Multiple sequence alignment - TraesCS6D01G152100
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 | TraesCS6D01G152100 | chr6D | 100.000 | 3949 | 0 | 0 | 1 | 3949 | 125248439 | 125244491 | 0.000000e+00 | 7293.0 |
1 | TraesCS6D01G152100 | chr6D | 96.000 | 100 | 4 | 0 | 3397 | 3496 | 125244992 | 125244893 | 3.160000e-36 | 163.0 |
2 | TraesCS6D01G152100 | chr6D | 96.000 | 100 | 4 | 0 | 3448 | 3547 | 125245043 | 125244944 | 3.160000e-36 | 163.0 |
3 | TraesCS6D01G152100 | chr6D | 95.918 | 49 | 2 | 0 | 3397 | 3445 | 125244941 | 125244893 | 3.270000e-11 | 80.5 |
4 | TraesCS6D01G152100 | chr6D | 95.918 | 49 | 2 | 0 | 3499 | 3547 | 125245043 | 125244995 | 3.270000e-11 | 80.5 |
5 | TraesCS6D01G152100 | chr6B | 94.010 | 1853 | 79 | 18 | 1 | 1827 | 223572972 | 223571126 | 0.000000e+00 | 2778.0 |
6 | TraesCS6D01G152100 | chr6B | 91.492 | 1528 | 72 | 23 | 1987 | 3494 | 223570810 | 223569321 | 0.000000e+00 | 2049.0 |
7 | TraesCS6D01G152100 | chr6B | 91.193 | 352 | 18 | 10 | 3448 | 3792 | 223569418 | 223569073 | 2.150000e-127 | 466.0 |
8 | TraesCS6D01G152100 | chr6B | 95.522 | 134 | 6 | 0 | 1832 | 1965 | 223571002 | 223570869 | 8.590000e-52 | 215.0 |
9 | TraesCS6D01G152100 | chr6B | 92.361 | 144 | 10 | 1 | 3649 | 3792 | 223568923 | 223568781 | 1.860000e-48 | 204.0 |
10 | TraesCS6D01G152100 | chr6B | 90.411 | 146 | 9 | 5 | 3652 | 3792 | 223569069 | 223568924 | 1.870000e-43 | 187.0 |
11 | TraesCS6D01G152100 | chr6B | 86.420 | 81 | 8 | 3 | 3869 | 3947 | 564311623 | 564311544 | 7.030000e-13 | 86.1 |
12 | TraesCS6D01G152100 | chr6B | 93.617 | 47 | 3 | 0 | 3499 | 3545 | 223569418 | 223569372 | 1.970000e-08 | 71.3 |
13 | TraesCS6D01G152100 | chr6B | 75.694 | 144 | 28 | 5 | 3766 | 3904 | 630451842 | 630451701 | 9.160000e-07 | 65.8 |
14 | TraesCS6D01G152100 | chr6A | 93.333 | 1845 | 83 | 14 | 1 | 1827 | 155223305 | 155225127 | 0.000000e+00 | 2689.0 |
15 | TraesCS6D01G152100 | chr6A | 93.701 | 1413 | 69 | 12 | 1978 | 3383 | 155225536 | 155226935 | 0.000000e+00 | 2098.0 |
16 | TraesCS6D01G152100 | chr6A | 89.453 | 512 | 31 | 10 | 3448 | 3949 | 155227260 | 155227758 | 3.350000e-175 | 625.0 |
17 | TraesCS6D01G152100 | chr6A | 94.030 | 134 | 8 | 0 | 1832 | 1965 | 155225356 | 155225489 | 1.860000e-48 | 204.0 |
18 | TraesCS6D01G152100 | chr6A | 90.244 | 123 | 12 | 0 | 3374 | 3496 | 155227237 | 155227359 | 1.140000e-35 | 161.0 |
19 | TraesCS6D01G152100 | chr7B | 87.383 | 214 | 27 | 0 | 1480 | 1693 | 518388301 | 518388088 | 3.050000e-61 | 246.0 |
20 | TraesCS6D01G152100 | chr7B | 88.679 | 53 | 5 | 1 | 3896 | 3947 | 114415105 | 114415053 | 3.290000e-06 | 63.9 |
21 | TraesCS6D01G152100 | chr7D | 86.547 | 223 | 29 | 1 | 1480 | 1702 | 489721570 | 489721349 | 1.100000e-60 | 244.0 |
22 | TraesCS6D01G152100 | chr7D | 79.070 | 215 | 29 | 10 | 3748 | 3947 | 420766359 | 420766572 | 2.480000e-27 | 134.0 |
23 | TraesCS6D01G152100 | chr7A | 86.099 | 223 | 27 | 2 | 1480 | 1702 | 556505921 | 556505703 | 1.830000e-58 | 237.0 |
24 | TraesCS6D01G152100 | chr1A | 80.423 | 189 | 24 | 3 | 3772 | 3947 | 449845988 | 449845800 | 8.900000e-27 | 132.0 |
25 | TraesCS6D01G152100 | chr4D | 79.602 | 201 | 26 | 12 | 3758 | 3944 | 13604741 | 13604542 | 3.200000e-26 | 130.0 |
26 | TraesCS6D01G152100 | chr4A | 83.824 | 136 | 19 | 3 | 3804 | 3937 | 31431263 | 31431129 | 4.140000e-25 | 126.0 |
27 | TraesCS6D01G152100 | chr4A | 79.104 | 134 | 20 | 6 | 3804 | 3933 | 26766649 | 26766520 | 7.030000e-13 | 86.1 |
28 | TraesCS6D01G152100 | chr3B | 78.173 | 197 | 24 | 7 | 3770 | 3947 | 807075465 | 807075269 | 1.500000e-19 | 108.0 |
29 | TraesCS6D01G152100 | chr1B | 76.768 | 198 | 30 | 9 | 3765 | 3947 | 138570459 | 138570263 | 3.250000e-16 | 97.1 |
30 | TraesCS6D01G152100 | chr2A | 82.407 | 108 | 16 | 3 | 3756 | 3861 | 718389463 | 718389357 | 1.510000e-14 | 91.6 |
31 | TraesCS6D01G152100 | chr2B | 90.909 | 55 | 3 | 2 | 3805 | 3858 | 6316588 | 6316641 | 5.470000e-09 | 73.1 |
32 | TraesCS6D01G152100 | chr5D | 76.159 | 151 | 27 | 9 | 3804 | 3949 | 217408242 | 217408096 | 1.970000e-08 | 71.3 |
33 | TraesCS6D01G152100 | chr3A | 74.346 | 191 | 30 | 16 | 3765 | 3939 | 155015353 | 155015166 | 3.290000e-06 | 63.9 |
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 | TraesCS6D01G152100 | chr6D | 125244491 | 125248439 | 3948 | True | 1556.0 | 7293 | 96.7672 | 1 | 3949 | 5 | chr6D.!!$R1 | 3948 |
1 | TraesCS6D01G152100 | chr6B | 223568781 | 223572972 | 4191 | True | 852.9 | 2778 | 92.6580 | 1 | 3792 | 7 | chr6B.!!$R3 | 3791 |
2 | TraesCS6D01G152100 | chr6A | 155223305 | 155227758 | 4453 | False | 1155.4 | 2689 | 92.1522 | 1 | 3949 | 5 | chr6A.!!$F1 | 3948 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
258 | 272 | 0.602562 | ATTGTGGCCATGTTTGACGG | 59.397 | 50.000 | 9.72 | 0.0 | 0.00 | 4.79 | F |
594 | 612 | 1.876156 | CAGAGGCACCTGAAACTGAAC | 59.124 | 52.381 | 0.00 | 0.0 | 36.29 | 3.18 | F |
2022 | 2317 | 0.178903 | ACTTCTGCACTGGGGTCCTA | 60.179 | 55.000 | 0.00 | 0.0 | 0.00 | 2.94 | F |
2663 | 2968 | 0.178953 | AACATTGGTGCCAAGCCTCT | 60.179 | 50.000 | 9.65 | 0.0 | 39.47 | 3.69 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1736 | 1770 | 2.151202 | GCAGCAGTAAAGCACCAAGTA | 58.849 | 47.619 | 0.00 | 0.0 | 36.85 | 2.24 | R |
