Multiple sequence alignment - TraesCS3D01G278200
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 | TraesCS3D01G278200 | chr3D | 100.000 | 4476 | 0 | 0 | 1 | 4476 | 385431817 | 385427342 | 0 | 8266 |
1 | TraesCS3D01G278200 | chr3B | 95.451 | 2814 | 95 | 17 | 949 | 3734 | 501394508 | 501391700 | 0 | 4457 |
2 | TraesCS3D01G278200 | chr3B | 92.228 | 965 | 48 | 16 | 5 | 957 | 501396478 | 501395529 | 0 | 1341 |
3 | TraesCS3D01G278200 | chr3B | 87.198 | 703 | 43 | 26 | 3807 | 4476 | 501391584 | 501390896 | 0 | 756 |
4 | TraesCS3D01G278200 | chr3A | 94.380 | 2740 | 124 | 17 | 949 | 3659 | 507472440 | 507469702 | 0 | 4180 |
5 | TraesCS3D01G278200 | chr3A | 92.662 | 954 | 42 | 13 | 25 | 959 | 507474401 | 507473457 | 0 | 1349 |
6 | TraesCS3D01G278200 | chr3A | 88.698 | 699 | 47 | 16 | 3800 | 4476 | 507469573 | 507468885 | 0 | 824 |
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 | TraesCS3D01G278200 | chr3D | 385427342 | 385431817 | 4475 | True | 8266.000000 | 8266 | 100.000000 | 1 | 4476 | 1 | chr3D.!!$R1 | 4475 |
1 | TraesCS3D01G278200 | chr3B | 501390896 | 501396478 | 5582 | True | 2184.666667 | 4457 | 91.625667 | 5 | 4476 | 3 | chr3B.!!$R1 | 4471 |
2 | TraesCS3D01G278200 | chr3A | 507468885 | 507474401 | 5516 | True | 2117.666667 | 4180 | 91.913333 | 25 | 4476 | 3 | chr3A.!!$R1 | 4451 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
388 | 389 | 0.318441 | TGTGTGTGCTCTGGTCTAGC | 59.682 | 55.0 | 0.0 | 0.0 | 40.5 | 3.42 | F |
1536 | 2591 | 0.398318 | AGAGACCCACAGCTTTCACC | 59.602 | 55.0 | 0.0 | 0.0 | 0.0 | 4.02 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2048 | 3103 | 0.173708 | GGATGTCTGTCTCCACGACC | 59.826 | 60.0 | 0.0 | 0.0 | 42.13 | 4.79 | R |
3484 | 4555 | 0.034960 | TGTCTCTCCTGACTCCGAGG | 60.035 | 60.0 | 0.0 | 0.0 | 37.79 | 4.63 | 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 |
---|---|---|---|---|---|---|---|---|---|
74 | 75 | 2.282180 | TGTTTGGGCTCGGCTTCC | 60.282 | 61.111 | 0.00 | 0.00 | 0.00 | 3.46 |
117 | 118 | 1.398960 | CGCTCTTTCTTTGTTGCGGAG | 60.399 | 52.381 | 0.00 | 0.00 | 39.76 | 4.63 |
386 | 387 | 2.289631 | CCATTGTGTGTGCTCTGGTCTA | 60.290 | 50.000 | 0.00 | 0.00 | 0.00 | 2.59 |
388 | 389 | 0.318441 | TGTGTGTGCTCTGGTCTAGC | 59.682 | 55.000 | 0.00 | 0.00 | 40.50 | 3.42 |
403 | 404 | 2.406691 | GTCTAGCGCGCAGATTATTCAG | 59.593 | 50.000 | 35.10 | 14.40 | 0.00 | 3.02 |
459 | 460 | 6.271391 | ACGGATAACTTGATATGTAATGGGGA | 59.729 | 38.462 | 0.00 | 0.00 | 0.00 | 4.81 |
647 | 668 | 3.326747 | ACATGTTTACGAGTTGCTCTCC | 58.673 | 45.455 | 0.00 | 0.00 | 39.84 | 3.71 |
659 | 680 | 5.053978 | AGTTGCTCTCCCCATAAATAAGG | 57.946 | 43.478 | 0.00 | 0.00 | 0.00 | 2.69 |
732 | 753 | 1.238439 | CGTGGAGCAACATTTGGAGT | 58.762 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
755 | 776 | 6.601613 | AGTGGAAAATAACTCACAGTTGACAA | 59.398 | 34.615 | 0.00 | 0.00 | 39.11 | 3.18 |
778 | 800 | 6.679327 | AATTAGACCGTGCTAAAGATTTCC | 57.321 | 37.500 | 0.00 | 0.00 | 34.33 | 3.13 |
802 | 824 | 8.045507 | TCCAATAGAAGATGAATGCCATATCTC | 58.954 | 37.037 | 0.00 | 0.00 | 34.91 | 2.75 |
923 | 945 | 2.742372 | GCTCACGCCGTCCATTGT | 60.742 | 61.111 | 0.00 | 0.00 | 0.00 | 2.71 |
925 | 947 | 0.810031 | GCTCACGCCGTCCATTGTAT | 60.810 | 55.000 | 0.00 | 0.00 | 0.00 | 2.29 |
926 | 948 | 1.651987 | CTCACGCCGTCCATTGTATT | 58.348 | 50.000 | 0.00 | 0.00 | 0.00 | 1.89 |
1086 | 2137 | 5.107133 | GTGGCAGAAAATGAAATGGATCAG | 58.893 | 41.667 | 0.00 | 0.00 | 31.76 | 2.90 |
1141 | 2192 | 6.436027 | ACCACTTCTGATAGAGAGGACAATA | 58.564 | 40.000 | 0.00 | 0.00 | 32.06 | 1.90 |
1146 | 2197 | 6.924913 | TCTGATAGAGAGGACAATATTGGG | 57.075 | 41.667 | 19.37 | 0.00 | 0.00 | 4.12 |
1151 | 2202 | 5.983333 | AGAGAGGACAATATTGGGTTCAT | 57.017 | 39.130 | 19.37 | 5.96 | 0.00 | 2.57 |
1187 | 2238 | 2.580962 | TGTTGCTTGTTATGCAGGACA | 58.419 | 42.857 | 0.00 | 0.00 | 41.71 | 4.02 |
1257 | 2308 | 0.991344 | CGGATGCAATTTTTGGCGAC | 59.009 | 50.000 | 0.00 | 0.00 | 0.00 | 5.19 |
