Multiple sequence alignment - TraesCS1A01G147500
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 | TraesCS1A01G147500 | chr1A | 100.000 | 4169 | 0 | 0 | 1 | 4169 | 254387329 | 254383161 | 0.000000e+00 | 7699.0 |
1 | TraesCS1A01G147500 | chr1A | 100.000 | 83 | 0 | 0 | 3976 | 4058 | 254383313 | 254383231 | 2.010000e-33 | 154.0 |
2 | TraesCS1A01G147500 | chr1A | 100.000 | 83 | 0 | 0 | 4017 | 4099 | 254383354 | 254383272 | 2.010000e-33 | 154.0 |
3 | TraesCS1A01G147500 | chr1A | 100.000 | 42 | 0 | 0 | 3976 | 4017 | 254383272 | 254383231 | 1.240000e-10 | 78.7 |
4 | TraesCS1A01G147500 | chr1A | 100.000 | 42 | 0 | 0 | 4058 | 4099 | 254383354 | 254383313 | 1.240000e-10 | 78.7 |
5 | TraesCS1A01G147500 | chr1D | 96.115 | 2497 | 62 | 15 | 1549 | 4017 | 200879472 | 200876983 | 0.000000e+00 | 4041.0 |
6 | TraesCS1A01G147500 | chr1D | 93.430 | 1309 | 42 | 11 | 268 | 1555 | 200880793 | 200879508 | 0.000000e+00 | 1901.0 |
7 | TraesCS1A01G147500 | chr1D | 92.857 | 112 | 2 | 1 | 4058 | 4169 | 200877024 | 200876919 | 1.550000e-34 | 158.0 |
8 | TraesCS1A01G147500 | chr1D | 97.619 | 42 | 1 | 0 | 4017 | 4058 | 200877024 | 200876983 | 5.780000e-09 | 73.1 |
9 | TraesCS1A01G147500 | chr1B | 94.998 | 2439 | 69 | 18 | 1549 | 3937 | 288810808 | 288808373 | 0.000000e+00 | 3779.0 |
10 | TraesCS1A01G147500 | chr1B | 90.748 | 1578 | 85 | 25 | 1 | 1555 | 288812383 | 288810844 | 0.000000e+00 | 2049.0 |
11 | TraesCS1A01G147500 | chr1B | 95.575 | 113 | 4 | 1 | 4058 | 4169 | 288806324 | 288806212 | 3.310000e-41 | 180.0 |
12 | TraesCS1A01G147500 | chr1B | 96.703 | 91 | 3 | 0 | 3927 | 4017 | 288806373 | 288806283 | 7.220000e-33 | 152.0 |
13 | TraesCS1A01G147500 | chr1B | 95.238 | 42 | 2 | 0 | 4017 | 4058 | 288806324 | 288806283 | 2.690000e-07 | 67.6 |
14 | TraesCS1A01G147500 | chr4D | 75.339 | 369 | 73 | 15 | 1900 | 2262 | 477582459 | 477582103 | 1.200000e-35 | 161.0 |
15 | TraesCS1A01G147500 | chr4B | 81.967 | 183 | 30 | 3 | 1905 | 2086 | 603168914 | 603168734 | 7.220000e-33 | 152.0 |
16 | TraesCS1A01G147500 | chr5A | 88.235 | 51 | 4 | 2 | 999 | 1048 | 87935120 | 87935071 | 4.500000e-05 | 60.2 |
17 | TraesCS1A01G147500 | chr5D | 86.275 | 51 | 5 | 2 | 999 | 1048 | 94028566 | 94028517 | 2.000000e-03 | 54.7 |
18 | TraesCS1A01G147500 | chr5B | 86.275 | 51 | 5 | 2 | 999 | 1048 | 101325298 | 101325249 | 2.000000e-03 | 54.7 |
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 | TraesCS1A01G147500 | chr1A | 254383161 | 254387329 | 4168 | True | 7699.000 | 7699 | 100.00000 | 1 | 4169 | 1 | chr1A.!!$R1 | 4168 |
1 | TraesCS1A01G147500 | chr1D | 200876919 | 200880793 | 3874 | True | 1543.275 | 4041 | 95.00525 | 268 | 4169 | 4 | chr1D.!!$R1 | 3901 |
2 | TraesCS1A01G147500 | chr1B | 288806212 | 288812383 | 6171 | True | 1245.520 | 3779 | 94.65240 | 1 | 4169 | 5 | chr1B.!!$R1 | 4168 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
79 | 80 | 0.034574 | AGCACACAACTCAACCCACA | 60.035 | 50.0 | 0.00 | 0.0 | 0.00 | 4.17 | F |
580 | 598 | 0.040246 | GCTACGCTAGTCGACCCATC | 60.040 | 60.0 | 13.01 | 0.0 | 41.67 | 3.51 | F |
888 | 906 | 0.685660 | CCCTTTCCCCGCCTAGTATC | 59.314 | 60.0 | 0.00 | 0.0 | 0.00 | 2.24 | F |
1242 | 1290 | 0.842030 | ATGGTGACCCTGAGAAGGCA | 60.842 | 55.0 | 0.00 | 0.0 | 0.00 | 4.75 | F |
2659 | 2754 | 1.119684 | TGTAGTGCATGGCGTAGGAT | 58.880 | 50.0 | 0.00 | 0.0 | 0.00 | 3.24 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1106 | 1124 | 0.459899 | GAAATCGTCCCCATTTGGCC | 59.540 | 55.000 | 0.00 | 0.0 | 0.00 | 5.36 | R |
1805 | 1899 | 1.739466 | ACCATGCTACAATGCTTCACG | 59.261 | 47.619 | 0.00 | 0.0 | 0.00 | 4.35 | R |
2659 | 2754 | 0.534203 | GTGCACCGGGAAAGTTGAGA | 60.534 | 55.000 | 5.22 | 0.0 | 0.00 | 3.27 | R |
2893 | 2988 | 1.160329 | GCTGACGCAACAGACTTGGT | 61.160 | 55.000 | 10.67 | 0.0 | 39.94 | 3.67 | R |
3676 | 3787 | 1.299939 | GGGAATCAAACCCTCTCCCT | 58.700 | 55.000 | 0.00 | 0.0 | 42.25 | 4.20 | 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 |
---|---|---|---|---|---|---|---|---|---|
28 | 29 | 5.050431 | ACAAAATGTTAGCAATTCGGCAAAC | 60.050 | 36.000 | 0.00 | 0.00 | 35.83 | 2.93 |
37 | 38 | 3.665060 | GCAATTCGGCAAACAATTTCTGC | 60.665 | 43.478 | 0.00 | 0.00 | 35.28 | 4.26 |
69 | 70 | 6.291585 | GCAGTACAAACATTTAAGCACACAAC | 60.292 | 38.462 | 0.00 | 0.00 | 0.00 | 3.32 |
70 | 71 | 6.972328 | CAGTACAAACATTTAAGCACACAACT | 59.028 | 34.615 | 0.00 | 0.00 | 0.00 | 3.16 |
71 | 72 | 7.165812 | CAGTACAAACATTTAAGCACACAACTC | 59.834 | 37.037 | 0.00 | 0.00 | 0.00 | 3.01 |
