89170316 | 89170278 | 9.600000e-06 | 62.1 |
15 | TraesCS3D01G170600 | chr7D | 84.848 | 66 | 9 | 1 | 2712 | 2777 | 182201259 | 182201195 | 7.420000e-07 | 65.8 |
16 | TraesCS3D01G170600 | chr1D | 92.857 | 42 | 2 | 1 | 10 | 50 | 51558083 | 51558124 | 3.450000e-05 | 60.2 |
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 | TraesCS3D01G170600 | chr3D | 149608055 | 149611260 | 3205 | False | 5921.00 | 5921 | 100.0000 | 1 | 3206 | 1 | chr3D.!!$F1 | 3205 |
1 | TraesCS3D01G170600 | chr3D | 147321675 | 147325091 | 3416 | False | 228.25 | 542 | 80.4410 | 1445 | 3190 | 4 | chr3D.!!$F3 | 1745 |
2 | TraesCS3D01G170600 | chr3A | 167883645 | 167885729 | 2084 | False | 1533.50 | 2856 | 95.5485 | 1245 | 3150 | 2 | chr3A.!!$F3 | 1905 |
3 | TraesCS3D01G170600 | chr3A | 167676393 | 167676982 | 589 | False | 712.00 | 712 | 88.5190 | 41 | 635 | 1 | chr3A.!!$F1 | 594 |
4 | TraesCS3D01G170600 | chr3A | 167877081 | 167877588 | 507 | False | 701.00 | 701 | 91.9610 | 751 | 1247 | 1 | chr3A.!!$F2 | 496 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
554 | 561 | 0.040425 | CGGCAGAACGAAAACAAGGG | 60.040 | 55.0 | 0.00 | 0.00 | 35.47 | 3.95 | F |
635 | 642 | 0.109504 | CGTGGGGTGCGTAAATTTGG | 60.110 | 55.0 | 0.00 | 0.00 | 0.00 | 3.28 | F |
1459 | 1665 | 0.371645 | CGGCGATGAAGTCTTCAAGC | 59.628 | 55.0 | 25.86 | 25.86 | 43.95 | 4.01 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1440 | 1646 | 0.371645 | GCTTGAAGACTTCATCGCCG | 59.628 | 55.0 | 18.38 | 6.65 | 39.84 | 6.46 | R |
1593 | 1807 | 0.610232 | ACCTGCAATGGTTCTCTGCC | 60.610 | 55.0 | 0.00 | 0.00 | 36.89 | 4.85 | R |
2710 | 4379 | 0.322456 | TTGCCTCACCTAAGCGCATT | 60.322 | 50.0 | 11.47 | 3.50 | 0.00 | 3.56 | 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 |
---|---|---|---|---|---|---|---|---|---|
19 | 20 | 1.712056 | ATGCACTATAGCCCGTACCA | 58.288 | 50.000 | 0.00 | 0.00 | 0.00 | 3.25 |
20 | 21 | 1.487300 | TGCACTATAGCCCGTACCAA | 58.513 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
21 | 22 | 1.137479 | TGCACTATAGCCCGTACCAAC | 59.863 | 52.381 | 0.00 | 0.00 | 0.00 | 3.77 |
31 | 32 | 2.744709 | GTACCAACGCACGGGCAT | 60.745 | 61.111 | 11.77 | 0.00 | 41.24 | 4.40 |
32 | 33 | 2.032834 | TACCAACGCACGGGCATT | 59.967 | 55.556 | 11.77 | 0.00 | 41.24 | 3.56 |
33 | 34 | 2.036006 | TACCAACGCACGGGCATTC | 61.036 | 57.895 | 11.77 | 0.00 | 41.24 | 2.67 |
34 | 35 | 2.457743 | TACCAACGCACGGGCATTCT | 62.458 | 55.000 | 11.77 | 0.00 | 41.24 | 2.40 |
35 | 36 | 1.743623 | CCAACGCACGGGCATTCTA | 60.744 | 57.895 | 11.77 | 0.00 | 41.24 | 2.10 |
36 | 37 | 1.423845 | CAACGCACGGGCATTCTAC | 59.576 | 57.895 | 11.77 | 0.00 | 41.24 | 2.59 |
37 | 38 | 1.019278 | CAACGCACGGGCATTCTACT | 61.019 | 55.000 | 11.77 | 0.00 | 41.24 | 2.57 |
38 | 39 | 0.533491 | AACGCACGGGCATTCTACTA | 59.467 | 50.000 | 11.77 | 0.00 | 41.24 | 1.82 |
39 | 40 | 0.102481 | ACGCACGGGCATTCTACTAG | 59.898 | 55.000 | 11.77 | 0.00 | 41.24 | 2.57 |
45 | 46 | 4.739735 | GCACGGGCATTCTACTAGTATTGT | 60.740 | 45.833 | 3.77 | 0.00 | 40.72 | 2.71 |
68 | 69 | 5.908499 | GTGTAAGAGATAACTCGACCGATTC | 59.092 | 44.000 | 5.90 | 0.00 | 46.64 | 2.52 |
81 | 82 | 7.490000 | ACTCGACCGATTCTTAGTCATTAATT | 58.510 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
86 | 87 | 7.472543 | ACCGATTCTTAGTCATTAATTGTTGC | 58.527 | 34.615 | 0.00 | 0.00 | 0.00 | 4.17 |
90 | 91 | 5.627172 | TCTTAGTCATTAATTGTTGCACGC | 58.373 | 37.500 | 0.00 | 0.00 | 0.00 | 5.34 |
99 | 100 | 3.552604 | ATTGTTGCACGCGAAACTAAT | 57.447 | 38.095 | 15.93 | 12.73 | 0.00 | 1.73 |
110 | 111 | 6.940597 | GCACGCGAAACTAATAAAATGAAAAC | 59.059 | 34.615 | 15.93 | 0.00 | 0.00 | 2.43 |
134 | 138 | 5.535406 | CGACTATGGACTACCCTTTGATAGT | 59.465 | 44.000 | 0.00 | 0.00 | 34.93 | 2.12 |
152 | 156 | 9.601810 | TTTGATAGTAGAGATAATAGCCCTCAA | 57.398 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
157 | 163 | 4.967036 | AGAGATAATAGCCCTCAAAGTGC | 58.033 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
175 | 181 | 2.601299 | GGGTGGGCCAACCTATCC | 59.399 | 66.667 | 33.74 | 16.80 | 41.12 | 2.59 |
183 | 189 | 1.887707 | CCAACCTATCCCGCGCTTC | 60.888 | 63.158 | 5.56 | 0.00 | 0.00 | 3.86 |
228 | 234 | 4.443034 | GGGACATTCAGCCTTCTATACGTT | 60.443 | 45.833 | 0.00 | 0.00 | 0.00 | 3.99 |
233 | 239 | 9.472361 | GACATTCAGCCTTCTATACGTTTTATA | 57.528 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