1271 | 2322 | 4.497291 | TTGGCGACCAGGTTAATCTAAT | 57.503 | 40.909 | 0.00 | 0.00 | 33.81 | 1.73 |
1536 | 2591 | 0.398318 | AGAGACCCACAGCTTTCACC | 59.602 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1937 | 2992 | 2.217510 | TCCTCTACCGAGCTCTTTGT | 57.782 | 50.000 | 12.85 | 8.76 | 35.90 | 2.83 |
2047 | 3102 | 1.748591 | GCCATTGGCTCGATCTTCCTT | 60.749 | 52.381 | 20.66 | 0.00 | 46.69 | 3.36 |
2048 | 3103 | 1.945394 | CCATTGGCTCGATCTTCCTTG | 59.055 | 52.381 | 0.00 | 0.00 | 0.00 | 3.61 |
2381 | 3436 | 3.021695 | TCGACCTACCCTACAGACATTG | 58.978 | 50.000 | 0.00 | 0.00 | 0.00 | 2.82 |
2569 | 3624 | 1.107945 | TATCTTGTGCCATCGACCGA | 58.892 | 50.000 | 0.00 | 0.00 | 0.00 | 4.69 |
2610 | 3665 | 3.204382 | ACTTTTATCCCCACCCGATGATT | 59.796 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
2611 | 3666 | 3.502123 | TTTATCCCCACCCGATGATTC | 57.498 | 47.619 | 0.00 | 0.00 | 0.00 | 2.52 |
2612 | 3667 | 1.358152 | TATCCCCACCCGATGATTCC | 58.642 | 55.000 | 0.00 | 0.00 | 0.00 | 3.01 |
2651 | 3709 | 1.606737 | GCCAAGTCTCCTATGATCCGC | 60.607 | 57.143 | 0.00 | 0.00 | 0.00 | 5.54 |
2679 | 3737 | 4.211374 | CGGTAAACCTAGCTTATGCATCAC | 59.789 | 45.833 | 0.19 | 0.00 | 42.74 | 3.06 |
2772 | 3831 | 4.127171 | TGAAGCTTGTCCAAGTAGTTCAC | 58.873 | 43.478 | 2.10 | 0.00 | 40.45 | 3.18 |
2848 | 3907 | 4.314522 | TGGTATGATGAAGAAGGCCAAA | 57.685 | 40.909 | 5.01 | 0.00 | 0.00 | 3.28 |
2866 | 3925 | 0.542467 | AAACAGCCATGGCATCCACA | 60.542 | 50.000 | 37.18 | 0.00 | 44.88 | 4.17 |
2875 | 3934 | 0.911053 | TGGCATCCACAGCTGATACA | 59.089 | 50.000 | 23.35 | 6.32 | 0.00 | 2.29 |
2893 | 3952 | 1.160137 | CAGCCACACAAGCCTTAGTC | 58.840 | 55.000 | 0.00 | 0.00 | 0.00 | 2.59 |
3243 | 4302 | 0.181114 | TGTGAGGCAGCAGACTTTGT | 59.819 | 50.000 | 0.00 | 0.00 | 28.39 | 2.83 |
3249 | 4308 | 4.006319 | GAGGCAGCAGACTTTGTTATTCT | 58.994 | 43.478 | 0.00 | 0.00 | 28.39 | 2.40 |
3274 | 4333 | 2.417933 | GCACACTGAGGATGTTGATCAC | 59.582 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
3279 | 4338 | 1.550072 | TGAGGATGTTGATCACGCTGA | 59.450 | 47.619 | 0.00 | 0.00 | 0.00 | 4.26 |
3307 | 4375 | 0.823356 | AACATGGTGCACAGGTGGTC | 60.823 | 55.000 | 20.43 | 0.00 | 44.50 | 4.02 |
3325 | 4393 | 1.933853 | GTCGAACCTATGTCCACATGC | 59.066 | 52.381 | 2.26 | 0.00 | 37.15 | 4.06 |
3352 | 4420 | 3.724508 | AACAATGGTTTCGATGTTGCA | 57.275 | 38.095 | 0.00 | 0.00 | 34.88 | 4.08 |
3403 | 4474 | 2.840038 | ACTGGAAGGTGATGATGTAGCA | 59.160 | 45.455 | 0.00 | 0.00 | 39.30 | 3.49 |
3418 | 4489 | 0.666274 | TAGCAACGGCAGAACACGAG | 60.666 | 55.000 | 0.00 | 0.00 | 44.61 | 4.18 |
3440 | 4511 | 1.866925 | GCGGAGGAGGAAAACAACG | 59.133 | 57.895 | 0.00 | 0.00 | 0.00 | 4.10 |
3445 | 4516 | 1.895231 | GGAGGAAAACAACGGCGGT | 60.895 | 57.895 | 13.24 | 0.00 | 0.00 | 5.68 |
3458 | 4529 | 2.667199 | GCGGTTGTAACGGTGCCT | 60.667 | 61.111 | 4.59 | 0.00 | 0.00 | 4.75 |
3470 | 4541 | 1.754745 | GGTGCCTCTTCCTCACACA | 59.245 | 57.895 | 0.00 | 0.00 | 32.89 | 3.72 |
3484 | 4555 | 3.620374 | CCTCACACACATAGTTCATCTGC | 59.380 | 47.826 | 0.00 | 0.00 | 0.00 | 4.26 |
3488 | 4559 | 2.862536 | CACACATAGTTCATCTGCCTCG | 59.137 | 50.000 | 0.00 | 0.00 | 0.00 | 4.63 |
3496 | 4567 | 1.039785 | TCATCTGCCTCGGAGTCAGG | 61.040 | 60.000 | 15.33 | 1.58 | 0.00 | 3.86 |
3521 | 4600 | 2.357009 | GACATGATGCGATTCCAGCTTT | 59.643 | 45.455 | 0.00 | 0.00 | 35.28 | 3.51 |
3522 | 4601 | 2.098607 | ACATGATGCGATTCCAGCTTTG | 59.901 | 45.455 | 0.00 | 0.00 | 35.28 | 2.77 |
3524 | 4603 | 1.469703 | TGATGCGATTCCAGCTTTGTG | 59.530 | 47.619 | 0.00 | 0.00 | 35.28 | 3.33 |
3525 | 4604 | 1.470098 | GATGCGATTCCAGCTTTGTGT | 59.530 | 47.619 | 0.00 | 0.00 | 35.28 | 3.72 |
3528 | 4611 | 1.400242 | GCGATTCCAGCTTTGTGTCAC | 60.400 | 52.381 | 0.00 | 0.00 | 0.00 | 3.67 |
3533 | 4616 | 5.503031 | CGATTCCAGCTTTGTGTCACATATC | 60.503 | 44.000 | 6.48 | 0.00 | 0.00 | 1.63 |
3539 | 4622 | 4.130118 | GCTTTGTGTCACATATCTAGGGG | 58.870 | 47.826 | 6.48 | 0.00 | 0.00 | 4.79 |