73 | 74 | 6.393990 | ACAAACATTTAAGCACACAACTCAA | 58.606 | 32.000 | 0.00 | 0.00 | 0.00 | 3.02 |
74 | 75 | 6.310224 | ACAAACATTTAAGCACACAACTCAAC | 59.690 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
75 | 76 | 4.932146 | ACATTTAAGCACACAACTCAACC | 58.068 | 39.130 | 0.00 | 0.00 | 0.00 | 3.77 |
76 | 77 | 4.202111 | ACATTTAAGCACACAACTCAACCC | 60.202 | 41.667 | 0.00 | 0.00 | 0.00 | 4.11 |
77 | 78 | 2.719531 | TAAGCACACAACTCAACCCA | 57.280 | 45.000 | 0.00 | 0.00 | 0.00 | 4.51 |
78 | 79 | 1.102978 | AAGCACACAACTCAACCCAC | 58.897 | 50.000 | 0.00 | 0.00 | 0.00 | 4.61 |
79 | 80 | 0.034574 | AGCACACAACTCAACCCACA | 60.035 | 50.000 | 0.00 | 0.00 | 0.00 | 4.17 |
80 | 81 | 0.814457 | GCACACAACTCAACCCACAA | 59.186 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
81 | 82 | 1.408702 | GCACACAACTCAACCCACAAT | 59.591 | 47.619 | 0.00 | 0.00 | 0.00 | 2.71 |
82 | 83 | 2.543653 | GCACACAACTCAACCCACAATC | 60.544 | 50.000 | 0.00 | 0.00 | 0.00 | 2.67 |
83 | 84 | 2.951642 | CACACAACTCAACCCACAATCT | 59.048 | 45.455 | 0.00 | 0.00 | 0.00 | 2.40 |
90 | 91 | 7.012894 | CACAACTCAACCCACAATCTAAAACTA | 59.987 | 37.037 | 0.00 | 0.00 | 0.00 | 2.24 |
97 | 98 | 8.576442 | CAACCCACAATCTAAAACTACAATCTT | 58.424 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
127 | 132 | 3.051581 | ACTGGATGGCAGATTCTATGGT | 58.948 | 45.455 | 0.00 | 0.00 | 0.00 | 3.55 |
130 | 135 | 5.221803 | ACTGGATGGCAGATTCTATGGTAAG | 60.222 | 44.000 | 0.00 | 0.00 | 0.00 | 2.34 |
131 | 136 | 4.006319 | GGATGGCAGATTCTATGGTAAGC | 58.994 | 47.826 | 0.00 | 0.00 | 0.00 | 3.09 |
136 | 141 | 5.532406 | TGGCAGATTCTATGGTAAGCAAATC | 59.468 | 40.000 | 0.00 | 0.00 | 0.00 | 2.17 |
146 | 151 | 5.885230 | TGGTAAGCAAATCATGTGAGAAG | 57.115 | 39.130 | 0.00 | 0.00 | 0.00 | 2.85 |
148 | 153 | 5.769662 | TGGTAAGCAAATCATGTGAGAAGTT | 59.230 | 36.000 | 0.00 | 0.00 | 0.00 | 2.66 |
149 | 154 | 6.265196 | TGGTAAGCAAATCATGTGAGAAGTTT | 59.735 | 34.615 | 0.00 | 0.00 | 0.00 | 2.66 |
152 | 157 | 9.677567 | GTAAGCAAATCATGTGAGAAGTTTTTA | 57.322 | 29.630 | 0.00 | 0.00 | 0.00 | 1.52 |
153 | 158 | 8.807667 | AAGCAAATCATGTGAGAAGTTTTTAG | 57.192 | 30.769 | 0.00 | 0.00 | 0.00 | 1.85 |
154 | 159 | 8.169977 | AGCAAATCATGTGAGAAGTTTTTAGA | 57.830 | 30.769 | 0.00 | 0.00 | 0.00 | 2.10 |
155 | 160 | 8.632679 | AGCAAATCATGTGAGAAGTTTTTAGAA | 58.367 | 29.630 | 0.00 | 0.00 | 0.00 | 2.10 |
156 | 161 | 9.415544 | GCAAATCATGTGAGAAGTTTTTAGAAT | 57.584 | 29.630 | 0.00 | 0.00 | 0.00 | 2.40 |
159 | 172 | 9.525826 | AATCATGTGAGAAGTTTTTAGAATCCT | 57.474 | 29.630 | 0.00 | 0.00 | 0.00 | 3.24 |
160 | 173 | 8.327941 | TCATGTGAGAAGTTTTTAGAATCCTG | 57.672 | 34.615 | 0.00 | 0.00 | 0.00 | 3.86 |
179 | 192 | 3.584834 | CTGAAAAATTAACCGGCCCTTG | 58.415 | 45.455 | 0.00 | 0.00 | 0.00 | 3.61 |
182 | 195 | 1.552578 | AAATTAACCGGCCCTTGGAC | 58.447 | 50.000 | 0.00 | 0.00 | 0.00 | 4.02 |
184 | 197 | 1.502527 | ATTAACCGGCCCTTGGACCA | 61.503 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
236 | 249 | 2.593436 | AAGTCGTTGCCAACCCGG | 60.593 | 61.111 | 1.21 | 0.00 | 38.11 | 5.73 |
242 | 255 | 3.884774 | TTGCCAACCCGGTGAGCT | 61.885 | 61.111 | 12.13 | 0.00 | 36.97 | 4.09 |
250 | 263 | 1.563924 | ACCCGGTGAGCTGTACAATA | 58.436 | 50.000 | 0.00 | 0.00 | 0.00 | 1.90 |
251 | 264 | 1.206371 | ACCCGGTGAGCTGTACAATAC | 59.794 | 52.381 | 0.00 | 0.00 | 0.00 | 1.89 |
266 | 279 | 6.002704 | TGTACAATACAACCATTAACCCGTT | 58.997 | 36.000 | 0.00 | 0.00 | 35.38 | 4.44 |
274 | 287 | 1.667212 | CCATTAACCCGTTAAGTCGCC | 59.333 | 52.381 | 6.24 | 0.00 | 38.30 | 5.54 |
310 | 323 | 1.079888 | CATCGCCCACCCTTTTTGC | 60.080 | 57.895 | 0.00 | 0.00 | 0.00 | 3.68 |
311 | 324 | 2.635443 | ATCGCCCACCCTTTTTGCG | 61.635 | 57.895 | 0.00 | 0.00 | 46.09 | 4.85 |
313 | 326 | 3.133946 | GCCCACCCTTTTTGCGAA | 58.866 | 55.556 | 0.00 | 0.00 | 0.00 | 4.70 |
314 | 327 | 1.443828 | GCCCACCCTTTTTGCGAAA | 59.556 | 52.632 | 0.00 | 0.00 | 0.00 | 3.46 |
337 | 350 | 3.614150 | GCTTCGGCACATAGGAATATCGA | 60.614 | 47.826 | 0.00 | 0.00 | 41.33 | 3.59 |
357 | 370 | 6.954616 | TCGACAATACGATGTTTGTTATGT | 57.045 | 33.333 | 0.00 | 0.00 | 36.25 | 2.29 |
358 | 371 | 7.354025 | TCGACAATACGATGTTTGTTATGTT | 57.646 | 32.000 | 0.00 | 0.00 | 36.25 | 2.71 |
359 | 372 | 8.463456 | TCGACAATACGATGTTTGTTATGTTA | 57.537 | 30.769 | 0.00 | 0.00 | 36.25 | 2.41 |
406 | 419 | 4.598062 | CGGAAATAAAAGCGAAATCCCTC | 58.402 | 43.478 | 0.00 | 0.00 | 0.00 | 4.30 |
495 | 509 | 2.699846 | CTCTTCTCTTCTCCATCCAGGG | 59.300 | 54.545 | 0.00 | 0.00 | 38.24 | 4.45 |
514 | 528 | 0.957888 | GGAGGACTGCTTCAGGTTGC | 60.958 | 60.000 | 0.00 | 0.00 | 35.51 | 4.17 |