2274 | 2577 | 0.106569 | TCAATATGGTGCTGCAGGGG | 60.107 | 55.000 | 17.12 | 0.0 | 0.00 | 4.79 | R |
2861 | 3169 | 0.107831 | CCTTGAAGGTCACCGTTCCA | 59.892 | 55.000 | 2.25 | 0.0 | 35.16 | 3.53 | R |
3718 | 4351 | 0.183014 | TATCCTCGGCGTTCTCTCCT | 59.817 | 55.000 | 6.85 | 0.0 | 0.00 | 3.69 | 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 |
---|---|---|---|---|---|---|---|---|---|
103 | 104 | 4.944962 | TGATACGCTGTTTCCTTCAATG | 57.055 | 40.909 | 0.00 | 0.00 | 0.00 | 2.82 |
104 | 105 | 4.574892 | TGATACGCTGTTTCCTTCAATGA | 58.425 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
164 | 165 | 4.088634 | ACATGTGATGTTGTTATGGCCTT | 58.911 | 39.130 | 3.32 | 0.00 | 41.63 | 4.35 |
166 | 167 | 5.011943 | ACATGTGATGTTGTTATGGCCTTTT | 59.988 | 36.000 | 3.32 | 0.00 | 41.63 | 2.27 |
258 | 272 | 0.602562 | ATTGTGGCCATGTTTGACGG | 59.397 | 50.000 | 9.72 | 0.00 | 0.00 | 4.79 |
289 | 303 | 2.963432 | CCACAAGGCAATCATCCAAAC | 58.037 | 47.619 | 0.00 | 0.00 | 0.00 | 2.93 |
290 | 304 | 2.564062 | CCACAAGGCAATCATCCAAACT | 59.436 | 45.455 | 0.00 | 0.00 | 0.00 | 2.66 |
291 | 305 | 3.581755 | CACAAGGCAATCATCCAAACTG | 58.418 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
292 | 306 | 3.006110 | CACAAGGCAATCATCCAAACTGT | 59.994 | 43.478 | 0.00 | 0.00 | 0.00 | 3.55 |
294 | 308 | 4.832266 | ACAAGGCAATCATCCAAACTGTTA | 59.168 | 37.500 | 0.00 | 0.00 | 0.00 | 2.41 |
295 | 309 | 5.163513 | CAAGGCAATCATCCAAACTGTTAC | 58.836 | 41.667 | 0.00 | 0.00 | 0.00 | 2.50 |
296 | 310 | 4.406456 | AGGCAATCATCCAAACTGTTACA | 58.594 | 39.130 | 0.00 | 0.00 | 0.00 | 2.41 |
297 | 311 | 5.018809 | AGGCAATCATCCAAACTGTTACAT | 58.981 | 37.500 | 0.00 | 0.00 | 0.00 | 2.29 |
299 | 313 | 6.663093 | AGGCAATCATCCAAACTGTTACATAA | 59.337 | 34.615 | 0.00 | 0.00 | 0.00 | 1.90 |
300 | 314 | 7.342799 | AGGCAATCATCCAAACTGTTACATAAT | 59.657 | 33.333 | 0.00 | 0.00 | 0.00 | 1.28 |
340 | 356 | 4.883759 | TGAGAATTAGACAGGGAGATCCA | 58.116 | 43.478 | 0.47 | 0.00 | 38.24 | 3.41 |
345 | 362 | 7.646884 | AGAATTAGACAGGGAGATCCAATTTT | 58.353 | 34.615 | 0.47 | 0.00 | 38.24 | 1.82 |
489 | 506 | 4.041075 | TCAAGTAACACCTCAAGCACCATA | 59.959 | 41.667 | 0.00 | 0.00 | 0.00 | 2.74 |
490 | 507 | 4.634012 | AGTAACACCTCAAGCACCATAA | 57.366 | 40.909 | 0.00 | 0.00 | 0.00 | 1.90 |
491 | 508 | 4.324267 | AGTAACACCTCAAGCACCATAAC | 58.676 | 43.478 | 0.00 | 0.00 | 0.00 | 1.89 |
567 | 585 | 4.232091 | ACGTTATCCCCTATGTCCATTCT | 58.768 | 43.478 | 0.00 | 0.00 | 0.00 | 2.40 |
594 | 612 | 1.876156 | CAGAGGCACCTGAAACTGAAC | 59.124 | 52.381 | 0.00 | 0.00 | 36.29 | 3.18 |
714 | 732 | 6.998802 | AGTGTCACTTTTAGAAGAGCTATGT | 58.001 | 36.000 | 0.00 | 0.00 | 36.69 | 2.29 |
755 | 787 | 8.077991 | GGCAGTCAACTAACGTATATACACATA | 58.922 | 37.037 | 13.22 | 2.22 | 0.00 | 2.29 |
756 | 788 | 9.622004 | GCAGTCAACTAACGTATATACACATAT | 57.378 | 33.333 | 13.22 | 0.00 | 0.00 | 1.78 |
782 | 814 | 9.337396 | TGTAAGATCTTGCTCTTCTTTGTTTTA | 57.663 | 29.630 | 21.95 | 0.00 | 36.82 | 1.52 |
783 | 815 | 9.818796 | GTAAGATCTTGCTCTTCTTTGTTTTAG | 57.181 | 33.333 | 18.47 | 0.00 | 36.82 | 1.85 |
796 | 828 | 9.273016 | CTTCTTTGTTTTAGTCAAGAGTGGATA | 57.727 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
802 | 834 | 9.166173 | TGTTTTAGTCAAGAGTGGATATCAATG | 57.834 | 33.333 | 4.83 | 0.00 | 0.00 | 2.82 |
808 | 840 | 5.876460 | TCAAGAGTGGATATCAATGTGTGTG | 59.124 | 40.000 | 4.83 | 0.00 | 0.00 | 3.82 |
811 | 843 | 6.240894 | AGAGTGGATATCAATGTGTGTGTTT | 58.759 | 36.000 | 4.83 | 0.00 | 0.00 | 2.83 |
851 | 883 | 6.959639 | ATTGTTATAGTATTGGTGGCTTGG | 57.040 | 37.500 | 0.00 | 0.00 | 0.00 | 3.61 |
887 | 919 | 3.820467 | TCAGTTGCCCTTAAATGTGTGAG | 59.180 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
1152 | 1185 | 7.337942 | AGTGTCATCATGAAGTTCCCTAAAATC | 59.662 | 37.037 | 0.00 | 0.00 | 0.00 | 2.17 |
1160 | 1193 | 4.373348 | AGTTCCCTAAAATCGACGAGAG | 57.627 | 45.455 | 3.01 | 0.00 | 0.00 | 3.20 |
1233 | 1266 | 6.406624 | CCCCTGTATGTAAAGTTGTCGACTAT | 60.407 | 42.308 | 17.92 | 0.00 | 37.72 | 2.12 |
1234 | 1267 | 6.696148 | CCCTGTATGTAAAGTTGTCGACTATC | 59.304 | 42.308 | 17.92 | 7.07 | 37.72 | 2.08 |
1253 | 1286 | 6.762333 | ACTATCGTTGGTAGTGTTAACCTTT | 58.238 | 36.000 | 2.48 | 0.00 | 37.91 | 3.11 |
1279 | 1312 | 5.247507 | TCTACCATGCCATCAAAATTTCG | 57.752 | 39.130 | 0.00 | 0.00 | 0.00 | 3.46 |
1309 | 1342 | 7.598278 | TCAAGTCTGAGAACTAGTTTGAGATC | 58.402 | 38.462 | 10.02 | 4.50 | 0.00 | 2.75 |
1361 | 1394 | 9.547279 | AACCTACTTGGGATAATTTTGATTTCT | 57.453 | 29.630 | 0.00 | 0.00 | 41.11 | 2.52 |
1362 | 1395 | 9.190317 | ACCTACTTGGGATAATTTTGATTTCTC | 57.810 | 33.333 | 0.00 | 0.00 | 41.11 | 2.87 |
1567 | 1601 | 6.750660 | ATCTCATTCACAGATGAGGAGATT | 57.249 | 37.500 | 13.22 | 4.12 | 45.81 | 2.40 |
1588 | 1622 | 8.723942 | AGATTAAAGATCTATTTGAAGCGTGT | 57.276 | 30.769 | 0.00 | 0.00 | 0.00 | 4.49 |
1600 | 1634 | 6.588348 | TTTGAAGCGTGTGACATATATGAG | 57.412 | 37.500 | 19.63 | 4.65 | 0.00 | 2.90 |
1609 | 1643 | 4.102996 | TGTGACATATATGAGCACATGGGT | 59.897 | 41.667 | 26.90 | 4.19 | 39.58 | 4.51 |
