Multiple sequence alignment - TraesCS2D01G176200
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 | TraesCS2D01G176200 | chr2D | 100.000 | 9456 | 0 | 0 | 1 | 9456 | 119668936 | 119659481 | 0.000000e+00 | 17463 |
1 | TraesCS2D01G176200 | chr2A | 95.577 | 9428 | 256 | 54 | 4 | 9363 | 122015528 | 122006194 | 0.000000e+00 | 14951 |
2 | TraesCS2D01G176200 | chr2B | 97.126 | 4140 | 80 | 10 | 3531 | 7637 | 172000955 | 171996822 | 0.000000e+00 | 6950 |
3 | TraesCS2D01G176200 | chr2B | 89.175 | 3575 | 218 | 63 | 7 | 3530 | 172004463 | 172001007 | 0.000000e+00 | 4301 |
4 | TraesCS2D01G176200 | chr2B | 93.828 | 1280 | 41 | 24 | 7718 | 8972 | 171996791 | 171995525 | 0.000000e+00 | 1892 |
5 | TraesCS2D01G176200 | chr2B | 98.305 | 59 | 1 | 0 | 9398 | 9456 | 171995170 | 171995112 | 4.670000e-18 | 104 |
6 | TraesCS2D01G176200 | chr1D | 82.105 | 380 | 56 | 7 | 2563 | 2934 | 411173207 | 411172832 | 1.980000e-81 | 315 |
7 | TraesCS2D01G176200 | chr4D | 82.547 | 212 | 24 | 9 | 1173 | 1378 | 3860429 | 3860633 | 3.510000e-39 | 174 |
8 | TraesCS2D01G176200 | chr7D | 90.816 | 98 | 9 | 0 | 1281 | 1378 | 28527908 | 28528005 | 2.140000e-26 | 132 |
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 | TraesCS2D01G176200 | chr2D | 119659481 | 119668936 | 9455 | True | 17463.00 | 17463 | 100.0000 | 1 | 9456 | 1 | chr2D.!!$R1 | 9455 |
1 | TraesCS2D01G176200 | chr2A | 122006194 | 122015528 | 9334 | True | 14951.00 | 14951 | 95.5770 | 4 | 9363 | 1 | chr2A.!!$R1 | 9359 |
2 | TraesCS2D01G176200 | chr2B | 171995112 | 172004463 | 9351 | True | 3311.75 | 6950 | 94.6085 | 7 | 9456 | 4 | chr2B.!!$R1 | 9449 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
694 | 714 | 0.106217 | GGAGGAGAGACAGAGAGGGG | 60.106 | 65.000 | 0.00 | 0.0 | 0.00 | 4.79 | F |
1145 | 1181 | 1.079266 | GGCTGGCTGACTGACTCTG | 60.079 | 63.158 | 0.00 | 0.0 | 0.00 | 3.35 | F |
1147 | 1183 | 1.595882 | CTGGCTGACTGACTCTGGG | 59.404 | 63.158 | 0.00 | 0.0 | 0.00 | 4.45 | F |
2107 | 2144 | 2.595386 | GCTCATTTACCTTGTTTGCCG | 58.405 | 47.619 | 0.00 | 0.0 | 0.00 | 5.69 | F |
2122 | 2159 | 5.098893 | TGTTTGCCGGATAAAATTGATTCG | 58.901 | 37.500 | 5.05 | 0.0 | 0.00 | 3.34 | F |
3459 | 3521 | 5.235186 | CACCCATCGTGAAGTTATCAATCTC | 59.765 | 44.000 | 0.00 | 0.0 | 46.20 | 2.75 | F |
4568 | 4684 | 2.160205 | GGAGTTAACCAAGGACAAGGC | 58.840 | 52.381 | 0.88 | 0.0 | 0.00 | 4.35 | F |
4902 | 5021 | 1.130373 | TCAAATCGAAAGCCACATCGC | 59.870 | 47.619 | 0.00 | 0.0 | 38.87 | 4.58 | F |
6279 | 6398 | 1.298014 | AGCTACTGCAAGGGCTCAC | 59.702 | 57.895 | 1.80 | 0.0 | 41.84 | 3.51 | F |
7041 | 7160 | 1.651240 | ATGCATCTCAACAGCCACGC | 61.651 | 55.000 | 0.00 | 0.0 | 0.00 | 5.34 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1972 | 2009 | 1.562942 | TCCAGAAGGCAGAAGCATCAT | 59.437 | 47.619 | 0.00 | 0.0 | 44.61 | 2.45 | R |
2684 | 2740 | 1.699634 | ACCACAACACAGCCTACAGAT | 59.300 | 47.619 | 0.00 | 0.0 | 0.00 | 2.90 | R |
2736 | 2792 | 6.012858 | TGGATGGTTAAGATAGTTCAGGTTGT | 60.013 | 38.462 | 0.00 | 0.0 | 0.00 | 3.32 | R |
3376 | 3434 | 1.684248 | GCTTCCACCATCCAGCATCTT | 60.684 | 52.381 | 0.00 | 0.0 | 32.17 | 2.40 | R |
3492 | 3554 | 2.595380 | ACCCACCCTCCTAATTCCTAGA | 59.405 | 50.000 | 0.00 | 0.0 | 0.00 | 2.43 | R |
4575 | 4691 | 0.110056 | GCAACATGCTCTGACAACCG | 60.110 | 55.000 | 0.00 | 0.0 | 40.96 | 4.44 | R |
5782 | 5901 | 1.826385 | ACAGAGTACAGCATTTGGGC | 58.174 | 50.000 | 0.00 | 0.0 | 0.00 | 5.36 | R |
6747 | 6866 | 1.334689 | GCTTCCCGTGGAAAAGAAACG | 60.335 | 52.381 | 6.79 | 0.0 | 41.54 | 3.60 | R |
7841 | 7986 | 0.704664 | AGGGAGTTGGAATTGGGGAC | 59.295 | 55.000 | 0.00 | 0.0 | 0.00 | 4.46 | R |
8906 | 9084 | 0.252375 | GGGGCCCCATTATGCATCAT | 60.252 | 55.000 | 37.61 | 0.0 | 35.81 | 2.45 | 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 |
---|---|---|---|---|---|---|---|---|---|
101 | 102 | 0.761187 | ATCATGGCTGGCTACATCGT | 59.239 | 50.000 | 2.00 | 0.00 | 0.00 | 3.73 |
124 | 125 | 8.995220 | TCGTAGTACTAGTTTTCATGCAAAAAT | 58.005 | 29.630 | 1.87 | 1.12 | 35.68 | 1.82 |
181 | 189 | 2.285834 | GCTGACGCCGAAAGATATGTTG | 60.286 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
182 | 190 | 2.276201 | TGACGCCGAAAGATATGTTGG | 58.724 | 47.619 | 0.00 | 0.00 | 0.00 | 3.77 |
183 | 191 | 2.277084 | GACGCCGAAAGATATGTTGGT | 58.723 | 47.619 | 0.00 | 0.00 | 0.00 | 3.67 |
184 | 192 | 3.119065 | TGACGCCGAAAGATATGTTGGTA | 60.119 | 43.478 | 0.00 | 0.00 | 0.00 | 3.25 |