3550 | 4633 | 8.305317 | GTCACATATCTAGGGGTTAGATTGTAC | 58.695 | 40.741 | 2.37 | 0.00 | 44.92 | 2.90 |
3564 | 4647 | 3.758554 | AGATTGTACTTGATGCCGCTTTT | 59.241 | 39.130 | 0.00 | 0.00 | 0.00 | 2.27 |
3583 | 4666 | 2.539003 | CGGAGTTTGCCGTGATTGA | 58.461 | 52.632 | 0.00 | 0.00 | 46.07 | 2.57 |
3624 | 4707 | 2.939460 | ATTCGGTTTGTTATGCAGCC | 57.061 | 45.000 | 0.00 | 0.00 | 0.00 | 4.85 |
3631 | 4714 | 3.193267 | GGTTTGTTATGCAGCCTGATTCA | 59.807 | 43.478 | 0.00 | 0.00 | 0.00 | 2.57 |
3633 | 4716 | 4.642445 | TTGTTATGCAGCCTGATTCATG | 57.358 | 40.909 | 0.00 | 0.00 | 0.00 | 3.07 |
3641 | 4724 | 0.178970 | GCCTGATTCATGGCTGGGAT | 60.179 | 55.000 | 15.64 | 0.00 | 45.26 | 3.85 |
3651 | 4734 | 4.401022 | TCATGGCTGGGATAAATAGCTTG | 58.599 | 43.478 | 0.00 | 0.00 | 37.58 | 4.01 |
3665 | 4748 | 6.780457 | AAATAGCTTGTTGATGTTGGCTAT | 57.220 | 33.333 | 0.00 | 0.00 | 42.41 | 2.97 |
3667 | 4750 | 7.880160 | AATAGCTTGTTGATGTTGGCTATAA | 57.120 | 32.000 | 0.00 | 0.00 | 40.59 | 0.98 |
3668 | 4751 | 5.824904 | AGCTTGTTGATGTTGGCTATAAG | 57.175 | 39.130 | 0.00 | 0.00 | 0.00 | 1.73 |
3708 | 4791 | 1.394618 | TGTTTAGCCGTGCAGGTTTT | 58.605 | 45.000 | 5.57 | 0.00 | 43.70 | 2.43 |
3714 | 4797 | 0.318360 | GCCGTGCAGGTTTTGTTACC | 60.318 | 55.000 | 5.57 | 0.00 | 43.70 | 2.85 |
3718 | 4801 | 1.406180 | GTGCAGGTTTTGTTACCGGTT | 59.594 | 47.619 | 15.04 | 0.00 | 43.21 | 4.44 |
3724 | 4807 | 5.463286 | CAGGTTTTGTTACCGGTTTAATCC | 58.537 | 41.667 | 15.04 | 10.52 | 43.21 | 3.01 |
3734 | 4817 | 2.357952 | CCGGTTTAATCCTTTAGCTGGC | 59.642 | 50.000 | 0.00 | 0.00 | 0.00 | 4.85 |
3736 | 4819 | 3.632145 | CGGTTTAATCCTTTAGCTGGCAT | 59.368 | 43.478 | 0.00 | 0.00 | 0.00 | 4.40 |
3737 | 4820 | 4.819630 | CGGTTTAATCCTTTAGCTGGCATA | 59.180 | 41.667 | 0.00 | 0.00 | 0.00 | 3.14 |
3738 | 4821 | 5.473504 | CGGTTTAATCCTTTAGCTGGCATAT | 59.526 | 40.000 | 0.00 | 0.00 | 0.00 | 1.78 |
3739 | 4822 | 6.348540 | CGGTTTAATCCTTTAGCTGGCATATC | 60.349 | 42.308 | 0.00 | 0.00 | 0.00 | 1.63 |
3740 | 4823 | 6.717084 | GGTTTAATCCTTTAGCTGGCATATCT | 59.283 | 38.462 | 0.00 | 0.00 | 0.00 | 1.98 |
3743 | 4826 | 5.839517 | ATCCTTTAGCTGGCATATCTCTT | 57.160 | 39.130 | 0.00 | 0.00 | 0.00 | 2.85 |
3744 | 4827 | 5.636903 | TCCTTTAGCTGGCATATCTCTTT | 57.363 | 39.130 | 0.00 | 0.00 | 0.00 | 2.52 |
3745 | 4828 | 5.371526 | TCCTTTAGCTGGCATATCTCTTTG | 58.628 | 41.667 | 0.00 | 0.00 | 0.00 | 2.77 |
3747 | 4830 | 4.428294 | TTAGCTGGCATATCTCTTTGCT | 57.572 | 40.909 | 0.00 | 0.00 | 38.88 | 3.91 |
3748 | 4831 | 5.551305 | TTAGCTGGCATATCTCTTTGCTA | 57.449 | 39.130 | 0.00 | 0.00 | 38.88 | 3.49 |
3749 | 4832 | 4.428294 | AGCTGGCATATCTCTTTGCTAA | 57.572 | 40.909 | 0.00 | 0.00 | 38.88 | 3.09 |
3751 | 4834 | 3.879295 | GCTGGCATATCTCTTTGCTAACA | 59.121 | 43.478 | 0.00 | 0.00 | 38.88 | 2.41 |
3752 | 4835 | 4.336433 | GCTGGCATATCTCTTTGCTAACAA | 59.664 | 41.667 | 0.00 | 0.00 | 38.88 | 2.83 |
3753 | 4836 | 5.163622 | GCTGGCATATCTCTTTGCTAACAAA | 60.164 | 40.000 | 0.00 | 0.00 | 43.45 | 2.83 |
3754 | 4837 | 6.460676 | GCTGGCATATCTCTTTGCTAACAAAT | 60.461 | 38.462 | 0.00 | 0.00 | 44.54 | 2.32 |
3755 | 4838 | 6.798482 | TGGCATATCTCTTTGCTAACAAATG | 58.202 | 36.000 | 0.00 | 0.00 | 44.54 | 2.32 |
3756 | 4839 | 6.377996 | TGGCATATCTCTTTGCTAACAAATGT | 59.622 | 34.615 | 0.00 | 0.00 | 44.54 | 2.71 |
3757 | 4840 | 6.914757 | GGCATATCTCTTTGCTAACAAATGTC | 59.085 | 38.462 | 0.00 | 0.00 | 44.54 | 3.06 |
3759 | 4842 | 7.854916 | GCATATCTCTTTGCTAACAAATGTCTC | 59.145 | 37.037 | 0.00 | 0.00 | 44.54 | 3.36 |
3761 | 4844 | 7.750229 | ATCTCTTTGCTAACAAATGTCTCAA | 57.250 | 32.000 | 0.00 | 0.00 | 44.54 | 3.02 |
3762 | 4845 | 7.194607 | TCTCTTTGCTAACAAATGTCTCAAG | 57.805 | 36.000 | 0.00 | 0.00 | 44.54 | 3.02 |
3764 | 4847 | 6.959361 | TCTTTGCTAACAAATGTCTCAAGTC | 58.041 | 36.000 | 0.00 | 0.00 | 44.54 | 3.01 |
3765 | 4848 | 6.767902 | TCTTTGCTAACAAATGTCTCAAGTCT | 59.232 | 34.615 | 0.00 | 0.00 | 44.54 | 3.24 |
3767 | 4850 | 5.610398 | TGCTAACAAATGTCTCAAGTCTGA | 58.390 | 37.500 | 0.00 | 0.00 | 0.00 | 3.27 |