1698 | 1732 | 6.609212 | TCAGAAGCAGTATCCTTCATACTTCT | 59.391 | 38.462 | 0.00 | 0.00 | 44.80 | 2.85 |
1700 | 1734 | 8.584157 | CAGAAGCAGTATCCTTCATACTTCTAT | 58.416 | 37.037 | 0.00 | 0.00 | 44.80 | 1.98 |
1730 | 1764 | 6.749923 | AATACACCTGCTTTCAGAATTCTC | 57.250 | 37.500 | 4.57 | 0.00 | 42.95 | 2.87 |
1736 | 1770 | 4.574013 | CCTGCTTTCAGAATTCTCGCTATT | 59.426 | 41.667 | 4.57 | 0.00 | 42.95 | 1.73 |
1768 | 1802 | 0.904649 | ACTGCTGCTGCTACACCATA | 59.095 | 50.000 | 17.00 | 0.00 | 40.48 | 2.74 |
1770 | 1804 | 2.092753 | ACTGCTGCTGCTACACCATATT | 60.093 | 45.455 | 17.00 | 0.00 | 40.48 | 1.28 |
1818 | 1852 | 4.211125 | TGACCCAGTTCATAAAAGCAACA | 58.789 | 39.130 | 0.00 | 0.00 | 0.00 | 3.33 |
1866 | 2124 | 5.446860 | TCGACATAAGGAGTAGGAATCACT | 58.553 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
1977 | 2235 | 9.699410 | ATTGTCCAAGGTATAAATCATGAAAGA | 57.301 | 29.630 | 0.00 | 0.00 | 0.00 | 2.52 |
1978 | 2236 | 9.699410 | TTGTCCAAGGTATAAATCATGAAAGAT | 57.301 | 29.630 | 0.00 | 0.00 | 0.00 | 2.40 |
2017 | 2312 | 0.321122 | GTCAGACTTCTGCACTGGGG | 60.321 | 60.000 | 0.99 | 0.00 | 43.46 | 4.96 |
2022 | 2317 | 0.178903 | ACTTCTGCACTGGGGTCCTA | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 2.94 |
2047 | 2350 | 8.911247 | AGTTTACATGTTTCTTTGTTCTGTTC | 57.089 | 30.769 | 2.30 | 0.00 | 0.00 | 3.18 |
2052 | 2355 | 7.198390 | ACATGTTTCTTTGTTCTGTTCTGATG | 58.802 | 34.615 | 0.00 | 0.00 | 0.00 | 3.07 |
2063 | 2366 | 3.513119 | TCTGTTCTGATGAGGAGACTTGG | 59.487 | 47.826 | 0.00 | 0.00 | 44.43 | 3.61 |
2120 | 2423 | 2.508300 | GGGATTAGGTAACCTTGAGCCA | 59.492 | 50.000 | 0.00 | 0.00 | 34.61 | 4.75 |
2269 | 2572 | 3.555518 | GCGTGAAAAGATTTGGTGAGTC | 58.444 | 45.455 | 0.00 | 0.00 | 0.00 | 3.36 |
2274 | 2577 | 6.606768 | GTGAAAAGATTTGGTGAGTCATCTC | 58.393 | 40.000 | 4.73 | 0.00 | 40.79 | 2.75 |
2275 | 2578 | 5.707298 | TGAAAAGATTTGGTGAGTCATCTCC | 59.293 | 40.000 | 4.73 | 0.00 | 39.75 | 3.71 |
2284 | 2587 | 1.614525 | AGTCATCTCCCCTGCAGCA | 60.615 | 57.895 | 8.66 | 0.00 | 0.00 | 4.41 |
2285 | 2588 | 1.451028 | GTCATCTCCCCTGCAGCAC | 60.451 | 63.158 | 8.66 | 0.00 | 0.00 | 4.40 |
2332 | 2635 | 6.982724 | TCTGAAGCATTACACATACTCTCATG | 59.017 | 38.462 | 0.00 | 0.00 | 0.00 | 3.07 |
2338 | 2641 | 6.690098 | GCATTACACATACTCTCATGCTTTTG | 59.310 | 38.462 | 0.00 | 0.00 | 34.10 | 2.44 |
2437 | 2740 | 6.211515 | GCACCATTGCTTTTATAGGAATCTG | 58.788 | 40.000 | 0.00 | 0.00 | 42.33 | 2.90 |
2438 | 2741 | 6.183360 | GCACCATTGCTTTTATAGGAATCTGT | 60.183 | 38.462 | 0.00 | 0.00 | 42.33 | 3.41 |
2445 | 2750 | 9.733556 | TTGCTTTTATAGGAATCTGTAGTTCAA | 57.266 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
2476 | 2781 | 7.778382 | ACACTTTTAGAAAGTAAATCTGGTGGT | 59.222 | 33.333 | 5.81 | 0.00 | 0.00 | 4.16 |
2477 | 2782 | 8.076178 | CACTTTTAGAAAGTAAATCTGGTGGTG | 58.924 | 37.037 | 5.81 | 0.00 | 0.00 | 4.17 |
2485 | 2790 | 6.976934 | AGTAAATCTGGTGGTGAAAACAAT | 57.023 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
2548 | 2853 | 5.044030 | TCTGGAATTACCACCTCTCTCTACT | 60.044 | 44.000 | 0.00 | 0.00 | 44.64 | 2.57 |
2630 | 2935 | 1.135460 | GTCTCAAGCTGCTGGCAATTC | 60.135 | 52.381 | 1.35 | 0.00 | 44.79 | 2.17 |
2634 | 2939 | 3.156293 | TCAAGCTGCTGGCAATTCTAAA | 58.844 | 40.909 | 1.35 | 0.00 | 44.79 | 1.85 |
2663 | 2968 | 0.178953 | AACATTGGTGCCAAGCCTCT | 60.179 | 50.000 | 9.65 | 0.00 | 39.47 | 3.69 |
2677 | 2982 | 2.136878 | CCTCTGCGGTAGGGATGCT | 61.137 | 63.158 | 0.00 | 0.00 | 0.00 | 3.79 |
2721 | 3026 | 3.068024 | TCGTGCTTTGGCTTTTGAAGAAT | 59.932 | 39.130 | 0.00 | 0.00 | 39.59 | 2.40 |
2724 | 3029 | 5.461737 | CGTGCTTTGGCTTTTGAAGAATTTA | 59.538 | 36.000 | 0.00 | 0.00 | 39.59 | 1.40 |
2781 | 3086 | 3.825328 | CTTAGTGCTTATTCCAGCCCAT | 58.175 | 45.455 | 0.00 | 0.00 | 39.25 | 4.00 |
2822 | 3127 | 8.279970 | TCATTTATGTTCACCCTGATGTTTAG | 57.720 | 34.615 | 0.00 | 0.00 | 0.00 | 1.85 |
2831 | 3139 | 4.455877 | CACCCTGATGTTTAGTCTTTGGTC | 59.544 | 45.833 | 0.00 | 0.00 | 0.00 | 4.02 |
2947 | 3255 | 4.741676 | TGAAGATGACGACGATGATGAATG | 59.258 | 41.667 | 0.00 | 0.00 | 0.00 | 2.67 |
2951 | 3259 | 1.449789 | GACGACGATGATGAATGAGCG | 59.550 | 52.381 | 0.00 | 0.00 | 0.00 | 5.03 |
3084 | 3393 | 8.755696 | TTGCCAATTATGTCTGTTTATGTTTC | 57.244 | 30.769 | 0.00 | 0.00 | 0.00 | 2.78 |
3085 | 3394 | 8.121305 | TGCCAATTATGTCTGTTTATGTTTCT | 57.879 | 30.769 | 0.00 | 0.00 | 0.00 | 2.52 |
3086 | 3395 | 8.028354 | TGCCAATTATGTCTGTTTATGTTTCTG | 58.972 | 33.333 | 0.00 | 0.00 | 0.00 | 3.02 |
3088 | 3397 | 9.912634 | CCAATTATGTCTGTTTATGTTTCTGTT | 57.087 | 29.630 | 0.00 | 0.00 | 0.00 | 3.16 |
3116 | 3425 | 5.237344 | AGAAATGAACCGAAGTTGTTGAGAG | 59.763 | 40.000 | 0.00 | 0.00 | 35.94 | 3.20 |
3117 | 3426 | 2.833794 | TGAACCGAAGTTGTTGAGAGG | 58.166 | 47.619 | 0.00 | 0.00 | 35.94 | 3.69 |
3124 | 3433 | 3.815401 | CGAAGTTGTTGAGAGGATTTGGT | 59.185 | 43.478 | 0.00 | 0.00 | 0.00 | 3.67 |
3192 | 3501 | 1.821336 | TTGAAAACTTTGTGCGCTCG | 58.179 | 45.000 | 9.73 | 0.00 | 0.00 | 5.03 |
3455 | 4082 | 4.739195 | GGCATTTAGGCGTAACAAAATCA | 58.261 | 39.130 | 0.00 | 0.00 | 33.57 | 2.57 |
3456 | 4083 | 4.561213 | GGCATTTAGGCGTAACAAAATCAC | 59.439 | 41.667 | 0.00 | 0.00 | 33.57 | 3.06 |
