Multiple sequence alignment - TraesCS7B01G420000
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 | TraesCS7B01G420000 | chr7B | 100.000 | 4260 | 0 | 0 | 1 | 4260 | 689519474 | 689515215 | 0.000000e+00 | 7867.0 |
1 | TraesCS7B01G420000 | chr7B | 93.589 | 2761 | 121 | 13 | 786 | 3537 | 688910395 | 688913108 | 0.000000e+00 | 4067.0 |
2 | TraesCS7B01G420000 | chr7B | 82.553 | 1089 | 161 | 13 | 923 | 1997 | 688592184 | 688591111 | 0.000000e+00 | 931.0 |
3 | TraesCS7B01G420000 | chr7B | 82.394 | 1011 | 166 | 7 | 989 | 1996 | 688553550 | 688552549 | 0.000000e+00 | 870.0 |
4 | TraesCS7B01G420000 | chr7B | 79.677 | 1053 | 164 | 30 | 2455 | 3497 | 688590655 | 688589643 | 0.000000e+00 | 713.0 |
5 | TraesCS7B01G420000 | chr7B | 88.889 | 351 | 30 | 3 | 1 | 347 | 688908780 | 688909125 | 1.420000e-114 | 424.0 |
6 | TraesCS7B01G420000 | chr7B | 86.080 | 352 | 43 | 4 | 939 | 1289 | 688544349 | 688544003 | 1.450000e-99 | 374.0 |
7 | TraesCS7B01G420000 | chr7B | 88.845 | 251 | 20 | 7 | 375 | 622 | 688909118 | 688909363 | 6.920000e-78 | 302.0 |
8 | TraesCS7B01G420000 | chr7B | 85.714 | 252 | 22 | 7 | 3649 | 3899 | 688913104 | 688913342 | 1.970000e-63 | 254.0 |
9 | TraesCS7B01G420000 | chr7B | 77.717 | 368 | 62 | 15 | 2062 | 2422 | 688596660 | 688596306 | 1.550000e-49 | 207.0 |
10 | TraesCS7B01G420000 | chr7B | 81.026 | 195 | 32 | 5 | 2231 | 2421 | 688552317 | 688552124 | 2.650000e-32 | 150.0 |
11 | TraesCS7B01G420000 | chr7B | 92.308 | 52 | 4 | 0 | 4000 | 4051 | 688913439 | 688913490 | 1.640000e-09 | 75.0 |
12 | TraesCS7B01G420000 | chr7D | 93.742 | 2956 | 144 | 10 | 626 | 3572 | 605679799 | 605682722 | 0.000000e+00 | 4396.0 |
13 | TraesCS7B01G420000 | chr7D | 82.313 | 1029 | 157 | 16 | 972 | 1996 | 605538528 | 605539535 | 0.000000e+00 | 869.0 |
14 | TraesCS7B01G420000 | chr7D | 81.905 | 1050 | 147 | 24 | 970 | 1997 | 605477996 | 605479024 | 0.000000e+00 | 846.0 |
15 | TraesCS7B01G420000 | chr7D | 90.379 | 343 | 23 | 4 | 1 | 339 | 605665023 | 605665359 | 3.910000e-120 | 442.0 |
16 | TraesCS7B01G420000 | chr7D | 91.228 | 285 | 25 | 0 | 338 | 622 | 605679455 | 605679739 | 5.170000e-104 | 388.0 |
17 | TraesCS7B01G420000 | chr7D | 75.335 | 373 | 62 | 15 | 2052 | 2421 | 605539638 | 605539983 | 7.380000e-33 | 152.0 |
18 | TraesCS7B01G420000 | chr7D | 81.595 | 163 | 23 | 5 | 32 | 189 | 465488471 | 465488631 | 1.240000e-25 | 128.0 |
19 | TraesCS7B01G420000 | chr7A | 92.054 | 3159 | 183 | 20 | 639 | 3768 | 696975059 | 696978178 | 0.000000e+00 | 4381.0 |
20 | TraesCS7B01G420000 | chr7A | 82.300 | 887 | 129 | 15 | 1114 | 1996 | 696878932 | 696878070 | 0.000000e+00 | 743.0 |
21 | TraesCS7B01G420000 | chr7A | 82.187 | 887 | 130 | 15 | 1114 | 1996 | 696948398 | 696947536 | 0.000000e+00 | 737.0 |
22 | TraesCS7B01G420000 | chr7A | 80.558 | 1003 | 146 | 31 | 2444 | 3433 | 696877396 | 696876430 | 0.000000e+00 | 726.0 |
23 | TraesCS7B01G420000 | chr7A | 80.539 | 1002 | 148 | 29 | 2444 | 3433 | 696946858 | 696945892 | 0.000000e+00 | 726.0 |
24 | TraesCS7B01G420000 | chr2B | 84.784 | 1597 | 179 | 28 | 859 | 2421 | 54327237 | 54328803 | 0.000000e+00 | 1544.0 |
25 | TraesCS7B01G420000 | chr2B | 84.951 | 917 | 94 | 28 | 2549 | 3428 | 54329010 | 54329919 | 0.000000e+00 | 889.0 |
26 | TraesCS7B01G420000 | chr2B | 78.191 | 188 | 29 | 7 | 4053 | 4229 | 142674006 | 142673820 | 4.500000e-20 | 110.0 |
27 | TraesCS7B01G420000 | chr2D | 87.206 | 1274 | 132 | 13 | 1159 | 2421 | 32653091 | 32654344 | 0.000000e+00 | 1421.0 |
28 | TraesCS7B01G420000 | chr2D | 84.026 | 1252 | 125 | 37 | 2549 | 3734 | 32654550 | 32655792 | 0.000000e+00 | 1134.0 |
29 | TraesCS7B01G420000 | chr2D | 86.792 | 212 | 18 | 1 | 4057 | 4258 | 32656127 | 32656338 | 1.190000e-55 | 228.0 |
30 | TraesCS7B01G420000 | chr2A | 88.538 | 759 | 59 | 18 | 859 | 1594 | 35965929 | 35966682 | 0.000000e+00 | 894.0 |
31 | TraesCS7B01G420000 | chr2A | 88.546 | 454 | 43 | 5 | 2950 | 3398 | 35967959 | 35968408 | 3.750000e-150 | 542.0 |
32 | TraesCS7B01G420000 | chr2A | 84.428 | 533 | 53 | 17 | 1916 | 2421 | 35966686 | 35967215 | 8.230000e-137 | 497.0 |
33 | TraesCS7B01G420000 | chr2A | 85.995 | 407 | 38 | 7 | 2549 | 2937 | 35967421 | 35967826 | 6.590000e-113 | 418.0 |
34 | TraesCS7B01G420000 | chr2A | 89.899 | 99 | 8 | 2 | 4093 | 4190 | 35968784 | 35968881 | 4.470000e-25 | 126.0 |
35 | TraesCS7B01G420000 | chr1A | 79.385 | 325 | 47 | 13 | 2105 | 2418 | 586919268 | 586919583 | 1.200000e-50 | 211.0 |
36 | TraesCS7B01G420000 | chr5B | 85.227 | 176 | 23 | 1 | 32 | 204 | 450524343 | 450524518 | 1.220000e-40 | 178.0 |