531 | 549 | 4.787280 | CGCACCCCTCTCTCCCCT | 62.787 | 72.222 | 0.00 | 0.00 | 0.00 | 4.79 |
532 | 550 | 2.766229 | GCACCCCTCTCTCCCCTC | 60.766 | 72.222 | 0.00 | 0.00 | 0.00 | 4.30 |
533 | 551 | 2.041405 | CACCCCTCTCTCCCCTCC | 60.041 | 72.222 | 0.00 | 0.00 | 0.00 | 4.30 |
534 | 552 | 2.204705 | ACCCCTCTCTCCCCTCCT | 60.205 | 66.667 | 0.00 | 0.00 | 0.00 | 3.69 |
535 | 553 | 1.869452 | ACCCCTCTCTCCCCTCCTT | 60.869 | 63.158 | 0.00 | 0.00 | 0.00 | 3.36 |
536 | 554 | 1.074850 | CCCCTCTCTCCCCTCCTTC | 60.075 | 68.421 | 0.00 | 0.00 | 0.00 | 3.46 |
544 | 562 | 1.443575 | TCTCCCCTCCTTCCCCTTTTA | 59.556 | 52.381 | 0.00 | 0.00 | 0.00 | 1.52 |
560 | 578 | 4.022329 | CCCTTTTATTTCCTGCGTGTTTCT | 60.022 | 41.667 | 0.00 | 0.00 | 0.00 | 2.52 |
572 | 590 | 1.912110 | CGTGTTTCTGCTACGCTAGTC | 59.088 | 52.381 | 0.00 | 0.00 | 0.00 | 2.59 |
573 | 591 | 1.912110 | GTGTTTCTGCTACGCTAGTCG | 59.088 | 52.381 | 5.24 | 5.24 | 45.38 | 4.18 |
574 | 592 | 1.808343 | TGTTTCTGCTACGCTAGTCGA | 59.192 | 47.619 | 12.46 | 0.00 | 41.67 | 4.20 |
575 | 593 | 2.175566 | GTTTCTGCTACGCTAGTCGAC | 58.824 | 52.381 | 7.70 | 7.70 | 41.67 | 4.20 |
576 | 594 | 0.731417 | TTCTGCTACGCTAGTCGACC | 59.269 | 55.000 | 13.01 | 0.00 | 41.67 | 4.79 |
577 | 595 | 1.094073 | TCTGCTACGCTAGTCGACCC | 61.094 | 60.000 | 13.01 | 0.00 | 41.67 | 4.46 |
578 | 596 | 1.374343 | CTGCTACGCTAGTCGACCCA | 61.374 | 60.000 | 13.01 | 0.00 | 41.67 | 4.51 |
579 | 597 | 0.750546 | TGCTACGCTAGTCGACCCAT | 60.751 | 55.000 | 13.01 | 0.00 | 41.67 | 4.00 |
580 | 598 | 0.040246 | GCTACGCTAGTCGACCCATC | 60.040 | 60.000 | 13.01 | 0.00 | 41.67 | 3.51 |
611 | 629 | 4.365111 | TTCTTGGCCGGGCATGCT | 62.365 | 61.111 | 33.19 | 0.00 | 0.00 | 3.79 |
689 | 707 | 2.045926 | CGCTTTCCTCACCCCCAG | 60.046 | 66.667 | 0.00 | 0.00 | 0.00 | 4.45 |
795 | 813 | 1.557099 | TTTCCTTCTGGCGAGCTAGA | 58.443 | 50.000 | 7.06 | 7.06 | 0.00 | 2.43 |
888 | 906 | 0.685660 | CCCTTTCCCCGCCTAGTATC | 59.314 | 60.000 | 0.00 | 0.00 | 0.00 | 2.24 |
1106 | 1124 | 4.160814 | TGGGAAGCTTTTGAATGATGATGG | 59.839 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
1116 | 1134 | 1.724545 | ATGATGATGGGCCAAATGGG | 58.275 | 50.000 | 11.89 | 0.00 | 40.85 | 4.00 |
1203 | 1251 | 2.171237 | TGGTGGTGATGATGAGGATGAC | 59.829 | 50.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1242 | 1290 | 0.842030 | ATGGTGACCCTGAGAAGGCA | 60.842 | 55.000 | 0.00 | 0.00 | 0.00 | 4.75 |
1305 | 1353 | 3.431572 | GCTCCGATGAATTGCAGATAGTC | 59.568 | 47.826 | 0.00 | 0.00 | 0.00 | 2.59 |
1401 | 1450 | 6.658831 | CAGTACCTTGTTATGTTTGACACTG | 58.341 | 40.000 | 0.00 | 0.00 | 0.00 | 3.66 |
1426 | 1475 | 7.148255 | TGTGTATGGAGATGAAATGCTTTGTAC | 60.148 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
1427 | 1476 | 7.066284 | GTGTATGGAGATGAAATGCTTTGTACT | 59.934 | 37.037 | 0.00 | 0.00 | 0.00 | 2.73 |
1428 | 1477 | 8.264347 | TGTATGGAGATGAAATGCTTTGTACTA | 58.736 | 33.333 | 0.00 | 0.00 | 0.00 | 1.82 |
1805 | 1899 | 1.634702 | CCTTCAGCGCTACTTCTCAC | 58.365 | 55.000 | 10.99 | 0.00 | 0.00 | 3.51 |
1863 | 1957 | 3.753272 | ACTACATGATGCTGTTGGTGAAC | 59.247 | 43.478 | 0.00 | 0.00 | 0.00 | 3.18 |
1953 | 2048 | 2.161410 | TCACTGTTTTGTATGCGATGCC | 59.839 | 45.455 | 0.00 | 0.00 | 0.00 | 4.40 |
2099 | 2194 | 2.821969 | GTCCAGAACAATGCCAGAATGT | 59.178 | 45.455 | 0.00 | 0.00 | 0.00 | 2.71 |
2200 | 2295 | 3.825585 | TCTGCATGTTATGAGCCAAAACA | 59.174 | 39.130 | 0.00 | 0.00 | 37.51 | 2.83 |
2614 | 2709 | 2.647297 | GGCAACAAGGTCAGCTGC | 59.353 | 61.111 | 9.47 | 4.04 | 0.00 | 5.25 |
2659 | 2754 | 1.119684 | TGTAGTGCATGGCGTAGGAT | 58.880 | 50.000 | 0.00 | 0.00 | 0.00 | 3.24 |
2790 | 2885 | 4.381079 | GCATCGGATCTGGGAGTATTAGAC | 60.381 | 50.000 | 0.62 | 0.00 | 0.00 | 2.59 |
2804 | 2899 | 6.858993 | GGAGTATTAGACGATTCTGCTTACAG | 59.141 | 42.308 | 0.00 | 0.00 | 45.95 | 2.74 |
2896 | 2991 | 2.121963 | AGGAGGGCCTTCACACCA | 60.122 | 61.111 | 15.92 | 0.00 | 43.90 | 4.17 |
3023 | 3118 | 4.209538 | CATCCTCTGAATTATGGTGGCAA | 58.790 | 43.478 | 0.00 | 0.00 | 0.00 | 4.52 |
3212 | 3308 | 1.349688 | TGTCCCGTCTTTAGCATTGGT | 59.650 | 47.619 | 0.00 | 0.00 | 0.00 | 3.67 |
3236 | 3340 | 2.224784 | GCTTCGTGGACAATAAAACCGT | 59.775 | 45.455 | 0.00 | 0.00 | 0.00 | 4.83 |
3238 | 3342 | 4.790444 | GCTTCGTGGACAATAAAACCGTTT | 60.790 | 41.667 | 0.00 | 0.00 | 0.00 | 3.60 |
3430 | 3537 | 7.441836 | TCTTTGTCACTGTAATAGAAGAGCAA | 58.558 | 34.615 | 0.00 | 0.00 | 0.00 | 3.91 |
3453 | 3560 | 6.944234 | AAATTTCCACTACCTAGCTATTGC | 57.056 | 37.500 | 0.00 | 0.00 | 40.05 | 3.56 |
3592 | 3702 | 3.688673 | GGAGAAAAGAGTGCCTCATGAAG | 59.311 | 47.826 | 0.00 | 0.00 | 32.06 | 3.02 |