3768 | 4851 | 6.233434 | TGCTAACAAATGTCTCAAGTCTGAT | 58.767 | 36.000 | 0.00 | 0.00 | 0.00 | 2.90 |
3769 | 4852 | 6.712095 | TGCTAACAAATGTCTCAAGTCTGATT | 59.288 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
3770 | 4853 | 7.095060 | TGCTAACAAATGTCTCAAGTCTGATTC | 60.095 | 37.037 | 0.00 | 0.00 | 0.00 | 2.52 |
3772 | 4855 | 9.645059 | CTAACAAATGTCTCAAGTCTGATTCTA | 57.355 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
3773 | 4856 | 7.897575 | ACAAATGTCTCAAGTCTGATTCTAC | 57.102 | 36.000 | 0.00 | 0.00 | 0.00 | 2.59 |
3774 | 4857 | 7.675062 | ACAAATGTCTCAAGTCTGATTCTACT | 58.325 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
3775 | 4858 | 7.601886 | ACAAATGTCTCAAGTCTGATTCTACTG | 59.398 | 37.037 | 0.00 | 0.00 | 0.00 | 2.74 |
3776 | 4859 | 5.651387 | TGTCTCAAGTCTGATTCTACTGG | 57.349 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
3779 | 4876 | 6.151312 | TGTCTCAAGTCTGATTCTACTGGTAC | 59.849 | 42.308 | 0.00 | 0.00 | 0.00 | 3.34 |
3782 | 4879 | 8.275758 | TCTCAAGTCTGATTCTACTGGTACTAT | 58.724 | 37.037 | 0.00 | 0.00 | 0.00 | 2.12 |
3788 | 4885 | 9.733219 | GTCTGATTCTACTGGTACTATTTACAC | 57.267 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
3793 | 4890 | 4.119442 | ACTGGTACTATTTACACAGGCG | 57.881 | 45.455 | 0.00 | 0.00 | 0.00 | 5.52 |
3805 | 4902 | 2.086869 | ACACAGGCGAAATTGGAGATG | 58.913 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
3812 | 4909 | 2.415893 | GCGAAATTGGAGATGGGTGTTG | 60.416 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
3813 | 4910 | 2.819608 | CGAAATTGGAGATGGGTGTTGT | 59.180 | 45.455 | 0.00 | 0.00 | 0.00 | 3.32 |
3814 | 4911 | 4.006989 | CGAAATTGGAGATGGGTGTTGTA | 58.993 | 43.478 | 0.00 | 0.00 | 0.00 | 2.41 |
3838 | 4967 | 2.169832 | ACACCTTCCACGTCTGAATG | 57.830 | 50.000 | 0.00 | 0.00 | 0.00 | 2.67 |
3912 | 5051 | 6.670027 | AGATGTCTAGGAGTAGAAAATGTGGT | 59.330 | 38.462 | 0.00 | 0.00 | 37.02 | 4.16 |
3940 | 5079 | 1.024579 | AGTTGGGCTTTCATACCGCG | 61.025 | 55.000 | 0.00 | 0.00 | 0.00 | 6.46 |
3991 | 5132 | 1.203523 | GAGTCAGAGTCCAGTGCGATT | 59.796 | 52.381 | 0.00 | 0.00 | 0.00 | 3.34 |
4006 | 5147 | 0.943673 | CGATTGCCACACAGACACAA | 59.056 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
4204 | 5355 | 4.589908 | AGATGTAAGGCCCTACTTTTGTG | 58.410 | 43.478 | 12.73 | 0.00 | 32.02 | 3.33 |
4207 | 5358 | 4.538738 | TGTAAGGCCCTACTTTTGTGTTT | 58.461 | 39.130 | 12.73 | 0.00 | 32.02 | 2.83 |
4209 | 5360 | 5.422650 | TGTAAGGCCCTACTTTTGTGTTTTT | 59.577 | 36.000 | 12.73 | 0.00 | 32.02 | 1.94 |
4210 | 5361 | 4.665833 | AGGCCCTACTTTTGTGTTTTTC | 57.334 | 40.909 | 0.00 | 0.00 | 0.00 | 2.29 |
4211 | 5362 | 3.067601 | AGGCCCTACTTTTGTGTTTTTCG | 59.932 | 43.478 | 0.00 | 0.00 | 0.00 | 3.46 |
4212 | 5363 | 3.181484 | GGCCCTACTTTTGTGTTTTTCGT | 60.181 | 43.478 | 0.00 | 0.00 | 0.00 | 3.85 |
4213 | 5364 | 4.426416 | GCCCTACTTTTGTGTTTTTCGTT | 58.574 | 39.130 | 0.00 | 0.00 | 0.00 | 3.85 |
4214 | 5365 | 4.865925 | GCCCTACTTTTGTGTTTTTCGTTT | 59.134 | 37.500 | 0.00 | 0.00 | 0.00 | 3.60 |
4215 | 5366 | 5.349270 | GCCCTACTTTTGTGTTTTTCGTTTT | 59.651 | 36.000 | 0.00 | 0.00 | 0.00 | 2.43 |
4216 | 5367 | 6.671164 | GCCCTACTTTTGTGTTTTTCGTTTTG | 60.671 | 38.462 | 0.00 | 0.00 | 0.00 | 2.44 |
4217 | 5368 | 6.586844 | CCCTACTTTTGTGTTTTTCGTTTTGA | 59.413 | 34.615 | 0.00 | 0.00 | 0.00 | 2.69 |
4240 | 5391 | 0.040958 | GATTTGATGATCGTGCCCGC | 60.041 | 55.000 | 0.00 | 0.00 | 0.00 | 6.13 |
4262 | 5416 | 1.954382 | GCTCTTTTCTTTTCCCCGTGT | 59.046 | 47.619 | 0.00 | 0.00 | 0.00 | 4.49 |
4283 | 5437 | 4.933064 | CTGACCTCGGGCGCGATC | 62.933 | 72.222 | 26.78 | 21.32 | 0.00 | 3.69 |
4301 | 5456 | 2.668212 | CCCCGTTGCGCAGAAAGA | 60.668 | 61.111 | 11.31 | 0.00 | 0.00 | 2.52 |
4398 | 5561 | 0.322997 | TGTGTAATTTGGCCTCGGGG | 60.323 | 55.000 | 3.32 | 0.00 | 0.00 | 5.73 |
4422 | 5585 | 5.831103 | AGGAAGAAATGTCCATGGTGTATT | 58.169 | 37.500 | 12.58 | 8.20 | 37.65 | 1.89 |
4427 | 5590 | 5.774690 | AGAAATGTCCATGGTGTATTTGTGT | 59.225 | 36.000 | 20.35 | 8.59 | 0.00 | 3.72 |