37 | TraesCS7B01G420000 | chr5B | 74.830 | 147 | 31 | 3 | 4058 | 4204 | 588881088 | 588881228 | 1.280000e-05 | 62.1 |
38 | TraesCS7B01G420000 | chr5B | 100.000 | 29 | 0 | 0 | 4054 | 4082 | 669449490 | 669449462 | 2.000000e-03 | 54.7 |
39 | TraesCS7B01G420000 | chr3B | 85.455 | 165 | 21 | 1 | 43 | 204 | 588485884 | 588486048 | 7.330000e-38 | 169.0 |
40 | TraesCS7B01G420000 | chr4D | 83.851 | 161 | 20 | 2 | 47 | 204 | 397148233 | 397148390 | 9.540000e-32 | 148.0 |
41 | TraesCS7B01G420000 | chr4D | 83.660 | 153 | 17 | 5 | 32 | 181 | 338476095 | 338475948 | 2.070000e-28 | 137.0 |
42 | TraesCS7B01G420000 | chr1D | 83.951 | 162 | 19 | 5 | 47 | 204 | 483700559 | 483700717 | 9.540000e-32 | 148.0 |
43 | TraesCS7B01G420000 | chr4A | 81.714 | 175 | 23 | 7 | 34 | 204 | 133688632 | 133688801 | 2.070000e-28 | 137.0 |
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 | TraesCS7B01G420000 | chr7B | 689515215 | 689519474 | 4259 | True | 7867.000000 | 7867 | 100.0000 | 1 | 4260 | 1 | chr7B.!!$R3 | 4259 |
1 | TraesCS7B01G420000 | chr7B | 688908780 | 688913490 | 4710 | False | 1024.400000 | 4067 | 89.8690 | 1 | 4051 | 5 | chr7B.!!$F1 | 4050 |
2 | TraesCS7B01G420000 | chr7B | 688589643 | 688592184 | 2541 | True | 822.000000 | 931 | 81.1150 | 923 | 3497 | 2 | chr7B.!!$R5 | 2574 |
3 | TraesCS7B01G420000 | chr7B | 688552124 | 688553550 | 1426 | True | 510.000000 | 870 | 81.7100 | 989 | 2421 | 2 | chr7B.!!$R4 | 1432 |
4 | TraesCS7B01G420000 | chr7D | 605679455 | 605682722 | 3267 | False | 2392.000000 | 4396 | 92.4850 | 338 | 3572 | 2 | chr7D.!!$F5 | 3234 |
5 | TraesCS7B01G420000 | chr7D | 605477996 | 605479024 | 1028 | False | 846.000000 | 846 | 81.9050 | 970 | 1997 | 1 | chr7D.!!$F2 | 1027 |
6 | TraesCS7B01G420000 | chr7D | 605538528 | 605539983 | 1455 | False | 510.500000 | 869 | 78.8240 | 972 | 2421 | 2 | chr7D.!!$F4 | 1449 |
7 | TraesCS7B01G420000 | chr7A | 696975059 | 696978178 | 3119 | False | 4381.000000 | 4381 | 92.0540 | 639 | 3768 | 1 | chr7A.!!$F1 | 3129 |
8 | TraesCS7B01G420000 | chr7A | 696876430 | 696878932 | 2502 | True | 734.500000 | 743 | 81.4290 | 1114 | 3433 | 2 | chr7A.!!$R1 | 2319 |
9 | TraesCS7B01G420000 | chr7A | 696945892 | 696948398 | 2506 | True | 731.500000 | 737 | 81.3630 | 1114 | 3433 | 2 | chr7A.!!$R2 | 2319 |
10 | TraesCS7B01G420000 | chr2B | 54327237 | 54329919 | 2682 | False | 1216.500000 | 1544 | 84.8675 | 859 | 3428 | 2 | chr2B.!!$F1 | 2569 |
11 | TraesCS7B01G420000 | chr2D | 32653091 | 32656338 | 3247 | False | 927.666667 | 1421 | 86.0080 | 1159 | 4258 | 3 | chr2D.!!$F1 | 3099 |
12 | TraesCS7B01G420000 | chr2A | 35965929 | 35968881 | 2952 | False | 495.400000 | 894 | 87.4812 | 859 | 4190 | 5 | chr2A.!!$F1 | 3331 |
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 | 760 | 0.247379 | CCCGCCGAAAACGTAAATCG | 60.247 | 55.000 | 9.74 | 9.74 | 46.00 | 3.34 | F |
936 | 1873 | 1.004918 | CGATCCATTCCTACGCCCC | 60.005 | 63.158 | 0.00 | 0.00 | 0.00 | 5.80 | F |
1632 | 2597 | 1.978473 | CAGTGTCAGGGGTCTGGAG | 59.022 | 63.158 | 0.00 | 0.00 | 41.23 | 3.86 | F |
1821 | 2791 | 2.550855 | GCTGGTGACACTTGATTGGAGA | 60.551 | 50.000 | 5.39 | 0.00 | 35.60 | 3.71 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
2432 | 3730 | 1.035139 | CCACAAACTTCCTTGCTGCT | 58.965 | 50.000 | 0.0 | 0.0 | 0.00 | 4.24 | R |
2623 | 4138 | 2.734755 | TGCTGGAAATATGACCCCAG | 57.265 | 50.000 | 0.0 | 0.0 | 46.67 | 4.45 | R |
3117 | 4797 | 3.431922 | TTATCGTCACCCTTTCTAGCG | 57.568 | 47.619 | 0.0 | 0.0 | 0.00 | 4.26 | R |
3801 | 5546 | 0.535335 | TCTCTGCCCGTTAAGCGAAT | 59.465 | 50.000 | 0.0 | 0.0 | 44.77 | 3.34 | 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 |
---|---|---|---|---|---|---|---|---|---|
54 | 55 | 3.974871 | TTCATCGCATCATCACCATTG | 57.025 | 42.857 | 0.00 | 0.00 | 0.00 | 2.82 |
96 | 97 | 8.910944 | GTTGTAAGATCAGGGTGTATAACTCTA | 58.089 | 37.037 | 0.00 | 0.00 | 37.59 | 2.43 |
105 | 106 | 9.656323 | TCAGGGTGTATAACTCTATTCATACTT | 57.344 | 33.333 | 0.00 | 0.00 | 37.59 | 2.24 |
151 | 152 | 6.645790 | AAGCATTCATCTTATTGTGGATCC | 57.354 | 37.500 | 4.20 | 4.20 | 0.00 | 3.36 |
165 | 169 | 3.079578 | GTGGATCCTCACGGTATCGATA | 58.920 | 50.000 | 14.23 | 0.00 | 40.11 | 2.92 |
168 | 172 | 3.066900 | GGATCCTCACGGTATCGATATGG | 59.933 | 52.174 | 8.66 | 6.29 | 40.11 | 2.74 |
248 | 253 | 3.327404 | ACCCCTAGGCGGTTGGTG | 61.327 | 66.667 | 14.38 | 0.00 | 36.11 | 4.17 |
325 | 330 | 2.045926 | GCGACACCCCATGAAGCT | 60.046 | 61.111 | 0.00 | 0.00 | 33.55 | 3.74 |
330 | 335 | 1.746615 | CACCCCATGAAGCTGACCG | 60.747 | 63.158 | 0.00 | 0.00 | 0.00 | 4.79 |
366 | 371 | 2.442272 | TCTAGGAGAGCCGGCCAC | 60.442 | 66.667 | 26.15 | 18.33 | 39.96 | 5.01 |