3604 | 3714 | 4.080695 | TGCCTCATGAAGATTCTTAGCTGT | 60.081 | 41.667 | 0.00 | 0.00 | 0.00 | 4.40 |
3611 | 3721 | 9.360901 | TCATGAAGATTCTTAGCTGTAGAGTAT | 57.639 | 33.333 | 0.00 | 0.00 | 0.00 | 2.12 |
3674 | 3785 | 2.740506 | AGGGACTACTCTCCAGCTAC | 57.259 | 55.000 | 0.00 | 0.00 | 36.02 | 3.58 |
3675 | 3786 | 2.210644 | AGGGACTACTCTCCAGCTACT | 58.789 | 52.381 | 0.00 | 0.00 | 36.02 | 2.57 |
3676 | 3787 | 3.395604 | AGGGACTACTCTCCAGCTACTA | 58.604 | 50.000 | 0.00 | 0.00 | 36.02 | 1.82 |
3677 | 3788 | 3.393278 | AGGGACTACTCTCCAGCTACTAG | 59.607 | 52.174 | 0.00 | 0.00 | 36.02 | 2.57 |
3678 | 3789 | 3.497227 | GGGACTACTCTCCAGCTACTAGG | 60.497 | 56.522 | 0.00 | 0.00 | 30.97 | 3.02 |
3679 | 3790 | 3.497227 | GGACTACTCTCCAGCTACTAGGG | 60.497 | 56.522 | 0.00 | 0.00 | 0.00 | 3.53 |
3712 | 3841 | 3.433306 | TCCCTGGTTATTGTGTTCCTG | 57.567 | 47.619 | 0.00 | 0.00 | 0.00 | 3.86 |
3922 | 4078 | 2.102757 | GTGAGGGGTTAGCCTACTTAGC | 59.897 | 54.545 | 0.00 | 0.00 | 34.45 | 3.09 |
4010 | 6176 | 5.899547 | TGATACCCTGCTTCTCTTCTATGAA | 59.100 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
4011 | 6177 | 6.384015 | TGATACCCTGCTTCTCTTCTATGAAA | 59.616 | 38.462 | 0.00 | 0.00 | 0.00 | 2.69 |
4012 | 6178 | 5.505181 | ACCCTGCTTCTCTTCTATGAAAA | 57.495 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
4013 | 6179 | 6.072199 | ACCCTGCTTCTCTTCTATGAAAAT | 57.928 | 37.500 | 0.00 | 0.00 | 0.00 | 1.82 |
4014 | 6180 | 5.884792 | ACCCTGCTTCTCTTCTATGAAAATG | 59.115 | 40.000 | 0.00 | 0.00 | 0.00 | 2.32 |
4015 | 6181 | 6.118170 | CCCTGCTTCTCTTCTATGAAAATGA | 58.882 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
4016 | 6182 | 6.600822 | CCCTGCTTCTCTTCTATGAAAATGAA | 59.399 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
4017 | 6183 | 7.284944 | CCCTGCTTCTCTTCTATGAAAATGAAT | 59.715 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
4018 | 6184 | 8.684520 | CCTGCTTCTCTTCTATGAAAATGAATT | 58.315 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
4019 | 6185 | 9.719279 | CTGCTTCTCTTCTATGAAAATGAATTC | 57.281 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
4020 | 6186 | 9.458727 | TGCTTCTCTTCTATGAAAATGAATTCT | 57.541 | 29.630 | 7.05 | 0.00 | 0.00 | 2.40 |
4037 | 6203 | 7.333528 | TGAATTCTTGTAATTGATACCCTGC | 57.666 | 36.000 | 7.05 | 0.00 | 33.27 | 4.85 |
4038 | 6204 | 7.118723 | TGAATTCTTGTAATTGATACCCTGCT | 58.881 | 34.615 | 7.05 | 0.00 | 33.27 | 4.24 |
4039 | 6205 | 7.615365 | TGAATTCTTGTAATTGATACCCTGCTT | 59.385 | 33.333 | 7.05 | 0.00 | 33.27 | 3.91 |
4040 | 6206 | 7.573968 | ATTCTTGTAATTGATACCCTGCTTC | 57.426 | 36.000 | 0.00 | 0.00 | 33.27 | 3.86 |
4041 | 6207 | 6.313519 | TCTTGTAATTGATACCCTGCTTCT | 57.686 | 37.500 | 0.00 | 0.00 | 33.27 | 2.85 |
4042 | 6208 | 6.349300 | TCTTGTAATTGATACCCTGCTTCTC | 58.651 | 40.000 | 0.00 | 0.00 | 33.27 | 2.87 |
4043 | 6209 | 5.957771 | TGTAATTGATACCCTGCTTCTCT | 57.042 | 39.130 | 0.00 | 0.00 | 33.27 | 3.10 |
4044 | 6210 | 6.313519 | TGTAATTGATACCCTGCTTCTCTT | 57.686 | 37.500 | 0.00 | 0.00 | 33.27 | 2.85 |
4045 | 6211 | 6.349300 | TGTAATTGATACCCTGCTTCTCTTC | 58.651 | 40.000 | 0.00 | 0.00 | 33.27 | 2.87 |
4046 | 6212 | 5.707066 | AATTGATACCCTGCTTCTCTTCT | 57.293 | 39.130 | 0.00 | 0.00 | 0.00 | 2.85 |
4047 | 6213 | 6.814954 | AATTGATACCCTGCTTCTCTTCTA | 57.185 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
4048 | 6214 | 7.385894 | AATTGATACCCTGCTTCTCTTCTAT | 57.614 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
4049 | 6215 | 5.798125 | TGATACCCTGCTTCTCTTCTATG | 57.202 | 43.478 | 0.00 | 0.00 | 0.00 | 2.23 |
4050 | 6216 | 5.458595 | TGATACCCTGCTTCTCTTCTATGA | 58.541 | 41.667 | 0.00 | 0.00 | 0.00 | 2.15 |
4051 | 6217 | 5.899547 | TGATACCCTGCTTCTCTTCTATGAA | 59.100 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
4052 | 6218 | 6.384015 | TGATACCCTGCTTCTCTTCTATGAAA | 59.616 | 38.462 | 0.00 | 0.00 | 0.00 | 2.69 |
4053 | 6219 | 5.505181 | ACCCTGCTTCTCTTCTATGAAAA | 57.495 | 39.130 | 0.00 | 0.00 | 0.00 | 2.29 |
4054 | 6220 | 6.072199 | ACCCTGCTTCTCTTCTATGAAAAT | 57.928 | 37.500 | 0.00 | 0.00 | 0.00 | 1.82 |
4055 | 6221 | 5.884792 | ACCCTGCTTCTCTTCTATGAAAATG | 59.115 | 40.000 | 0.00 | 0.00 | 0.00 | 2.32 |
4056 | 6222 | 6.118170 | CCCTGCTTCTCTTCTATGAAAATGA | 58.882 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
4057 | 6223 | 6.600822 | CCCTGCTTCTCTTCTATGAAAATGAA | 59.399 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
4058 | 6224 | 7.284944 | CCCTGCTTCTCTTCTATGAAAATGAAT | 59.715 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