4438 | 5601 | 6.565234 | TGGTGTATTTGTGTTGTTTTACCAG | 58.435 | 36.000 | 0.00 | 0.00 | 31.48 | 4.00 |
4441 | 5604 | 6.198216 | GTGTATTTGTGTTGTTTTACCAGCTG | 59.802 | 38.462 | 6.78 | 6.78 | 0.00 | 4.24 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
0 | 1 | 1.953686 | GCCAGCCGCTCCAAAAATATA | 59.046 | 47.619 | 0.00 | 0.00 | 0.00 | 0.86 |
1 | 2 | 0.746659 | GCCAGCCGCTCCAAAAATAT | 59.253 | 50.000 | 0.00 | 0.00 | 0.00 | 1.28 |
2 | 3 | 1.319614 | GGCCAGCCGCTCCAAAAATA | 61.320 | 55.000 | 0.00 | 0.00 | 37.74 | 1.40 |
3 | 4 | 2.649129 | GGCCAGCCGCTCCAAAAAT | 61.649 | 57.895 | 0.00 | 0.00 | 37.74 | 1.82 |
117 | 118 | 4.645921 | GCACGCACCCTGTTTGCC | 62.646 | 66.667 | 0.00 | 0.00 | 36.57 | 4.52 |
386 | 387 | 0.179073 | ACCTGAATAATCTGCGCGCT | 60.179 | 50.000 | 33.29 | 14.83 | 0.00 | 5.92 |
388 | 389 | 0.041839 | GCACCTGAATAATCTGCGCG | 60.042 | 55.000 | 0.00 | 0.00 | 0.00 | 6.86 |
459 | 460 | 4.040461 | ACAAGAACATAGTAGTGCCACTGT | 59.960 | 41.667 | 7.83 | 0.00 | 0.00 | 3.55 |
625 | 645 | 4.491676 | GGAGAGCAACTCGTAAACATGTA | 58.508 | 43.478 | 0.00 | 0.00 | 45.76 | 2.29 |
635 | 655 | 2.691409 | TTTATGGGGAGAGCAACTCG | 57.309 | 50.000 | 5.17 | 0.00 | 45.76 | 4.18 |
672 | 693 | 3.631250 | ACCAACTGAAACACCACATCTT | 58.369 | 40.909 | 0.00 | 0.00 | 0.00 | 2.40 |
677 | 698 | 3.705604 | CAATGACCAACTGAAACACCAC | 58.294 | 45.455 | 0.00 | 0.00 | 0.00 | 4.16 |
679 | 700 | 2.100584 | TGCAATGACCAACTGAAACACC | 59.899 | 45.455 | 0.00 | 0.00 | 0.00 | 4.16 |
732 | 753 | 7.397892 | TTTGTCAACTGTGAGTTATTTTCCA | 57.602 | 32.000 | 0.00 | 0.00 | 36.03 | 3.53 |
755 | 776 | 6.177610 | TGGAAATCTTTAGCACGGTCTAATT | 58.822 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
778 | 800 | 9.451002 | AAGAGATATGGCATTCATCTTCTATTG | 57.549 | 33.333 | 4.78 | 0.00 | 37.30 | 1.90 |
837 | 859 | 5.796424 | AGGAACTCTGCACAAAATGAAAT | 57.204 | 34.783 | 0.00 | 0.00 | 0.00 | 2.17 |
1072 | 2123 | 6.288941 | TGTTTCATGCTGATCCATTTCATT | 57.711 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
1086 | 2137 | 2.490903 | AGAAGGTGCAGATGTTTCATGC | 59.509 | 45.455 | 0.00 | 0.00 | 40.40 | 4.06 |
1101 | 2152 | 0.896940 | TGGTACTCGGCGAAGAAGGT | 60.897 | 55.000 | 12.13 | 7.56 | 0.00 | 3.50 |
1146 | 2197 | 2.500229 | TGGACTTGTTCGGGAATGAAC | 58.500 | 47.619 | 0.00 | 0.00 | 46.63 | 3.18 |
1151 | 2202 | 2.226330 | CAACATGGACTTGTTCGGGAA | 58.774 | 47.619 | 0.00 | 0.00 | 37.73 | 3.97 |
1187 | 2238 | 3.264193 | TGTACTGGATGAAGGTTCTGCAT | 59.736 | 43.478 | 0.00 | 0.00 | 31.37 | 3.96 |
1536 | 2591 | 0.179936 | GTCATCTCCCCAGAAGCCAG | 59.820 | 60.000 | 0.00 | 0.00 | 30.24 | 4.85 |
1937 | 2992 | 2.203983 | TGGGAGGAGGCAGCAGAA | 60.204 | 61.111 | 0.00 | 0.00 | 0.00 | 3.02 |
2047 | 3102 | 0.888619 | GATGTCTGTCTCCACGACCA | 59.111 | 55.000 | 0.00 | 0.00 | 42.13 | 4.02 |
2048 | 3103 | 0.173708 | GGATGTCTGTCTCCACGACC | 59.826 | 60.000 | 0.00 | 0.00 | 42.13 | 4.79 |
2381 | 3436 | 2.041966 | CCACGTCGACTAATACGATGC | 58.958 | 52.381 | 14.70 | 0.00 | 46.40 | 3.91 |
2651 | 3709 | 4.495844 | GCATAAGCTAGGTTTACCGCTTTG | 60.496 | 45.833 | 13.21 | 14.24 | 41.09 | 2.77 |
2692 | 3750 | 7.285401 | ACATTAGTTCAGTCAACTGTGGAATTT | 59.715 | 33.333 | 9.82 | 0.00 | 45.60 | 1.82 |
2693 | 3751 | 6.772716 | ACATTAGTTCAGTCAACTGTGGAATT | 59.227 | 34.615 | 9.82 | 0.00 | 45.60 | 2.17 |
2694 | 3752 | 6.299141 | ACATTAGTTCAGTCAACTGTGGAAT | 58.701 | 36.000 | 9.82 | 4.05 | 45.60 | 3.01 |
2772 | 3831 | 5.582550 | TCTTCAGTACTGATTCAGTATGCG | 58.417 | 41.667 | 25.68 | 17.36 | 46.56 | 4.73 |
2848 | 3907 | 0.968901 | CTGTGGATGCCATGGCTGTT | 60.969 | 55.000 | 35.53 | 21.10 | 42.51 | 3.16 |
2875 | 3934 | 1.059913 | AGACTAAGGCTTGTGTGGCT | 58.940 | 50.000 | 10.69 | 1.98 | 45.04 | 4.75 |
2893 | 3952 | 4.992319 | TCAAAGCCATGCAGAAATTCAAAG | 59.008 | 37.500 | 0.00 | 0.00 | 0.00 | 2.77 |
3180 | 4239 | 3.863424 | TGAGTCACAGTTTTCGTTCACTC | 59.137 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