185 | 193 | 3.192466 | ACGCCGAAAGATATGTTGGTAC | 58.808 | 45.455 | 0.00 | 0.00 | 0.00 | 3.34 |
189 | 197 | 5.598769 | GCCGAAAGATATGTTGGTACTAGT | 58.401 | 41.667 | 0.00 | 0.00 | 0.00 | 2.57 |
309 | 320 | 9.295825 | TCAATAATTAAGACAGAACCAACACAT | 57.704 | 29.630 | 0.00 | 0.00 | 0.00 | 3.21 |
329 | 340 | 0.321671 | CCACCATCCTCGTGTCAGTT | 59.678 | 55.000 | 0.00 | 0.00 | 0.00 | 3.16 |
340 | 351 | 0.316196 | GTGTCAGTTGCAACGACAGC | 60.316 | 55.000 | 35.48 | 28.74 | 40.37 | 4.40 |
348 | 359 | 1.014044 | TGCAACGACAGCGATCCTTC | 61.014 | 55.000 | 0.00 | 0.00 | 41.64 | 3.46 |
352 | 363 | 0.888619 | ACGACAGCGATCCTTCTTCA | 59.111 | 50.000 | 0.00 | 0.00 | 41.64 | 3.02 |
381 | 392 | 4.346709 | TCCCTCCTCCAAAATTCAAAAACC | 59.653 | 41.667 | 0.00 | 0.00 | 0.00 | 3.27 |
397 | 408 | 1.566298 | AACCAGAGCCCCTCATCCAC | 61.566 | 60.000 | 0.00 | 0.00 | 32.06 | 4.02 |
403 | 414 | 1.201429 | AGCCCCTCATCCACTTTCGT | 61.201 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
561 | 578 | 7.166804 | GCAACAATCTCTCGTAATCTCTCTTAC | 59.833 | 40.741 | 0.00 | 0.00 | 0.00 | 2.34 |
562 | 579 | 8.402472 | CAACAATCTCTCGTAATCTCTCTTACT | 58.598 | 37.037 | 0.00 | 0.00 | 30.88 | 2.24 |
563 | 580 | 8.514330 | ACAATCTCTCGTAATCTCTCTTACTT | 57.486 | 34.615 | 0.00 | 0.00 | 30.88 | 2.24 |
564 | 581 | 9.616156 | ACAATCTCTCGTAATCTCTCTTACTTA | 57.384 | 33.333 | 0.00 | 0.00 | 30.88 | 2.24 |
591 | 608 | 1.679032 | CCTAAGCTCCCCCAAAACTCG | 60.679 | 57.143 | 0.00 | 0.00 | 0.00 | 4.18 |
625 | 642 | 0.845102 | AATCTCCCCGAAACACCCCT | 60.845 | 55.000 | 0.00 | 0.00 | 0.00 | 4.79 |
685 | 702 | 2.737039 | GCATTTCTCACGGAGGAGAGAC | 60.737 | 54.545 | 4.32 | 0.00 | 44.23 | 3.36 |
694 | 714 | 0.106217 | GGAGGAGAGACAGAGAGGGG | 60.106 | 65.000 | 0.00 | 0.00 | 0.00 | 4.79 |
735 | 755 | 1.675415 | CCAAACCAGCAGAGCTCTCTC | 60.675 | 57.143 | 14.96 | 8.89 | 36.40 | 3.20 |
1099 | 1135 | 4.129148 | GGGGATGCCTCGCCCTTT | 62.129 | 66.667 | 13.29 | 0.00 | 46.28 | 3.11 |
1144 | 1180 | 1.534959 | TGGCTGGCTGACTGACTCT | 60.535 | 57.895 | 2.00 | 0.00 | 0.00 | 3.24 |
1145 | 1181 | 1.079266 | GGCTGGCTGACTGACTCTG | 60.079 | 63.158 | 0.00 | 0.00 | 0.00 | 3.35 |
1147 | 1183 | 1.595882 | CTGGCTGACTGACTCTGGG | 59.404 | 63.158 | 0.00 | 0.00 | 0.00 | 4.45 |
1178 | 1214 | 4.057428 | GCGAGCTCGTGGTGTCCT | 62.057 | 66.667 | 34.46 | 0.00 | 42.22 | 3.85 |
1729 | 1766 | 3.244561 | ACACTCGTTCATCATGGGAAACT | 60.245 | 43.478 | 0.00 | 0.00 | 0.00 | 2.66 |
1730 | 1767 | 4.020573 | ACACTCGTTCATCATGGGAAACTA | 60.021 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
2107 | 2144 | 2.595386 | GCTCATTTACCTTGTTTGCCG | 58.405 | 47.619 | 0.00 | 0.00 | 0.00 | 5.69 |
2122 | 2159 | 5.098893 | TGTTTGCCGGATAAAATTGATTCG | 58.901 | 37.500 | 5.05 | 0.00 | 0.00 | 3.34 |
2132 | 2176 | 8.895845 | CGGATAAAATTGATTCGATTCACAATC | 58.104 | 33.333 | 9.43 | 8.14 | 32.84 | 2.67 |
2154 | 2198 | 9.878599 | CAATCAGTTTGTACTTTGTTAAGTAGG | 57.121 | 33.333 | 0.00 | 0.00 | 45.12 | 3.18 |
2281 | 2325 | 7.495934 | TCATGTTAGCTGCTTTCTATAACCTTC | 59.504 | 37.037 | 7.79 | 0.00 | 0.00 | 3.46 |
2401 | 2446 | 6.035975 | TCTGTGATTACATATCGTGCACTTTG | 59.964 | 38.462 | 16.19 | 9.19 | 35.97 | 2.77 |
2746 | 2802 | 6.887626 | TCACCCTTTTAATACAACCTGAAC | 57.112 | 37.500 | 0.00 | 0.00 | 0.00 | 3.18 |
3211 | 3268 | 7.147976 | GTGCTCAAGTTATCCTTTTTGACATT | 58.852 | 34.615 | 0.00 | 0.00 | 0.00 | 2.71 |
3437 | 3499 | 9.274206 | AGAACTCAAGTTTAGGAAATAACTCAC | 57.726 | 33.333 | 0.00 | 0.00 | 38.56 | 3.51 |
3438 | 3500 | 7.981102 | ACTCAAGTTTAGGAAATAACTCACC | 57.019 | 36.000 | 0.00 | 0.00 | 33.66 | 4.02 |
3441 | 3503 | 7.466804 | TCAAGTTTAGGAAATAACTCACCCAT | 58.533 | 34.615 | 0.00 | 0.00 | 33.66 | 4.00 |
3443 | 3505 | 6.113411 | AGTTTAGGAAATAACTCACCCATCG | 58.887 | 40.000 | 0.00 | 0.00 | 28.79 | 3.84 |
3459 | 3521 | 5.235186 | CACCCATCGTGAAGTTATCAATCTC | 59.765 | 44.000 | 0.00 | 0.00 | 46.20 | 2.75 |
3492 | 3554 | 3.584733 | AGTTTGCAGGAGAAGGTTCTT | 57.415 | 42.857 | 0.00 | 0.00 | 37.73 | 2.52 |
3493 | 3555 | 3.481453 | AGTTTGCAGGAGAAGGTTCTTC | 58.519 | 45.455 | 0.00 | 0.00 | 37.73 | 2.87 |
3520 | 3582 | 2.953093 | TAGGAGGGTGGGTCATGTTA | 57.047 | 50.000 | 0.00 | 0.00 | 0.00 | 2.41 |
3563 | 3676 | 5.236655 | TGATATCTTCTGTCACAGTCGTC | 57.763 | 43.478 | 4.28 | 0.00 | 32.61 | 4.20 |
3793 | 3909 | 4.526262 | AGACATGTCTATAGATGAGCCACC | 59.474 | 45.833 | 26.87 | 0.00 | 38.35 | 4.61 |