4059 | 6225 | 8.684520 | CCTGCTTCTCTTCTATGAAAATGAATT | 58.315 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
4060 | 6226 | 9.719279 | CTGCTTCTCTTCTATGAAAATGAATTC | 57.281 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
4061 | 6227 | 9.458727 | TGCTTCTCTTCTATGAAAATGAATTCT | 57.541 | 29.630 | 7.05 | 0.00 | 0.00 | 2.40 |
4078 | 6244 | 7.333528 | TGAATTCTTGTAATTGATACCCTGC | 57.666 | 36.000 | 7.05 | 0.00 | 33.27 | 4.85 |
4079 | 6245 | 7.118723 | TGAATTCTTGTAATTGATACCCTGCT | 58.881 | 34.615 | 7.05 | 0.00 | 33.27 | 4.24 |
4080 | 6246 | 7.615365 | TGAATTCTTGTAATTGATACCCTGCTT | 59.385 | 33.333 | 7.05 | 0.00 | 33.27 | 3.91 |
4081 | 6247 | 7.573968 | ATTCTTGTAATTGATACCCTGCTTC | 57.426 | 36.000 | 0.00 | 0.00 | 33.27 | 3.86 |
4082 | 6248 | 6.313519 | TCTTGTAATTGATACCCTGCTTCT | 57.686 | 37.500 | 0.00 | 0.00 | 33.27 | 2.85 |
4083 | 6249 | 6.349300 | TCTTGTAATTGATACCCTGCTTCTC | 58.651 | 40.000 | 0.00 | 0.00 | 33.27 | 2.87 |
4084 | 6250 | 5.957771 | TGTAATTGATACCCTGCTTCTCT | 57.042 | 39.130 | 0.00 | 0.00 | 33.27 | 3.10 |
4085 | 6251 | 6.313519 | TGTAATTGATACCCTGCTTCTCTT | 57.686 | 37.500 | 0.00 | 0.00 | 33.27 | 2.85 |
4086 | 6252 | 6.349300 | TGTAATTGATACCCTGCTTCTCTTC | 58.651 | 40.000 | 0.00 | 0.00 | 33.27 | 2.87 |
4087 | 6253 | 5.707066 | AATTGATACCCTGCTTCTCTTCT | 57.293 | 39.130 | 0.00 | 0.00 | 0.00 | 2.85 |
4088 | 6254 | 6.814954 | AATTGATACCCTGCTTCTCTTCTA | 57.185 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
4089 | 6255 | 7.385894 | AATTGATACCCTGCTTCTCTTCTAT | 57.614 | 36.000 | 0.00 | 0.00 | 0.00 | 1.98 |
4090 | 6256 | 5.798125 | TGATACCCTGCTTCTCTTCTATG | 57.202 | 43.478 | 0.00 | 0.00 | 0.00 | 2.23 |
4091 | 6257 | 5.458595 | TGATACCCTGCTTCTCTTCTATGA | 58.541 | 41.667 | 0.00 | 0.00 | 0.00 | 2.15 |
4133 | 6299 | 2.100605 | AGTGGCCAAATTCTCTCGAC | 57.899 | 50.000 | 7.24 | 0.00 | 0.00 | 4.20 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
37 | 38 | 6.625081 | GCTTAAATGTTTGTACTGCCCTTAGG | 60.625 | 42.308 | 0.00 | 0.00 | 0.00 | 2.69 |
45 | 46 | 6.972328 | AGTTGTGTGCTTAAATGTTTGTACTG | 59.028 | 34.615 | 0.00 | 0.00 | 0.00 | 2.74 |
47 | 48 | 6.970043 | TGAGTTGTGTGCTTAAATGTTTGTAC | 59.030 | 34.615 | 0.00 | 0.00 | 0.00 | 2.90 |
50 | 51 | 6.237808 | GGTTGAGTTGTGTGCTTAAATGTTTG | 60.238 | 38.462 | 0.00 | 0.00 | 0.00 | 2.93 |
59 | 60 | 1.102978 | GTGGGTTGAGTTGTGTGCTT | 58.897 | 50.000 | 0.00 | 0.00 | 0.00 | 3.91 |
69 | 70 | 7.504924 | TTGTAGTTTTAGATTGTGGGTTGAG | 57.495 | 36.000 | 0.00 | 0.00 | 0.00 | 3.02 |
70 | 71 | 7.942341 | AGATTGTAGTTTTAGATTGTGGGTTGA | 59.058 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
71 | 72 | 8.110860 | AGATTGTAGTTTTAGATTGTGGGTTG | 57.889 | 34.615 | 0.00 | 0.00 | 0.00 | 3.77 |
73 | 74 | 9.802039 | TTAAGATTGTAGTTTTAGATTGTGGGT | 57.198 | 29.630 | 0.00 | 0.00 | 0.00 | 4.51 |
103 | 104 | 4.891756 | CCATAGAATCTGCCATCCAGTTTT | 59.108 | 41.667 | 0.00 | 0.00 | 42.38 | 2.43 |
108 | 113 | 4.505566 | GCTTACCATAGAATCTGCCATCCA | 60.506 | 45.833 | 0.00 | 0.00 | 0.00 | 3.41 |
110 | 115 | 4.645535 | TGCTTACCATAGAATCTGCCATC | 58.354 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
112 | 117 | 4.502105 | TTGCTTACCATAGAATCTGCCA | 57.498 | 40.909 | 0.00 | 0.00 | 0.00 | 4.92 |
116 | 121 | 7.994911 | TCACATGATTTGCTTACCATAGAATCT | 59.005 | 33.333 | 0.00 | 0.00 | 0.00 | 2.40 |
123 | 128 | 5.948162 | ACTTCTCACATGATTTGCTTACCAT | 59.052 | 36.000 | 0.00 | 0.00 | 0.00 | 3.55 |
127 | 132 | 9.897744 | CTAAAAACTTCTCACATGATTTGCTTA | 57.102 | 29.630 | 0.00 | 0.00 | 0.00 | 3.09 |
130 | 135 | 8.801715 | TTCTAAAAACTTCTCACATGATTTGC | 57.198 | 30.769 | 0.00 | 0.00 | 0.00 | 3.68 |
136 | 141 | 8.327941 | TCAGGATTCTAAAAACTTCTCACATG | 57.672 | 34.615 | 0.00 | 0.00 | 0.00 | 3.21 |
148 | 153 | 7.815549 | GCCGGTTAATTTTTCAGGATTCTAAAA | 59.184 | 33.333 | 1.90 | 0.00 | 0.00 | 1.52 |
149 | 154 | 7.317390 | GCCGGTTAATTTTTCAGGATTCTAAA | 58.683 | 34.615 | 1.90 | 0.00 | 0.00 | 1.85 |
152 | 157 | 4.159693 | GGCCGGTTAATTTTTCAGGATTCT | 59.840 | 41.667 | 1.90 | 0.00 | 0.00 | 2.40 |
153 | 158 | 4.430007 | GGCCGGTTAATTTTTCAGGATTC | 58.570 | 43.478 | 1.90 | 0.00 | 0.00 | 2.52 |
154 | 159 | 3.196901 | GGGCCGGTTAATTTTTCAGGATT | 59.803 | 43.478 | 1.90 | 0.00 | 0.00 | 3.01 |
155 | 160 | 2.764010 | GGGCCGGTTAATTTTTCAGGAT | 59.236 | 45.455 | 1.90 | 0.00 | 0.00 | 3.24 |
156 | 161 | 2.172679 | GGGCCGGTTAATTTTTCAGGA | 58.827 | 47.619 | 1.90 | 0.00 | 0.00 | 3.86 |
159 | 172 | 2.300437 | CCAAGGGCCGGTTAATTTTTCA | 59.700 | 45.455 | 1.90 | 0.00 | 0.00 | 2.69 |