3457 | 4084 | 5.157781 | GCATTTAGGCGTAACAAAATCACA | 58.842 | 37.500 | 0.00 | 0.00 | 0.00 | 3.58 |
3458 | 4085 | 5.631512 | GCATTTAGGCGTAACAAAATCACAA | 59.368 | 36.000 | 0.00 | 0.00 | 0.00 | 3.33 |
3459 | 4086 | 6.310224 | GCATTTAGGCGTAACAAAATCACAAT | 59.690 | 34.615 | 0.00 | 0.00 | 0.00 | 2.71 |
3460 | 4087 | 7.665471 | CATTTAGGCGTAACAAAATCACAATG | 58.335 | 34.615 | 0.00 | 0.00 | 0.00 | 2.82 |
3461 | 4088 | 4.846779 | AGGCGTAACAAAATCACAATGT | 57.153 | 36.364 | 0.00 | 0.00 | 0.00 | 2.71 |
3462 | 4089 | 4.794169 | AGGCGTAACAAAATCACAATGTC | 58.206 | 39.130 | 0.00 | 0.00 | 0.00 | 3.06 |
3463 | 4090 | 3.602062 | GGCGTAACAAAATCACAATGTCG | 59.398 | 43.478 | 0.00 | 0.00 | 0.00 | 4.35 |
3464 | 4091 | 4.459606 | GCGTAACAAAATCACAATGTCGA | 58.540 | 39.130 | 0.00 | 0.00 | 0.00 | 4.20 |
3465 | 4092 | 4.549599 | GCGTAACAAAATCACAATGTCGAG | 59.450 | 41.667 | 0.00 | 0.00 | 0.00 | 4.04 |
3466 | 4093 | 5.675970 | CGTAACAAAATCACAATGTCGAGT | 58.324 | 37.500 | 0.00 | 0.00 | 0.00 | 4.18 |
3467 | 4094 | 6.133392 | CGTAACAAAATCACAATGTCGAGTT | 58.867 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
3468 | 4095 | 6.084939 | CGTAACAAAATCACAATGTCGAGTTG | 59.915 | 38.462 | 8.50 | 8.50 | 0.00 | 3.16 |
3469 | 4096 | 4.290155 | ACAAAATCACAATGTCGAGTTGC | 58.710 | 39.130 | 9.69 | 0.00 | 0.00 | 4.17 |
3470 | 4097 | 4.202000 | ACAAAATCACAATGTCGAGTTGCA | 60.202 | 37.500 | 9.69 | 0.00 | 0.00 | 4.08 |
3471 | 4098 | 4.566545 | AAATCACAATGTCGAGTTGCAA | 57.433 | 36.364 | 9.69 | 0.00 | 0.00 | 4.08 |
3472 | 4099 | 3.818961 | ATCACAATGTCGAGTTGCAAG | 57.181 | 42.857 | 0.00 | 0.00 | 0.00 | 4.01 |
3473 | 4100 | 2.560504 | TCACAATGTCGAGTTGCAAGT | 58.439 | 42.857 | 6.46 | 6.46 | 0.00 | 3.16 |
3474 | 4101 | 3.723260 | TCACAATGTCGAGTTGCAAGTA | 58.277 | 40.909 | 6.80 | 0.00 | 0.00 | 2.24 |
3475 | 4102 | 4.314961 | TCACAATGTCGAGTTGCAAGTAT | 58.685 | 39.130 | 6.80 | 0.00 | 0.00 | 2.12 |
3476 | 4103 | 5.474825 | TCACAATGTCGAGTTGCAAGTATA | 58.525 | 37.500 | 6.80 | 0.00 | 0.00 | 1.47 |
3477 | 4104 | 6.106003 | TCACAATGTCGAGTTGCAAGTATAT | 58.894 | 36.000 | 6.80 | 0.00 | 0.00 | 0.86 |
3478 | 4105 | 6.593770 | TCACAATGTCGAGTTGCAAGTATATT | 59.406 | 34.615 | 6.80 | 0.11 | 0.00 | 1.28 |
3479 | 4106 | 7.119116 | TCACAATGTCGAGTTGCAAGTATATTT | 59.881 | 33.333 | 6.80 | 0.00 | 0.00 | 1.40 |
3480 | 4107 | 7.426456 | CACAATGTCGAGTTGCAAGTATATTTC | 59.574 | 37.037 | 6.80 | 0.00 | 0.00 | 2.17 |
3481 | 4108 | 7.119116 | ACAATGTCGAGTTGCAAGTATATTTCA | 59.881 | 33.333 | 6.80 | 2.20 | 0.00 | 2.69 |
3482 | 4109 | 6.403333 | TGTCGAGTTGCAAGTATATTTCAC | 57.597 | 37.500 | 6.80 | 0.00 | 0.00 | 3.18 |
3483 | 4110 | 6.163476 | TGTCGAGTTGCAAGTATATTTCACT | 58.837 | 36.000 | 6.80 | 0.00 | 0.00 | 3.41 |
3484 | 4111 | 6.090763 | TGTCGAGTTGCAAGTATATTTCACTG | 59.909 | 38.462 | 6.80 | 0.00 | 0.00 | 3.66 |
3485 | 4112 | 5.580691 | TCGAGTTGCAAGTATATTTCACTGG | 59.419 | 40.000 | 6.80 | 0.00 | 0.00 | 4.00 |
3486 | 4113 | 5.567138 | AGTTGCAAGTATATTTCACTGGC | 57.433 | 39.130 | 4.57 | 0.00 | 42.36 | 4.85 |
3490 | 4117 | 6.528537 | TGCAAGTATATTTCACTGGCATTT | 57.471 | 33.333 | 2.55 | 0.00 | 45.80 | 2.32 |
3491 | 4118 | 7.637631 | TGCAAGTATATTTCACTGGCATTTA | 57.362 | 32.000 | 2.55 | 0.00 | 45.80 | 1.40 |
3492 | 4119 | 7.706159 | TGCAAGTATATTTCACTGGCATTTAG | 58.294 | 34.615 | 2.55 | 0.00 | 45.80 | 1.85 |
3493 | 4120 | 7.141363 | GCAAGTATATTTCACTGGCATTTAGG | 58.859 | 38.462 | 0.00 | 0.00 | 41.75 | 2.69 |
3494 | 4121 | 6.884280 | AGTATATTTCACTGGCATTTAGGC | 57.116 | 37.500 | 0.00 | 0.00 | 44.50 | 3.93 |
3511 | 4138 | 9.291664 | GCATTTAGGCGTAACAAAATTACAATA | 57.708 | 29.630 | 0.00 | 0.00 | 0.00 | 1.90 |
3559 | 4186 | 2.107950 | TTAGGCGCTTATGCTGTTGT | 57.892 | 45.000 | 7.64 | 0.00 | 36.97 | 3.32 |
3694 | 4327 | 1.004927 | GCGCTCAAAGTATTAGCACCG | 60.005 | 52.381 | 0.00 | 0.00 | 35.98 | 4.94 |
3718 | 4351 | 1.110442 | CAGGCTTTGTTGGTGACCAA | 58.890 | 50.000 | 14.05 | 14.05 | 41.69 | 3.67 |
3721 | 4354 | 1.398692 | GCTTTGTTGGTGACCAAGGA | 58.601 | 50.000 | 18.89 | 6.39 | 44.82 | 3.36 |
3809 | 4739 | 6.971527 | TCGAAGAACAAAGTACTTCAAACA | 57.028 | 33.333 | 8.95 | 0.00 | 39.64 | 2.83 |
3810 | 4740 | 7.548196 | TCGAAGAACAAAGTACTTCAAACAT | 57.452 | 32.000 | 8.95 | 0.00 | 39.64 | 2.71 |
3849 | 4779 | 1.574134 | TTCTGAAACCACCGAACGAC | 58.426 | 50.000 | 0.00 | 0.00 | 0.00 | 4.34 |
3850 | 4780 | 0.460722 | TCTGAAACCACCGAACGACA | 59.539 | 50.000 | 0.00 | 0.00 | 0.00 | 4.35 |
3854 | 4784 | 2.159128 | TGAAACCACCGAACGACAACTA | 60.159 | 45.455 | 0.00 | 0.00 | 0.00 | 2.24 |
3855 | 4785 | 1.856802 | AACCACCGAACGACAACTAC | 58.143 | 50.000 | 0.00 | 0.00 | 0.00 | 2.73 |
3856 | 4786 | 1.035139 | ACCACCGAACGACAACTACT | 58.965 | 50.000 | 0.00 | 0.00 | 0.00 | 2.57 |
3857 | 4787 | 2.229792 | ACCACCGAACGACAACTACTA | 58.770 | 47.619 | 0.00 | 0.00 | 0.00 | 1.82 |
3858 | 4788 | 2.030805 | ACCACCGAACGACAACTACTAC | 60.031 | 50.000 | 0.00 | 0.00 | 0.00 | 2.73 |
3859 | 4789 | 2.589014 | CACCGAACGACAACTACTACC | 58.411 | 52.381 | 0.00 | 0.00 | 0.00 | 3.18 |
3860 | 4790 | 1.197721 | ACCGAACGACAACTACTACCG | 59.802 | 52.381 | 0.00 | 0.00 | 0.00 | 4.02 |
3861 | 4791 | 1.197721 | CCGAACGACAACTACTACCGT | 59.802 | 52.381 | 0.00 | 0.00 | 34.74 | 4.83 |