3865 | 3981 | 3.859961 | CCGCATACCGATAGATTAAGCAG | 59.140 | 47.826 | 0.00 | 0.00 | 40.02 | 4.24 |
3971 | 4087 | 3.476552 | AGAAAACGAAACTGATGCTCCA | 58.523 | 40.909 | 0.00 | 0.00 | 0.00 | 3.86 |
3972 | 4088 | 3.882888 | AGAAAACGAAACTGATGCTCCAA | 59.117 | 39.130 | 0.00 | 0.00 | 0.00 | 3.53 |
4160 | 4276 | 3.556213 | CGTCCATGGACAAGTTGGTAAGA | 60.556 | 47.826 | 37.42 | 0.57 | 44.77 | 2.10 |
4313 | 4429 | 3.959535 | AGAGCTGATAAGGATGCTAGC | 57.040 | 47.619 | 8.10 | 8.10 | 35.76 | 3.42 |
4361 | 4477 | 2.557317 | TCTTGGTCACGTCAAAAGGAC | 58.443 | 47.619 | 0.00 | 0.00 | 43.36 | 3.85 |
4419 | 4535 | 5.390991 | GCTTCTTCGTCCTCAACCTTTAATG | 60.391 | 44.000 | 0.00 | 0.00 | 0.00 | 1.90 |
4455 | 4571 | 5.132502 | CCTCATTATCAGCCATTGTTACCA | 58.867 | 41.667 | 0.00 | 0.00 | 0.00 | 3.25 |
4568 | 4684 | 2.160205 | GGAGTTAACCAAGGACAAGGC | 58.840 | 52.381 | 0.88 | 0.00 | 0.00 | 4.35 |
4575 | 4691 | 1.507141 | CCAAGGACAAGGCGACACAC | 61.507 | 60.000 | 0.00 | 0.00 | 0.00 | 3.82 |
4666 | 4782 | 3.660501 | GGAAGCTTTCCCGAAACATTT | 57.339 | 42.857 | 0.00 | 0.00 | 44.30 | 2.32 |
4877 | 4996 | 1.746787 | GGGAAAACGTCAAGTGGTGTT | 59.253 | 47.619 | 0.00 | 0.00 | 0.00 | 3.32 |
4889 | 5008 | 4.452114 | TCAAGTGGTGTTGATCTCAAATCG | 59.548 | 41.667 | 0.00 | 0.00 | 37.63 | 3.34 |
4901 | 5020 | 2.672874 | TCTCAAATCGAAAGCCACATCG | 59.327 | 45.455 | 0.00 | 0.00 | 40.31 | 3.84 |
4902 | 5021 | 1.130373 | TCAAATCGAAAGCCACATCGC | 59.870 | 47.619 | 0.00 | 0.00 | 38.87 | 4.58 |
5059 | 5178 | 4.263905 | TGGGTCTGAAATACTGCCTCAATT | 60.264 | 41.667 | 0.00 | 0.00 | 0.00 | 2.32 |
5327 | 5446 | 3.361281 | ACAGATGCACAGGTTGATGAT | 57.639 | 42.857 | 0.00 | 0.00 | 0.00 | 2.45 |
5724 | 5843 | 7.437748 | AGATTCTACATGGATTAGTGCTGTAC | 58.562 | 38.462 | 0.00 | 0.00 | 0.00 | 2.90 |
5725 | 5844 | 6.791867 | TTCTACATGGATTAGTGCTGTACT | 57.208 | 37.500 | 3.41 | 3.41 | 43.56 | 2.73 |
5726 | 5845 | 6.791867 | TCTACATGGATTAGTGCTGTACTT | 57.208 | 37.500 | 3.17 | 0.00 | 40.89 | 2.24 |
6153 | 6272 | 1.544691 | TCGTCAAGAGCTGTAAGACCC | 59.455 | 52.381 | 9.78 | 0.00 | 34.07 | 4.46 |
6279 | 6398 | 1.298014 | AGCTACTGCAAGGGCTCAC | 59.702 | 57.895 | 1.80 | 0.00 | 41.84 | 3.51 |
6747 | 6866 | 1.672881 | CCAGGATCAGAAAATGGCGAC | 59.327 | 52.381 | 0.00 | 0.00 | 0.00 | 5.19 |
7041 | 7160 | 1.651240 | ATGCATCTCAACAGCCACGC | 61.651 | 55.000 | 0.00 | 0.00 | 0.00 | 5.34 |
7322 | 7441 | 9.985318 | GCATGCTATTTCAAGTATCATATCTTC | 57.015 | 33.333 | 11.37 | 0.00 | 0.00 | 2.87 |
7408 | 7527 | 2.187958 | TGTCCCCCATGACAACTAGAG | 58.812 | 52.381 | 0.00 | 0.00 | 42.06 | 2.43 |
7461 | 7580 | 4.933400 | TCCAACGCTTCTTTCCATACTTAC | 59.067 | 41.667 | 0.00 | 0.00 | 0.00 | 2.34 |
7520 | 7665 | 7.098477 | TCATGTTTCCAGATAAAAGCAAATGG | 58.902 | 34.615 | 0.00 | 0.00 | 0.00 | 3.16 |
7639 | 7784 | 7.094933 | ACCAGATAAATTAAAGTGACGGTGAAC | 60.095 | 37.037 | 0.00 | 0.00 | 0.00 | 3.18 |
7640 | 7785 | 7.119262 | CCAGATAAATTAAAGTGACGGTGAACT | 59.881 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
7661 | 7806 | 8.372459 | TGAACTAGTTACTTTATCCTTGCTGAA | 58.628 | 33.333 | 8.42 | 0.00 | 0.00 | 3.02 |
7721 | 7866 | 7.105241 | AGCCTTGGAATCAATTGTTTCTATC | 57.895 | 36.000 | 22.37 | 11.17 | 31.75 | 2.08 |
7722 | 7867 | 6.097412 | AGCCTTGGAATCAATTGTTTCTATCC | 59.903 | 38.462 | 22.37 | 11.75 | 31.75 | 2.59 |
7723 | 7868 | 6.097412 | GCCTTGGAATCAATTGTTTCTATCCT | 59.903 | 38.462 | 22.37 | 0.00 | 31.75 | 3.24 |
7724 | 7869 | 7.364144 | GCCTTGGAATCAATTGTTTCTATCCTT | 60.364 | 37.037 | 22.37 | 0.00 | 31.75 | 3.36 |
7725 | 7870 | 7.977853 | CCTTGGAATCAATTGTTTCTATCCTTG | 59.022 | 37.037 | 22.37 | 8.80 | 31.75 | 3.61 |
7726 | 7871 | 7.408756 | TGGAATCAATTGTTTCTATCCTTGG | 57.591 | 36.000 | 22.37 | 0.00 | 0.00 | 3.61 |
7727 | 7872 | 7.181361 | TGGAATCAATTGTTTCTATCCTTGGA | 58.819 | 34.615 | 22.37 | 0.00 | 0.00 | 3.53 |
7728 | 7873 | 7.673504 | TGGAATCAATTGTTTCTATCCTTGGAA | 59.326 | 33.333 | 22.37 | 0.00 | 0.00 | 3.53 |
7729 | 7874 | 8.699130 | GGAATCAATTGTTTCTATCCTTGGAAT | 58.301 | 33.333 | 22.37 | 0.00 | 0.00 | 3.01 |
7730 | 7875 | 9.741647 | GAATCAATTGTTTCTATCCTTGGAATC | 57.258 | 33.333 | 18.08 | 0.00 | 0.00 | 2.52 |
7731 | 7876 | 8.827832 | ATCAATTGTTTCTATCCTTGGAATCA | 57.172 | 30.769 | 5.13 | 0.00 | 0.00 | 2.57 |
7732 | 7877 | 8.648698 | TCAATTGTTTCTATCCTTGGAATCAA | 57.351 | 30.769 | 5.13 | 0.00 | 36.83 | 2.57 |
7733 | 7878 | 9.258629 | TCAATTGTTTCTATCCTTGGAATCAAT | 57.741 | 29.630 | 5.13 | 0.00 | 41.06 | 2.57 |