402 | 407 | 2.927856 | ACCTCCATGGCACCACGA | 60.928 | 61.111 | 6.96 | 0.00 | 40.22 | 4.35 |
523 | 528 | 2.898662 | TCTCGGTAGAAGGGGAAAAGT | 58.101 | 47.619 | 0.00 | 0.00 | 0.00 | 2.66 |
535 | 540 | 3.035363 | GGGGAAAAGTAGAGGAGAGGAG | 58.965 | 54.545 | 0.00 | 0.00 | 0.00 | 3.69 |
538 | 543 | 3.309994 | GGAAAAGTAGAGGAGAGGAGGGA | 60.310 | 52.174 | 0.00 | 0.00 | 0.00 | 4.20 |
576 | 581 | 6.183360 | CGAAGCAAATGTAATCTAGCGATAGG | 60.183 | 42.308 | 8.03 | 0.00 | 0.00 | 2.57 |
622 | 628 | 1.573376 | TGGGGGCTAACCATAAATGCT | 59.427 | 47.619 | 0.00 | 0.00 | 42.91 | 3.79 |
637 | 703 | 3.454371 | AATGCTCAGGACACCGTATAC | 57.546 | 47.619 | 0.00 | 0.00 | 0.00 | 1.47 |
642 | 708 | 3.864003 | GCTCAGGACACCGTATACTTTTC | 59.136 | 47.826 | 0.56 | 0.00 | 0.00 | 2.29 |
648 | 714 | 5.659971 | AGGACACCGTATACTTTTCTATGGT | 59.340 | 40.000 | 0.56 | 0.00 | 37.66 | 3.55 |
665 | 731 | 1.375523 | GTCGGGCTAATATGCGGGG | 60.376 | 63.158 | 0.00 | 0.00 | 0.00 | 5.73 |
672 | 738 | 2.143925 | GCTAATATGCGGGGTCTGTTC | 58.856 | 52.381 | 0.00 | 0.00 | 0.00 | 3.18 |
694 | 760 | 0.247379 | CCCGCCGAAAACGTAAATCG | 60.247 | 55.000 | 9.74 | 9.74 | 46.00 | 3.34 |
714 | 780 | 1.470890 | GTGCCGATCGGAATTTTTGGA | 59.529 | 47.619 | 37.64 | 6.06 | 37.50 | 3.53 |
748 | 817 | 6.913673 | CCTTTTACACGATCTTCTAGCTAGAC | 59.086 | 42.308 | 23.17 | 10.68 | 30.81 | 2.59 |
754 | 1653 | 3.362207 | CGATCTTCTAGCTAGACGTGACG | 60.362 | 52.174 | 23.17 | 20.46 | 30.81 | 4.35 |
761 | 1660 | 2.203401 | AGCTAGACGTGACGTAGCTAG | 58.797 | 52.381 | 27.84 | 24.77 | 45.76 | 3.42 |
762 | 1661 | 1.932511 | GCTAGACGTGACGTAGCTAGT | 59.067 | 52.381 | 24.97 | 6.73 | 41.37 | 2.57 |
777 | 1676 | 2.832129 | AGCTAGTCAAATCCCGTCTCAA | 59.168 | 45.455 | 0.00 | 0.00 | 0.00 | 3.02 |
778 | 1677 | 3.260884 | AGCTAGTCAAATCCCGTCTCAAA | 59.739 | 43.478 | 0.00 | 0.00 | 0.00 | 2.69 |
779 | 1678 | 4.000988 | GCTAGTCAAATCCCGTCTCAAAA | 58.999 | 43.478 | 0.00 | 0.00 | 0.00 | 2.44 |
780 | 1679 | 4.454504 | GCTAGTCAAATCCCGTCTCAAAAA | 59.545 | 41.667 | 0.00 | 0.00 | 0.00 | 1.94 |
936 | 1873 | 1.004918 | CGATCCATTCCTACGCCCC | 60.005 | 63.158 | 0.00 | 0.00 | 0.00 | 5.80 |
1599 | 2564 | 2.325082 | ACGGTGTCCATCTTTGCGC | 61.325 | 57.895 | 0.00 | 0.00 | 0.00 | 6.09 |
1632 | 2597 | 1.978473 | CAGTGTCAGGGGTCTGGAG | 59.022 | 63.158 | 0.00 | 0.00 | 41.23 | 3.86 |
1688 | 2653 | 4.574674 | TGGAACTGAGGAGTTTGCATAT | 57.425 | 40.909 | 0.00 | 0.00 | 42.80 | 1.78 |
1821 | 2791 | 2.550855 | GCTGGTGACACTTGATTGGAGA | 60.551 | 50.000 | 5.39 | 0.00 | 35.60 | 3.71 |
1833 | 2803 | 5.645497 | ACTTGATTGGAGAAGTGCTTATGAC | 59.355 | 40.000 | 0.00 | 0.00 | 31.09 | 3.06 |
1908 | 2878 | 7.775561 | ACCAATCCTCTTTTTGTATATGGAGAC | 59.224 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
1925 | 2895 | 6.978674 | TGGAGACGATATATTTTCTGGACT | 57.021 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
1971 | 2955 | 4.037803 | CCACAACATTTTCACCACATCAGA | 59.962 | 41.667 | 0.00 | 0.00 | 0.00 | 3.27 |
1975 | 2959 | 7.225145 | CACAACATTTTCACCACATCAGAAAAT | 59.775 | 33.333 | 0.00 | 0.00 | 46.88 | 1.82 |
2000 | 2984 | 9.857656 | ATTTATTCTCATCCTTTTCTATCTGCA | 57.142 | 29.630 | 0.00 | 0.00 | 0.00 | 4.41 |
2019 | 3053 | 3.132824 | TGCAGGTATGTGAGTCAATCGAT | 59.867 | 43.478 | 0.00 | 0.00 | 0.00 | 3.59 |
2144 | 3200 | 9.953697 | TGGACTTGTTTAATTAATGTGTGTTAC | 57.046 | 29.630 | 0.00 | 0.00 | 0.00 | 2.50 |
2172 | 3228 | 8.482429 | CACTTTGTAGAAAAATGAGATGTTTGC | 58.518 | 33.333 | 0.00 | 0.00 | 0.00 | 3.68 |
2217 | 3285 | 7.162082 | CCTATTGTATGACTTCCTATGAACCC | 58.838 | 42.308 | 0.00 | 0.00 | 0.00 | 4.11 |
2293 | 3369 | 3.282021 | CATTACCATCTTGGGACTGGTG | 58.718 | 50.000 | 3.77 | 0.00 | 43.37 | 4.17 |
2370 | 3446 | 4.698304 | GTCTAGCGGTATAAGAGAGCTGAT | 59.302 | 45.833 | 0.00 | 0.00 | 38.73 | 2.90 |
2492 | 3790 | 3.072476 | AGCAAGTTGCCCTACTCTTGTTA | 59.928 | 43.478 | 24.02 | 0.00 | 46.52 | 2.41 |
2623 | 4138 | 2.877168 | TGGAAATGCCACAACAAATTGC | 59.123 | 40.909 | 0.00 | 0.00 | 43.33 | 3.56 |
2671 | 4194 | 3.009473 | TGGAACCCTCCTTTGATCTTCTG | 59.991 | 47.826 | 0.00 | 0.00 | 42.94 | 3.02 |
2744 | 4269 | 7.227049 | TGATACATCAGCATTCGTATAAGGA | 57.773 | 36.000 | 0.00 | 0.00 | 32.11 | 3.36 |
2781 | 4307 | 7.584108 | TCGCTTTATGGTTTTCTATATGCATG | 58.416 | 34.615 | 10.16 | 0.00 | 0.00 | 4.06 |
2944 | 4621 | 9.686683 | ACCATATCAGTTAATCTTAAGCTGTTT | 57.313 | 29.630 | 0.00 | 0.00 | 0.00 | 2.83 |
3058 | 4738 | 5.416952 | CCTCAAAGAAGTAGCAATCAATGGT | 59.583 | 40.000 | 0.00 | 0.00 | 43.54 | 3.55 |
3083 | 4763 | 4.249661 | GAGAGGAACTGAACATGAACTCC | 58.750 | 47.826 | 0.00 | 0.00 | 41.55 | 3.85 |