3862 | 4792 | 2.350772 | CCGAACGACAACTACTACCGTT | 60.351 | 50.000 | 0.00 | 0.00 | 44.63 | 4.44 |
3863 | 4793 | 3.120338 | CCGAACGACAACTACTACCGTTA | 60.120 | 47.826 | 0.00 | 0.00 | 42.47 | 3.18 |
3864 | 4794 | 4.084507 | CGAACGACAACTACTACCGTTAG | 58.915 | 47.826 | 0.00 | 0.00 | 42.47 | 2.34 |
3879 | 4809 | 1.006688 | TTAGAACGCGCTGCTGTCA | 60.007 | 52.632 | 5.73 | 0.00 | 0.00 | 3.58 |
3892 | 4822 | 2.203788 | TGTCACCGCTCCCCTTCT | 60.204 | 61.111 | 0.00 | 0.00 | 0.00 | 2.85 |
3893 | 4823 | 0.970937 | CTGTCACCGCTCCCCTTCTA | 60.971 | 60.000 | 0.00 | 0.00 | 0.00 | 2.10 |
3900 | 4830 | 3.863606 | CTCCCCTTCTAGAGCCGG | 58.136 | 66.667 | 0.00 | 0.00 | 0.00 | 6.13 |
3901 | 4831 | 2.444140 | TCCCCTTCTAGAGCCGGC | 60.444 | 66.667 | 21.89 | 21.89 | 0.00 | 6.13 |
3903 | 4833 | 2.066999 | CCCCTTCTAGAGCCGGCTT | 61.067 | 63.158 | 33.34 | 22.07 | 0.00 | 4.35 |
3915 | 4845 | 0.103572 | GCCGGCTTACCTTGTCGATA | 59.896 | 55.000 | 22.15 | 0.00 | 34.08 | 2.92 |
3935 | 4865 | 1.884235 | AAAGCCAGGAAGTCTTCGTG | 58.116 | 50.000 | 22.76 | 22.76 | 43.26 | 4.35 |
3944 | 4874 | 1.237285 | AAGTCTTCGTGCATGTGCCC | 61.237 | 55.000 | 5.68 | 0.00 | 41.18 | 5.36 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
63 | 64 | 7.736017 | GCGTATCAACAACGAATAATCATAGTG | 59.264 | 37.037 | 0.00 | 0.00 | 42.90 | 2.74 |
143 | 144 | 4.724074 | AAGGCCATAACAACATCACATG | 57.276 | 40.909 | 5.01 | 0.00 | 0.00 | 3.21 |
172 | 173 | 9.920946 | AAGGACTCAACCAACACATTATATTAT | 57.079 | 29.630 | 0.00 | 0.00 | 0.00 | 1.28 |
173 | 174 | 9.747898 | AAAGGACTCAACCAACACATTATATTA | 57.252 | 29.630 | 0.00 | 0.00 | 0.00 | 0.98 |
174 | 175 | 8.650143 | AAAGGACTCAACCAACACATTATATT | 57.350 | 30.769 | 0.00 | 0.00 | 0.00 | 1.28 |
175 | 176 | 9.747898 | TTAAAGGACTCAACCAACACATTATAT | 57.252 | 29.630 | 0.00 | 0.00 | 0.00 | 0.86 |
227 | 241 | 1.269517 | GGCCACAATTTTCGCTTGTCA | 60.270 | 47.619 | 0.00 | 0.00 | 34.69 | 3.58 |
258 | 272 | 1.080569 | CCTTGTGGCCATGCGTTTC | 60.081 | 57.895 | 9.72 | 0.00 | 0.00 | 2.78 |
294 | 308 | 9.851686 | TCAGCATTCCAGTATTTAGAATTATGT | 57.148 | 29.630 | 0.00 | 0.00 | 0.00 | 2.29 |
299 | 313 | 9.638176 | AATTCTCAGCATTCCAGTATTTAGAAT | 57.362 | 29.630 | 0.00 | 0.00 | 32.80 | 2.40 |
340 | 356 | 3.420893 | TCACATCGGCCTCTCAAAAATT | 58.579 | 40.909 | 0.00 | 0.00 | 0.00 | 1.82 |
345 | 362 | 1.194218 | TCATCACATCGGCCTCTCAA | 58.806 | 50.000 | 0.00 | 0.00 | 0.00 | 3.02 |
489 | 506 | 5.104374 | CAGCAACAATGAAAACAGACAGTT | 58.896 | 37.500 | 0.00 | 0.00 | 43.89 | 3.16 |
490 | 507 | 4.675510 | CAGCAACAATGAAAACAGACAGT | 58.324 | 39.130 | 0.00 | 0.00 | 0.00 | 3.55 |
491 | 508 | 3.488310 | GCAGCAACAATGAAAACAGACAG | 59.512 | 43.478 | 0.00 | 0.00 | 0.00 | 3.51 |
567 | 585 | 1.434188 | TCAGGTGCCTCTGGAAGAAA | 58.566 | 50.000 | 3.98 | 0.00 | 46.34 | 2.52 |
594 | 612 | 0.861837 | GTCAAAGGTGTGCGACTGAG | 59.138 | 55.000 | 0.00 | 0.00 | 0.00 | 3.35 |
600 | 618 | 0.950836 | TTCATGGTCAAAGGTGTGCG | 59.049 | 50.000 | 0.00 | 0.00 | 0.00 | 5.34 |
652 | 670 | 2.036089 | CTCCTAGTTACTGCCGGGAATC | 59.964 | 54.545 | 2.18 | 0.00 | 0.00 | 2.52 |
701 | 719 | 7.624549 | ACTCCAAATTGAACATAGCTCTTCTA | 58.375 | 34.615 | 0.00 | 0.00 | 0.00 | 2.10 |
714 | 732 | 4.724399 | TGACTGCCTAACTCCAAATTGAA | 58.276 | 39.130 | 0.00 | 0.00 | 0.00 | 2.69 |
747 | 765 | 9.703892 | GAAGAGCAAGATCTTACATATGTGTAT | 57.296 | 33.333 | 18.81 | 8.64 | 40.35 | 2.29 |
755 | 787 | 7.992754 | AACAAAGAAGAGCAAGATCTTACAT | 57.007 | 32.000 | 7.86 | 0.00 | 39.63 | 2.29 |
756 | 788 | 7.807977 | AAACAAAGAAGAGCAAGATCTTACA | 57.192 | 32.000 | 7.86 | 0.00 | 39.63 | 2.41 |
757 | 789 | 9.818796 | CTAAAACAAAGAAGAGCAAGATCTTAC | 57.181 | 33.333 | 7.86 | 1.97 | 39.63 | 2.34 |
758 | 790 | 9.561069 | ACTAAAACAAAGAAGAGCAAGATCTTA | 57.439 | 29.630 | 7.86 | 0.00 | 39.63 | 2.10 |
759 | 791 | 8.457238 | ACTAAAACAAAGAAGAGCAAGATCTT | 57.543 | 30.769 | 0.88 | 0.88 | 42.23 | 2.40 |
760 | 792 | 7.716998 | TGACTAAAACAAAGAAGAGCAAGATCT | 59.283 | 33.333 | 0.00 | 0.00 | 0.00 | 2.75 |
761 | 793 | 7.865707 | TGACTAAAACAAAGAAGAGCAAGATC | 58.134 | 34.615 | 0.00 | 0.00 | 0.00 | 2.75 |
767 | 799 | 7.128976 | CACTCTTGACTAAAACAAAGAAGAGC | 58.871 | 38.462 | 0.00 | 0.00 | 0.00 | 4.09 |
782 | 814 | 6.111382 | CACACATTGATATCCACTCTTGACT | 58.889 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
783 | 815 | 5.877012 | ACACACATTGATATCCACTCTTGAC | 59.123 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
796 | 828 | 6.942532 | ACACTAGAAAACACACACATTGAT | 57.057 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
802 | 834 | 3.691498 | GCCAACACTAGAAAACACACAC | 58.309 | 45.455 | 0.00 | 0.00 | 0.00 | 3.82 |
808 | 840 | 5.178809 | ACAATAGACGCCAACACTAGAAAAC | 59.821 | 40.000 | 0.00 | 0.00 | 0.00 | 2.43 |
811 | 843 | 4.530710 | ACAATAGACGCCAACACTAGAA | 57.469 | 40.909 | 0.00 | 0.00 | 0.00 | 2.10 |
866 | 898 | 3.820467 | TCTCACACATTTAAGGGCAACTG | 59.180 | 43.478 | 0.00 | 0.00 | 0.00 | 3.16 |
867 | 899 | 4.098914 | TCTCACACATTTAAGGGCAACT | 57.901 | 40.909 | 0.00 | 0.00 | 0.00 | 3.16 |
868 | 900 | 4.846779 | TTCTCACACATTTAAGGGCAAC | 57.153 | 40.909 | 0.00 | 0.00 | 0.00 | 4.17 |
869 | 901 | 7.147915 | GGATATTTCTCACACATTTAAGGGCAA | 60.148 | 37.037 | 0.00 | 0.00 | 0.00 | 4.52 |