7734 | 7879 | 9.880157 | CAATTGTTTCTATCCTTGGAATCAATT | 57.120 | 29.630 | 13.94 | 13.94 | 44.70 | 2.32 |
7735 | 7880 | 9.880157 | AATTGTTTCTATCCTTGGAATCAATTG | 57.120 | 29.630 | 16.75 | 0.00 | 43.56 | 2.32 |
7736 | 7881 | 6.866480 | TGTTTCTATCCTTGGAATCAATTGC | 58.134 | 36.000 | 0.00 | 0.00 | 31.75 | 3.56 |
7737 | 7882 | 6.664816 | TGTTTCTATCCTTGGAATCAATTGCT | 59.335 | 34.615 | 0.00 | 0.00 | 31.75 | 3.91 |
7738 | 7883 | 7.178983 | TGTTTCTATCCTTGGAATCAATTGCTT | 59.821 | 33.333 | 0.00 | 0.00 | 31.75 | 3.91 |
7739 | 7884 | 6.949352 | TCTATCCTTGGAATCAATTGCTTC | 57.051 | 37.500 | 12.58 | 12.58 | 31.75 | 3.86 |
7740 | 7885 | 6.666678 | TCTATCCTTGGAATCAATTGCTTCT | 58.333 | 36.000 | 18.64 | 3.88 | 31.75 | 2.85 |
7741 | 7886 | 7.805163 | TCTATCCTTGGAATCAATTGCTTCTA | 58.195 | 34.615 | 18.64 | 12.00 | 31.75 | 2.10 |
7742 | 7887 | 8.443176 | TCTATCCTTGGAATCAATTGCTTCTAT | 58.557 | 33.333 | 18.64 | 9.40 | 31.75 | 1.98 |
7841 | 7986 | 9.447040 | CTCTTTGCACTGATCATATTTATGTTG | 57.553 | 33.333 | 0.00 | 0.00 | 35.26 | 3.33 |
8006 | 8151 | 9.301153 | GTTTTGTGTATGGGAATGATACATTTC | 57.699 | 33.333 | 0.00 | 0.00 | 38.30 | 2.17 |
8059 | 8204 | 5.690857 | ACTTTTGAGTCTTAAGCTGTACGTC | 59.309 | 40.000 | 0.00 | 0.00 | 0.00 | 4.34 |
8290 | 8466 | 4.640201 | GCTGCTCAATTAGAACATAACCCA | 59.360 | 41.667 | 0.00 | 0.00 | 0.00 | 4.51 |
8296 | 8472 | 7.283127 | GCTCAATTAGAACATAACCCATGAAGA | 59.717 | 37.037 | 0.00 | 0.00 | 38.10 | 2.87 |
8301 | 8477 | 5.440610 | AGAACATAACCCATGAAGATGACC | 58.559 | 41.667 | 0.00 | 0.00 | 38.10 | 4.02 |
8525 | 8702 | 8.575649 | AGGTAAAGATATCAAATTTTCACGGT | 57.424 | 30.769 | 5.32 | 0.00 | 0.00 | 4.83 |
8682 | 8860 | 4.994282 | TGTGTAGAGTTGGACTCCTAGAA | 58.006 | 43.478 | 4.56 | 0.00 | 46.18 | 2.10 |
8683 | 8861 | 4.765856 | TGTGTAGAGTTGGACTCCTAGAAC | 59.234 | 45.833 | 4.56 | 0.00 | 46.18 | 3.01 |
8797 | 8975 | 7.028361 | TGTTTCGTCGTTCACACACATATATA | 58.972 | 34.615 | 0.00 | 0.00 | 0.00 | 0.86 |
8798 | 8976 | 7.703197 | TGTTTCGTCGTTCACACACATATATAT | 59.297 | 33.333 | 0.00 | 0.00 | 0.00 | 0.86 |
8906 | 9084 | 3.621268 | GCATTTCTTGTACAGGCGACATA | 59.379 | 43.478 | 0.00 | 0.00 | 0.00 | 2.29 |
8995 | 9298 | 0.991146 | ATTTGGAATGTTTGGGGCCC | 59.009 | 50.000 | 18.17 | 18.17 | 0.00 | 5.80 |
9050 | 9353 | 2.674796 | AACGAGTTGTATCCTCTGCC | 57.325 | 50.000 | 0.00 | 0.00 | 0.00 | 4.85 |
9107 | 9438 | 1.210478 | GGGGTGAATTGCTCTGCTCTA | 59.790 | 52.381 | 0.00 | 0.00 | 0.00 | 2.43 |
9171 | 9519 | 2.154462 | CCAGTCCGTGCTCTTTCAAAT | 58.846 | 47.619 | 0.00 | 0.00 | 0.00 | 2.32 |
9178 | 9526 | 2.662791 | CGTGCTCTTTCAAATGACCACG | 60.663 | 50.000 | 10.25 | 10.25 | 36.51 | 4.94 |
9207 | 9555 | 3.756434 | TCAAAATTGTGACGGGATTCTCC | 59.244 | 43.478 | 0.00 | 0.00 | 35.23 | 3.71 |
9220 | 9568 | 4.217767 | CGGGATTCTCCGTTCAGATATACA | 59.782 | 45.833 | 5.67 | 0.00 | 44.60 | 2.29 |
9221 | 9569 | 5.278808 | CGGGATTCTCCGTTCAGATATACAA | 60.279 | 44.000 | 5.67 | 0.00 | 44.60 | 2.41 |
9222 | 9570 | 6.159988 | GGGATTCTCCGTTCAGATATACAAG | 58.840 | 44.000 | 0.00 | 0.00 | 37.43 | 3.16 |
9223 | 9571 | 6.239345 | GGGATTCTCCGTTCAGATATACAAGT | 60.239 | 42.308 | 0.00 | 0.00 | 37.43 | 3.16 |
9224 | 9572 | 6.864165 | GGATTCTCCGTTCAGATATACAAGTC | 59.136 | 42.308 | 0.00 | 0.00 | 0.00 | 3.01 |
9225 | 9573 | 5.419760 | TCTCCGTTCAGATATACAAGTCG | 57.580 | 43.478 | 0.00 | 0.00 | 0.00 | 4.18 |
9226 | 9574 | 4.880120 | TCTCCGTTCAGATATACAAGTCGT | 59.120 | 41.667 | 0.00 | 0.00 | 0.00 | 4.34 |
9227 | 9575 | 6.051074 | TCTCCGTTCAGATATACAAGTCGTA | 58.949 | 40.000 | 0.00 | 0.00 | 0.00 | 3.43 |
9228 | 9576 | 6.709397 | TCTCCGTTCAGATATACAAGTCGTAT | 59.291 | 38.462 | 0.00 | 0.00 | 43.45 | 3.06 |
9229 | 9577 | 7.228108 | TCTCCGTTCAGATATACAAGTCGTATT | 59.772 | 37.037 | 0.00 | 0.00 | 41.25 | 1.89 |
9230 | 9578 | 7.709947 | TCCGTTCAGATATACAAGTCGTATTT | 58.290 | 34.615 | 0.00 | 0.00 | 41.25 | 1.40 |
9231 | 9579 | 7.646526 | TCCGTTCAGATATACAAGTCGTATTTG | 59.353 | 37.037 | 0.00 | 0.00 | 41.25 | 2.32 |
9232 | 9580 | 7.646526 | CCGTTCAGATATACAAGTCGTATTTGA | 59.353 | 37.037 | 0.00 | 0.00 | 41.25 | 2.69 |
9233 | 9581 | 8.469902 | CGTTCAGATATACAAGTCGTATTTGAC | 58.530 | 37.037 | 0.00 | 0.00 | 41.25 | 3.18 |
9234 | 9582 | 8.753175 | GTTCAGATATACAAGTCGTATTTGACC | 58.247 | 37.037 | 0.00 | 0.00 | 41.25 | 4.02 |
9235 | 9583 | 7.136772 | TCAGATATACAAGTCGTATTTGACCG | 58.863 | 38.462 | 0.00 | 0.00 | 41.25 | 4.79 |