160 | 173 | 2.563620 | TCCAAGGGCCGGTTAATTTTTC | 59.436 | 45.455 | 1.90 | 0.00 | 0.00 | 2.29 |
166 | 179 | 2.132089 | CTGGTCCAAGGGCCGGTTAA | 62.132 | 60.000 | 10.51 | 0.00 | 0.00 | 2.01 |
167 | 180 | 2.529643 | TGGTCCAAGGGCCGGTTA | 60.530 | 61.111 | 1.90 | 0.00 | 0.00 | 2.85 |
184 | 197 | 1.735376 | ATATCGAACGACCCGCTGCT | 61.735 | 55.000 | 0.00 | 0.00 | 0.00 | 4.24 |
191 | 204 | 3.123804 | ACTTGATGCATATCGAACGACC | 58.876 | 45.455 | 0.00 | 0.00 | 36.04 | 4.79 |
236 | 249 | 5.880054 | AATGGTTGTATTGTACAGCTCAC | 57.120 | 39.130 | 0.00 | 0.00 | 40.24 | 3.51 |
242 | 255 | 5.558818 | ACGGGTTAATGGTTGTATTGTACA | 58.441 | 37.500 | 0.00 | 0.00 | 36.79 | 2.90 |
250 | 263 | 3.747529 | CGACTTAACGGGTTAATGGTTGT | 59.252 | 43.478 | 4.61 | 0.00 | 34.86 | 3.32 |
251 | 264 | 3.425227 | GCGACTTAACGGGTTAATGGTTG | 60.425 | 47.826 | 4.61 | 5.79 | 34.86 | 3.77 |
266 | 279 | 2.036098 | TCGTGGGAGGGCGACTTA | 59.964 | 61.111 | 0.00 | 0.00 | 31.76 | 2.24 |
274 | 287 | 1.257750 | TGAGGTCATGTCGTGGGAGG | 61.258 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
311 | 324 | 2.024176 | TCCTATGTGCCGAAGCTTTC | 57.976 | 50.000 | 0.00 | 0.00 | 40.80 | 2.62 |
312 | 325 | 2.489938 | TTCCTATGTGCCGAAGCTTT | 57.510 | 45.000 | 0.00 | 0.00 | 40.80 | 3.51 |
313 | 326 | 2.717639 | ATTCCTATGTGCCGAAGCTT | 57.282 | 45.000 | 0.00 | 0.00 | 40.80 | 3.74 |
314 | 327 | 3.615110 | CGATATTCCTATGTGCCGAAGCT | 60.615 | 47.826 | 0.00 | 0.00 | 40.80 | 3.74 |
357 | 370 | 9.796120 | CGCTATGTTTTTCCCTTTCATTTATAA | 57.204 | 29.630 | 0.00 | 0.00 | 0.00 | 0.98 |
358 | 371 | 7.918562 | GCGCTATGTTTTTCCCTTTCATTTATA | 59.081 | 33.333 | 0.00 | 0.00 | 0.00 | 0.98 |
359 | 372 | 6.756542 | GCGCTATGTTTTTCCCTTTCATTTAT | 59.243 | 34.615 | 0.00 | 0.00 | 0.00 | 1.40 |
369 | 382 | 0.806241 | TTCCGCGCTATGTTTTTCCC | 59.194 | 50.000 | 5.56 | 0.00 | 0.00 | 3.97 |
370 | 383 | 2.622546 | TTTCCGCGCTATGTTTTTCC | 57.377 | 45.000 | 5.56 | 0.00 | 0.00 | 3.13 |
377 | 390 | 2.033236 | TCGCTTTTATTTCCGCGCTATG | 60.033 | 45.455 | 5.56 | 0.00 | 44.72 | 2.23 |
406 | 419 | 4.991687 | GCTTCTTGTATAGGAAATCTCCCG | 59.008 | 45.833 | 0.00 | 0.00 | 43.64 | 5.14 |
495 | 509 | 0.957888 | GCAACCTGAAGCAGTCCTCC | 60.958 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
514 | 528 | 4.787280 | AGGGGAGAGAGGGGTGCG | 62.787 | 72.222 | 0.00 | 0.00 | 0.00 | 5.34 |
531 | 549 | 3.708451 | GCAGGAAATAAAAGGGGAAGGA | 58.292 | 45.455 | 0.00 | 0.00 | 0.00 | 3.36 |
532 | 550 | 2.427095 | CGCAGGAAATAAAAGGGGAAGG | 59.573 | 50.000 | 0.00 | 0.00 | 0.00 | 3.46 |
533 | 551 | 3.089284 | ACGCAGGAAATAAAAGGGGAAG | 58.911 | 45.455 | 0.00 | 0.00 | 0.00 | 3.46 |
534 | 552 | 2.823154 | CACGCAGGAAATAAAAGGGGAA | 59.177 | 45.455 | 0.00 | 0.00 | 0.00 | 3.97 |
535 | 553 | 2.224917 | ACACGCAGGAAATAAAAGGGGA | 60.225 | 45.455 | 0.00 | 0.00 | 0.00 | 4.81 |
536 | 554 | 2.167662 | ACACGCAGGAAATAAAAGGGG | 58.832 | 47.619 | 0.00 | 0.00 | 0.00 | 4.79 |
544 | 562 | 1.609208 | AGCAGAAACACGCAGGAAAT | 58.391 | 45.000 | 0.00 | 0.00 | 0.00 | 2.17 |
573 | 591 | 4.138487 | ACTAGAAATGGTTCGATGGGTC | 57.862 | 45.455 | 0.00 | 0.00 | 38.90 | 4.46 |
574 | 592 | 4.225267 | AGAACTAGAAATGGTTCGATGGGT | 59.775 | 41.667 | 0.00 | 0.00 | 44.33 | 4.51 |
575 | 593 | 4.770795 | AGAACTAGAAATGGTTCGATGGG | 58.229 | 43.478 | 0.00 | 0.00 | 44.33 | 4.00 |
576 | 594 | 5.065218 | CCAAGAACTAGAAATGGTTCGATGG | 59.935 | 44.000 | 13.55 | 13.55 | 44.33 | 3.51 |
577 | 595 | 5.447818 | GCCAAGAACTAGAAATGGTTCGATG | 60.448 | 44.000 | 0.00 | 0.00 | 44.33 | 3.84 |
578 | 596 | 4.636206 | GCCAAGAACTAGAAATGGTTCGAT | 59.364 | 41.667 | 0.00 | 0.00 | 44.33 | 3.59 |
579 | 597 | 4.000988 | GCCAAGAACTAGAAATGGTTCGA | 58.999 | 43.478 | 0.00 | 0.00 | 44.33 | 3.71 |
580 | 598 | 3.127030 | GGCCAAGAACTAGAAATGGTTCG | 59.873 | 47.826 | 0.00 | 0.00 | 44.33 | 3.95 |
581 | 599 | 3.127030 | CGGCCAAGAACTAGAAATGGTTC | 59.873 | 47.826 | 2.24 | 0.00 | 41.24 | 3.62 |
582 | 600 | 3.081804 | CGGCCAAGAACTAGAAATGGTT | 58.918 | 45.455 | 2.24 | 0.00 | 33.63 | 3.67 |
583 | 601 | 2.618045 | CCGGCCAAGAACTAGAAATGGT | 60.618 | 50.000 | 2.24 | 0.00 | 33.63 | 3.55 |
611 | 629 | 0.757188 | GAGCAGGGAAGATCGGGAGA | 60.757 | 60.000 | 0.00 | 0.00 | 46.90 | 3.71 |
689 | 707 | 4.218478 | CGGAATTTCGGCCGCGAC | 62.218 | 66.667 | 23.51 | 9.60 | 41.17 | 5.19 |
795 | 813 | 1.826096 | GAAACGCCTCTAGGAGAAGGT | 59.174 | 52.381 | 6.77 | 0.00 | 38.45 | 3.50 |
888 | 906 | 1.128692 | GAAACCCTCGCGAAGACAATG | 59.871 | 52.381 | 11.33 | 0.00 | 0.00 | 2.82 |
1048 | 1066 | 2.054453 | GCTTCCTGGGCATGGGAAC | 61.054 | 63.158 | 0.00 | 0.00 | 36.78 | 3.62 |