870 | 902 | 6.321181 | GGATATTTCTCACACATTTAAGGGCA | 59.679 | 38.462 | 0.00 | 0.00 | 0.00 | 5.36 |
871 | 903 | 6.547510 | AGGATATTTCTCACACATTTAAGGGC | 59.452 | 38.462 | 0.00 | 0.00 | 0.00 | 5.19 |
1115 | 1148 | 4.696877 | TCATGATGACACTGTTGAATGACC | 59.303 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
1160 | 1193 | 6.749923 | AGATAATCCTGCAGTTTCTCAAAC | 57.250 | 37.500 | 13.81 | 0.00 | 41.69 | 2.93 |
1233 | 1266 | 7.933033 | AGAATAAAAGGTTAACACTACCAACGA | 59.067 | 33.333 | 8.10 | 0.00 | 38.16 | 3.85 |
1234 | 1267 | 8.091385 | AGAATAAAAGGTTAACACTACCAACG | 57.909 | 34.615 | 8.10 | 0.00 | 38.16 | 4.10 |
1253 | 1286 | 7.920151 | CGAAATTTTGATGGCATGGTAGAATAA | 59.080 | 33.333 | 3.81 | 0.00 | 0.00 | 1.40 |
1309 | 1342 | 7.190920 | AGTTCAGAAACTTCAGAATTAACGG | 57.809 | 36.000 | 1.29 | 0.00 | 43.28 | 4.44 |
1567 | 1601 | 6.871492 | TGTCACACGCTTCAAATAGATCTTTA | 59.129 | 34.615 | 0.00 | 0.00 | 0.00 | 1.85 |
1588 | 1622 | 4.980339 | ACCCATGTGCTCATATATGTCA | 57.020 | 40.909 | 12.42 | 9.00 | 32.47 | 3.58 |
1600 | 1634 | 4.398988 | TCATTGAACTTCATACCCATGTGC | 59.601 | 41.667 | 0.00 | 0.00 | 33.57 | 4.57 |
1716 | 1750 | 6.836577 | AGTAATAGCGAGAATTCTGAAAGC | 57.163 | 37.500 | 14.00 | 12.46 | 0.00 | 3.51 |
1720 | 1754 | 6.042777 | CACCAAGTAATAGCGAGAATTCTGA | 58.957 | 40.000 | 14.00 | 0.00 | 0.00 | 3.27 |
1725 | 1759 | 4.408182 | AGCACCAAGTAATAGCGAGAAT | 57.592 | 40.909 | 0.00 | 0.00 | 0.00 | 2.40 |
1730 | 1764 | 4.494199 | GCAGTAAAGCACCAAGTAATAGCG | 60.494 | 45.833 | 0.00 | 0.00 | 0.00 | 4.26 |
1736 | 1770 | 2.151202 | GCAGCAGTAAAGCACCAAGTA | 58.849 | 47.619 | 0.00 | 0.00 | 36.85 | 2.24 |
1784 | 1818 | 5.009631 | TGAACTGGGTCATGTATTTCTTGG | 58.990 | 41.667 | 0.00 | 0.00 | 0.00 | 3.61 |
1785 | 1819 | 6.764308 | ATGAACTGGGTCATGTATTTCTTG | 57.236 | 37.500 | 0.00 | 0.00 | 36.86 | 3.02 |
1839 | 2097 | 8.524487 | GTGATTCCTACTCCTTATGTCGATTAT | 58.476 | 37.037 | 0.00 | 0.00 | 0.00 | 1.28 |
1845 | 2103 | 5.755861 | GCAAGTGATTCCTACTCCTTATGTC | 59.244 | 44.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1851 | 2109 | 4.042187 | ACTTTGCAAGTGATTCCTACTCCT | 59.958 | 41.667 | 0.00 | 0.00 | 41.01 | 3.69 |
1965 | 2223 | 8.673251 | ACCTAGCCCTTATATCTTTCATGATTT | 58.327 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
1966 | 2224 | 8.224620 | ACCTAGCCCTTATATCTTTCATGATT | 57.775 | 34.615 | 0.00 | 0.00 | 0.00 | 2.57 |
1968 | 2226 | 8.177456 | TCTACCTAGCCCTTATATCTTTCATGA | 58.823 | 37.037 | 0.00 | 0.00 | 0.00 | 3.07 |
1969 | 2227 | 8.367660 | TCTACCTAGCCCTTATATCTTTCATG | 57.632 | 38.462 | 0.00 | 0.00 | 0.00 | 3.07 |
1974 | 2232 | 9.649316 | GACATATCTACCTAGCCCTTATATCTT | 57.351 | 37.037 | 0.00 | 0.00 | 0.00 | 2.40 |
1975 | 2233 | 8.792734 | TGACATATCTACCTAGCCCTTATATCT | 58.207 | 37.037 | 0.00 | 0.00 | 0.00 | 1.98 |
1976 | 2234 | 8.998277 | TGACATATCTACCTAGCCCTTATATC | 57.002 | 38.462 | 0.00 | 0.00 | 0.00 | 1.63 |
1977 | 2235 | 8.792734 | TCTGACATATCTACCTAGCCCTTATAT | 58.207 | 37.037 | 0.00 | 0.00 | 0.00 | 0.86 |
1978 | 2236 | 8.053963 | GTCTGACATATCTACCTAGCCCTTATA | 58.946 | 40.741 | 2.24 | 0.00 | 0.00 | 0.98 |
1979 | 2237 | 6.893005 | GTCTGACATATCTACCTAGCCCTTAT | 59.107 | 42.308 | 2.24 | 0.00 | 0.00 | 1.73 |
1980 | 2238 | 6.045695 | AGTCTGACATATCTACCTAGCCCTTA | 59.954 | 42.308 | 10.88 | 0.00 | 0.00 | 2.69 |
1983 | 2241 | 4.668636 | AGTCTGACATATCTACCTAGCCC | 58.331 | 47.826 | 10.88 | 0.00 | 0.00 | 5.19 |
1985 | 2243 | 6.569610 | GCAGAAGTCTGACATATCTACCTAGC | 60.570 | 46.154 | 12.54 | 6.27 | 46.59 | 3.42 |
2017 | 2312 | 8.837389 | AGAACAAAGAAACATGTAAACTAGGAC | 58.163 | 33.333 | 0.00 | 0.00 | 0.00 | 3.85 |
2022 | 2317 | 8.739972 | AGAACAGAACAAAGAAACATGTAAACT | 58.260 | 29.630 | 0.00 | 0.00 | 0.00 | 2.66 |
2047 | 2350 | 4.202202 | GGACATACCAAGTCTCCTCATCAG | 60.202 | 50.000 | 0.00 | 0.00 | 38.79 | 2.90 |
2052 | 2355 | 3.769844 | TCAAGGACATACCAAGTCTCCTC | 59.230 | 47.826 | 0.00 | 0.00 | 42.04 | 3.71 |
2063 | 2366 | 5.376854 | AAAGCAACACATCAAGGACATAC | 57.623 | 39.130 | 0.00 | 0.00 | 0.00 | 2.39 |
2120 | 2423 | 4.733523 | GCATCAACCAACGTCTCAAAAGTT | 60.734 | 41.667 | 0.00 | 0.00 | 0.00 | 2.66 |
2269 | 2572 | 2.124403 | GGTGCTGCAGGGGAGATG | 60.124 | 66.667 | 17.12 | 0.00 | 0.00 | 2.90 |
2274 | 2577 | 0.106569 | TCAATATGGTGCTGCAGGGG | 60.107 | 55.000 | 17.12 | 0.00 | 0.00 | 4.79 |
2275 | 2578 | 1.766494 | TTCAATATGGTGCTGCAGGG | 58.234 | 50.000 | 17.12 | 0.00 | 0.00 | 4.45 |
2314 | 2617 | 7.695201 | CACAAAAGCATGAGAGTATGTGTAATG | 59.305 | 37.037 | 0.00 | 0.00 | 33.93 | 1.90 |
2323 | 2626 | 4.460263 | ACCAACACAAAAGCATGAGAGTA | 58.540 | 39.130 | 0.00 | 0.00 | 0.00 | 2.59 |
2332 | 2635 | 5.815222 | ACCAAAGATTAACCAACACAAAAGC | 59.185 | 36.000 | 0.00 | 0.00 | 0.00 | 3.51 |
2338 | 2641 | 6.801575 | TGAGAAACCAAAGATTAACCAACAC | 58.198 | 36.000 | 0.00 | 0.00 | 0.00 | 3.32 |
2427 | 2730 | 7.824779 | GTGTCCTTTTGAACTACAGATTCCTAT | 59.175 | 37.037 | 0.00 | 0.00 | 0.00 | 2.57 |
2432 | 2735 | 7.881775 | AAAGTGTCCTTTTGAACTACAGATT | 57.118 | 32.000 | 0.00 | 0.00 | 37.65 | 2.40 |
2465 | 2770 | 7.872483 | GTCATAATTGTTTTCACCACCAGATTT | 59.128 | 33.333 | 0.00 | 0.00 | 0.00 | 2.17 |