9256 | 9604 | 2.716217 | CCCCAGGTTCAGTCTTTGATC | 58.284 | 52.381 | 0.00 | 0.00 | 35.27 | 2.92 |
9280 | 9628 | 8.667987 | TCGTGTATTTCTTGTGCAAATATTTC | 57.332 | 30.769 | 0.00 | 0.00 | 30.33 | 2.17 |
9307 | 9655 | 9.632807 | GTTAATACTTGCAAATCACAACCATAA | 57.367 | 29.630 | 0.00 | 0.00 | 0.00 | 1.90 |
9319 | 9667 | 4.220382 | TCACAACCATAAGGGAAATGCTTG | 59.780 | 41.667 | 0.00 | 0.00 | 41.15 | 4.01 |
9333 | 9682 | 1.236616 | TGCTTGTGCATCTGAACGGG | 61.237 | 55.000 | 0.00 | 0.00 | 45.31 | 5.28 |
9343 | 9692 | 0.756294 | TCTGAACGGGAAGTGCAAGA | 59.244 | 50.000 | 0.00 | 0.00 | 38.09 | 3.02 |
9347 | 9696 | 1.673920 | GAACGGGAAGTGCAAGAACAA | 59.326 | 47.619 | 0.00 | 0.00 | 0.00 | 2.83 |
9363 | 9712 | 6.238157 | GCAAGAACAATCAATTTGCAAACAGA | 60.238 | 34.615 | 15.41 | 15.33 | 42.63 | 3.41 |
9364 | 9713 | 6.833342 | AGAACAATCAATTTGCAAACAGAC | 57.167 | 33.333 | 15.41 | 3.48 | 39.03 | 3.51 |
9365 | 9714 | 6.339730 | AGAACAATCAATTTGCAAACAGACA | 58.660 | 32.000 | 15.41 | 0.00 | 39.03 | 3.41 |
9366 | 9715 | 6.477688 | AGAACAATCAATTTGCAAACAGACAG | 59.522 | 34.615 | 15.41 | 12.79 | 39.03 | 3.51 |
9367 | 9716 | 5.904941 | ACAATCAATTTGCAAACAGACAGA | 58.095 | 33.333 | 15.41 | 6.75 | 39.03 | 3.41 |
9368 | 9717 | 5.981315 | ACAATCAATTTGCAAACAGACAGAG | 59.019 | 36.000 | 15.41 | 8.49 | 39.03 | 3.35 |
9369 | 9718 | 4.572985 | TCAATTTGCAAACAGACAGAGG | 57.427 | 40.909 | 15.41 | 0.00 | 0.00 | 3.69 |
9370 | 9719 | 3.318839 | TCAATTTGCAAACAGACAGAGGG | 59.681 | 43.478 | 15.41 | 0.00 | 0.00 | 4.30 |
9371 | 9720 | 1.691196 | TTTGCAAACAGACAGAGGGG | 58.309 | 50.000 | 8.05 | 0.00 | 0.00 | 4.79 |
9372 | 9721 | 0.550914 | TTGCAAACAGACAGAGGGGT | 59.449 | 50.000 | 0.00 | 0.00 | 0.00 | 4.95 |
9373 | 9722 | 0.179020 | TGCAAACAGACAGAGGGGTG | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 4.61 |
9374 | 9723 | 0.890996 | GCAAACAGACAGAGGGGTGG | 60.891 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
9375 | 9724 | 0.250901 | CAAACAGACAGAGGGGTGGG | 60.251 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
9376 | 9725 | 1.427072 | AAACAGACAGAGGGGTGGGG | 61.427 | 60.000 | 0.00 | 0.00 | 0.00 | 4.96 |
9377 | 9726 | 3.011517 | CAGACAGAGGGGTGGGGG | 61.012 | 72.222 | 0.00 | 0.00 | 0.00 | 5.40 |
9401 | 9750 | 5.452216 | GGGGCTAAAATTGTATTTTACCCGG | 60.452 | 44.000 | 20.86 | 0.00 | 36.79 | 5.73 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
143 | 151 | 2.608090 | TCAGCGAGTCAGTAGTACGATG | 59.392 | 50.000 | 0.00 | 0.00 | 40.74 | 3.84 |
181 | 189 | 9.801873 | TGGACATAAACGTTATTTACTAGTACC | 57.198 | 33.333 | 0.00 | 0.00 | 0.00 | 3.34 |
184 | 192 | 9.933723 | AACTGGACATAAACGTTATTTACTAGT | 57.066 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
189 | 197 | 7.621841 | GCGACAACTGGACATAAACGTTATTTA | 60.622 | 37.037 | 0.00 | 0.00 | 0.00 | 1.40 |
203 | 211 | 3.000080 | CTTCGCGCGACAACTGGAC | 62.000 | 63.158 | 35.02 | 0.00 | 0.00 | 4.02 |
298 | 309 | 1.818674 | GGATGGTGGATGTGTTGGTTC | 59.181 | 52.381 | 0.00 | 0.00 | 0.00 | 3.62 |
301 | 312 | 1.755179 | GAGGATGGTGGATGTGTTGG | 58.245 | 55.000 | 0.00 | 0.00 | 0.00 | 3.77 |
329 | 340 | 1.005037 | AAGGATCGCTGTCGTTGCA | 60.005 | 52.632 | 0.00 | 0.00 | 36.96 | 4.08 |
381 | 392 | 0.622665 | AAAGTGGATGAGGGGCTCTG | 59.377 | 55.000 | 0.00 | 0.00 | 0.00 | 3.35 |
397 | 408 | 3.795488 | GCCCCTCAACAGAAAAACGAAAG | 60.795 | 47.826 | 0.00 | 0.00 | 0.00 | 2.62 |
403 | 414 | 3.677424 | CGTTTTGCCCCTCAACAGAAAAA | 60.677 | 43.478 | 0.00 | 0.00 | 33.73 | 1.94 |
561 | 578 | 2.484889 | GGGAGCTTAGGCGTGATTAAG | 58.515 | 52.381 | 0.00 | 0.00 | 44.37 | 1.85 |
562 | 579 | 1.140252 | GGGGAGCTTAGGCGTGATTAA | 59.860 | 52.381 | 0.00 | 0.00 | 44.37 | 1.40 |
563 | 580 | 0.756903 | GGGGAGCTTAGGCGTGATTA | 59.243 | 55.000 | 0.00 | 0.00 | 44.37 | 1.75 |
564 | 581 | 1.527370 | GGGGAGCTTAGGCGTGATT | 59.473 | 57.895 | 0.00 | 0.00 | 44.37 | 2.57 |
591 | 608 | 0.972883 | AGATTAGCGGCCCTGATCTC | 59.027 | 55.000 | 17.43 | 1.45 | 41.57 | 2.75 |
685 | 702 | 1.286553 | AGACTGGTACTCCCCTCTCTG | 59.713 | 57.143 | 0.00 | 0.00 | 0.00 | 3.35 |
694 | 714 | 1.107945 | GGAGCTGGAGACTGGTACTC | 58.892 | 60.000 | 0.00 | 0.00 | 40.30 | 2.59 |
735 | 755 | 2.372172 | GGGGAGAGGACTAGAGAGAGAG | 59.628 | 59.091 | 0.00 | 0.00 | 0.00 | 3.20 |
736 | 756 | 2.414612 | GGGGAGAGGACTAGAGAGAGA | 58.585 | 57.143 | 0.00 | 0.00 | 0.00 | 3.10 |
1341 | 1377 | 2.362736 | CCGCATAAGCCATATCAGCAT | 58.637 | 47.619 | 0.00 | 0.00 | 37.52 | 3.79 |