3117 | 4797 | 3.320826 | AGGTTATTCAAGTGGGCAACAAC | 59.679 | 43.478 | 0.00 | 0.00 | 39.74 | 3.32 |
3134 | 4814 | 2.649831 | ACGCTAGAAAGGGTGACGA | 58.350 | 52.632 | 0.00 | 0.00 | 46.31 | 4.20 |
3280 | 4963 | 0.039527 | GCACCGACTTTGCCGATTTT | 60.040 | 50.000 | 0.00 | 0.00 | 33.58 | 1.82 |
3328 | 5019 | 5.749109 | CGTACTTTTGTGAGACTGAACTTCT | 59.251 | 40.000 | 0.00 | 0.00 | 0.00 | 2.85 |
3360 | 5053 | 1.308998 | AGTCCAGCAACTTGTTTCCG | 58.691 | 50.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3408 | 5101 | 8.398665 | GGTAGCATGTTTAATTCTAGAACTTGG | 58.601 | 37.037 | 7.48 | 0.00 | 32.35 | 3.61 |
3471 | 5165 | 5.500645 | ACTTGTTAACTTTGAGACTTGGC | 57.499 | 39.130 | 7.22 | 0.00 | 0.00 | 4.52 |
3497 | 5191 | 4.067896 | AGTATTTGTGAGGCTCAAGTGTG | 58.932 | 43.478 | 20.62 | 0.00 | 0.00 | 3.82 |
3529 | 5223 | 6.258947 | ACTTGTTCAACTCTAGAAGCTTGTTC | 59.741 | 38.462 | 2.10 | 0.00 | 0.00 | 3.18 |
3548 | 5242 | 2.934887 | TCCCATACTGGATGCACATTG | 58.065 | 47.619 | 0.00 | 0.00 | 40.96 | 2.82 |
3572 | 5266 | 6.894654 | TGGTGGTTGTTTCCATGAATACATAT | 59.105 | 34.615 | 0.00 | 0.00 | 39.81 | 1.78 |
3573 | 5267 | 7.398618 | TGGTGGTTGTTTCCATGAATACATATT | 59.601 | 33.333 | 0.00 | 0.00 | 39.81 | 1.28 |
3575 | 5269 | 9.730420 | GTGGTTGTTTCCATGAATACATATTAC | 57.270 | 33.333 | 0.00 | 0.00 | 39.81 | 1.89 |
3586 | 5297 | 9.874215 | CATGAATACATATTACTGAAACAGCAG | 57.126 | 33.333 | 0.00 | 0.00 | 37.26 | 4.24 |
3629 | 5374 | 6.100004 | TGAAACAGCAGAGTACTATACAAGC | 58.900 | 40.000 | 0.00 | 0.00 | 0.00 | 4.01 |
3647 | 5392 | 1.552337 | AGCAACGACCTGATCTGATGT | 59.448 | 47.619 | 0.38 | 0.00 | 0.00 | 3.06 |
3651 | 5396 | 4.572389 | GCAACGACCTGATCTGATGTAAAT | 59.428 | 41.667 | 0.38 | 0.00 | 0.00 | 1.40 |
3655 | 5400 | 6.406370 | ACGACCTGATCTGATGTAAATTTCA | 58.594 | 36.000 | 0.38 | 0.00 | 0.00 | 2.69 |
3662 | 5407 | 8.070034 | TGATCTGATGTAAATTTCAAATGGCT | 57.930 | 30.769 | 0.00 | 0.00 | 0.00 | 4.75 |
3668 | 5413 | 9.153721 | TGATGTAAATTTCAAATGGCTGAATTC | 57.846 | 29.630 | 0.00 | 0.00 | 35.31 | 2.17 |
3688 | 5433 | 9.453572 | TGAATTCAAAGAGCTCTACAATATTGT | 57.546 | 29.630 | 23.80 | 23.80 | 44.86 | 2.71 |
3691 | 5436 | 6.946340 | TCAAAGAGCTCTACAATATTGTGGA | 58.054 | 36.000 | 26.96 | 26.96 | 44.78 | 4.02 |
3702 | 5447 | 9.476202 | TCTACAATATTGTGGATCGTAAGAATG | 57.524 | 33.333 | 25.62 | 0.00 | 46.63 | 2.67 |
3703 | 5448 | 7.496529 | ACAATATTGTGGATCGTAAGAATGG | 57.503 | 36.000 | 20.19 | 0.00 | 45.85 | 3.16 |
3776 | 5521 | 3.763897 | TGAGTTCTCTGCAGCTATGTACA | 59.236 | 43.478 | 9.47 | 0.00 | 0.00 | 2.90 |
3777 | 5522 | 4.109050 | GAGTTCTCTGCAGCTATGTACAC | 58.891 | 47.826 | 9.47 | 0.00 | 0.00 | 2.90 |
3778 | 5523 | 3.766591 | AGTTCTCTGCAGCTATGTACACT | 59.233 | 43.478 | 9.47 | 0.00 | 0.00 | 3.55 |
3779 | 5524 | 4.950475 | AGTTCTCTGCAGCTATGTACACTA | 59.050 | 41.667 | 9.47 | 0.00 | 0.00 | 2.74 |
3780 | 5525 | 4.902443 | TCTCTGCAGCTATGTACACTAC | 57.098 | 45.455 | 9.47 | 0.00 | 0.00 | 2.73 |
3781 | 5526 | 4.527944 | TCTCTGCAGCTATGTACACTACT | 58.472 | 43.478 | 9.47 | 0.00 | 0.00 | 2.57 |
3782 | 5527 | 4.576873 | TCTCTGCAGCTATGTACACTACTC | 59.423 | 45.833 | 9.47 | 0.00 | 0.00 | 2.59 |
3785 | 5530 | 4.270008 | TGCAGCTATGTACACTACTCTGA | 58.730 | 43.478 | 0.00 | 0.00 | 0.00 | 3.27 |
3787 | 5532 | 5.218885 | GCAGCTATGTACACTACTCTGATG | 58.781 | 45.833 | 0.00 | 0.00 | 0.00 | 3.07 |
3788 | 5533 | 5.218885 | CAGCTATGTACACTACTCTGATGC | 58.781 | 45.833 | 0.00 | 0.00 | 0.00 | 3.91 |
3789 | 5534 | 4.889995 | AGCTATGTACACTACTCTGATGCA | 59.110 | 41.667 | 0.00 | 0.00 | 0.00 | 3.96 |
3791 | 5536 | 5.632764 | GCTATGTACACTACTCTGATGCATG | 59.367 | 44.000 | 2.46 | 0.00 | 0.00 | 4.06 |
3792 | 5537 | 3.785486 | TGTACACTACTCTGATGCATGC | 58.215 | 45.455 | 11.82 | 11.82 | 0.00 | 4.06 |
3793 | 5538 | 3.448660 | TGTACACTACTCTGATGCATGCT | 59.551 | 43.478 | 20.33 | 4.11 | 0.00 | 3.79 |
3794 | 5539 | 2.902523 | ACACTACTCTGATGCATGCTG | 58.097 | 47.619 | 20.33 | 6.97 | 0.00 | 4.41 |
3795 | 5540 | 2.235650 | ACACTACTCTGATGCATGCTGT | 59.764 | 45.455 | 20.33 | 7.66 | 0.00 | 4.40 |
3796 | 5541 | 3.448660 | ACACTACTCTGATGCATGCTGTA | 59.551 | 43.478 | 20.33 | 10.66 | 0.00 | 2.74 |
3797 | 5542 | 4.081476 | ACACTACTCTGATGCATGCTGTAA | 60.081 | 41.667 | 20.33 | 0.00 | 0.00 | 2.41 |
3798 | 5543 | 4.269603 | CACTACTCTGATGCATGCTGTAAC | 59.730 | 45.833 | 20.33 | 6.26 | 0.00 | 2.50 |
3799 | 5544 | 3.623906 | ACTCTGATGCATGCTGTAACT | 57.376 | 42.857 | 20.33 | 0.00 | 0.00 | 2.24 |
3800 | 5545 | 3.947868 | ACTCTGATGCATGCTGTAACTT | 58.052 | 40.909 | 20.33 | 0.00 | 0.00 | 2.66 |
3801 | 5546 | 5.089970 | ACTCTGATGCATGCTGTAACTTA | 57.910 | 39.130 | 20.33 | 0.00 | 0.00 | 2.24 |