2485 | 2790 | 9.793259 | AGAAAGGAAGTGAAAACATAGTCATAA | 57.207 | 29.630 | 0.00 | 0.00 | 0.00 | 1.90 |
2607 | 2912 | 0.604780 | TGCCAGCAGCTTGAGACTTC | 60.605 | 55.000 | 0.00 | 0.00 | 44.23 | 3.01 |
2630 | 2935 | 5.639082 | GCACCAATGTTCCAAAGGAATTTAG | 59.361 | 40.000 | 1.30 | 0.00 | 44.04 | 1.85 |
2634 | 2939 | 2.302733 | GGCACCAATGTTCCAAAGGAAT | 59.697 | 45.455 | 1.30 | 0.00 | 44.04 | 3.01 |
2663 | 2968 | 1.558167 | TTGGAAGCATCCCTACCGCA | 61.558 | 55.000 | 5.34 | 0.00 | 45.95 | 5.69 |
2666 | 2971 | 2.808906 | AACTTGGAAGCATCCCTACC | 57.191 | 50.000 | 5.34 | 0.00 | 45.95 | 3.18 |
2724 | 3029 | 7.230510 | TCCTATGCAGTTGTTGAACTTAAACAT | 59.769 | 33.333 | 0.00 | 0.00 | 40.68 | 2.71 |
2808 | 3113 | 4.398319 | ACCAAAGACTAAACATCAGGGTG | 58.602 | 43.478 | 0.00 | 0.00 | 0.00 | 4.61 |
2831 | 3139 | 2.684881 | CCAATCCATTTCCTCTGGAACG | 59.315 | 50.000 | 0.00 | 0.00 | 45.57 | 3.95 |
2861 | 3169 | 0.107831 | CCTTGAAGGTCACCGTTCCA | 59.892 | 55.000 | 2.25 | 0.00 | 35.16 | 3.53 |
2947 | 3255 | 0.581053 | GCTAATCTTCAGCTGCGCTC | 59.419 | 55.000 | 9.47 | 0.00 | 36.40 | 5.03 |
2951 | 3259 | 3.003482 | CAGAATGGCTAATCTTCAGCTGC | 59.997 | 47.826 | 9.47 | 0.00 | 39.09 | 5.25 |
2991 | 3300 | 3.019003 | GCTGCTGGAGGCTACCGAA | 62.019 | 63.158 | 0.00 | 0.00 | 42.39 | 4.30 |
3084 | 3393 | 8.504005 | ACAACTTCGGTTCATTTCTATTAACAG | 58.496 | 33.333 | 0.00 | 0.00 | 35.78 | 3.16 |
3085 | 3394 | 8.385898 | ACAACTTCGGTTCATTTCTATTAACA | 57.614 | 30.769 | 0.00 | 0.00 | 35.78 | 2.41 |
3086 | 3395 | 9.113876 | CAACAACTTCGGTTCATTTCTATTAAC | 57.886 | 33.333 | 0.00 | 0.00 | 35.78 | 2.01 |
3088 | 3397 | 8.610248 | TCAACAACTTCGGTTCATTTCTATTA | 57.390 | 30.769 | 0.00 | 0.00 | 35.78 | 0.98 |
3090 | 3399 | 6.934645 | TCTCAACAACTTCGGTTCATTTCTAT | 59.065 | 34.615 | 0.00 | 0.00 | 35.78 | 1.98 |
3091 | 3400 | 6.285224 | TCTCAACAACTTCGGTTCATTTCTA | 58.715 | 36.000 | 0.00 | 0.00 | 35.78 | 2.10 |
3092 | 3401 | 5.123227 | TCTCAACAACTTCGGTTCATTTCT | 58.877 | 37.500 | 0.00 | 0.00 | 35.78 | 2.52 |
3093 | 3402 | 5.418310 | TCTCAACAACTTCGGTTCATTTC | 57.582 | 39.130 | 0.00 | 0.00 | 35.78 | 2.17 |
3094 | 3403 | 4.275936 | CCTCTCAACAACTTCGGTTCATTT | 59.724 | 41.667 | 0.00 | 0.00 | 35.78 | 2.32 |
3103 | 3412 | 4.821805 | TCACCAAATCCTCTCAACAACTTC | 59.178 | 41.667 | 0.00 | 0.00 | 0.00 | 3.01 |
3116 | 3425 | 6.223120 | AGCACAAAGTTTTATCACCAAATCC | 58.777 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
3117 | 3426 | 7.713764 | AAGCACAAAGTTTTATCACCAAATC | 57.286 | 32.000 | 0.00 | 0.00 | 0.00 | 2.17 |
3124 | 3433 | 5.971763 | ACACCAAAGCACAAAGTTTTATCA | 58.028 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
3192 | 3501 | 6.697395 | ACTTACAATTTTGCTTCCAATACCC | 58.303 | 36.000 | 0.00 | 0.00 | 0.00 | 3.69 |
3285 | 3597 | 8.311109 | AGTTTGTTTCTTTCTTTAAGGAGCAAA | 58.689 | 29.630 | 4.38 | 4.38 | 45.09 | 3.68 |
3286 | 3598 | 7.836842 | AGTTTGTTTCTTTCTTTAAGGAGCAA | 58.163 | 30.769 | 0.00 | 0.00 | 39.83 | 3.91 |
3287 | 3599 | 7.404671 | AGTTTGTTTCTTTCTTTAAGGAGCA | 57.595 | 32.000 | 0.00 | 0.00 | 31.39 | 4.26 |
3288 | 3600 | 9.797556 | TTTAGTTTGTTTCTTTCTTTAAGGAGC | 57.202 | 29.630 | 0.00 | 0.00 | 34.46 | 4.70 |
3348 | 3660 | 3.844090 | GAGGGAGGCCACGAGAGC | 61.844 | 72.222 | 5.01 | 0.00 | 0.00 | 4.09 |
3383 | 3695 | 2.764251 | ATTTTGTCGCGCGTGCAGTC | 62.764 | 55.000 | 30.98 | 14.04 | 42.97 | 3.51 |
3384 | 3696 | 2.387125 | AATTTTGTCGCGCGTGCAGT | 62.387 | 50.000 | 30.98 | 15.49 | 42.97 | 4.40 |
3445 | 4072 | 5.912396 | GCAACTCGACATTGTGATTTTGTTA | 59.088 | 36.000 | 0.00 | 0.00 | 0.00 | 2.41 |
3446 | 4073 | 4.739716 | GCAACTCGACATTGTGATTTTGTT | 59.260 | 37.500 | 0.00 | 0.00 | 0.00 | 2.83 |
3447 | 4074 | 4.202000 | TGCAACTCGACATTGTGATTTTGT | 60.202 | 37.500 | 0.00 | 0.00 | 0.00 | 2.83 |
3448 | 4075 | 4.289342 | TGCAACTCGACATTGTGATTTTG | 58.711 | 39.130 | 0.00 | 1.47 | 0.00 | 2.44 |
3449 | 4076 | 4.566545 | TGCAACTCGACATTGTGATTTT | 57.433 | 36.364 | 0.00 | 0.00 | 0.00 | 1.82 |
3450 | 4077 | 4.036734 | ACTTGCAACTCGACATTGTGATTT | 59.963 | 37.500 | 0.00 | 0.00 | 0.00 | 2.17 |
3451 | 4078 | 3.565482 | ACTTGCAACTCGACATTGTGATT | 59.435 | 39.130 | 0.00 | 0.00 | 0.00 | 2.57 |
3452 | 4079 | 3.141398 | ACTTGCAACTCGACATTGTGAT | 58.859 | 40.909 | 0.00 | 0.00 | 0.00 | 3.06 |
3453 | 4080 | 2.560504 | ACTTGCAACTCGACATTGTGA | 58.439 | 42.857 | 0.00 | 0.00 | 0.00 | 3.58 |
3454 | 4081 | 4.668576 | ATACTTGCAACTCGACATTGTG | 57.331 | 40.909 | 0.00 | 0.00 | 0.00 | 3.33 |
3455 | 4082 | 6.985188 | AATATACTTGCAACTCGACATTGT | 57.015 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
3456 | 4083 | 7.426456 | GTGAAATATACTTGCAACTCGACATTG | 59.574 | 37.037 | 0.00 | 1.06 | 0.00 | 2.82 |
3457 | 4084 | 7.334421 | AGTGAAATATACTTGCAACTCGACATT | 59.666 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
3458 | 4085 | 6.818644 | AGTGAAATATACTTGCAACTCGACAT | 59.181 | 34.615 | 0.00 | 0.00 | 0.00 | 3.06 |
3459 | 4086 | 6.090763 | CAGTGAAATATACTTGCAACTCGACA | 59.909 | 38.462 | 0.00 | 0.00 | 0.00 | 4.35 |
3460 | 4087 | 6.455646 | CCAGTGAAATATACTTGCAACTCGAC | 60.456 | 42.308 | 0.00 | 0.00 | 0.00 | 4.20 |
3461 | 4088 | 5.580691 | CCAGTGAAATATACTTGCAACTCGA | 59.419 | 40.000 | 0.00 | 0.00 | 0.00 | 4.04 |