1566 | 1602 | 5.050644 | CATAACATGCTGAAAGAACTGCA | 57.949 | 39.130 | 0.00 | 0.00 | 45.48 | 4.41 |
1729 | 1766 | 7.672660 | TGAGTAACTCCAGTTAAGATGGACTTA | 59.327 | 37.037 | 5.41 | 5.40 | 41.96 | 2.24 |
1730 | 1767 | 6.497259 | TGAGTAACTCCAGTTAAGATGGACTT | 59.503 | 38.462 | 5.41 | 6.17 | 41.96 | 3.01 |
1771 | 1808 | 2.777832 | ACAATCTCTTGCTCCTGGAC | 57.222 | 50.000 | 0.00 | 0.00 | 35.69 | 4.02 |
1972 | 2009 | 1.562942 | TCCAGAAGGCAGAAGCATCAT | 59.437 | 47.619 | 0.00 | 0.00 | 44.61 | 2.45 |
2107 | 2144 | 9.734620 | TGATTGTGAATCGAATCAATTTTATCC | 57.265 | 29.630 | 4.38 | 0.00 | 40.84 | 2.59 |
2281 | 2325 | 2.030893 | TCTGCACTCTGAATTTTTGCGG | 60.031 | 45.455 | 0.00 | 0.00 | 40.32 | 5.69 |
2401 | 2446 | 3.437049 | GGAAGGCAGAAATATATCCACGC | 59.563 | 47.826 | 0.00 | 0.00 | 0.00 | 5.34 |
2684 | 2740 | 1.699634 | ACCACAACACAGCCTACAGAT | 59.300 | 47.619 | 0.00 | 0.00 | 0.00 | 2.90 |
2736 | 2792 | 6.012858 | TGGATGGTTAAGATAGTTCAGGTTGT | 60.013 | 38.462 | 0.00 | 0.00 | 0.00 | 3.32 |
2990 | 3047 | 8.082852 | CGAGTAATACCCATATGCCTATATGAC | 58.917 | 40.741 | 8.46 | 0.00 | 45.92 | 3.06 |
3001 | 3058 | 7.070821 | ACCAAGACTTTCGAGTAATACCCATAT | 59.929 | 37.037 | 0.00 | 0.00 | 0.00 | 1.78 |
3249 | 3306 | 9.424319 | CAGTGATAAACTTTCTCTTTACAGCTA | 57.576 | 33.333 | 0.00 | 0.00 | 36.83 | 3.32 |
3376 | 3434 | 1.684248 | GCTTCCACCATCCAGCATCTT | 60.684 | 52.381 | 0.00 | 0.00 | 32.17 | 2.40 |
3437 | 3499 | 4.445718 | CGAGATTGATAACTTCACGATGGG | 59.554 | 45.833 | 0.00 | 0.00 | 32.84 | 4.00 |
3438 | 3500 | 5.281727 | TCGAGATTGATAACTTCACGATGG | 58.718 | 41.667 | 0.00 | 0.00 | 32.84 | 3.51 |
3441 | 3503 | 7.201522 | CCAATTTCGAGATTGATAACTTCACGA | 60.202 | 37.037 | 25.64 | 0.00 | 38.93 | 4.35 |
3443 | 3505 | 7.065803 | TCCCAATTTCGAGATTGATAACTTCAC | 59.934 | 37.037 | 25.64 | 0.00 | 38.93 | 3.18 |
3455 | 3517 | 5.221422 | TGCAAACTTTTCCCAATTTCGAGAT | 60.221 | 36.000 | 0.00 | 0.00 | 0.00 | 2.75 |
3459 | 3521 | 3.494251 | CCTGCAAACTTTTCCCAATTTCG | 59.506 | 43.478 | 0.00 | 0.00 | 0.00 | 3.46 |
3492 | 3554 | 2.595380 | ACCCACCCTCCTAATTCCTAGA | 59.405 | 50.000 | 0.00 | 0.00 | 0.00 | 2.43 |
3493 | 3555 | 2.973406 | GACCCACCCTCCTAATTCCTAG | 59.027 | 54.545 | 0.00 | 0.00 | 0.00 | 3.02 |
3520 | 3582 | 4.823442 | TCATATCTCAATGCGCTCCAATTT | 59.177 | 37.500 | 9.73 | 0.00 | 0.00 | 1.82 |
3584 | 3697 | 3.508793 | ACACCATTCATCAAGAAAGGCAG | 59.491 | 43.478 | 0.00 | 0.00 | 46.56 | 4.85 |
3865 | 3981 | 3.981211 | ACATCAACTGAATGTTGGTTGC | 58.019 | 40.909 | 8.39 | 0.00 | 46.94 | 4.17 |
4160 | 4276 | 0.107456 | CACTGACACTGCTCCACCTT | 59.893 | 55.000 | 0.00 | 0.00 | 0.00 | 3.50 |
4313 | 4429 | 0.613260 | TGTCTGGATTCTTCACCCCG | 59.387 | 55.000 | 0.00 | 0.00 | 0.00 | 5.73 |
4361 | 4477 | 0.609131 | AATCCTTGGGCTTGTCACCG | 60.609 | 55.000 | 0.00 | 0.00 | 0.00 | 4.94 |
4419 | 4535 | 4.284490 | TGATAATGAGGGTGGAGATGTAGC | 59.716 | 45.833 | 0.00 | 0.00 | 0.00 | 3.58 |
4455 | 4571 | 1.423161 | AGTCTGCTTTTCAGGAGCCTT | 59.577 | 47.619 | 0.00 | 0.00 | 43.06 | 4.35 |
4575 | 4691 | 0.110056 | GCAACATGCTCTGACAACCG | 60.110 | 55.000 | 0.00 | 0.00 | 40.96 | 4.44 |
4666 | 4782 | 9.653287 | CTGACAATGGACTAGTTAAAGTATCAA | 57.347 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
4877 | 4996 | 3.673902 | TGTGGCTTTCGATTTGAGATCA | 58.326 | 40.909 | 0.00 | 0.00 | 0.00 | 2.92 |
4889 | 5008 | 1.267732 | CGAGAATGCGATGTGGCTTTC | 60.268 | 52.381 | 7.30 | 7.30 | 43.52 | 2.62 |
4901 | 5020 | 3.248602 | CCCTAACATTAGTGCGAGAATGC | 59.751 | 47.826 | 4.65 | 0.00 | 36.67 | 3.56 |
4902 | 5021 | 3.809832 | CCCCTAACATTAGTGCGAGAATG | 59.190 | 47.826 | 0.00 | 3.48 | 38.70 | 2.67 |
5059 | 5178 | 2.632996 | CCCTGGCGACTAGAATAATCCA | 59.367 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
5262 | 5381 | 4.545610 | GTTAGCTTGTGTGCAGCAAATAA | 58.454 | 39.130 | 0.00 | 0.00 | 34.99 | 1.40 |
5327 | 5446 | 6.071165 | GCTTTACCTCACTTAACCTAGGTGTA | 60.071 | 42.308 | 17.14 | 7.77 | 42.31 | 2.90 |
5782 | 5901 | 1.826385 | ACAGAGTACAGCATTTGGGC | 58.174 | 50.000 | 0.00 | 0.00 | 0.00 | 5.36 |
6279 | 6398 | 2.960384 | ACTACGGGAAAAACCTTTTGGG | 59.040 | 45.455 | 0.00 | 0.00 | 46.08 | 4.12 |
6334 | 6453 | 4.726317 | TGACCCCCTTGATTGATCTTGATA | 59.274 | 41.667 | 0.00 | 0.00 | 0.00 | 2.15 |
6747 | 6866 | 1.334689 | GCTTCCCGTGGAAAAGAAACG | 60.335 | 52.381 | 6.79 | 0.00 | 41.54 | 3.60 |
7384 | 7503 | 3.920817 | TGTCATGGGGGACAAGCT | 58.079 | 55.556 | 0.00 | 0.00 | 44.34 | 3.74 |