3211 | 4270 | 1.612726 | GCCTCACAGTTCTCAATGGCT | 60.613 | 52.381 | 0.00 | 0.00 | 36.52 | 4.75 |
3243 | 4302 | 5.187772 | ACATCCTCAGTGTGCTGTAGAATAA | 59.812 | 40.000 | 0.00 | 0.00 | 43.05 | 1.40 |
3249 | 4308 | 2.632512 | TCAACATCCTCAGTGTGCTGTA | 59.367 | 45.455 | 0.00 | 0.00 | 43.05 | 2.74 |
3274 | 4333 | 1.202065 | CCATGTTCCATTTCGTCAGCG | 60.202 | 52.381 | 0.00 | 0.00 | 39.92 | 5.18 |
3279 | 4338 | 1.269448 | GTGCACCATGTTCCATTTCGT | 59.731 | 47.619 | 5.22 | 0.00 | 0.00 | 3.85 |
3307 | 4375 | 0.930310 | CGCATGTGGACATAGGTTCG | 59.070 | 55.000 | 0.00 | 0.00 | 34.26 | 3.95 |
3313 | 4381 | 3.006940 | GTTTTCCTCGCATGTGGACATA | 58.993 | 45.455 | 6.39 | 0.00 | 37.49 | 2.29 |
3325 | 4393 | 3.889196 | TCGAAACCATTGTTTTCCTCG | 57.111 | 42.857 | 1.62 | 0.00 | 44.57 | 4.63 |
3403 | 4474 | 1.300697 | GTCCTCGTGTTCTGCCGTT | 60.301 | 57.895 | 0.00 | 0.00 | 0.00 | 4.44 |
3418 | 4489 | 1.740664 | GTTTTCCTCCTCCGCGTCC | 60.741 | 63.158 | 4.92 | 0.00 | 0.00 | 4.79 |
3440 | 4511 | 3.729698 | GGCACCGTTACAACCGCC | 61.730 | 66.667 | 0.00 | 0.00 | 0.00 | 6.13 |
3445 | 4516 | 1.001633 | GAGGAAGAGGCACCGTTACAA | 59.998 | 52.381 | 0.00 | 0.00 | 0.00 | 2.41 |
3451 | 4522 | 1.374758 | GTGTGAGGAAGAGGCACCG | 60.375 | 63.158 | 0.00 | 0.00 | 0.00 | 4.94 |
3458 | 4529 | 5.481824 | AGATGAACTATGTGTGTGAGGAAGA | 59.518 | 40.000 | 0.00 | 0.00 | 0.00 | 2.87 |
3470 | 4541 | 2.363680 | CTCCGAGGCAGATGAACTATGT | 59.636 | 50.000 | 0.00 | 0.00 | 0.00 | 2.29 |
3484 | 4555 | 0.034960 | TGTCTCTCCTGACTCCGAGG | 60.035 | 60.000 | 0.00 | 0.00 | 37.79 | 4.63 |
3488 | 4559 | 2.224018 | GCATCATGTCTCTCCTGACTCC | 60.224 | 54.545 | 0.00 | 0.00 | 37.79 | 3.85 |
3496 | 4567 | 3.058450 | CTGGAATCGCATCATGTCTCTC | 58.942 | 50.000 | 0.00 | 0.00 | 0.00 | 3.20 |
3521 | 4600 | 5.773091 | TCTAACCCCTAGATATGTGACACA | 58.227 | 41.667 | 11.41 | 11.41 | 31.28 | 3.72 |
3522 | 4601 | 6.919775 | ATCTAACCCCTAGATATGTGACAC | 57.080 | 41.667 | 0.00 | 0.00 | 44.22 | 3.67 |
3524 | 4603 | 7.304497 | ACAATCTAACCCCTAGATATGTGAC | 57.696 | 40.000 | 0.00 | 0.00 | 45.12 | 3.67 |
3525 | 4604 | 8.232412 | AGTACAATCTAACCCCTAGATATGTGA | 58.768 | 37.037 | 0.00 | 0.00 | 45.12 | 3.58 |
3528 | 4611 | 9.090103 | TCAAGTACAATCTAACCCCTAGATATG | 57.910 | 37.037 | 0.00 | 0.61 | 45.12 | 1.78 |
3533 | 4616 | 5.992217 | GCATCAAGTACAATCTAACCCCTAG | 59.008 | 44.000 | 0.00 | 0.00 | 0.00 | 3.02 |
3539 | 4622 | 3.871594 | AGCGGCATCAAGTACAATCTAAC | 59.128 | 43.478 | 1.45 | 0.00 | 0.00 | 2.34 |
3545 | 4628 | 2.095969 | CGAAAAGCGGCATCAAGTACAA | 60.096 | 45.455 | 1.45 | 0.00 | 36.03 | 2.41 |
3583 | 4666 | 7.148983 | CGAATAATGTCAGCAAAAATGAAACGT | 60.149 | 33.333 | 0.00 | 0.00 | 0.00 | 3.99 |
3624 | 4707 | 5.125097 | GCTATTTATCCCAGCCATGAATCAG | 59.875 | 44.000 | 0.00 | 0.00 | 0.00 | 2.90 |
3631 | 4714 | 4.459852 | ACAAGCTATTTATCCCAGCCAT | 57.540 | 40.909 | 0.00 | 0.00 | 35.88 | 4.40 |
3633 | 4716 | 4.207165 | TCAACAAGCTATTTATCCCAGCC | 58.793 | 43.478 | 0.00 | 0.00 | 35.88 | 4.85 |
3641 | 4724 | 7.880160 | ATAGCCAACATCAACAAGCTATTTA | 57.120 | 32.000 | 0.00 | 0.00 | 39.80 | 1.40 |
3651 | 4734 | 7.320443 | TGAATCACTTATAGCCAACATCAAC | 57.680 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
3686 | 4769 | 1.616159 | ACCTGCACGGCTAAACAAAT | 58.384 | 45.000 | 2.50 | 0.00 | 35.61 | 2.32 |
3687 | 4770 | 1.394618 | AACCTGCACGGCTAAACAAA | 58.605 | 45.000 | 2.50 | 0.00 | 35.61 | 2.83 |
3690 | 4773 | 1.066454 | ACAAAACCTGCACGGCTAAAC | 59.934 | 47.619 | 2.50 | 0.00 | 35.61 | 2.01 |
3691 | 4774 | 1.394618 | ACAAAACCTGCACGGCTAAA | 58.605 | 45.000 | 2.50 | 0.00 | 35.61 | 1.85 |
3696 | 4779 | 0.040781 | CGGTAACAAAACCTGCACGG | 60.041 | 55.000 | 1.16 | 1.16 | 37.39 | 4.94 |
3708 | 4791 | 5.644636 | CAGCTAAAGGATTAAACCGGTAACA | 59.355 | 40.000 | 8.00 | 0.00 | 34.73 | 2.41 |
3714 | 4797 | 3.013921 | TGCCAGCTAAAGGATTAAACCG | 58.986 | 45.455 | 0.00 | 0.00 | 34.73 | 4.44 |
3718 | 4801 | 7.321717 | AGAGATATGCCAGCTAAAGGATTAA | 57.678 | 36.000 | 0.00 | 0.00 | 0.00 | 1.40 |