3805 | 5550 | 5.234972 | TCTGATGCATGCTGTAACTTATTCG | 59.765 | 40.000 | 20.33 | 0.00 | 0.00 | 3.34 |
3841 | 5586 | 1.008538 | GGTGCAGAAAACGGCAGTG | 60.009 | 57.895 | 0.00 | 0.00 | 41.35 | 3.66 |
3842 | 5587 | 1.724582 | GGTGCAGAAAACGGCAGTGT | 61.725 | 55.000 | 0.00 | 0.00 | 41.35 | 3.55 |
3854 | 5599 | 0.461693 | GGCAGTGTCTCATCCAGCTC | 60.462 | 60.000 | 0.00 | 0.00 | 0.00 | 4.09 |
3855 | 5600 | 0.248565 | GCAGTGTCTCATCCAGCTCA | 59.751 | 55.000 | 0.00 | 0.00 | 0.00 | 4.26 |
3868 | 5613 | 1.461127 | CCAGCTCACAGTCGTTTTAGC | 59.539 | 52.381 | 0.00 | 0.00 | 0.00 | 3.09 |
3889 | 5638 | 2.169832 | TTTCAGTTCTTCCCTCTGCG | 57.830 | 50.000 | 0.00 | 0.00 | 0.00 | 5.18 |
3899 | 5648 | 3.941188 | CCTCTGCGGTGTGTGGGT | 61.941 | 66.667 | 0.00 | 0.00 | 0.00 | 4.51 |
3923 | 5672 | 3.059597 | GGTGTTCGTGTGAGAAAGATGTG | 60.060 | 47.826 | 0.00 | 0.00 | 0.00 | 3.21 |
3928 | 5677 | 5.897377 | TCGTGTGAGAAAGATGTGATAGA | 57.103 | 39.130 | 0.00 | 0.00 | 0.00 | 1.98 |
3929 | 5678 | 6.267496 | TCGTGTGAGAAAGATGTGATAGAA | 57.733 | 37.500 | 0.00 | 0.00 | 0.00 | 2.10 |
3949 | 5698 | 4.590222 | AGAACAGTCAAAAATGGGAAGCAT | 59.410 | 37.500 | 0.00 | 0.00 | 0.00 | 3.79 |
3995 | 5776 | 2.568623 | ACAAGCAAAGACCGGAATCT | 57.431 | 45.000 | 9.46 | 0.00 | 0.00 | 2.40 |
4031 | 5852 | 1.044725 | CGTGCAAACTAAAAGCGCAG | 58.955 | 50.000 | 11.47 | 0.00 | 38.61 | 5.18 |
4054 | 5875 | 6.092670 | CAGACTAAAATCGATTTCAGCCTCAA | 59.907 | 38.462 | 22.93 | 2.40 | 32.27 | 3.02 |
4055 | 5876 | 6.825721 | AGACTAAAATCGATTTCAGCCTCAAT | 59.174 | 34.615 | 22.93 | 7.41 | 32.27 | 2.57 |
4152 | 6035 | 1.452108 | GCGGGGAGGTGATTTCTGG | 60.452 | 63.158 | 0.00 | 0.00 | 0.00 | 3.86 |
4183 | 6066 | 6.350277 | CGGCTTTGGTTAGTAGATAGATAGGG | 60.350 | 46.154 | 0.00 | 0.00 | 0.00 | 3.53 |
4196 | 6079 | 9.012161 | GTAGATAGATAGGGTTTTAGTCATCGT | 57.988 | 37.037 | 0.00 | 0.00 | 0.00 | 3.73 |
4198 | 6081 | 9.584008 | AGATAGATAGGGTTTTAGTCATCGTAA | 57.416 | 33.333 | 0.00 | 0.00 | 0.00 | 3.18 |
4201 | 6084 | 7.498443 | AGATAGGGTTTTAGTCATCGTAAAGG | 58.502 | 38.462 | 0.00 | 0.00 | 0.00 | 3.11 |
4208 | 6091 | 2.890474 | CATCGTAAAGGCGGCGCT | 60.890 | 61.111 | 32.30 | 15.07 | 0.00 | 5.92 |
4213 | 6096 | 3.845259 | TAAAGGCGGCGCTCGGAT | 61.845 | 61.111 | 32.30 | 15.59 | 39.69 | 4.18 |
4222 | 6105 | 2.814604 | CGCTCGGATGGATGGTGA | 59.185 | 61.111 | 0.00 | 0.00 | 0.00 | 4.02 |
4228 | 6111 | 1.006832 | CGGATGGATGGTGACGTTTC | 58.993 | 55.000 | 0.00 | 0.00 | 0.00 | 2.78 |
4229 | 6112 | 1.674519 | CGGATGGATGGTGACGTTTCA | 60.675 | 52.381 | 0.00 | 0.00 | 0.00 | 2.69 |
4236 | 6119 | 2.027625 | GGTGACGTTTCAGGCTCCG | 61.028 | 63.158 | 0.00 | 0.00 | 30.10 | 4.63 |
4258 | 6141 | 7.274447 | TCCGTTCCTACTCAAGTTCTTAAAAA | 58.726 | 34.615 | 0.00 | 0.00 | 0.00 | 1.94 |
4259 | 6142 | 7.440255 | TCCGTTCCTACTCAAGTTCTTAAAAAG | 59.560 | 37.037 | 0.00 | 0.00 | 0.00 | 2.27 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
27 | 28 | 4.285292 | GTGATGATGCGATGAAATGGAAC | 58.715 | 43.478 | 0.00 | 0.00 | 0.00 | 3.62 |
54 | 55 | 8.794335 | ATCTTACAACTTGGAATTCCTCTAAC | 57.206 | 34.615 | 24.73 | 0.00 | 36.82 | 2.34 |
105 | 106 | 8.721478 | GCTTAAACAAGTCTCAATCTTCACATA | 58.279 | 33.333 | 0.00 | 0.00 | 0.00 | 2.29 |
111 | 112 | 8.169977 | TGAATGCTTAAACAAGTCTCAATCTT | 57.830 | 30.769 | 0.00 | 0.00 | 0.00 | 2.40 |
120 | 121 | 9.630098 | CACAATAAGATGAATGCTTAAACAAGT | 57.370 | 29.630 | 0.00 | 0.00 | 32.16 | 3.16 |
130 | 131 | 5.766670 | TGAGGATCCACAATAAGATGAATGC | 59.233 | 40.000 | 15.82 | 0.00 | 0.00 | 3.56 |
151 | 152 | 5.286438 | TGAAAACCATATCGATACCGTGAG | 58.714 | 41.667 | 7.41 | 0.25 | 37.05 | 3.51 |
214 | 219 | 8.548877 | GCCTAGGGGTGATCATTATATTCTTAA | 58.451 | 37.037 | 11.72 | 0.00 | 34.45 | 1.85 |
215 | 220 | 7.147724 | CGCCTAGGGGTGATCATTATATTCTTA | 60.148 | 40.741 | 17.58 | 0.00 | 45.39 | 2.10 |
223 | 228 | 1.348064 | CCGCCTAGGGGTGATCATTA | 58.652 | 55.000 | 23.18 | 0.00 | 45.39 | 1.90 |
224 | 229 | 2.145865 | CCGCCTAGGGGTGATCATT | 58.854 | 57.895 | 23.18 | 0.00 | 45.39 | 2.57 |
225 | 230 | 3.891817 | CCGCCTAGGGGTGATCAT | 58.108 | 61.111 | 23.18 | 0.00 | 45.39 | 2.45 |
248 | 253 | 1.528129 | CCAACAGAGAAGAAGGTGCC | 58.472 | 55.000 | 0.00 | 0.00 | 0.00 | 5.01 |
285 | 290 | 1.994467 | CTGATGAGCAACTCGTCGC | 59.006 | 57.895 | 11.18 | 0.00 | 46.21 | 5.19 |
289 | 294 | 2.806856 | GCCGCTGATGAGCAACTCG | 61.807 | 63.158 | 4.68 | 0.00 | 46.62 | 4.18 |
308 | 313 | 2.045926 | AGCTTCATGGGGTGTCGC | 60.046 | 61.111 | 0.00 | 0.00 | 0.00 | 5.19 |
310 | 315 | 0.678048 | GGTCAGCTTCATGGGGTGTC | 60.678 | 60.000 | 14.77 | 10.93 | 34.33 | 3.67 |
312 | 317 | 1.746615 | CGGTCAGCTTCATGGGGTG | 60.747 | 63.158 | 10.88 | 10.88 | 0.00 | 4.61 |