7485 | 7604 | 2.821969 | CTGGAAACATGAAGGACCCTTG | 59.178 | 50.000 | 5.96 | 0.00 | 41.51 | 3.61 |
7486 | 7605 | 2.716424 | TCTGGAAACATGAAGGACCCTT | 59.284 | 45.455 | 0.00 | 0.04 | 41.51 | 3.95 |
7520 | 7665 | 7.253750 | CAAATAGTTTGACTTCACACAAAGTGC | 60.254 | 37.037 | 0.00 | 0.00 | 44.37 | 4.40 |
7639 | 7784 | 8.178313 | GCTTTTCAGCAAGGATAAAGTAACTAG | 58.822 | 37.037 | 0.00 | 0.00 | 46.49 | 2.57 |
7640 | 7785 | 8.040716 | GCTTTTCAGCAAGGATAAAGTAACTA | 57.959 | 34.615 | 0.00 | 0.00 | 46.49 | 2.24 |
7698 | 7843 | 6.097412 | AGGATAGAAACAATTGATTCCAAGGC | 59.903 | 38.462 | 20.98 | 9.29 | 35.48 | 4.35 |
7721 | 7866 | 6.771749 | AGAGATAGAAGCAATTGATTCCAAGG | 59.228 | 38.462 | 27.97 | 0.00 | 41.02 | 3.61 |
7722 | 7867 | 7.804843 | AGAGATAGAAGCAATTGATTCCAAG | 57.195 | 36.000 | 27.97 | 0.00 | 41.02 | 3.61 |
7723 | 7868 | 7.830697 | TCAAGAGATAGAAGCAATTGATTCCAA | 59.169 | 33.333 | 27.97 | 18.98 | 41.02 | 3.53 |
7724 | 7869 | 7.281774 | GTCAAGAGATAGAAGCAATTGATTCCA | 59.718 | 37.037 | 27.97 | 18.41 | 41.02 | 3.53 |
7725 | 7870 | 7.281774 | TGTCAAGAGATAGAAGCAATTGATTCC | 59.718 | 37.037 | 27.97 | 15.74 | 41.02 | 3.01 |
7726 | 7871 | 8.206325 | TGTCAAGAGATAGAAGCAATTGATTC | 57.794 | 34.615 | 25.27 | 25.27 | 40.47 | 2.52 |
7727 | 7872 | 8.622157 | CATGTCAAGAGATAGAAGCAATTGATT | 58.378 | 33.333 | 9.03 | 9.03 | 0.00 | 2.57 |
7728 | 7873 | 7.991460 | TCATGTCAAGAGATAGAAGCAATTGAT | 59.009 | 33.333 | 10.34 | 0.00 | 0.00 | 2.57 |
7729 | 7874 | 7.333323 | TCATGTCAAGAGATAGAAGCAATTGA | 58.667 | 34.615 | 10.34 | 0.00 | 0.00 | 2.57 |
7730 | 7875 | 7.549615 | TCATGTCAAGAGATAGAAGCAATTG | 57.450 | 36.000 | 0.00 | 0.00 | 0.00 | 2.32 |
7731 | 7876 | 8.622157 | CATTCATGTCAAGAGATAGAAGCAATT | 58.378 | 33.333 | 0.00 | 0.00 | 0.00 | 2.32 |
7732 | 7877 | 7.774157 | ACATTCATGTCAAGAGATAGAAGCAAT | 59.226 | 33.333 | 0.00 | 0.00 | 35.87 | 3.56 |
7733 | 7878 | 7.108194 | ACATTCATGTCAAGAGATAGAAGCAA | 58.892 | 34.615 | 0.00 | 0.00 | 35.87 | 3.91 |
7734 | 7879 | 6.647229 | ACATTCATGTCAAGAGATAGAAGCA | 58.353 | 36.000 | 0.00 | 0.00 | 35.87 | 3.91 |
7735 | 7880 | 8.830201 | ATACATTCATGTCAAGAGATAGAAGC | 57.170 | 34.615 | 0.00 | 0.00 | 41.97 | 3.86 |
7736 | 7881 | 9.127006 | CGATACATTCATGTCAAGAGATAGAAG | 57.873 | 37.037 | 0.00 | 0.00 | 41.97 | 2.85 |
7737 | 7882 | 8.633561 | ACGATACATTCATGTCAAGAGATAGAA | 58.366 | 33.333 | 0.00 | 0.00 | 41.97 | 2.10 |
7738 | 7883 | 8.171164 | ACGATACATTCATGTCAAGAGATAGA | 57.829 | 34.615 | 0.00 | 0.00 | 41.97 | 1.98 |
7739 | 7884 | 8.809159 | AACGATACATTCATGTCAAGAGATAG | 57.191 | 34.615 | 0.00 | 0.00 | 41.97 | 2.08 |
7740 | 7885 | 9.034544 | CAAACGATACATTCATGTCAAGAGATA | 57.965 | 33.333 | 0.00 | 0.00 | 41.97 | 1.98 |
7741 | 7886 | 7.466455 | GCAAACGATACATTCATGTCAAGAGAT | 60.466 | 37.037 | 0.00 | 0.00 | 41.97 | 2.75 |
7742 | 7887 | 6.183360 | GCAAACGATACATTCATGTCAAGAGA | 60.183 | 38.462 | 0.00 | 0.00 | 41.97 | 3.10 |
7841 | 7986 | 0.704664 | AGGGAGTTGGAATTGGGGAC | 59.295 | 55.000 | 0.00 | 0.00 | 0.00 | 4.46 |
7903 | 8048 | 1.675641 | GGTCCACCCATGTCACTGC | 60.676 | 63.158 | 0.00 | 0.00 | 0.00 | 4.40 |
8059 | 8204 | 4.636249 | ACAGTAACTGAAGCCTGAAAGAG | 58.364 | 43.478 | 0.00 | 0.00 | 33.00 | 2.85 |
8266 | 8442 | 4.260784 | GGGTTATGTTCTAATTGAGCAGCG | 60.261 | 45.833 | 0.00 | 0.00 | 39.21 | 5.18 |
8392 | 8568 | 1.087501 | GGGAGAAGAATGAACGTGGC | 58.912 | 55.000 | 0.00 | 0.00 | 0.00 | 5.01 |
8525 | 8702 | 1.525718 | TAGCAGTGTCCGCGTACCAA | 61.526 | 55.000 | 4.92 | 0.00 | 0.00 | 3.67 |
8676 | 8854 | 7.538303 | AAATTGCAACAACAAAAGTTCTAGG | 57.462 | 32.000 | 0.00 | 0.00 | 32.27 | 3.02 |
8682 | 8860 | 6.206438 | AGTGGAAAAATTGCAACAACAAAAGT | 59.794 | 30.769 | 0.00 | 0.00 | 32.27 | 2.66 |
8683 | 8861 | 6.610456 | AGTGGAAAAATTGCAACAACAAAAG | 58.390 | 32.000 | 0.00 | 0.00 | 32.27 | 2.27 |
8797 | 8975 | 5.929992 | CACAGCTTTGAAATGGATTTGTGAT | 59.070 | 36.000 | 0.00 | 0.00 | 0.00 | 3.06 |
8798 | 8976 | 5.163426 | ACACAGCTTTGAAATGGATTTGTGA | 60.163 | 36.000 | 6.92 | 0.00 | 0.00 | 3.58 |
8906 | 9084 | 0.252375 | GGGGCCCCATTATGCATCAT | 60.252 | 55.000 | 37.61 | 0.00 | 35.81 | 2.45 |
8995 | 9298 | 5.611796 | TCCAAGAATTCTGACACGAATTG | 57.388 | 39.130 | 9.17 | 0.00 | 42.09 | 2.32 |
9050 | 9353 | 0.452987 | CATGGGGAGTTTGCATGTCG | 59.547 | 55.000 | 0.00 | 0.00 | 0.00 | 4.35 |
9107 | 9438 | 7.719633 | TGCCTCTTATTTACAAGTTCTTGAAGT | 59.280 | 33.333 | 17.75 | 8.14 | 0.00 | 3.01 |
9171 | 9519 | 2.920724 | TTTTGATGGAGACGTGGTCA | 57.079 | 45.000 | 0.00 | 0.00 | 34.60 | 4.02 |