3462 | 4089 | 5.727791 | GCCAGTGAAATATACTTGCAACTCG | 60.728 | 44.000 | 0.00 | 0.00 | 36.95 | 4.18 |
3463 | 4090 | 5.123820 | TGCCAGTGAAATATACTTGCAACTC | 59.876 | 40.000 | 0.00 | 0.00 | 41.86 | 3.01 |
3464 | 4091 | 5.009631 | TGCCAGTGAAATATACTTGCAACT | 58.990 | 37.500 | 0.00 | 0.00 | 41.86 | 3.16 |
3465 | 4092 | 5.309323 | TGCCAGTGAAATATACTTGCAAC | 57.691 | 39.130 | 0.00 | 0.00 | 41.86 | 4.17 |
3466 | 4093 | 6.528537 | AATGCCAGTGAAATATACTTGCAA | 57.471 | 33.333 | 6.89 | 0.00 | 45.86 | 4.08 |
3467 | 4094 | 6.528537 | AAATGCCAGTGAAATATACTTGCA | 57.471 | 33.333 | 5.60 | 5.60 | 46.48 | 4.08 |
3468 | 4095 | 7.141363 | CCTAAATGCCAGTGAAATATACTTGC | 58.859 | 38.462 | 0.00 | 0.00 | 37.34 | 4.01 |
3469 | 4096 | 7.141363 | GCCTAAATGCCAGTGAAATATACTTG | 58.859 | 38.462 | 0.00 | 0.00 | 0.00 | 3.16 |
3470 | 4097 | 6.017109 | CGCCTAAATGCCAGTGAAATATACTT | 60.017 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
3471 | 4098 | 5.470098 | CGCCTAAATGCCAGTGAAATATACT | 59.530 | 40.000 | 0.00 | 0.00 | 0.00 | 2.12 |
3472 | 4099 | 5.238650 | ACGCCTAAATGCCAGTGAAATATAC | 59.761 | 40.000 | 0.00 | 0.00 | 0.00 | 1.47 |
3473 | 4100 | 5.373222 | ACGCCTAAATGCCAGTGAAATATA | 58.627 | 37.500 | 0.00 | 0.00 | 0.00 | 0.86 |
3474 | 4101 | 4.207165 | ACGCCTAAATGCCAGTGAAATAT | 58.793 | 39.130 | 0.00 | 0.00 | 0.00 | 1.28 |
3475 | 4102 | 3.616219 | ACGCCTAAATGCCAGTGAAATA | 58.384 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
3476 | 4103 | 2.446435 | ACGCCTAAATGCCAGTGAAAT | 58.554 | 42.857 | 0.00 | 0.00 | 0.00 | 2.17 |
3477 | 4104 | 1.904287 | ACGCCTAAATGCCAGTGAAA | 58.096 | 45.000 | 0.00 | 0.00 | 0.00 | 2.69 |
3478 | 4105 | 2.745281 | GTTACGCCTAAATGCCAGTGAA | 59.255 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
3479 | 4106 | 2.289756 | TGTTACGCCTAAATGCCAGTGA | 60.290 | 45.455 | 0.00 | 0.00 | 0.00 | 3.41 |
3480 | 4107 | 2.080693 | TGTTACGCCTAAATGCCAGTG | 58.919 | 47.619 | 0.00 | 0.00 | 0.00 | 3.66 |
3481 | 4108 | 2.483014 | TGTTACGCCTAAATGCCAGT | 57.517 | 45.000 | 0.00 | 0.00 | 0.00 | 4.00 |
3482 | 4109 | 3.840890 | TTTGTTACGCCTAAATGCCAG | 57.159 | 42.857 | 0.00 | 0.00 | 0.00 | 4.85 |
3483 | 4110 | 4.792521 | ATTTTGTTACGCCTAAATGCCA | 57.207 | 36.364 | 0.00 | 0.00 | 0.00 | 4.92 |
3484 | 4111 | 6.094061 | TGTAATTTTGTTACGCCTAAATGCC | 58.906 | 36.000 | 0.00 | 0.00 | 0.00 | 4.40 |
3485 | 4112 | 7.569677 | TTGTAATTTTGTTACGCCTAAATGC | 57.430 | 32.000 | 0.00 | 0.00 | 0.00 | 3.56 |
3488 | 4115 | 9.705471 | CGATATTGTAATTTTGTTACGCCTAAA | 57.295 | 29.630 | 0.00 | 0.00 | 0.00 | 1.85 |
3489 | 4116 | 9.096160 | TCGATATTGTAATTTTGTTACGCCTAA | 57.904 | 29.630 | 0.00 | 0.00 | 0.00 | 2.69 |
3490 | 4117 | 8.645730 | TCGATATTGTAATTTTGTTACGCCTA | 57.354 | 30.769 | 0.00 | 0.00 | 0.00 | 3.93 |
3491 | 4118 | 7.279313 | ACTCGATATTGTAATTTTGTTACGCCT | 59.721 | 33.333 | 0.00 | 0.00 | 0.00 | 5.52 |
3492 | 4119 | 7.404203 | ACTCGATATTGTAATTTTGTTACGCC | 58.596 | 34.615 | 0.00 | 0.00 | 0.00 | 5.68 |
3493 | 4120 | 8.721476 | CAACTCGATATTGTAATTTTGTTACGC | 58.279 | 33.333 | 0.00 | 0.00 | 0.00 | 4.42 |
3494 | 4121 | 8.721476 | GCAACTCGATATTGTAATTTTGTTACG | 58.279 | 33.333 | 10.32 | 0.00 | 0.00 | 3.18 |
3511 | 4138 | 6.258727 | CCAGTGAAATATACTTGCAACTCGAT | 59.741 | 38.462 | 0.00 | 0.00 | 0.00 | 3.59 |
3550 | 4177 | 3.319137 | TCGCTCTTTCTACAACAGCAT | 57.681 | 42.857 | 0.00 | 0.00 | 0.00 | 3.79 |
3559 | 4186 | 7.924412 | ACGGTATGAAAAATATCGCTCTTTCTA | 59.076 | 33.333 | 0.00 | 0.00 | 31.80 | 2.10 |
3694 | 4327 | 0.954452 | CACCAACAAAGCCTGAGACC | 59.046 | 55.000 | 0.00 | 0.00 | 0.00 | 3.85 |
3718 | 4351 | 0.183014 | TATCCTCGGCGTTCTCTCCT | 59.817 | 55.000 | 6.85 | 0.00 | 0.00 | 3.69 |
3721 | 4354 | 2.634815 | TAGTATCCTCGGCGTTCTCT | 57.365 | 50.000 | 6.85 | 2.29 | 0.00 | 3.10 |
3818 | 4748 | 4.863131 | GTGGTTTCAGAATCTCGACGTAAT | 59.137 | 41.667 | 0.00 | 0.00 | 0.00 | 1.89 |
3823 | 4753 | 1.993370 | CGGTGGTTTCAGAATCTCGAC | 59.007 | 52.381 | 0.00 | 0.00 | 0.00 | 4.20 |
3860 | 4790 | 1.282248 | TGACAGCAGCGCGTTCTAAC | 61.282 | 55.000 | 8.43 | 1.28 | 0.00 | 2.34 |
3861 | 4791 | 1.006688 | TGACAGCAGCGCGTTCTAA | 60.007 | 52.632 | 8.43 | 0.00 | 0.00 | 2.10 |
3862 | 4792 | 1.733041 | GTGACAGCAGCGCGTTCTA | 60.733 | 57.895 | 8.43 | 0.00 | 0.00 | 2.10 |
3863 | 4793 | 3.038417 | GTGACAGCAGCGCGTTCT | 61.038 | 61.111 | 8.43 | 0.00 | 0.00 | 3.01 |
3864 | 4794 | 4.077188 | GGTGACAGCAGCGCGTTC | 62.077 | 66.667 | 8.43 | 0.00 | 32.24 | 3.95 |
3879 | 4809 | 1.758906 | GCTCTAGAAGGGGAGCGGT | 60.759 | 63.158 | 0.00 | 0.00 | 44.01 | 5.68 |
3892 | 4822 | 0.822164 | GACAAGGTAAGCCGGCTCTA | 59.178 | 55.000 | 32.93 | 20.69 | 40.50 | 2.43 |
3893 | 4823 | 1.597461 | GACAAGGTAAGCCGGCTCT | 59.403 | 57.895 | 32.93 | 20.65 | 40.50 | 4.09 |
3900 | 4830 | 3.687698 | TGGCTTTTATCGACAAGGTAAGC | 59.312 | 43.478 | 3.29 | 3.29 | 36.64 | 3.09 |
3901 | 4831 | 4.332819 | CCTGGCTTTTATCGACAAGGTAAG | 59.667 | 45.833 | 0.00 | 0.00 | 0.00 | 2.34 |
3903 | 4833 | 3.516300 | TCCTGGCTTTTATCGACAAGGTA | 59.484 | 43.478 | 0.00 | 0.00 | 0.00 | 3.08 |
3915 | 4845 | 2.222027 | CACGAAGACTTCCTGGCTTTT | 58.778 | 47.619 | 9.63 | 0.00 | 45.69 | 2.27 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.