325 | 330 | 1.898154 | GAGCTAAGCCCTTCGGTCA | 59.102 | 57.895 | 6.81 | 0.00 | 34.31 | 4.02 |
330 | 335 | 2.586357 | CCGCGAGCTAAGCCCTTC | 60.586 | 66.667 | 8.23 | 0.00 | 0.00 | 3.46 |
407 | 412 | 3.922640 | GAGGCCGGCAGCTCTAGG | 61.923 | 72.222 | 30.85 | 0.00 | 43.05 | 3.02 |
436 | 441 | 3.730761 | CACAGAGCAAGCGTGGGC | 61.731 | 66.667 | 0.79 | 0.00 | 40.37 | 5.36 |
474 | 479 | 1.891919 | GCGGTGCTGGTGAAAGTCA | 60.892 | 57.895 | 0.00 | 0.00 | 0.00 | 3.41 |
501 | 506 | 3.844804 | ACTTTTCCCCTTCTACCGAGATT | 59.155 | 43.478 | 0.00 | 0.00 | 0.00 | 2.40 |
523 | 528 | 2.305345 | TTCCTCCCTCCTCTCCTCTA | 57.695 | 55.000 | 0.00 | 0.00 | 0.00 | 2.43 |
535 | 540 | 0.107848 | TTCGGCGAGAAATTCCTCCC | 60.108 | 55.000 | 10.46 | 0.00 | 35.61 | 4.30 |
538 | 543 | 0.036388 | TGCTTCGGCGAGAAATTCCT | 60.036 | 50.000 | 10.46 | 0.00 | 45.37 | 3.36 |
576 | 581 | 3.334881 | ACCCCCTATCATGATTTCATCCC | 59.665 | 47.826 | 14.65 | 0.00 | 33.61 | 3.85 |
588 | 593 | 0.626277 | CCCCCAGAAACCCCCTATCA | 60.626 | 60.000 | 0.00 | 0.00 | 0.00 | 2.15 |
591 | 596 | 1.839781 | TAGCCCCCAGAAACCCCCTA | 61.840 | 60.000 | 0.00 | 0.00 | 0.00 | 3.53 |
592 | 598 | 2.740558 | TTAGCCCCCAGAAACCCCCT | 62.741 | 60.000 | 0.00 | 0.00 | 0.00 | 4.79 |
622 | 628 | 6.183360 | CCATAGAAAAGTATACGGTGTCCTGA | 60.183 | 42.308 | 0.00 | 0.00 | 0.00 | 3.86 |
637 | 703 | 5.122396 | GCATATTAGCCCGACCATAGAAAAG | 59.878 | 44.000 | 0.00 | 0.00 | 0.00 | 2.27 |
642 | 708 | 2.540515 | CGCATATTAGCCCGACCATAG | 58.459 | 52.381 | 0.00 | 0.00 | 0.00 | 2.23 |
648 | 714 | 1.823169 | GACCCCGCATATTAGCCCGA | 61.823 | 60.000 | 0.00 | 0.00 | 0.00 | 5.14 |
694 | 760 | 1.470890 | TCCAAAAATTCCGATCGGCAC | 59.529 | 47.619 | 29.62 | 0.00 | 34.68 | 5.01 |
700 | 766 | 1.102978 | CCGGCTCCAAAAATTCCGAT | 58.897 | 50.000 | 0.00 | 0.00 | 42.43 | 4.18 |
748 | 817 | 3.106672 | GGATTTGACTAGCTACGTCACG | 58.893 | 50.000 | 19.31 | 0.00 | 40.78 | 4.35 |
754 | 1653 | 3.380637 | TGAGACGGGATTTGACTAGCTAC | 59.619 | 47.826 | 0.00 | 0.00 | 0.00 | 3.58 |
780 | 1679 | 8.817100 | CCGATTTGCTTAGTTTTTCTTTTCTTT | 58.183 | 29.630 | 0.00 | 0.00 | 0.00 | 2.52 |
781 | 1680 | 8.194769 | TCCGATTTGCTTAGTTTTTCTTTTCTT | 58.805 | 29.630 | 0.00 | 0.00 | 0.00 | 2.52 |
782 | 1681 | 7.712797 | TCCGATTTGCTTAGTTTTTCTTTTCT | 58.287 | 30.769 | 0.00 | 0.00 | 0.00 | 2.52 |
783 | 1682 | 7.924103 | TCCGATTTGCTTAGTTTTTCTTTTC | 57.076 | 32.000 | 0.00 | 0.00 | 0.00 | 2.29 |
784 | 1683 | 8.887036 | ATTCCGATTTGCTTAGTTTTTCTTTT | 57.113 | 26.923 | 0.00 | 0.00 | 0.00 | 2.27 |
785 | 1684 | 9.974980 | TTATTCCGATTTGCTTAGTTTTTCTTT | 57.025 | 25.926 | 0.00 | 0.00 | 0.00 | 2.52 |
786 | 1685 | 9.974980 | TTTATTCCGATTTGCTTAGTTTTTCTT | 57.025 | 25.926 | 0.00 | 0.00 | 0.00 | 2.52 |
787 | 1686 | 9.974980 | TTTTATTCCGATTTGCTTAGTTTTTCT | 57.025 | 25.926 | 0.00 | 0.00 | 0.00 | 2.52 |
805 | 1710 | 8.446599 | TGGATCTTTCGGACTTATTTTATTCC | 57.553 | 34.615 | 0.00 | 0.00 | 0.00 | 3.01 |
832 | 1737 | 1.280421 | GGTGGATTGAGGCTGAACTCT | 59.720 | 52.381 | 0.00 | 0.00 | 38.32 | 3.24 |
1599 | 2564 | 2.255252 | CTGCAAACGGAAAGGCGG | 59.745 | 61.111 | 0.00 | 0.00 | 0.00 | 6.13 |
1632 | 2597 | 3.040147 | TCCGACTGGATTGTGAAGTTC | 57.960 | 47.619 | 0.00 | 0.00 | 40.17 | 3.01 |
1688 | 2653 | 2.207590 | CGATATTGAGCTGCTGCAAGA | 58.792 | 47.619 | 18.42 | 9.10 | 42.74 | 3.02 |
1821 | 2791 | 2.436173 | GGAGCTAGGGTCATAAGCACTT | 59.564 | 50.000 | 0.00 | 0.00 | 38.75 | 3.16 |
1833 | 2803 | 1.539827 | CCAAACAAAACGGAGCTAGGG | 59.460 | 52.381 | 0.00 | 0.00 | 0.00 | 3.53 |
1975 | 2959 | 9.334947 | CTGCAGATAGAAAAGGATGAGAATAAA | 57.665 | 33.333 | 8.42 | 0.00 | 0.00 | 1.40 |
2000 | 2984 | 9.477484 | GTTATAAATCGATTGACTCACATACCT | 57.523 | 33.333 | 12.25 | 0.00 | 0.00 | 3.08 |
2144 | 3200 | 9.956720 | AAACATCTCATTTTTCTACAAAGTGAG | 57.043 | 29.630 | 11.59 | 11.59 | 37.39 | 3.51 |
2172 | 3228 | 3.000727 | GGTCAATAGTTGGACAAGGACG | 58.999 | 50.000 | 0.00 | 0.00 | 35.74 | 4.79 |
2239 | 3310 | 6.429385 | ACTTTGTCATCTCTTCCATCAAGAAC | 59.571 | 38.462 | 0.00 | 0.00 | 40.83 | 3.01 |
2293 | 3369 | 3.715628 | GAATGTCCACATGCCAATACC | 57.284 | 47.619 | 0.00 | 0.00 | 36.56 | 2.73 |
2370 | 3446 | 3.390135 | CTCCGAGTAACAAGTTGAAGCA | 58.610 | 45.455 | 10.54 | 0.00 | 0.00 | 3.91 |
2432 | 3730 | 1.035139 | CCACAAACTTCCTTGCTGCT | 58.965 | 50.000 | 0.00 | 0.00 | 0.00 | 4.24 |
2492 | 3790 | 7.182206 | ACACTTCAGTATCTAACCCTAACCAAT | 59.818 | 37.037 | 0.00 | 0.00 | 0.00 | 3.16 |
2623 | 4138 | 2.734755 | TGCTGGAAATATGACCCCAG | 57.265 | 50.000 | 0.00 | 0.00 | 46.67 | 4.45 |
2757 | 4283 | 6.306356 | GCATGCATATAGAAAACCATAAAGCG | 59.694 | 38.462 | 14.21 | 0.00 | 0.00 | 4.68 |