9207 | 9555 | 8.469902 | GTCAAATACGACTTGTATATCTGAACG | 58.530 | 37.037 | 0.00 | 0.00 | 43.04 | 3.95 |
9220 | 9568 | 0.392060 | GGGGCGGTCAAATACGACTT | 60.392 | 55.000 | 0.00 | 0.00 | 38.41 | 3.01 |
9221 | 9569 | 1.219935 | GGGGCGGTCAAATACGACT | 59.780 | 57.895 | 0.00 | 0.00 | 38.41 | 4.18 |
9222 | 9570 | 1.078988 | TGGGGCGGTCAAATACGAC | 60.079 | 57.895 | 0.00 | 0.00 | 37.40 | 4.34 |
9223 | 9571 | 1.219664 | CTGGGGCGGTCAAATACGA | 59.780 | 57.895 | 0.00 | 0.00 | 0.00 | 3.43 |
9224 | 9572 | 1.817941 | CCTGGGGCGGTCAAATACG | 60.818 | 63.158 | 0.00 | 0.00 | 0.00 | 3.06 |
9225 | 9573 | 0.323087 | AACCTGGGGCGGTCAAATAC | 60.323 | 55.000 | 0.00 | 0.00 | 35.89 | 1.89 |
9226 | 9574 | 0.034863 | GAACCTGGGGCGGTCAAATA | 60.035 | 55.000 | 0.00 | 0.00 | 35.89 | 1.40 |
9227 | 9575 | 1.304134 | GAACCTGGGGCGGTCAAAT | 60.304 | 57.895 | 0.00 | 0.00 | 35.89 | 2.32 |
9228 | 9576 | 2.114411 | GAACCTGGGGCGGTCAAA | 59.886 | 61.111 | 0.00 | 0.00 | 35.89 | 2.69 |
9229 | 9577 | 3.172106 | TGAACCTGGGGCGGTCAA | 61.172 | 61.111 | 0.00 | 0.00 | 35.89 | 3.18 |
9230 | 9578 | 3.636231 | CTGAACCTGGGGCGGTCA | 61.636 | 66.667 | 0.00 | 0.00 | 35.89 | 4.02 |
9231 | 9579 | 3.607370 | GACTGAACCTGGGGCGGTC | 62.607 | 68.421 | 12.31 | 12.31 | 35.89 | 4.79 |
9232 | 9580 | 3.637273 | GACTGAACCTGGGGCGGT | 61.637 | 66.667 | 0.00 | 0.00 | 39.48 | 5.68 |
9233 | 9581 | 2.411765 | AAAGACTGAACCTGGGGCGG | 62.412 | 60.000 | 0.00 | 0.00 | 0.00 | 6.13 |
9234 | 9582 | 1.073199 | AAAGACTGAACCTGGGGCG | 59.927 | 57.895 | 0.00 | 0.00 | 0.00 | 6.13 |
9235 | 9583 | 0.110486 | TCAAAGACTGAACCTGGGGC | 59.890 | 55.000 | 0.00 | 0.00 | 0.00 | 5.80 |
9256 | 9604 | 7.270365 | ACGAAATATTTGCACAAGAAATACACG | 59.730 | 33.333 | 5.17 | 0.00 | 30.08 | 4.49 |
9280 | 9628 | 6.146216 | TGGTTGTGATTTGCAAGTATTAACG | 58.854 | 36.000 | 0.00 | 0.00 | 0.00 | 3.18 |
9285 | 9633 | 6.127366 | CCCTTATGGTTGTGATTTGCAAGTAT | 60.127 | 38.462 | 0.00 | 0.00 | 0.00 | 2.12 |
9291 | 9639 | 4.799564 | TTCCCTTATGGTTGTGATTTGC | 57.200 | 40.909 | 0.00 | 0.00 | 34.77 | 3.68 |
9319 | 9667 | 0.798776 | CACTTCCCGTTCAGATGCAC | 59.201 | 55.000 | 0.00 | 0.00 | 0.00 | 4.57 |
9328 | 9677 | 1.757682 | TTGTTCTTGCACTTCCCGTT | 58.242 | 45.000 | 0.00 | 0.00 | 0.00 | 4.44 |
9333 | 9682 | 5.234757 | TGCAAATTGATTGTTCTTGCACTTC | 59.765 | 36.000 | 0.00 | 0.00 | 45.38 | 3.01 |
9343 | 9692 | 6.339730 | TCTGTCTGTTTGCAAATTGATTGTT | 58.660 | 32.000 | 16.21 | 0.00 | 41.32 | 2.83 |
9347 | 9696 | 4.021719 | CCCTCTGTCTGTTTGCAAATTGAT | 60.022 | 41.667 | 16.21 | 0.00 | 0.00 | 2.57 |
9380 | 9729 | 5.045215 | GCCCGGGTAAAATACAATTTTAGC | 58.955 | 41.667 | 24.63 | 18.96 | 39.98 | 3.09 |
9381 | 9730 | 6.210287 | TGCCCGGGTAAAATACAATTTTAG | 57.790 | 37.500 | 24.63 | 0.00 | 0.00 | 1.85 |
9382 | 9731 | 6.210984 | ACTTGCCCGGGTAAAATACAATTTTA | 59.789 | 34.615 | 25.04 | 0.00 | 0.00 | 1.52 |
9383 | 9732 | 5.012251 | ACTTGCCCGGGTAAAATACAATTTT | 59.988 | 36.000 | 25.04 | 2.29 | 0.00 | 1.82 |
9384 | 9733 | 4.528987 | ACTTGCCCGGGTAAAATACAATTT | 59.471 | 37.500 | 25.04 | 4.61 | 0.00 | 1.82 |
9385 | 9734 | 4.090819 | ACTTGCCCGGGTAAAATACAATT | 58.909 | 39.130 | 25.04 | 8.47 | 0.00 | 2.32 |
9386 | 9735 | 3.703921 | ACTTGCCCGGGTAAAATACAAT | 58.296 | 40.909 | 25.04 | 4.99 | 0.00 | 2.71 |
9387 | 9736 | 3.157750 | ACTTGCCCGGGTAAAATACAA | 57.842 | 42.857 | 25.04 | 15.42 | 0.00 | 2.41 |
9388 | 9737 | 2.883122 | ACTTGCCCGGGTAAAATACA | 57.117 | 45.000 | 25.04 | 8.11 | 0.00 | 2.29 |
9389 | 9738 | 5.584442 | CATTTACTTGCCCGGGTAAAATAC | 58.416 | 41.667 | 25.04 | 5.19 | 40.00 | 1.89 |
9390 | 9739 | 4.098196 | GCATTTACTTGCCCGGGTAAAATA | 59.902 | 41.667 | 25.04 | 16.75 | 40.00 | 1.40 |
9391 | 9740 | 3.118920 | GCATTTACTTGCCCGGGTAAAAT | 60.119 | 43.478 | 25.04 | 18.12 | 40.00 | 1.82 |
9392 | 9741 | 2.231721 | GCATTTACTTGCCCGGGTAAAA | 59.768 | 45.455 | 25.04 | 16.63 | 40.00 | 1.52 |
9393 | 9742 | 1.819903 | GCATTTACTTGCCCGGGTAAA | 59.180 | 47.619 | 25.04 | 19.20 | 40.57 | 2.01 |
9394 | 9743 | 1.271982 | TGCATTTACTTGCCCGGGTAA | 60.272 | 47.619 | 23.61 | 23.61 | 42.06 | 2.85 |
9395 | 9744 | 0.328592 | TGCATTTACTTGCCCGGGTA | 59.671 | 50.000 | 24.63 | 16.91 | 42.06 | 3.69 |
9396 | 9745 | 0.540830 | TTGCATTTACTTGCCCGGGT | 60.541 | 50.000 | 24.63 | 4.02 | 42.06 | 5.28 |
9401 | 9750 | 6.973229 | AGAATTTGATTGCATTTACTTGCC | 57.027 | 33.333 | 0.00 | 0.00 | 42.06 | 4.52 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.