384 | 390 | 7.840342 | TGTGTGTTTTAAAAATGTCTGCAAT | 57.160 | 28.000 | 1.31 | 0.00 | 0.00 | 3.56 |
385 | 391 | 8.261492 | TGTGTGTTTTAAAAATGTCTGCAATT | 57.739 | 26.923 | 1.31 | 0.00 | 0.00 | 2.32 |
519 | 526 | 9.733556 | ATAATAATATCCACGCCTGTATGAAAA | 57.266 | 29.630 | 0.00 | 0.00 | 0.00 | 2.29 |
522 | 529 | 2.276201 | TCCACGCCTGTATGAAAATCG | 58.724 | 47.619 | 0.00 | 0.00 | 0.00 | 3.34 |
526 | 533 | 3.804325 | CACGCCTGTATGAAAATCGAGAT | 59.196 | 43.478 | 0.00 | 0.00 | 0.00 | 2.75 |
534 | 541 | 9.922305 | CCTGTATGAAAATCGAGATAGAAAAAC | 57.078 | 33.333 | 0.00 | 0.00 | 0.00 | 2.43 |
539 | 546 | 3.536956 | ATCGAGATAGAAAAACCGGCA | 57.463 | 42.857 | 0.00 | 0.00 | 0.00 | 5.69 |
544 | 551 | 3.000727 | AGATAGAAAAACCGGCAGAACG | 58.999 | 45.455 | 0.00 | 0.00 | 0.00 | 3.95 |
552 | 559 | 0.661020 | ACCGGCAGAACGAAAACAAG | 59.339 | 50.000 | 0.00 | 0.00 | 35.47 | 3.16 |
554 | 561 | 0.040425 | CGGCAGAACGAAAACAAGGG | 60.040 | 55.000 | 0.00 | 0.00 | 35.47 | 3.95 |
555 | 562 | 0.313987 | GGCAGAACGAAAACAAGGGG | 59.686 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
561 | 568 | 3.958147 | AGAACGAAAACAAGGGGAAACAT | 59.042 | 39.130 | 0.00 | 0.00 | 0.00 | 2.71 |
563 | 570 | 3.028130 | ACGAAAACAAGGGGAAACATGT | 58.972 | 40.909 | 0.00 | 0.00 | 0.00 | 3.21 |
598 | 605 | 1.218316 | GCCCACGTCTAGGAGTTGG | 59.782 | 63.158 | 0.00 | 0.00 | 0.00 | 3.77 |
635 | 642 | 0.109504 | CGTGGGGTGCGTAAATTTGG | 60.110 | 55.000 | 0.00 | 0.00 | 0.00 | 3.28 |
636 | 643 | 1.249407 | GTGGGGTGCGTAAATTTGGA | 58.751 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
637 | 644 | 1.614413 | GTGGGGTGCGTAAATTTGGAA | 59.386 | 47.619 | 0.00 | 0.00 | 0.00 | 3.53 |
638 | 645 | 1.614413 | TGGGGTGCGTAAATTTGGAAC | 59.386 | 47.619 | 0.00 | 0.00 | 0.00 | 3.62 |
639 | 646 | 1.067425 | GGGGTGCGTAAATTTGGAACC | 60.067 | 52.381 | 11.14 | 11.14 | 31.57 | 3.62 |
640 | 647 | 1.067425 | GGGTGCGTAAATTTGGAACCC | 60.067 | 52.381 | 19.21 | 19.21 | 39.09 | 4.11 |
641 | 648 | 1.890489 | GGTGCGTAAATTTGGAACCCT | 59.110 | 47.619 | 9.17 | 0.00 | 0.00 | 4.34 |
642 | 649 | 3.083293 | GGTGCGTAAATTTGGAACCCTA | 58.917 | 45.455 | 9.17 | 0.00 | 0.00 | 3.53 |
643 | 650 | 3.506844 | GGTGCGTAAATTTGGAACCCTAA | 59.493 | 43.478 | 9.17 | 0.00 | 0.00 | 2.69 |
644 | 651 | 4.478699 | GTGCGTAAATTTGGAACCCTAAC | 58.521 | 43.478 | 0.00 | 0.00 | 0.00 | 2.34 |
645 | 652 | 3.188873 | TGCGTAAATTTGGAACCCTAACG | 59.811 | 43.478 | 0.00 | 0.47 | 0.00 | 3.18 |
646 | 653 | 3.436359 | GCGTAAATTTGGAACCCTAACGA | 59.564 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
647 | 654 | 4.083377 | GCGTAAATTTGGAACCCTAACGAA | 60.083 | 41.667 | 0.00 | 0.00 | 0.00 | 3.85 |
648 | 655 | 5.562501 | GCGTAAATTTGGAACCCTAACGAAA | 60.563 | 40.000 | 0.00 | 0.00 | 0.00 | 3.46 |
649 | 656 | 6.437094 | CGTAAATTTGGAACCCTAACGAAAA | 58.563 | 36.000 | 0.00 | 0.00 | 0.00 | 2.29 |
650 | 657 | 6.360414 | CGTAAATTTGGAACCCTAACGAAAAC | 59.640 | 38.462 | 0.00 | 0.00 | 0.00 | 2.43 |
651 | 658 | 5.855740 | AATTTGGAACCCTAACGAAAACA | 57.144 | 34.783 | 0.00 | 0.00 | 0.00 | 2.83 |
652 | 659 | 4.904253 | TTTGGAACCCTAACGAAAACAG | 57.096 | 40.909 | 0.00 | 0.00 | 0.00 | 3.16 |
653 | 660 | 3.842007 | TGGAACCCTAACGAAAACAGA | 57.158 | 42.857 | 0.00 | 0.00 | 0.00 | 3.41 |
654 | 661 | 4.360951 | TGGAACCCTAACGAAAACAGAT | 57.639 | 40.909 | 0.00 | 0.00 | 0.00 | 2.90 |
655 | 662 | 4.069304 | TGGAACCCTAACGAAAACAGATG | 58.931 | 43.478 | 0.00 | 0.00 | 0.00 | 2.90 |
656 | 663 | 3.119955 | GGAACCCTAACGAAAACAGATGC | 60.120 | 47.826 | 0.00 | 0.00 | 0.00 | 3.91 |
657 | 664 | 3.134574 | ACCCTAACGAAAACAGATGCA | 57.865 | 42.857 | 0.00 | 0.00 | 0.00 | 3.96 |
658 | 665 | 3.686016 | ACCCTAACGAAAACAGATGCAT | 58.314 | 40.909 | 0.00 | 0.00 | 0.00 | 3.96 |
659 | 666 | 4.839121 | ACCCTAACGAAAACAGATGCATA | 58.161 | 39.130 | 0.00 | 0.00 | 0.00 | 3.14 |
660 | 667 | 4.634443 | ACCCTAACGAAAACAGATGCATAC | 59.366 | 41.667 | 0.00 | 0.00 | 0.00 | 2.39 |
661 | 668 | 4.876107 | CCCTAACGAAAACAGATGCATACT | 59.124 | 41.667 | 0.00 | 0.00 | 0.00 | 2.12 |
662 | 669 | 5.354234 | CCCTAACGAAAACAGATGCATACTT | 59.646 | 40.000 | 0.00 | 0.00 | 0.00 | 2.24 |
663 | 670 | 6.128007 | CCCTAACGAAAACAGATGCATACTTT | 60.128 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
664 | 671 | 6.961554 | CCTAACGAAAACAGATGCATACTTTC | 59.038 | 38.462 | 0.00 | 5.78 | 0.00 | 2.62 |
665 | 672 | 5.296813 | ACGAAAACAGATGCATACTTTCC | 57.703 | 39.130 | 0.00 | 0.00 | 0.00 | 3.13 |