2846 | 4402 | 9.965902 | ACTCTTAGATATGTCAGGAACAAAATT | 57.034 | 29.630 | 0.00 | 0.00 | 42.37 | 1.82 |
2850 | 4406 | 8.861086 | GGATACTCTTAGATATGTCAGGAACAA | 58.139 | 37.037 | 0.00 | 0.00 | 42.37 | 2.83 |
2851 | 4407 | 8.004801 | TGGATACTCTTAGATATGTCAGGAACA | 58.995 | 37.037 | 0.00 | 0.00 | 39.26 | 3.18 |
2852 | 4408 | 8.410673 | TGGATACTCTTAGATATGTCAGGAAC | 57.589 | 38.462 | 0.00 | 0.00 | 37.61 | 3.62 |
2853 | 4409 | 9.029368 | CATGGATACTCTTAGATATGTCAGGAA | 57.971 | 37.037 | 0.00 | 0.00 | 37.61 | 3.36 |
2854 | 4410 | 7.123397 | GCATGGATACTCTTAGATATGTCAGGA | 59.877 | 40.741 | 0.00 | 0.00 | 37.61 | 3.86 |
2855 | 4411 | 7.093596 | TGCATGGATACTCTTAGATATGTCAGG | 60.094 | 40.741 | 0.00 | 0.00 | 37.61 | 3.86 |
2856 | 4412 | 7.834803 | TGCATGGATACTCTTAGATATGTCAG | 58.165 | 38.462 | 0.00 | 0.00 | 37.61 | 3.51 |
2944 | 4621 | 4.834496 | ACAAATGCCTGAATCAAGAGGAAA | 59.166 | 37.500 | 0.00 | 0.00 | 0.00 | 3.13 |
3058 | 4738 | 4.590647 | AGTTCATGTTCAGTTCCTCTCAGA | 59.409 | 41.667 | 0.00 | 0.00 | 0.00 | 3.27 |
3083 | 4763 | 5.770162 | ACTTGAATAACCTTTCCACAAGAGG | 59.230 | 40.000 | 0.00 | 0.00 | 37.34 | 3.69 |
3117 | 4797 | 3.431922 | TTATCGTCACCCTTTCTAGCG | 57.568 | 47.619 | 0.00 | 0.00 | 0.00 | 4.26 |
3133 | 4813 | 7.869937 | TCAGAGATCGAGTCATGGAAAATTATC | 59.130 | 37.037 | 0.00 | 0.00 | 0.00 | 1.75 |
3134 | 4814 | 7.730084 | TCAGAGATCGAGTCATGGAAAATTAT | 58.270 | 34.615 | 0.00 | 0.00 | 0.00 | 1.28 |
3266 | 4949 | 4.965119 | ACCATAGAAAATCGGCAAAGTC | 57.035 | 40.909 | 0.00 | 0.00 | 0.00 | 3.01 |
3280 | 4963 | 5.626809 | GCCATACTGAACTGACAACCATAGA | 60.627 | 44.000 | 0.00 | 0.00 | 0.00 | 1.98 |
3328 | 5019 | 5.883673 | AGTTGCTGGACTTAAACAAGTTACA | 59.116 | 36.000 | 0.00 | 0.00 | 32.22 | 2.41 |
3360 | 5053 | 4.633565 | CCAGAGTTTAGTCTCAGAAATGCC | 59.366 | 45.833 | 0.00 | 0.00 | 36.97 | 4.40 |
3471 | 5165 | 6.428159 | ACACTTGAGCCTCACAAATACTAAAG | 59.572 | 38.462 | 0.00 | 0.00 | 0.00 | 1.85 |
3497 | 5191 | 7.328982 | GCTTCTAGAGTTGAACAAGTTACTACC | 59.671 | 40.741 | 0.00 | 0.00 | 0.00 | 3.18 |
3529 | 5223 | 4.803223 | CACCAATGTGCATCCAGTATGGG | 61.803 | 52.174 | 0.00 | 0.00 | 46.70 | 4.00 |
3572 | 5266 | 7.648142 | CCAATTTTACTCTGCTGTTTCAGTAA | 58.352 | 34.615 | 0.00 | 0.35 | 35.63 | 2.24 |
3573 | 5267 | 6.293955 | GCCAATTTTACTCTGCTGTTTCAGTA | 60.294 | 38.462 | 0.00 | 0.00 | 35.63 | 2.74 |
3575 | 5269 | 4.919754 | GCCAATTTTACTCTGCTGTTTCAG | 59.080 | 41.667 | 0.00 | 0.00 | 35.46 | 3.02 |
3581 | 5275 | 7.227314 | TCAGTATATGCCAATTTTACTCTGCTG | 59.773 | 37.037 | 0.00 | 0.00 | 0.00 | 4.41 |
3586 | 5297 | 9.722056 | CTGTTTCAGTATATGCCAATTTTACTC | 57.278 | 33.333 | 0.00 | 0.00 | 0.00 | 2.59 |
3629 | 5374 | 6.668541 | AATTTACATCAGATCAGGTCGTTG | 57.331 | 37.500 | 0.00 | 0.00 | 0.00 | 4.10 |
3647 | 5392 | 9.775854 | TCTTTGAATTCAGCCATTTGAAATTTA | 57.224 | 25.926 | 8.41 | 0.00 | 40.21 | 1.40 |
3651 | 5396 | 5.697633 | GCTCTTTGAATTCAGCCATTTGAAA | 59.302 | 36.000 | 8.41 | 0.00 | 40.21 | 2.69 |
3655 | 5400 | 4.771054 | AGAGCTCTTTGAATTCAGCCATTT | 59.229 | 37.500 | 11.45 | 0.00 | 0.00 | 2.32 |
3662 | 5407 | 9.453572 | ACAATATTGTAGAGCTCTTTGAATTCA | 57.546 | 29.630 | 23.84 | 3.38 | 40.16 | 2.57 |
3668 | 5413 | 7.307042 | CGATCCACAATATTGTAGAGCTCTTTG | 60.307 | 40.741 | 23.84 | 20.21 | 39.91 | 2.77 |
3688 | 5433 | 5.366482 | TCAAATCCCATTCTTACGATCCA | 57.634 | 39.130 | 0.00 | 0.00 | 0.00 | 3.41 |
3691 | 5436 | 5.366768 | TCTCCTCAAATCCCATTCTTACGAT | 59.633 | 40.000 | 0.00 | 0.00 | 0.00 | 3.73 |
3702 | 5447 | 4.959839 | AGAAGTAGTCTCTCCTCAAATCCC | 59.040 | 45.833 | 0.00 | 0.00 | 0.00 | 3.85 |
3735 | 5480 | 2.049618 | GCAACCAATTCGCGCCAA | 60.050 | 55.556 | 0.00 | 0.00 | 0.00 | 4.52 |
3776 | 5521 | 4.161189 | AGTTACAGCATGCATCAGAGTAGT | 59.839 | 41.667 | 21.98 | 6.28 | 42.53 | 2.73 |
3777 | 5522 | 4.691175 | AGTTACAGCATGCATCAGAGTAG | 58.309 | 43.478 | 21.98 | 0.36 | 42.53 | 2.57 |
3778 | 5523 | 4.743057 | AGTTACAGCATGCATCAGAGTA | 57.257 | 40.909 | 21.98 | 9.39 | 42.53 | 2.59 |
3779 | 5524 | 3.623906 | AGTTACAGCATGCATCAGAGT | 57.376 | 42.857 | 21.98 | 10.36 | 42.53 | 3.24 |
3780 | 5525 | 6.563567 | CGAATAAGTTACAGCATGCATCAGAG | 60.564 | 42.308 | 21.98 | 4.67 | 42.53 | 3.35 |
3781 | 5526 | 5.234972 | CGAATAAGTTACAGCATGCATCAGA | 59.765 | 40.000 | 21.98 | 0.00 | 42.53 | 3.27 |
3782 | 5527 | 5.438117 | CGAATAAGTTACAGCATGCATCAG | 58.562 | 41.667 | 21.98 | 9.13 | 42.53 | 2.90 |
3785 | 5530 | 3.879295 | AGCGAATAAGTTACAGCATGCAT | 59.121 | 39.130 | 21.98 | 10.24 | 42.53 | 3.96 |
3787 | 5532 | 3.951979 | AGCGAATAAGTTACAGCATGC | 57.048 | 42.857 | 10.51 | 10.51 | 42.53 | 4.06 |
3788 | 5533 | 5.896432 | CGTTAAGCGAATAAGTTACAGCATG | 59.104 | 40.000 | 8.24 | 0.00 | 44.77 | 4.06 |