3724 | 4807 | 4.820716 | AGCAAAGAGATATGCCAGCTAAAG | 59.179 | 41.667 | 0.00 | 0.00 | 43.57 | 1.85 |
3734 | 4817 | 8.886719 | TGAGACATTTGTTAGCAAAGAGATATG | 58.113 | 33.333 | 10.59 | 5.42 | 46.30 | 1.78 |
3736 | 4819 | 8.846943 | TTGAGACATTTGTTAGCAAAGAGATA | 57.153 | 30.769 | 10.59 | 0.00 | 46.30 | 1.98 |
3737 | 4820 | 7.446625 | ACTTGAGACATTTGTTAGCAAAGAGAT | 59.553 | 33.333 | 10.59 | 0.00 | 46.30 | 2.75 |
3738 | 4821 | 6.767902 | ACTTGAGACATTTGTTAGCAAAGAGA | 59.232 | 34.615 | 10.59 | 0.00 | 46.30 | 3.10 |
3739 | 4822 | 6.963796 | ACTTGAGACATTTGTTAGCAAAGAG | 58.036 | 36.000 | 10.59 | 8.02 | 46.30 | 2.85 |
3740 | 4823 | 6.767902 | AGACTTGAGACATTTGTTAGCAAAGA | 59.232 | 34.615 | 10.59 | 0.00 | 46.30 | 2.52 |
3743 | 4826 | 6.054941 | TCAGACTTGAGACATTTGTTAGCAA | 58.945 | 36.000 | 0.00 | 0.00 | 0.00 | 3.91 |
3744 | 4827 | 5.610398 | TCAGACTTGAGACATTTGTTAGCA | 58.390 | 37.500 | 0.00 | 0.00 | 0.00 | 3.49 |
3745 | 4828 | 6.734104 | ATCAGACTTGAGACATTTGTTAGC | 57.266 | 37.500 | 0.00 | 0.00 | 36.61 | 3.09 |
3747 | 4830 | 9.424319 | GTAGAATCAGACTTGAGACATTTGTTA | 57.576 | 33.333 | 0.00 | 0.00 | 36.61 | 2.41 |
3748 | 4831 | 8.153550 | AGTAGAATCAGACTTGAGACATTTGTT | 58.846 | 33.333 | 0.00 | 0.00 | 36.61 | 2.83 |
3749 | 4832 | 7.601886 | CAGTAGAATCAGACTTGAGACATTTGT | 59.398 | 37.037 | 0.00 | 0.00 | 36.61 | 2.83 |
3751 | 4834 | 7.102346 | CCAGTAGAATCAGACTTGAGACATTT | 58.898 | 38.462 | 0.00 | 0.00 | 36.61 | 2.32 |
3752 | 4835 | 6.212388 | ACCAGTAGAATCAGACTTGAGACATT | 59.788 | 38.462 | 0.00 | 0.00 | 36.61 | 2.71 |
3753 | 4836 | 5.719085 | ACCAGTAGAATCAGACTTGAGACAT | 59.281 | 40.000 | 0.00 | 0.00 | 36.61 | 3.06 |
3754 | 4837 | 5.080337 | ACCAGTAGAATCAGACTTGAGACA | 58.920 | 41.667 | 0.00 | 0.00 | 36.61 | 3.41 |
3755 | 4838 | 5.652994 | ACCAGTAGAATCAGACTTGAGAC | 57.347 | 43.478 | 0.00 | 0.00 | 36.61 | 3.36 |
3756 | 4839 | 6.486056 | AGTACCAGTAGAATCAGACTTGAGA | 58.514 | 40.000 | 0.00 | 0.00 | 36.61 | 3.27 |
3757 | 4840 | 6.767524 | AGTACCAGTAGAATCAGACTTGAG | 57.232 | 41.667 | 0.00 | 0.00 | 36.61 | 3.02 |
3761 | 4844 | 9.696572 | TGTAAATAGTACCAGTAGAATCAGACT | 57.303 | 33.333 | 0.00 | 0.00 | 0.00 | 3.24 |
3762 | 4845 | 9.733219 | GTGTAAATAGTACCAGTAGAATCAGAC | 57.267 | 37.037 | 0.00 | 0.00 | 0.00 | 3.51 |
3764 | 4847 | 9.737427 | CTGTGTAAATAGTACCAGTAGAATCAG | 57.263 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
3765 | 4848 | 8.692710 | CCTGTGTAAATAGTACCAGTAGAATCA | 58.307 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
3767 | 4850 | 7.498443 | GCCTGTGTAAATAGTACCAGTAGAAT | 58.502 | 38.462 | 0.00 | 0.00 | 0.00 | 2.40 |
3768 | 4851 | 6.405065 | CGCCTGTGTAAATAGTACCAGTAGAA | 60.405 | 42.308 | 0.00 | 0.00 | 0.00 | 2.10 |
3769 | 4852 | 5.066893 | CGCCTGTGTAAATAGTACCAGTAGA | 59.933 | 44.000 | 0.00 | 0.00 | 0.00 | 2.59 |
3770 | 4853 | 5.066893 | TCGCCTGTGTAAATAGTACCAGTAG | 59.933 | 44.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3772 | 4855 | 3.765511 | TCGCCTGTGTAAATAGTACCAGT | 59.234 | 43.478 | 0.00 | 0.00 | 0.00 | 4.00 |
3773 | 4856 | 4.380841 | TCGCCTGTGTAAATAGTACCAG | 57.619 | 45.455 | 0.00 | 0.00 | 0.00 | 4.00 |
3774 | 4857 | 4.804868 | TTCGCCTGTGTAAATAGTACCA | 57.195 | 40.909 | 0.00 | 0.00 | 0.00 | 3.25 |
3775 | 4858 | 6.457799 | CCAATTTCGCCTGTGTAAATAGTACC | 60.458 | 42.308 | 0.00 | 0.00 | 0.00 | 3.34 |
3776 | 4859 | 6.314400 | TCCAATTTCGCCTGTGTAAATAGTAC | 59.686 | 38.462 | 0.00 | 0.00 | 0.00 | 2.73 |
3779 | 4876 | 5.584649 | TCTCCAATTTCGCCTGTGTAAATAG | 59.415 | 40.000 | 0.00 | 0.00 | 0.00 | 1.73 |
3782 | 4879 | 3.745799 | TCTCCAATTTCGCCTGTGTAAA | 58.254 | 40.909 | 0.00 | 0.00 | 0.00 | 2.01 |
3786 | 4883 | 1.402968 | CCATCTCCAATTTCGCCTGTG | 59.597 | 52.381 | 0.00 | 0.00 | 0.00 | 3.66 |
3788 | 4885 | 1.027357 | CCCATCTCCAATTTCGCCTG | 58.973 | 55.000 | 0.00 | 0.00 | 0.00 | 4.85 |
3793 | 4890 | 5.975693 | TTACAACACCCATCTCCAATTTC | 57.024 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
3812 | 4909 | 5.232463 | TCAGACGTGGAAGGTGTAAATTAC | 58.768 | 41.667 | 0.00 | 0.00 | 33.50 | 1.89 |