666 | 673 | 5.003804 | ACGAAAACAGATGCATACTTTCCT | 58.996 | 37.500 | 0.00 | 0.00 | 0.00 | 3.36 |
667 | 674 | 5.473504 | ACGAAAACAGATGCATACTTTCCTT | 59.526 | 36.000 | 0.00 | 0.00 | 0.00 | 3.36 |
668 | 675 | 6.016276 | ACGAAAACAGATGCATACTTTCCTTT | 60.016 | 34.615 | 0.00 | 0.00 | 0.00 | 3.11 |
669 | 676 | 6.306356 | CGAAAACAGATGCATACTTTCCTTTG | 59.694 | 38.462 | 0.00 | 0.00 | 0.00 | 2.77 |
670 | 677 | 6.655078 | AAACAGATGCATACTTTCCTTTGT | 57.345 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
671 | 678 | 6.655078 | AACAGATGCATACTTTCCTTTGTT | 57.345 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
672 | 679 | 6.655078 | ACAGATGCATACTTTCCTTTGTTT | 57.345 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
673 | 680 | 6.681777 | ACAGATGCATACTTTCCTTTGTTTC | 58.318 | 36.000 | 0.00 | 0.00 | 0.00 | 2.78 |
674 | 681 | 6.265196 | ACAGATGCATACTTTCCTTTGTTTCA | 59.735 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
675 | 682 | 7.147312 | CAGATGCATACTTTCCTTTGTTTCAA | 58.853 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
676 | 683 | 7.652909 | CAGATGCATACTTTCCTTTGTTTCAAA | 59.347 | 33.333 | 0.00 | 0.00 | 0.00 | 2.69 |
677 | 684 | 8.203485 | AGATGCATACTTTCCTTTGTTTCAAAA | 58.797 | 29.630 | 0.00 | 0.00 | 0.00 | 2.44 |
678 | 685 | 8.729805 | ATGCATACTTTCCTTTGTTTCAAAAA | 57.270 | 26.923 | 0.00 | 0.00 | 0.00 | 1.94 |
705 | 712 | 7.622893 | AAAAGATGCATACTTTCCTTCTCTC | 57.377 | 36.000 | 18.32 | 0.00 | 36.71 | 3.20 |
706 | 713 | 5.289083 | AGATGCATACTTTCCTTCTCTCC | 57.711 | 43.478 | 0.00 | 0.00 | 0.00 | 3.71 |
707 | 714 | 3.914426 | TGCATACTTTCCTTCTCTCCC | 57.086 | 47.619 | 0.00 | 0.00 | 0.00 | 4.30 |
708 | 715 | 2.505819 | TGCATACTTTCCTTCTCTCCCC | 59.494 | 50.000 | 0.00 | 0.00 | 0.00 | 4.81 |
709 | 716 | 2.158740 | GCATACTTTCCTTCTCTCCCCC | 60.159 | 54.545 | 0.00 | 0.00 | 0.00 | 5.40 |
727 | 734 | 3.576861 | CCCCCAAAAAGAAGACTTTCCT | 58.423 | 45.455 | 0.00 | 0.00 | 44.32 | 3.36 |
728 | 735 | 3.967326 | CCCCCAAAAAGAAGACTTTCCTT | 59.033 | 43.478 | 0.00 | 0.00 | 44.32 | 3.36 |
729 | 736 | 4.408921 | CCCCCAAAAAGAAGACTTTCCTTT | 59.591 | 41.667 | 0.00 | 0.00 | 44.32 | 3.11 |
730 | 737 | 5.600898 | CCCCCAAAAAGAAGACTTTCCTTTA | 59.399 | 40.000 | 3.12 | 0.00 | 44.32 | 1.85 |
731 | 738 | 6.462487 | CCCCCAAAAAGAAGACTTTCCTTTAC | 60.462 | 42.308 | 3.12 | 0.00 | 44.32 | 2.01 |
732 | 739 | 6.323996 | CCCCAAAAAGAAGACTTTCCTTTACT | 59.676 | 38.462 | 3.12 | 0.00 | 44.32 | 2.24 |
733 | 740 | 7.504574 | CCCCAAAAAGAAGACTTTCCTTTACTA | 59.495 | 37.037 | 3.12 | 0.00 | 44.32 | 1.82 |
734 | 741 | 8.568794 | CCCAAAAAGAAGACTTTCCTTTACTAG | 58.431 | 37.037 | 3.12 | 0.00 | 44.32 | 2.57 |
735 | 742 | 9.338622 | CCAAAAAGAAGACTTTCCTTTACTAGA | 57.661 | 33.333 | 0.00 | 0.00 | 44.32 | 2.43 |
737 | 744 | 9.562408 | AAAAAGAAGACTTTCCTTTACTAGAGG | 57.438 | 33.333 | 0.00 | 0.00 | 44.32 | 3.69 |
738 | 745 | 6.288941 | AGAAGACTTTCCTTTACTAGAGGC | 57.711 | 41.667 | 0.00 | 0.00 | 33.64 | 4.70 |
739 | 746 | 5.780793 | AGAAGACTTTCCTTTACTAGAGGCA | 59.219 | 40.000 | 0.00 | 0.00 | 33.64 | 4.75 |
740 | 747 | 6.270231 | AGAAGACTTTCCTTTACTAGAGGCAA | 59.730 | 38.462 | 0.00 | 0.00 | 33.64 | 4.52 |
741 | 748 | 6.628644 | AGACTTTCCTTTACTAGAGGCAAT | 57.371 | 37.500 | 0.00 | 0.00 | 34.17 | 3.56 |
742 | 749 | 7.735326 | AGACTTTCCTTTACTAGAGGCAATA | 57.265 | 36.000 | 0.00 | 0.00 | 34.17 | 1.90 |
743 | 750 | 8.147244 | AGACTTTCCTTTACTAGAGGCAATAA | 57.853 | 34.615 | 0.00 | 0.00 | 34.17 | 1.40 |
744 | 751 | 8.603304 | AGACTTTCCTTTACTAGAGGCAATAAA | 58.397 | 33.333 | 0.00 | 0.00 | 34.17 | 1.40 |
745 | 752 | 9.397280 | GACTTTCCTTTACTAGAGGCAATAAAT | 57.603 | 33.333 | 0.00 | 0.00 | 34.17 | 1.40 |
775 | 782 | 7.516450 | AATAGGAAATTCCAGGAGAGAGAAA | 57.484 | 36.000 | 15.21 | 0.00 | 39.61 | 2.52 |
781 | 788 | 2.701551 | TCCAGGAGAGAGAAAAACCCA | 58.298 | 47.619 | 0.00 | 0.00 | 0.00 | 4.51 |
795 | 802 | 2.271944 | AACCCAAGAAACCTCTTCGG | 57.728 | 50.000 | 0.00 | 0.00 | 43.56 | 4.30 |
856 | 868 | 1.977293 | CTCCTAGCCAGCCCCTTCAC | 61.977 | 65.000 | 0.00 | 0.00 | 0.00 | 3.18 |
870 | 882 | 0.610687 | CTTCACCTCTTCGGGCTTCT | 59.389 | 55.000 | 0.00 | 0.00 | 36.97 | 2.85 |
872 | 884 | 0.832135 | TCACCTCTTCGGGCTTCTGT | 60.832 | 55.000 | 0.00 | 0.00 | 36.97 | 3.41 |
922 | 934 | 1.054231 | TAGGCATCCTGCTCCATCTG | 58.946 | 55.000 | 0.00 | 0.00 | 44.28 | 2.90 |