3789 | 5534 | 5.006358 | CCGTTAAGCGAATAAGTTACAGCAT | 59.994 | 40.000 | 8.24 | 0.80 | 44.77 | 3.79 |
3791 | 5536 | 4.260091 | CCCGTTAAGCGAATAAGTTACAGC | 60.260 | 45.833 | 0.00 | 0.00 | 44.77 | 4.40 |
3792 | 5537 | 4.260091 | GCCCGTTAAGCGAATAAGTTACAG | 60.260 | 45.833 | 0.00 | 0.00 | 44.77 | 2.74 |
3793 | 5538 | 3.618150 | GCCCGTTAAGCGAATAAGTTACA | 59.382 | 43.478 | 0.00 | 0.00 | 44.77 | 2.41 |
3794 | 5539 | 3.618150 | TGCCCGTTAAGCGAATAAGTTAC | 59.382 | 43.478 | 0.00 | 0.00 | 44.77 | 2.50 |
3795 | 5540 | 3.859443 | TGCCCGTTAAGCGAATAAGTTA | 58.141 | 40.909 | 0.00 | 0.00 | 44.77 | 2.24 |
3796 | 5541 | 2.676342 | CTGCCCGTTAAGCGAATAAGTT | 59.324 | 45.455 | 0.00 | 0.00 | 44.77 | 2.66 |
3797 | 5542 | 2.093869 | TCTGCCCGTTAAGCGAATAAGT | 60.094 | 45.455 | 0.00 | 0.00 | 44.77 | 2.24 |
3798 | 5543 | 2.540101 | CTCTGCCCGTTAAGCGAATAAG | 59.460 | 50.000 | 0.00 | 0.00 | 44.77 | 1.73 |
3799 | 5544 | 2.166870 | TCTCTGCCCGTTAAGCGAATAA | 59.833 | 45.455 | 0.00 | 0.00 | 44.77 | 1.40 |
3800 | 5545 | 1.752498 | TCTCTGCCCGTTAAGCGAATA | 59.248 | 47.619 | 0.00 | 0.00 | 44.77 | 1.75 |
3801 | 5546 | 0.535335 | TCTCTGCCCGTTAAGCGAAT | 59.465 | 50.000 | 0.00 | 0.00 | 44.77 | 3.34 |
3805 | 5550 | 0.876342 | CCGATCTCTGCCCGTTAAGC | 60.876 | 60.000 | 0.00 | 0.00 | 0.00 | 3.09 |
3841 | 5586 | 1.468908 | CGACTGTGAGCTGGATGAGAC | 60.469 | 57.143 | 0.00 | 0.00 | 0.00 | 3.36 |
3842 | 5587 | 0.813821 | CGACTGTGAGCTGGATGAGA | 59.186 | 55.000 | 0.00 | 0.00 | 0.00 | 3.27 |
3854 | 5599 | 5.156804 | ACTGAAAAGCTAAAACGACTGTG | 57.843 | 39.130 | 0.00 | 0.00 | 0.00 | 3.66 |
3855 | 5600 | 5.585047 | AGAACTGAAAAGCTAAAACGACTGT | 59.415 | 36.000 | 0.00 | 0.00 | 0.00 | 3.55 |
3868 | 5613 | 2.481952 | CGCAGAGGGAAGAACTGAAAAG | 59.518 | 50.000 | 0.00 | 0.00 | 34.07 | 2.27 |
3889 | 5638 | 1.826487 | GAACACCCACCCACACACC | 60.826 | 63.158 | 0.00 | 0.00 | 0.00 | 4.16 |
3899 | 5648 | 1.483004 | TCTTTCTCACACGAACACCCA | 59.517 | 47.619 | 0.00 | 0.00 | 0.00 | 4.51 |
3923 | 5672 | 6.071952 | TGCTTCCCATTTTTGACTGTTCTATC | 60.072 | 38.462 | 0.00 | 0.00 | 0.00 | 2.08 |
3928 | 5677 | 4.961438 | ATGCTTCCCATTTTTGACTGTT | 57.039 | 36.364 | 0.00 | 0.00 | 0.00 | 3.16 |
3929 | 5678 | 4.961438 | AATGCTTCCCATTTTTGACTGT | 57.039 | 36.364 | 0.00 | 0.00 | 41.29 | 3.55 |
3967 | 5728 | 4.261825 | CCGGTCTTTGCTTGTTTCCAATAA | 60.262 | 41.667 | 0.00 | 0.00 | 0.00 | 1.40 |
3968 | 5729 | 3.254657 | CCGGTCTTTGCTTGTTTCCAATA | 59.745 | 43.478 | 0.00 | 0.00 | 0.00 | 1.90 |
3969 | 5730 | 2.035832 | CCGGTCTTTGCTTGTTTCCAAT | 59.964 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
3970 | 5731 | 1.407258 | CCGGTCTTTGCTTGTTTCCAA | 59.593 | 47.619 | 0.00 | 0.00 | 0.00 | 3.53 |
3971 | 5732 | 1.028905 | CCGGTCTTTGCTTGTTTCCA | 58.971 | 50.000 | 0.00 | 0.00 | 0.00 | 3.53 |
3974 | 5735 | 3.222603 | AGATTCCGGTCTTTGCTTGTTT | 58.777 | 40.909 | 0.00 | 0.00 | 0.00 | 2.83 |
3977 | 5738 | 3.600388 | ACTAGATTCCGGTCTTTGCTTG | 58.400 | 45.455 | 0.00 | 0.00 | 0.00 | 4.01 |
3978 | 5739 | 3.983044 | ACTAGATTCCGGTCTTTGCTT | 57.017 | 42.857 | 0.00 | 0.00 | 0.00 | 3.91 |
3980 | 5741 | 4.388378 | ACTACTAGATTCCGGTCTTTGC | 57.612 | 45.455 | 0.00 | 0.00 | 0.00 | 3.68 |
3995 | 5776 | 4.572909 | TGCACGAGACTCAACTACTACTA | 58.427 | 43.478 | 2.82 | 0.00 | 0.00 | 1.82 |
4031 | 5852 | 6.422776 | TTGAGGCTGAAATCGATTTTAGTC | 57.577 | 37.500 | 29.69 | 29.69 | 38.00 | 2.59 |
4054 | 5875 | 0.912486 | AAGGCTTTCCCTAGTCGCAT | 59.088 | 50.000 | 0.00 | 0.00 | 45.62 | 4.73 |
4055 | 5876 | 0.249398 | GAAGGCTTTCCCTAGTCGCA | 59.751 | 55.000 | 0.00 | 0.00 | 45.62 | 5.10 |
4152 | 6035 | 0.605589 | ACTAACCAAAGCCGAGGCAC | 60.606 | 55.000 | 17.18 | 0.00 | 44.88 | 5.01 |
4183 | 6066 | 3.484721 | GCCGCCTTTACGATGACTAAAAC | 60.485 | 47.826 | 0.00 | 0.00 | 34.06 | 2.43 |
4196 | 6079 | 3.845259 | ATCCGAGCGCCGCCTTTA | 61.845 | 61.111 | 4.98 | 0.00 | 36.84 | 1.85 |
4208 | 6091 | 0.611200 | AAACGTCACCATCCATCCGA | 59.389 | 50.000 | 0.00 | 0.00 | 0.00 | 4.55 |
4210 | 6093 | 2.009774 | CTGAAACGTCACCATCCATCC | 58.990 | 52.381 | 0.00 | 0.00 | 0.00 | 3.51 |
4213 | 6096 | 0.605319 | GCCTGAAACGTCACCATCCA | 60.605 | 55.000 | 0.00 | 0.00 | 0.00 | 3.41 |
4219 | 6102 | 0.878961 | AACGGAGCCTGAAACGTCAC | 60.879 | 55.000 | 0.00 | 0.00 | 38.79 | 3.67 |
4222 | 6105 | 1.301479 | GGAACGGAGCCTGAAACGT | 60.301 | 57.895 | 0.00 | 0.00 | 41.88 | 3.99 |
4228 | 6111 | 0.895530 | TTGAGTAGGAACGGAGCCTG | 59.104 | 55.000 | 0.00 | 0.00 | 36.96 | 4.85 |
4229 | 6112 | 1.187087 | CTTGAGTAGGAACGGAGCCT | 58.813 | 55.000 | 0.00 | 0.00 | 39.56 | 4.58 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.