1081 | 1099 | 5.138125 | TCATCATTCAAAAGCTTCCCAAC | 57.862 | 39.130 | 0.00 | 0.00 | 0.00 | 3.77 |
1106 | 1124 | 0.459899 | GAAATCGTCCCCATTTGGCC | 59.540 | 55.000 | 0.00 | 0.00 | 0.00 | 5.36 |
1116 | 1134 | 3.307242 | CCACGAGATCAAAGAAATCGTCC | 59.693 | 47.826 | 1.39 | 0.00 | 44.12 | 4.79 |
1203 | 1251 | 4.509230 | CCATCTAGAACCACACAATCATCG | 59.491 | 45.833 | 0.00 | 0.00 | 0.00 | 3.84 |
1242 | 1290 | 1.887797 | TGTCCTCCCCGATGGTAATT | 58.112 | 50.000 | 0.00 | 0.00 | 34.77 | 1.40 |
1305 | 1353 | 1.047034 | ATACCGGTCCTTTCTCCCCG | 61.047 | 60.000 | 12.40 | 0.00 | 40.12 | 5.73 |
1401 | 1450 | 6.199937 | ACAAAGCATTTCATCTCCATACAC | 57.800 | 37.500 | 0.00 | 0.00 | 35.03 | 2.90 |
1426 | 1475 | 4.212847 | GCACAAGATGGTCATGCATAGTAG | 59.787 | 45.833 | 0.00 | 0.00 | 36.30 | 2.57 |
1427 | 1476 | 4.129380 | GCACAAGATGGTCATGCATAGTA | 58.871 | 43.478 | 0.00 | 0.00 | 36.30 | 1.82 |
1428 | 1477 | 2.947652 | GCACAAGATGGTCATGCATAGT | 59.052 | 45.455 | 0.00 | 0.00 | 36.30 | 2.12 |
1628 | 1719 | 8.311109 | TGGAAAGCCCTAAATTATCTTTTGTTC | 58.689 | 33.333 | 0.00 | 0.00 | 35.38 | 3.18 |
1700 | 1792 | 8.740123 | TGAGAACTTGTTAAGGTTAAACATCA | 57.260 | 30.769 | 0.00 | 0.00 | 0.00 | 3.07 |
1805 | 1899 | 1.739466 | ACCATGCTACAATGCTTCACG | 59.261 | 47.619 | 0.00 | 0.00 | 0.00 | 4.35 |
1953 | 2048 | 3.828451 | CCCAATAATTACATGGAGCTGGG | 59.172 | 47.826 | 16.99 | 0.00 | 36.27 | 4.45 |
2099 | 2194 | 2.620367 | GGTGCCATTGTTGGGTAGATGA | 60.620 | 50.000 | 0.00 | 0.00 | 43.84 | 2.92 |
2200 | 2295 | 6.879458 | ACTCTAACTGAAGTGTGTCTTTGTTT | 59.121 | 34.615 | 0.00 | 0.00 | 36.40 | 2.83 |
2614 | 2709 | 1.310933 | GCAGCCTGTGAAGATGGTGG | 61.311 | 60.000 | 0.00 | 0.00 | 0.00 | 4.61 |
2659 | 2754 | 0.534203 | GTGCACCGGGAAAGTTGAGA | 60.534 | 55.000 | 5.22 | 0.00 | 0.00 | 3.27 |
2790 | 2885 | 4.111375 | ACTGGTACTGTAAGCAGAATCG | 57.889 | 45.455 | 17.25 | 0.00 | 45.70 | 3.34 |
2804 | 2899 | 1.203287 | GGGACCGTGAAGTACTGGTAC | 59.797 | 57.143 | 4.09 | 4.09 | 36.68 | 3.34 |
2893 | 2988 | 1.160329 | GCTGACGCAACAGACTTGGT | 61.160 | 55.000 | 10.67 | 0.00 | 39.94 | 3.67 |
2896 | 2991 | 1.956170 | CGGCTGACGCAACAGACTT | 60.956 | 57.895 | 10.67 | 0.00 | 43.10 | 3.01 |
3212 | 3308 | 2.554893 | GTTTTATTGTCCACGAAGCCCA | 59.445 | 45.455 | 0.00 | 0.00 | 0.00 | 5.36 |
3236 | 3340 | 5.653769 | ACGGACCAGCTACTAGTAACATAAA | 59.346 | 40.000 | 3.76 | 0.00 | 0.00 | 1.40 |
3238 | 3342 | 4.785301 | ACGGACCAGCTACTAGTAACATA | 58.215 | 43.478 | 3.76 | 0.00 | 0.00 | 2.29 |
3272 | 3377 | 3.246619 | GAACATCTTCACCTCTCGTGTC | 58.753 | 50.000 | 0.00 | 0.00 | 43.51 | 3.67 |
3362 | 3467 | 5.131475 | TCCTAATAAAAAGGCCCGTATGACT | 59.869 | 40.000 | 0.00 | 0.00 | 33.84 | 3.41 |
3430 | 3537 | 6.944234 | GCAATAGCTAGGTAGTGGAAATTT | 57.056 | 37.500 | 25.55 | 3.43 | 37.91 | 1.82 |
3592 | 3702 | 7.533289 | AGGGAATACTCTACAGCTAAGAATC | 57.467 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
3604 | 3714 | 8.508601 | TGAATAACCAGTCTAGGGAATACTCTA | 58.491 | 37.037 | 0.00 | 0.00 | 0.00 | 2.43 |
3611 | 3721 | 6.500336 | ACTAGTGAATAACCAGTCTAGGGAA | 58.500 | 40.000 | 0.00 | 0.00 | 32.07 | 3.97 |
3674 | 3785 | 2.439880 | GGGAATCAAACCCTCTCCCTAG | 59.560 | 54.545 | 0.00 | 0.00 | 42.25 | 3.02 |
3675 | 3786 | 2.488836 | GGGAATCAAACCCTCTCCCTA | 58.511 | 52.381 | 0.00 | 0.00 | 42.25 | 3.53 |
3676 | 3787 | 1.299939 | GGGAATCAAACCCTCTCCCT | 58.700 | 55.000 | 0.00 | 0.00 | 42.25 | 4.20 |
3677 | 3788 | 3.905331 | GGGAATCAAACCCTCTCCC | 57.095 | 57.895 | 0.00 | 0.00 | 43.65 | 4.30 |
3712 | 3841 | 7.104290 | AGTTATTCTGCACCTAGTTAAGAACC | 58.896 | 38.462 | 0.00 | 0.00 | 30.17 | 3.62 |
3822 | 3952 | 3.592059 | TCGTTACATGTTGAGGTTAGCC | 58.408 | 45.455 | 2.30 | 0.00 | 0.00 | 3.93 |
3922 | 4078 | 1.301401 | CACCCACACCTACACCACG | 60.301 | 63.158 | 0.00 | 0.00 | 0.00 | 4.94 |
4011 | 6177 | 8.416329 | GCAGGGTATCAATTACAAGAATTCATT | 58.584 | 33.333 | 8.44 | 0.00 | 31.99 | 2.57 |
4012 | 6178 | 7.781693 | AGCAGGGTATCAATTACAAGAATTCAT | 59.218 | 33.333 | 8.44 | 0.00 | 31.99 | 2.57 |
4013 | 6179 | 7.118723 | AGCAGGGTATCAATTACAAGAATTCA | 58.881 | 34.615 | 8.44 | 0.00 | 31.99 | 2.57 |
4014 | 6180 | 7.573968 | AGCAGGGTATCAATTACAAGAATTC | 57.426 | 36.000 | 0.00 | 0.00 | 31.99 | 2.17 |
4015 | 6181 | 7.836183 | AGAAGCAGGGTATCAATTACAAGAATT | 59.164 | 33.333 | 0.00 | 0.00 | 31.99 | 2.17 |
4016 | 6182 | 7.349598 | AGAAGCAGGGTATCAATTACAAGAAT | 58.650 | 34.615 | 0.00 | 0.00 | 31.99 | 2.40 |
4017 | 6183 | 6.721318 | AGAAGCAGGGTATCAATTACAAGAA | 58.279 | 36.000 | 0.00 | 0.00 | 31.99 | 2.52 |
4018 | 6184 | 6.156949 | AGAGAAGCAGGGTATCAATTACAAGA | 59.843 | 38.462 | 0.00 | 0.00 | 31.99 | 3.02 |