937 | 949 | 3.776969 | TCCATCTGAACTTGCCTCTACAT | 59.223 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
976 | 995 | 4.746115 | CACATTGGAACACTGAACAATTGG | 59.254 | 41.667 | 10.83 | 0.00 | 41.82 | 3.16 |
1068 | 1087 | 1.518133 | CCTGCGCTCCTTCTTCTCG | 60.518 | 63.158 | 9.73 | 0.00 | 0.00 | 4.04 |
1070 | 1089 | 0.800300 | CTGCGCTCCTTCTTCTCGAC | 60.800 | 60.000 | 9.73 | 0.00 | 0.00 | 4.20 |
1071 | 1090 | 1.870016 | GCGCTCCTTCTTCTCGACG | 60.870 | 63.158 | 0.00 | 0.00 | 0.00 | 5.12 |
1072 | 1091 | 1.870016 | CGCTCCTTCTTCTCGACGC | 60.870 | 63.158 | 0.00 | 0.00 | 0.00 | 5.19 |
1075 | 1094 | 3.241059 | CCTTCTTCTCGACGCGCG | 61.241 | 66.667 | 30.96 | 30.96 | 42.69 | 6.86 |
1140 | 1159 | 1.736032 | GCGCTGGACGAGAAGTACATT | 60.736 | 52.381 | 0.00 | 0.00 | 44.00 | 2.71 |
1184 | 1203 | 0.904865 | ACGGTGCTCTCCAAGATCCA | 60.905 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1251 | 1270 | 1.448013 | GTCCTACCAGCTTCCGTGC | 60.448 | 63.158 | 0.00 | 0.00 | 0.00 | 5.34 |
1253 | 1272 | 2.509336 | CTACCAGCTTCCGTGCCG | 60.509 | 66.667 | 0.00 | 0.00 | 0.00 | 5.69 |
1254 | 1273 | 3.296709 | CTACCAGCTTCCGTGCCGT | 62.297 | 63.158 | 0.00 | 0.00 | 0.00 | 5.68 |
1275 | 1294 | 4.814294 | CCGGGGCAGCACGAGTAC | 62.814 | 72.222 | 10.02 | 0.00 | 0.00 | 2.73 |
1434 | 1640 | 1.403972 | GCTCGTTTAGCGACGGTCTG | 61.404 | 60.000 | 1.23 | 1.33 | 45.68 | 3.51 |
1459 | 1665 | 0.371645 | CGGCGATGAAGTCTTCAAGC | 59.628 | 55.000 | 25.86 | 25.86 | 43.95 | 4.01 |
1593 | 1807 | 6.016527 | CACTGATATTCACAATGGAAGATGGG | 60.017 | 42.308 | 0.00 | 0.00 | 29.45 | 4.00 |
1674 | 1888 | 7.201145 | TCTCTAATATTACTGTCGAACAAGGC | 58.799 | 38.462 | 0.00 | 0.00 | 0.00 | 4.35 |
1679 | 1893 | 1.082756 | CTGTCGAACAAGGCGCAAC | 60.083 | 57.895 | 10.83 | 0.00 | 0.00 | 4.17 |
1779 | 1993 | 3.127533 | GTGGTCATGACAGGCGGC | 61.128 | 66.667 | 26.47 | 0.00 | 0.00 | 6.53 |
1854 | 2068 | 1.552337 | CTGTCTGTCCCTGTGTATGCT | 59.448 | 52.381 | 0.00 | 0.00 | 0.00 | 3.79 |
1912 | 2126 | 7.444183 | TCTTTTGTACCTACAAGTTTGGATCAG | 59.556 | 37.037 | 0.00 | 0.00 | 45.77 | 2.90 |
2118 | 2341 | 4.314522 | TTTCATGATGAACAGGGGCTTA | 57.685 | 40.909 | 7.48 | 0.00 | 35.89 | 3.09 |
2254 | 2477 | 6.155475 | AGAGAGACATCTATGTAGTTTGCC | 57.845 | 41.667 | 0.00 | 0.00 | 41.95 | 4.52 |
2396 | 4065 | 6.791887 | TCTATATGACATTAAGCAGCTTGC | 57.208 | 37.500 | 18.54 | 0.00 | 45.46 | 4.01 |
2461 | 4130 | 4.019411 | TGGCTCACCTGAAATCAGATTGTA | 60.019 | 41.667 | 11.94 | 0.00 | 46.59 | 2.41 |
2465 | 4134 | 6.541641 | GCTCACCTGAAATCAGATTGTAAGAT | 59.458 | 38.462 | 11.94 | 0.00 | 46.59 | 2.40 |
2467 | 4136 | 7.623630 | TCACCTGAAATCAGATTGTAAGATGA | 58.376 | 34.615 | 11.94 | 0.00 | 46.59 | 2.92 |
2468 | 4137 | 7.767659 | TCACCTGAAATCAGATTGTAAGATGAG | 59.232 | 37.037 | 11.94 | 0.00 | 46.59 | 2.90 |
2469 | 4138 | 6.541641 | ACCTGAAATCAGATTGTAAGATGAGC | 59.458 | 38.462 | 11.94 | 0.00 | 46.59 | 4.26 |
2470 | 4139 | 6.541278 | CCTGAAATCAGATTGTAAGATGAGCA | 59.459 | 38.462 | 11.94 | 0.00 | 46.59 | 4.26 |
2472 | 4141 | 8.515695 | TGAAATCAGATTGTAAGATGAGCATT | 57.484 | 30.769 | 0.00 | 0.00 | 0.00 | 3.56 |
2477 | 4146 | 5.747197 | CAGATTGTAAGATGAGCATTTTGGC | 59.253 | 40.000 | 0.00 | 0.00 | 0.00 | 4.52 |
2480 | 4149 | 3.444742 | TGTAAGATGAGCATTTTGGCAGG | 59.555 | 43.478 | 0.00 | 0.00 | 35.83 | 4.85 |
2581 | 4250 | 6.642733 | AAGGATGTCCCCATACCATATTAG | 57.357 | 41.667 | 0.00 | 0.00 | 31.63 | 1.73 |
2709 | 4378 | 0.250295 | TCTGCGCTTAAGTGTGCCTT | 60.250 | 50.000 | 17.00 | 0.00 | 42.20 | 4.35 |
2710 | 4379 | 1.001520 | TCTGCGCTTAAGTGTGCCTTA | 59.998 | 47.619 | 17.00 | 0.00 | 42.20 | 2.69 |
2715 | 4386 | 2.785679 | GCTTAAGTGTGCCTTAATGCG | 58.214 | 47.619 | 4.02 | 0.00 | 43.07 | 4.73 |
2749 | 4420 | 1.944709 | AGTGTTAGGCGGTGTCAAAAC | 59.055 | 47.619 | 0.00 | 0.00 | 0.00 | 2.43 |
2824 | 4527 | 5.472137 | TCCTTTTAACCTCCATGTTTCTTCG | 59.528 | 40.000 | 0.00 | 0.00 | 0.00 | 3.79 |
2843 | 4548 | 4.682778 | TCGGACCATATTTCTGTAAGGG | 57.317 | 45.455 | 0.00 | 0.00 | 0.00 | 3.95 |
2945 | 4650 | 5.304101 | TCAGTTTGAGTTTGGGCAACAATAT | 59.696 | 36.000 | 0.00 | 0.00 | 39.21 | 1.28 |
3014 | 5103 | 9.502091 | GCATGTATTGTTATTTATCTCCCACTA | 57.498 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
3077 | 5166 | 9.424319 | CTGAAGTAGTCAAGCATCTTTTTACTA | 57.576 | 33.333 | 0.00 | 0.00 | 35.22 | 1.82 |