3813 | 4910 | 5.471556 | TCAGACGTGGAAGGTGTAAATTA | 57.528 | 39.130 | 0.00 | 0.00 | 33.50 | 1.40 |
3814 | 4911 | 4.345859 | TCAGACGTGGAAGGTGTAAATT | 57.654 | 40.909 | 0.00 | 0.00 | 33.50 | 1.82 |
3838 | 4967 | 1.005340 | CATCTTCGCCTGAAGCTGAC | 58.995 | 55.000 | 3.45 | 0.00 | 46.41 | 3.51 |
3868 | 4997 | 5.777732 | ACATCTTCGCCTTCTCCTAATCTAT | 59.222 | 40.000 | 0.00 | 0.00 | 0.00 | 1.98 |
3870 | 4999 | 3.964031 | ACATCTTCGCCTTCTCCTAATCT | 59.036 | 43.478 | 0.00 | 0.00 | 0.00 | 2.40 |
3871 | 5000 | 4.038642 | AGACATCTTCGCCTTCTCCTAATC | 59.961 | 45.833 | 0.00 | 0.00 | 0.00 | 1.75 |
3872 | 5001 | 3.964031 | AGACATCTTCGCCTTCTCCTAAT | 59.036 | 43.478 | 0.00 | 0.00 | 0.00 | 1.73 |
3873 | 5002 | 3.366396 | AGACATCTTCGCCTTCTCCTAA | 58.634 | 45.455 | 0.00 | 0.00 | 0.00 | 2.69 |
3874 | 5003 | 3.019799 | AGACATCTTCGCCTTCTCCTA | 57.980 | 47.619 | 0.00 | 0.00 | 0.00 | 2.94 |
3875 | 5004 | 1.859302 | AGACATCTTCGCCTTCTCCT | 58.141 | 50.000 | 0.00 | 0.00 | 0.00 | 3.69 |
3876 | 5005 | 2.035321 | CCTAGACATCTTCGCCTTCTCC | 59.965 | 54.545 | 0.00 | 0.00 | 0.00 | 3.71 |
3877 | 5006 | 2.952978 | TCCTAGACATCTTCGCCTTCTC | 59.047 | 50.000 | 0.00 | 0.00 | 0.00 | 2.87 |
3879 | 5008 | 2.691011 | ACTCCTAGACATCTTCGCCTTC | 59.309 | 50.000 | 0.00 | 0.00 | 0.00 | 3.46 |
3880 | 5009 | 2.741145 | ACTCCTAGACATCTTCGCCTT | 58.259 | 47.619 | 0.00 | 0.00 | 0.00 | 4.35 |
3991 | 5132 | 1.308047 | GACATTGTGTCTGTGTGGCA | 58.692 | 50.000 | 0.00 | 0.00 | 43.73 | 4.92 |
4037 | 5178 | 0.433492 | CGCCGCGGAATAATAACGAG | 59.567 | 55.000 | 33.48 | 0.00 | 0.00 | 4.18 |
4114 | 5255 | 3.056328 | GAGACTTGCAACCCCCGC | 61.056 | 66.667 | 0.00 | 0.00 | 0.00 | 6.13 |
4115 | 5256 | 2.359975 | GGAGACTTGCAACCCCCG | 60.360 | 66.667 | 0.00 | 0.00 | 0.00 | 5.73 |
4116 | 5257 | 1.303643 | CTGGAGACTTGCAACCCCC | 60.304 | 63.158 | 0.00 | 0.00 | 0.00 | 5.40 |
4204 | 5355 | 9.913451 | TCATCAAATCAAATCAAAACGAAAAAC | 57.087 | 25.926 | 0.00 | 0.00 | 0.00 | 2.43 |
4207 | 5358 | 8.637704 | CGATCATCAAATCAAATCAAAACGAAA | 58.362 | 29.630 | 0.00 | 0.00 | 0.00 | 3.46 |
4209 | 5360 | 7.271008 | CACGATCATCAAATCAAATCAAAACGA | 59.729 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
4210 | 5361 | 7.378047 | CACGATCATCAAATCAAATCAAAACG | 58.622 | 34.615 | 0.00 | 0.00 | 0.00 | 3.60 |
4211 | 5362 | 7.168796 | GCACGATCATCAAATCAAATCAAAAC | 58.831 | 34.615 | 0.00 | 0.00 | 0.00 | 2.43 |
4212 | 5363 | 6.310956 | GGCACGATCATCAAATCAAATCAAAA | 59.689 | 34.615 | 0.00 | 0.00 | 0.00 | 2.44 |
4213 | 5364 | 5.806502 | GGCACGATCATCAAATCAAATCAAA | 59.193 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
4214 | 5365 | 5.342433 | GGCACGATCATCAAATCAAATCAA | 58.658 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
4215 | 5366 | 4.202040 | GGGCACGATCATCAAATCAAATCA | 60.202 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
4216 | 5367 | 4.293415 | GGGCACGATCATCAAATCAAATC | 58.707 | 43.478 | 0.00 | 0.00 | 0.00 | 2.17 |
4217 | 5368 | 3.243168 | CGGGCACGATCATCAAATCAAAT | 60.243 | 43.478 | 0.00 | 0.00 | 44.60 | 2.32 |
4240 | 5391 | 0.521735 | CGGGGAAAAGAAAAGAGCGG | 59.478 | 55.000 | 0.00 | 0.00 | 0.00 | 5.52 |
4283 | 5437 | 3.737172 | CTTTCTGCGCAACGGGGG | 61.737 | 66.667 | 13.05 | 0.00 | 0.00 | 5.40 |
4301 | 5456 | 2.235898 | GCACCTTGAGATTGACCTCTCT | 59.764 | 50.000 | 3.07 | 0.00 | 41.87 | 3.10 |
4360 | 5523 | 2.884012 | ACAGGCGAATGAATGAAACACA | 59.116 | 40.909 | 0.00 | 0.00 | 0.00 | 3.72 |
4398 | 5561 | 3.690460 | ACACCATGGACATTTCTTCCTC | 58.310 | 45.455 | 21.47 | 0.00 | 33.84 | 3.71 |
4422 | 5585 | 2.159170 | GGCAGCTGGTAAAACAACACAA | 60.159 | 45.455 | 17.12 | 0.00 | 0.00 | 3.33 |
4427 | 5590 | 2.356665 | TCAGGCAGCTGGTAAAACAA | 57.643 | 45.000 | 17.12 | 0.00 | 0.00 | 2.83 |
4438 | 5601 | 2.671070 | CGGGTACAAAATTTCAGGCAGC | 60.671 | 50.000 | 0.00 | 0.00 | 0.00 | 5.25 |
4441 | 5604 | 4.036380 | CCTATCGGGTACAAAATTTCAGGC | 59.964 | 45.833 | 0.00 | 0.00 | 0.00 | 4.85 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.