4019 | 6185 | 6.352516 | AGAGAAGCAGGGTATCAATTACAAG | 58.647 | 40.000 | 0.00 | 0.00 | 31.99 | 3.16 |
4020 | 6186 | 6.313519 | AGAGAAGCAGGGTATCAATTACAA | 57.686 | 37.500 | 0.00 | 0.00 | 31.99 | 2.41 |
4021 | 6187 | 5.957771 | AGAGAAGCAGGGTATCAATTACA | 57.042 | 39.130 | 0.00 | 0.00 | 31.99 | 2.41 |
4022 | 6188 | 6.587273 | AGAAGAGAAGCAGGGTATCAATTAC | 58.413 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
4023 | 6189 | 6.814954 | AGAAGAGAAGCAGGGTATCAATTA | 57.185 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
4024 | 6190 | 5.707066 | AGAAGAGAAGCAGGGTATCAATT | 57.293 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
4025 | 6191 | 6.556495 | TCATAGAAGAGAAGCAGGGTATCAAT | 59.444 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
4026 | 6192 | 5.899547 | TCATAGAAGAGAAGCAGGGTATCAA | 59.100 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
4027 | 6193 | 5.458595 | TCATAGAAGAGAAGCAGGGTATCA | 58.541 | 41.667 | 0.00 | 0.00 | 0.00 | 2.15 |
4028 | 6194 | 6.412362 | TTCATAGAAGAGAAGCAGGGTATC | 57.588 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
4029 | 6195 | 6.814954 | TTTCATAGAAGAGAAGCAGGGTAT | 57.185 | 37.500 | 0.00 | 0.00 | 0.00 | 2.73 |
4030 | 6196 | 6.620877 | TTTTCATAGAAGAGAAGCAGGGTA | 57.379 | 37.500 | 0.00 | 0.00 | 0.00 | 3.69 |
4031 | 6197 | 5.505181 | TTTTCATAGAAGAGAAGCAGGGT | 57.495 | 39.130 | 0.00 | 0.00 | 0.00 | 4.34 |
4032 | 6198 | 6.118170 | TCATTTTCATAGAAGAGAAGCAGGG | 58.882 | 40.000 | 0.00 | 0.00 | 0.00 | 4.45 |
4033 | 6199 | 7.621428 | TTCATTTTCATAGAAGAGAAGCAGG | 57.379 | 36.000 | 0.00 | 0.00 | 0.00 | 4.85 |
4034 | 6200 | 9.719279 | GAATTCATTTTCATAGAAGAGAAGCAG | 57.281 | 33.333 | 0.00 | 0.00 | 0.00 | 4.24 |
4035 | 6201 | 9.458727 | AGAATTCATTTTCATAGAAGAGAAGCA | 57.541 | 29.630 | 8.44 | 0.00 | 0.00 | 3.91 |
4052 | 6218 | 8.416329 | GCAGGGTATCAATTACAAGAATTCATT | 58.584 | 33.333 | 8.44 | 0.00 | 31.99 | 2.57 |
4053 | 6219 | 7.781693 | AGCAGGGTATCAATTACAAGAATTCAT | 59.218 | 33.333 | 8.44 | 0.00 | 31.99 | 2.57 |
4054 | 6220 | 7.118723 | AGCAGGGTATCAATTACAAGAATTCA | 58.881 | 34.615 | 8.44 | 0.00 | 31.99 | 2.57 |
4055 | 6221 | 7.573968 | AGCAGGGTATCAATTACAAGAATTC | 57.426 | 36.000 | 0.00 | 0.00 | 31.99 | 2.17 |
4056 | 6222 | 7.836183 | AGAAGCAGGGTATCAATTACAAGAATT | 59.164 | 33.333 | 0.00 | 0.00 | 31.99 | 2.17 |
4057 | 6223 | 7.349598 | AGAAGCAGGGTATCAATTACAAGAAT | 58.650 | 34.615 | 0.00 | 0.00 | 31.99 | 2.40 |
4058 | 6224 | 6.721318 | AGAAGCAGGGTATCAATTACAAGAA | 58.279 | 36.000 | 0.00 | 0.00 | 31.99 | 2.52 |
4059 | 6225 | 6.156949 | AGAGAAGCAGGGTATCAATTACAAGA | 59.843 | 38.462 | 0.00 | 0.00 | 31.99 | 3.02 |
4060 | 6226 | 6.352516 | AGAGAAGCAGGGTATCAATTACAAG | 58.647 | 40.000 | 0.00 | 0.00 | 31.99 | 3.16 |
4061 | 6227 | 6.313519 | AGAGAAGCAGGGTATCAATTACAA | 57.686 | 37.500 | 0.00 | 0.00 | 31.99 | 2.41 |
4062 | 6228 | 5.957771 | AGAGAAGCAGGGTATCAATTACA | 57.042 | 39.130 | 0.00 | 0.00 | 31.99 | 2.41 |
4063 | 6229 | 6.587273 | AGAAGAGAAGCAGGGTATCAATTAC | 58.413 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
4064 | 6230 | 6.814954 | AGAAGAGAAGCAGGGTATCAATTA | 57.185 | 37.500 | 0.00 | 0.00 | 0.00 | 1.40 |
4065 | 6231 | 5.707066 | AGAAGAGAAGCAGGGTATCAATT | 57.293 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
4066 | 6232 | 6.556495 | TCATAGAAGAGAAGCAGGGTATCAAT | 59.444 | 38.462 | 0.00 | 0.00 | 0.00 | 2.57 |
4067 | 6233 | 5.899547 | TCATAGAAGAGAAGCAGGGTATCAA | 59.100 | 40.000 | 0.00 | 0.00 | 0.00 | 2.57 |
4068 | 6234 | 5.458595 | TCATAGAAGAGAAGCAGGGTATCA | 58.541 | 41.667 | 0.00 | 0.00 | 0.00 | 2.15 |
4069 | 6235 | 6.412362 | TTCATAGAAGAGAAGCAGGGTATC | 57.588 | 41.667 | 0.00 | 0.00 | 0.00 | 2.24 |
4070 | 6236 | 6.814954 | TTTCATAGAAGAGAAGCAGGGTAT | 57.185 | 37.500 | 0.00 | 0.00 | 0.00 | 2.73 |
4071 | 6237 | 6.620877 | TTTTCATAGAAGAGAAGCAGGGTA | 57.379 | 37.500 | 0.00 | 0.00 | 0.00 | 3.69 |
4072 | 6238 | 5.505181 | TTTTCATAGAAGAGAAGCAGGGT | 57.495 | 39.130 | 0.00 | 0.00 | 0.00 | 4.34 |
4073 | 6239 | 6.118170 | TCATTTTCATAGAAGAGAAGCAGGG | 58.882 | 40.000 | 0.00 | 0.00 | 0.00 | 4.45 |
4074 | 6240 | 7.621428 | TTCATTTTCATAGAAGAGAAGCAGG | 57.379 | 36.000 | 0.00 | 0.00 | 0.00 | 4.85 |
4075 | 6241 | 8.728833 | ACTTTCATTTTCATAGAAGAGAAGCAG | 58.271 | 33.333 | 0.00 | 0.00 | 0.00 | 4.24 |
4076 | 6242 | 8.627208 | ACTTTCATTTTCATAGAAGAGAAGCA | 57.373 | 30.769 | 0.00 | 0.00 | 0.00 | 3.91 |
4077 | 6243 | 9.905171 | AAACTTTCATTTTCATAGAAGAGAAGC | 57.095 | 29.630 | 0.00 | 0.00 | 0.00 | 3.86 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.