3078 | 5167 | 9.204570 | TGAAGTAGTCAAGCATCTTTTTACTAC | 57.795 | 33.333 | 0.00 | 0.00 | 38.59 | 2.73 |
3190 | 5283 | 1.900486 | ACACCTAGTAGGCCAACACTC | 59.100 | 52.381 | 16.61 | 0.00 | 39.63 | 3.51 |
3191 | 5284 | 1.899814 | CACCTAGTAGGCCAACACTCA | 59.100 | 52.381 | 16.61 | 0.00 | 39.63 | 3.41 |
3192 | 5285 | 1.900486 | ACCTAGTAGGCCAACACTCAC | 59.100 | 52.381 | 16.61 | 0.00 | 39.63 | 3.51 |
3193 | 5286 | 2.180276 | CCTAGTAGGCCAACACTCACT | 58.820 | 52.381 | 5.01 | 0.00 | 0.00 | 3.41 |
3194 | 5287 | 3.245514 | ACCTAGTAGGCCAACACTCACTA | 60.246 | 47.826 | 16.61 | 0.00 | 39.63 | 2.74 |
3195 | 5288 | 3.130693 | CCTAGTAGGCCAACACTCACTAC | 59.869 | 52.174 | 5.01 | 0.00 | 35.45 | 2.73 |
3196 | 5289 | 1.900486 | AGTAGGCCAACACTCACTACC | 59.100 | 52.381 | 5.01 | 0.00 | 35.74 | 3.18 |
3197 | 5290 | 1.900486 | GTAGGCCAACACTCACTACCT | 59.100 | 52.381 | 5.01 | 0.00 | 0.00 | 3.08 |
3198 | 5291 | 1.435256 | AGGCCAACACTCACTACCTT | 58.565 | 50.000 | 5.01 | 0.00 | 0.00 | 3.50 |
3199 | 5292 | 1.072331 | AGGCCAACACTCACTACCTTG | 59.928 | 52.381 | 5.01 | 0.00 | 0.00 | 3.61 |
3200 | 5293 | 1.071699 | GGCCAACACTCACTACCTTGA | 59.928 | 52.381 | 0.00 | 0.00 | 0.00 | 3.02 |
3202 | 5295 | 2.037251 | GCCAACACTCACTACCTTGAGA | 59.963 | 50.000 | 7.12 | 0.00 | 45.19 | 3.27 |
3203 | 5296 | 3.494398 | GCCAACACTCACTACCTTGAGAA | 60.494 | 47.826 | 7.12 | 0.00 | 45.19 | 2.87 |
3204 | 5297 | 4.058817 | CCAACACTCACTACCTTGAGAAC | 58.941 | 47.826 | 7.12 | 0.00 | 45.19 | 3.01 |
3205 | 5298 | 4.442893 | CCAACACTCACTACCTTGAGAACA | 60.443 | 45.833 | 7.12 | 0.00 | 45.19 | 3.18 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
1 | 2 | 1.137479 | GTTGGTACGGGCTATAGTGCA | 59.863 | 52.381 | 0.84 | 0.00 | 34.04 | 4.57 |
2 | 3 | 1.861971 | GTTGGTACGGGCTATAGTGC | 58.138 | 55.000 | 0.84 | 0.00 | 0.00 | 4.40 |
3 | 4 | 2.129823 | CGTTGGTACGGGCTATAGTG | 57.870 | 55.000 | 0.84 | 0.00 | 43.94 | 2.74 |
6 | 7 | 3.531934 | CGTGCGTTGGTACGGGCTATA | 62.532 | 57.143 | 0.00 | 0.00 | 46.60 | 1.31 |
7 | 8 | 2.894240 | CGTGCGTTGGTACGGGCTAT | 62.894 | 60.000 | 0.00 | 0.00 | 46.60 | 2.97 |
8 | 9 | 3.629883 | CGTGCGTTGGTACGGGCTA | 62.630 | 63.158 | 0.00 | 0.00 | 46.60 | 3.93 |
14 | 15 | 2.248274 | GAATGCCCGTGCGTTGGTAC | 62.248 | 60.000 | 0.86 | 0.00 | 46.55 | 3.34 |
15 | 16 | 2.032834 | AATGCCCGTGCGTTGGTA | 59.967 | 55.556 | 0.00 | 0.00 | 44.90 | 3.25 |
16 | 17 | 2.457743 | TAGAATGCCCGTGCGTTGGT | 62.458 | 55.000 | 0.86 | 0.00 | 46.55 | 3.67 |
17 | 18 | 1.743623 | TAGAATGCCCGTGCGTTGG | 60.744 | 57.895 | 0.86 | 0.00 | 46.55 | 3.77 |
18 | 19 | 1.019278 | AGTAGAATGCCCGTGCGTTG | 61.019 | 55.000 | 0.86 | 0.00 | 46.55 | 4.10 |
20 | 21 | 0.102481 | CTAGTAGAATGCCCGTGCGT | 59.898 | 55.000 | 0.00 | 0.00 | 41.78 | 5.24 |
21 | 22 | 0.102481 | ACTAGTAGAATGCCCGTGCG | 59.898 | 55.000 | 3.59 | 0.00 | 41.78 | 5.34 |
22 | 23 | 3.662247 | ATACTAGTAGAATGCCCGTGC | 57.338 | 47.619 | 8.85 | 0.00 | 38.26 | 5.34 |
23 | 24 | 4.745125 | CACAATACTAGTAGAATGCCCGTG | 59.255 | 45.833 | 8.85 | 3.34 | 0.00 | 4.94 |
24 | 25 | 4.404715 | ACACAATACTAGTAGAATGCCCGT | 59.595 | 41.667 | 8.85 | 3.96 | 0.00 | 5.28 |
25 | 26 | 4.945246 | ACACAATACTAGTAGAATGCCCG | 58.055 | 43.478 | 8.85 | 3.44 | 0.00 | 6.13 |
26 | 27 | 7.723324 | TCTTACACAATACTAGTAGAATGCCC | 58.277 | 38.462 | 8.85 | 0.00 | 0.00 | 5.36 |
27 | 28 | 8.630917 | TCTCTTACACAATACTAGTAGAATGCC | 58.369 | 37.037 | 8.85 | 0.00 | 0.00 | 4.40 |
35 | 36 | 9.610705 | TCGAGTTATCTCTTACACAATACTAGT | 57.389 | 33.333 | 0.00 | 0.00 | 38.45 | 2.57 |
36 | 37 | 9.866936 | GTCGAGTTATCTCTTACACAATACTAG | 57.133 | 37.037 | 0.00 | 0.00 | 38.45 | 2.57 |
37 | 38 | 8.834465 | GGTCGAGTTATCTCTTACACAATACTA | 58.166 | 37.037 | 0.00 | 0.00 | 38.45 | 1.82 |
38 | 39 | 7.466996 | CGGTCGAGTTATCTCTTACACAATACT | 60.467 | 40.741 | 0.00 | 0.00 | 38.45 | 2.12 |
39 | 40 | 6.632035 | CGGTCGAGTTATCTCTTACACAATAC | 59.368 | 42.308 | 0.00 | 0.00 | 38.45 | 1.89 |
45 | 46 | 5.821470 | AGAATCGGTCGAGTTATCTCTTACA | 59.179 | 40.000 | 0.00 | 0.00 | 38.45 | 2.41 |
68 | 69 | 4.491942 | CGCGTGCAACAATTAATGACTAAG | 59.508 | 41.667 | 0.00 | 0.00 | 35.74 | 2.18 |
81 | 82 | 4.469625 | TTTATTAGTTTCGCGTGCAACA | 57.530 | 36.364 | 13.75 | 0.00 | 35.74 | 3.33 |
86 | 87 | 7.058580 | TCGTTTTCATTTTATTAGTTTCGCGTG | 59.941 | 33.333 | 5.77 | 0.00 | 0.00 | 5.34 |
99 | 100 | 7.550196 | GGGTAGTCCATAGTCGTTTTCATTTTA | 59.450 | 37.037 | 0.00 | 0.00 | 35.00 | 1.52 |
110 | 111 | 4.939052 | ATCAAAGGGTAGTCCATAGTCG | 57.061 | 45.455 | 0.00 | 0.00 | 38.24 | 4.18 |
134 | 138 | 5.279006 | CGCACTTTGAGGGCTATTATCTCTA | 60.279 | 44.000 | 0.27 | 0.00 | 44.04 | 2.43 |
157 | 163 | 2.192175 | GATAGGTTGGCCCACCCG | 59.808 | 66.667 | 22.18 | 0.00 | 37.58 | 5.28 |
175 | 181 | 1.065031 | CGAAAATGTTGGAAGCGCGG | 61.065 | 55.000 | 8.83 | 0.00 | 0.00 | 6.46 |
183 | 189 | 2.736192 | GCCATTTGACCGAAAATGTTGG | 59.264 | 45.455 | 13.53 | 5.33 | 43.17 | 3.77 |
356 | 362 | 8.559536 | TGCAGACATTTTTAAAACACACAAAAA | 58.440 | 25.926 | 0.00 | 0.00 | 36.06 | 1.94 |
357 | 363 | 8.087982 | TGCAGACATTTTTAAAACACACAAAA | 57.912 | 26.923 | 0.00 | 0.00 | 0.00 | 2.44 |
358 | 364 | 7.658179 | TGCAGACATTTTTAAAACACACAAA | 57.342 | 28.000 | 0.00 | 0.00 | 0.00 | 2.83 |
359 | 365 | 7.658179 | TTGCAGACATTTTTAAAACACACAA | 57.342 | 28.000 | 0.00 | 0.00 | 0.00 | 3.33 |
360 | 366 | 7.840342 | ATTGCAGACATTTTTAAAACACACA | 57.160 | 28.000 | 0.00 | 0.00 | 0.00 | 3.72 |
361 | 367 | 9.553418 | AAAATTGCAGACATTTTTAAAACACAC | 57.447 | 25.926 | 0.00 | 0.00 | 37.50 | 3.82 |
500 | 507 | 4.055360 | CGATTTTCATACAGGCGTGGATA | 58.945 | 43.478 | 11.67 | 0.00 | 0.00 | 2.59 |
507 | 514 | 7.715265 | TTTCTATCTCGATTTTCATACAGGC | 57.285 | 36.000 | 0.00 | 0.00 | 0.00 | 4.85 |
509 | 516 | 9.922305 | GGTTTTTCTATCTCGATTTTCATACAG | 57.078 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
510 | 517 | 8.600625 | CGGTTTTTCTATCTCGATTTTCATACA | 58.399 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
519 | 526 | 3.132289 | TCTGCCGGTTTTTCTATCTCGAT | 59.868 | 43.478 | 1.90 | 0.00 | 0.00 | 3.59 |
522 | 529 | 3.062234 | CGTTCTGCCGGTTTTTCTATCTC | 59.938 | 47.826 | 1.90 | 0.00 | 0.00 | 2.75 |
526 | 533 | 2.529780 | TCGTTCTGCCGGTTTTTCTA | 57.470 | 45.000 | 1.90 | 0.00 | 0.00 | 2.10 |
534 | 541 | 0.040425 | CCTTGTTTTCGTTCTGCCGG | 60.040 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
539 | 546 | 3.358118 | TGTTTCCCCTTGTTTTCGTTCT | 58.642 | 40.909 | 0.00 | 0.00 | 0.00 | 3.01 |
544 | 551 | 3.133901 | ACCACATGTTTCCCCTTGTTTTC | 59.866 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
552 | 559 | 3.828875 | TTTTTCACCACATGTTTCCCC | 57.171 | 42.857 | 0.00 | 0.00 | 0.00 | 4.81 |
574 | 581 | 1.105167 | TCCTAGACGTGGGCATACCG | 61.105 | 60.000 | 0.00 | 0.00 | 44.64 | 4.02 |
583 | 590 | 0.108615 | CAGCCCAACTCCTAGACGTG | 60.109 | 60.000 | 0.00 | 0.00 | 0.00 | 4.49 |
585 | 592 | 1.517832 | CCAGCCCAACTCCTAGACG | 59.482 | 63.158 | 0.00 | 0.00 | 0.00 | 4.18 |
621 | 628 | 1.890489 | AGGGTTCCAAATTTACGCACC | 59.110 | 47.619 | 8.74 | 4.25 | 0.00 | 5.01 |
625 | 632 | 5.610235 | TTCGTTAGGGTTCCAAATTTACG | 57.390 | 39.130 | 0.00 | 0.00 | 0.00 | 3.18 |
635 | 642 | 3.500680 | TGCATCTGTTTTCGTTAGGGTTC | 59.499 | 43.478 | 0.00 | 0.00 | 0.00 | 3.62 |
636 | 643 | 3.482436 | TGCATCTGTTTTCGTTAGGGTT | 58.518 | 40.909 | 0.00 | 0.00 | 0.00 | 4.11 |
637 | 644 | 3.134574 | TGCATCTGTTTTCGTTAGGGT | 57.865 | 42.857 | 0.00 | 0.00 | 0.00 | 4.34 |
638 | 645 | 4.876107 | AGTATGCATCTGTTTTCGTTAGGG | 59.124 | 41.667 | 0.19 | 0.00 | 0.00 | 3.53 |
639 | 646 | 6.422776 | AAGTATGCATCTGTTTTCGTTAGG | 57.577 | 37.500 | 0.19 | 0.00 | 0.00 | 2.69 |
640 | 647 | 6.961554 | GGAAAGTATGCATCTGTTTTCGTTAG | 59.038 | 38.462 | 0.19 | 0.00 | 0.00 | 2.34 |
641 | 648 | 6.653320 | AGGAAAGTATGCATCTGTTTTCGTTA | 59.347 | 34.615 | 0.19 | 0.00 | 0.00 | 3.18 |
642 | 649 | 5.473504 | AGGAAAGTATGCATCTGTTTTCGTT | 59.526 | 36.000 | 0.19 | 0.00 | 0.00 | 3.85 |
643 | 650 | 5.003804 | AGGAAAGTATGCATCTGTTTTCGT | 58.996 | 37.500 | 0.19 | 8.24 | 0.00 | 3.85 |
644 | 651 | 5.551760 | AGGAAAGTATGCATCTGTTTTCG | 57.448 | 39.130 | 0.19 | 0.00 | 0.00 | 3.46 |
645 | 652 | 7.147976 | ACAAAGGAAAGTATGCATCTGTTTTC | 58.852 | 34.615 | 0.19 | 9.21 | 0.00 | 2.29 |
646 | 653 | 7.054491 | ACAAAGGAAAGTATGCATCTGTTTT | 57.946 | 32.000 | 0.19 | 0.00 | 0.00 | 2.43 |
647 | 654 | 6.655078 | ACAAAGGAAAGTATGCATCTGTTT | 57.345 | 33.333 | 0.19 | 1.07 | 0.00 | 2.83 |
648 | 655 | 6.655078 | AACAAAGGAAAGTATGCATCTGTT | 57.345 | 33.333 | 0.19 | 0.00 | 0.00 | 3.16 |
649 | 656 | 6.265196 | TGAAACAAAGGAAAGTATGCATCTGT | 59.735 | 34.615 | 0.19 | 0.00 | 0.00 | 3.41 |
650 | 657 | 6.680810 | TGAAACAAAGGAAAGTATGCATCTG | 58.319 | 36.000 | 0.19 | 0.00 | 0.00 | 2.90 |
651 | 658 | 6.899393 | TGAAACAAAGGAAAGTATGCATCT | 57.101 | 33.333 | 0.19 | 0.00 | 0.00 | 2.90 |
652 | 659 | 7.945033 | TTTGAAACAAAGGAAAGTATGCATC | 57.055 | 32.000 | 0.19 | 0.00 | 0.00 | 3.91 |
653 | 660 | 8.729805 | TTTTTGAAACAAAGGAAAGTATGCAT | 57.270 | 26.923 | 3.79 | 3.79 | 0.00 | 3.96 |
680 | 687 | 7.121907 | GGAGAGAAGGAAAGTATGCATCTTTTT | 59.878 | 37.037 | 18.78 | 11.96 | 35.62 | 1.94 |
681 | 688 | 6.601217 | GGAGAGAAGGAAAGTATGCATCTTTT | 59.399 | 38.462 | 18.78 | 13.92 | 35.62 | 2.27 |
682 | 689 | 6.118852 | GGAGAGAAGGAAAGTATGCATCTTT | 58.881 | 40.000 | 18.18 | 18.18 | 37.75 | 2.52 |
683 | 690 | 5.397334 | GGGAGAGAAGGAAAGTATGCATCTT | 60.397 | 44.000 | 0.19 | 3.92 | 26.70 | 2.40 |
684 | 691 | 4.102367 | GGGAGAGAAGGAAAGTATGCATCT | 59.898 | 45.833 | 0.19 | 0.00 | 29.44 | 2.90 |
685 | 692 | 4.384940 | GGGAGAGAAGGAAAGTATGCATC | 58.615 | 47.826 | 0.19 | 0.00 | 0.00 | 3.91 |
686 | 693 | 3.137360 | GGGGAGAGAAGGAAAGTATGCAT | 59.863 | 47.826 | 3.79 | 3.79 | 0.00 | 3.96 |
687 | 694 | 2.505819 | GGGGAGAGAAGGAAAGTATGCA | 59.494 | 50.000 | 0.00 | 0.00 | 0.00 | 3.96 |
688 | 695 | 2.158740 | GGGGGAGAGAAGGAAAGTATGC | 60.159 | 54.545 | 0.00 | 0.00 | 0.00 | 3.14 |
689 | 696 | 3.847671 | GGGGGAGAGAAGGAAAGTATG | 57.152 | 52.381 | 0.00 | 0.00 | 0.00 | 2.39 |
706 | 713 | 3.576861 | AGGAAAGTCTTCTTTTTGGGGG | 58.423 | 45.455 | 0.00 | 0.00 | 42.99 | 5.40 |
707 | 714 | 5.614324 | AAAGGAAAGTCTTCTTTTTGGGG | 57.386 | 39.130 | 0.00 | 0.00 | 42.99 | 4.96 |
708 | 715 | 7.348080 | AGTAAAGGAAAGTCTTCTTTTTGGG | 57.652 | 36.000 | 4.99 | 0.00 | 42.99 | 4.12 |
709 | 716 | 9.338622 | TCTAGTAAAGGAAAGTCTTCTTTTTGG | 57.661 | 33.333 | 4.99 | 0.00 | 42.99 | 3.28 |
711 | 718 | 9.562408 | CCTCTAGTAAAGGAAAGTCTTCTTTTT | 57.438 | 33.333 | 4.99 | 0.82 | 42.99 | 1.94 |
712 | 719 | 7.662258 | GCCTCTAGTAAAGGAAAGTCTTCTTTT | 59.338 | 37.037 | 0.00 | 1.40 | 42.99 | 2.27 |
713 | 720 | 7.162761 | GCCTCTAGTAAAGGAAAGTCTTCTTT | 58.837 | 38.462 | 0.00 | 5.04 | 45.24 | 2.52 |
714 | 721 | 6.270231 | TGCCTCTAGTAAAGGAAAGTCTTCTT | 59.730 | 38.462 | 0.00 | 0.00 | 35.83 | 2.52 |
715 | 722 | 5.780793 | TGCCTCTAGTAAAGGAAAGTCTTCT | 59.219 | 40.000 | 0.00 | 0.00 | 35.83 | 2.85 |
716 | 723 | 6.038997 | TGCCTCTAGTAAAGGAAAGTCTTC | 57.961 | 41.667 | 0.00 | 0.00 | 35.83 | 2.87 |
717 | 724 | 6.435292 | TTGCCTCTAGTAAAGGAAAGTCTT | 57.565 | 37.500 | 0.00 | 0.00 | 35.83 | 3.01 |
718 | 725 | 6.628644 | ATTGCCTCTAGTAAAGGAAAGTCT | 57.371 | 37.500 | 0.00 | 0.00 | 34.82 | 3.24 |
719 | 726 | 8.788325 | TTTATTGCCTCTAGTAAAGGAAAGTC | 57.212 | 34.615 | 0.00 | 0.00 | 34.82 | 3.01 |
746 | 753 | 9.859152 | CTCTCTCCTGGAATTTCCTATTTATTT | 57.141 | 33.333 | 16.25 | 0.00 | 37.46 | 1.40 |
747 | 754 | 9.230477 | TCTCTCTCCTGGAATTTCCTATTTATT | 57.770 | 33.333 | 16.25 | 0.00 | 37.46 | 1.40 |
748 | 755 | 8.805145 | TCTCTCTCCTGGAATTTCCTATTTAT | 57.195 | 34.615 | 16.25 | 0.00 | 37.46 | 1.40 |
749 | 756 | 8.624019 | TTCTCTCTCCTGGAATTTCCTATTTA | 57.376 | 34.615 | 16.25 | 0.00 | 37.46 | 1.40 |
750 | 757 | 7.516450 | TTCTCTCTCCTGGAATTTCCTATTT | 57.484 | 36.000 | 16.25 | 0.00 | 37.46 | 1.40 |
751 | 758 | 7.516450 | TTTCTCTCTCCTGGAATTTCCTATT | 57.484 | 36.000 | 16.25 | 0.00 | 37.46 | 1.73 |
752 | 759 | 7.516450 | TTTTCTCTCTCCTGGAATTTCCTAT | 57.484 | 36.000 | 16.25 | 0.00 | 37.46 | 2.57 |
753 | 760 | 6.952605 | TTTTCTCTCTCCTGGAATTTCCTA | 57.047 | 37.500 | 16.25 | 2.72 | 37.46 | 2.94 |
754 | 761 | 5.850046 | TTTTCTCTCTCCTGGAATTTCCT | 57.150 | 39.130 | 16.25 | 0.00 | 37.46 | 3.36 |
755 | 762 | 5.184096 | GGTTTTTCTCTCTCCTGGAATTTCC | 59.816 | 44.000 | 8.59 | 8.59 | 36.96 | 3.13 |
756 | 763 | 5.184096 | GGGTTTTTCTCTCTCCTGGAATTTC | 59.816 | 44.000 | 0.00 | 0.00 | 0.00 | 2.17 |
759 | 766 | 3.657727 | TGGGTTTTTCTCTCTCCTGGAAT | 59.342 | 43.478 | 0.00 | 0.00 | 0.00 | 3.01 |
766 | 773 | 5.133941 | AGGTTTCTTGGGTTTTTCTCTCTC | 58.866 | 41.667 | 0.00 | 0.00 | 0.00 | 3.20 |
781 | 788 | 1.671379 | GCCGCCGAAGAGGTTTCTT | 60.671 | 57.895 | 0.00 | 0.00 | 46.22 | 2.52 |
856 | 868 | 1.078848 | CCACAGAAGCCCGAAGAGG | 60.079 | 63.158 | 0.00 | 0.00 | 40.63 | 3.69 |
870 | 882 | 1.959226 | GAAAACTCGGCTCGCCACA | 60.959 | 57.895 | 8.87 | 0.00 | 35.37 | 4.17 |
872 | 884 | 2.358247 | GGAAAACTCGGCTCGCCA | 60.358 | 61.111 | 8.87 | 0.00 | 35.37 | 5.69 |
893 | 905 | 2.737830 | GATGCCTACCTCGCCTCC | 59.262 | 66.667 | 0.00 | 0.00 | 0.00 | 4.30 |
922 | 934 | 4.518970 | TGGAACAAATGTAGAGGCAAGTTC | 59.481 | 41.667 | 0.00 | 0.00 | 31.92 | 3.01 |
937 | 949 | 5.961959 | CCAATGTGGGGAAGTTGGAACAAA | 61.962 | 45.833 | 0.00 | 0.00 | 42.88 | 2.83 |
976 | 995 | 0.446616 | GCGAGAAATCGAACCCAACC | 59.553 | 55.000 | 1.17 | 0.00 | 34.64 | 3.77 |
1055 | 1074 | 1.870016 | CGCGTCGAGAAGAAGGAGC | 60.870 | 63.158 | 0.00 | 0.00 | 0.00 | 4.70 |
1086 | 1105 | 1.421485 | GTCCAACGCAGCAAGATCG | 59.579 | 57.895 | 0.00 | 0.00 | 0.00 | 3.69 |
1096 | 1115 | 2.737376 | GGTCTGGTCGTCCAACGC | 60.737 | 66.667 | 2.32 | 0.00 | 43.81 | 4.84 |
1097 | 1116 | 2.048503 | GGGTCTGGTCGTCCAACG | 60.049 | 66.667 | 2.32 | 0.00 | 43.81 | 4.10 |
1099 | 1118 | 0.761323 | TTGAGGGTCTGGTCGTCCAA | 60.761 | 55.000 | 2.32 | 0.00 | 43.81 | 3.53 |
1140 | 1159 | 1.826921 | GTCGAGGTCCCTGGCGATA | 60.827 | 63.158 | 1.13 | 0.00 | 35.08 | 2.92 |
1166 | 1185 | 0.460987 | GTGGATCTTGGAGAGCACCG | 60.461 | 60.000 | 0.00 | 0.00 | 30.96 | 4.94 |
1360 | 1379 | 2.240500 | GCGTGGCCGTGATGATCTC | 61.241 | 63.158 | 0.00 | 0.00 | 36.15 | 2.75 |
1418 | 1624 | 2.774951 | CGCAGACCGTCGCTAAACG | 61.775 | 63.158 | 11.68 | 0.00 | 45.62 | 3.60 |
1440 | 1646 | 0.371645 | GCTTGAAGACTTCATCGCCG | 59.628 | 55.000 | 18.38 | 6.65 | 39.84 | 6.46 |
1459 | 1665 | 0.679505 | TCCACGGTCTTCTTGTCCTG | 59.320 | 55.000 | 0.00 | 0.00 | 0.00 | 3.86 |
1593 | 1807 | 0.610232 | ACCTGCAATGGTTCTCTGCC | 60.610 | 55.000 | 0.00 | 0.00 | 36.89 | 4.85 |
1674 | 1888 | 1.468520 | AGGATGAAATTGACCGTTGCG | 59.531 | 47.619 | 0.00 | 0.00 | 0.00 | 4.85 |
1679 | 1893 | 5.163447 | TGGACTAGTAGGATGAAATTGACCG | 60.163 | 44.000 | 0.00 | 0.00 | 0.00 | 4.79 |
1779 | 1993 | 1.832883 | TGACATTTGGTTCCCCATCG | 58.167 | 50.000 | 0.00 | 0.00 | 41.49 | 3.84 |
1854 | 2068 | 2.954989 | CTCTGGATCTGAATCGGTGAGA | 59.045 | 50.000 | 0.00 | 0.00 | 32.24 | 3.27 |
1912 | 2126 | 3.119245 | ACATTGTCAAATGGCATCTCTGC | 60.119 | 43.478 | 0.00 | 0.00 | 46.34 | 4.26 |
2038 | 2261 | 1.693606 | CTTTTGGGCACACAATCCCTT | 59.306 | 47.619 | 0.00 | 0.00 | 43.04 | 3.95 |
2151 | 2374 | 4.143543 | GGATGTAGTCAGTAGGAGGGTAC | 58.856 | 52.174 | 0.00 | 0.00 | 0.00 | 3.34 |
2254 | 2477 | 9.829507 | AGAAGATTATCCTCTAAAGTCAACATG | 57.170 | 33.333 | 0.00 | 0.00 | 0.00 | 3.21 |
2396 | 4065 | 5.004345 | CGTAACAAAACAGCAAAAACAGGAG | 59.996 | 40.000 | 0.00 | 0.00 | 0.00 | 3.69 |
2461 | 4130 | 2.532843 | ACCTGCCAAAATGCTCATCTT | 58.467 | 42.857 | 0.00 | 0.00 | 0.00 | 2.40 |
2465 | 4134 | 3.557228 | AAAAACCTGCCAAAATGCTCA | 57.443 | 38.095 | 0.00 | 0.00 | 0.00 | 4.26 |
2497 | 4166 | 5.649831 | AGATTTTGCAACCTGGAGAGAATAC | 59.350 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
2581 | 4250 | 1.455408 | GCGCTATTGCCACACAAAAAC | 59.545 | 47.619 | 0.00 | 0.00 | 42.86 | 2.43 |
2709 | 4378 | 0.539518 | TGCCTCACCTAAGCGCATTA | 59.460 | 50.000 | 11.47 | 4.62 | 0.00 | 1.90 |
2710 | 4379 | 0.322456 | TTGCCTCACCTAAGCGCATT | 60.322 | 50.000 | 11.47 | 3.50 | 0.00 | 3.56 |
2715 | 4386 | 1.897560 | AACACTTGCCTCACCTAAGC | 58.102 | 50.000 | 0.00 | 0.00 | 0.00 | 3.09 |
2749 | 4420 | 3.564408 | GCACTAGGCGTTAATTGTACG | 57.436 | 47.619 | 9.71 | 9.71 | 41.71 | 3.67 |
2824 | 4527 | 6.002653 | AGTTCCCTTACAGAAATATGGTCC | 57.997 | 41.667 | 0.00 | 0.00 | 0.00 | 4.46 |
2868 | 4573 | 8.316640 | ACTATCTTTCTTTCTTACTGCAACTG | 57.683 | 34.615 | 0.00 | 0.00 | 0.00 | 3.16 |
3014 | 5103 | 4.507342 | AGGTCCCTAGATCATGCCTTAAT | 58.493 | 43.478 | 0.00 | 0.00 | 0.00 | 1.40 |
3077 | 5166 | 5.651530 | CAGTCATCAACCTTACTACATCGT | 58.348 | 41.667 | 0.00 | 0.00 | 0.00 | 3.73 |
3078 | 5167 | 4.504461 | GCAGTCATCAACCTTACTACATCG | 59.496 | 45.833 | 0.00 | 0.00 | 0.00 | 3.84 |
3156 | 5249 | 7.611079 | GCCTACTAGGTGTATGCTACTACTAAT | 59.389 | 40.741 | 3.95 | 0.00 | 38.94 | 1.73 |
3157 | 5250 | 6.939163 | GCCTACTAGGTGTATGCTACTACTAA | 59.061 | 42.308 | 3.95 | 0.00 | 38.94 | 2.24 |
3160 | 5253 | 4.458642 | GGCCTACTAGGTGTATGCTACTAC | 59.541 | 50.000 | 0.00 | 0.00 | 40.86 | 2.73 |
3165 | 5258 | 2.434702 | GTTGGCCTACTAGGTGTATGCT | 59.565 | 50.000 | 10.33 | 0.00 | 40.86 | 3.79 |
3167 | 5260 | 3.451178 | AGTGTTGGCCTACTAGGTGTATG | 59.549 | 47.826 | 18.31 | 0.00 | 37.80 | 2.39 |
3177 | 5270 | 1.900486 | AGGTAGTGAGTGTTGGCCTAC | 59.100 | 52.381 | 10.70 | 10.70 | 0.00 | 3.18 |
3182 | 5275 | 4.058817 | GTTCTCAAGGTAGTGAGTGTTGG | 58.941 | 47.826 | 2.38 | 0.00 | 44.56 | 3.77 |
3183 | 5276 | 4.693283 | TGTTCTCAAGGTAGTGAGTGTTG | 58.307 | 43.478 | 2.38 | 0.00 | 44.56 | 3.33 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.