Multiple sequence alignment - TraesCS3B01G240200
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 | TraesCS3B01G240200 | chr3B | 100.000 | 2925 | 0 | 0 | 1 | 2925 | 379171224 | 379174148 | 0.000000e+00 | 5402.0 |
1 | TraesCS3B01G240200 | chr3B | 82.667 | 225 | 36 | 3 | 2691 | 2914 | 15981293 | 15981071 | 2.300000e-46 | 196.0 |
2 | TraesCS3B01G240200 | chr3D | 93.656 | 1655 | 45 | 18 | 425 | 2073 | 286189025 | 286190625 | 0.000000e+00 | 2420.0 |
3 | TraesCS3B01G240200 | chr3D | 93.868 | 424 | 17 | 4 | 1 | 422 | 286187280 | 286187696 | 5.320000e-177 | 630.0 |
4 | TraesCS3B01G240200 | chr3D | 86.290 | 248 | 32 | 2 | 2194 | 2440 | 159570023 | 159570269 | 4.800000e-68 | 268.0 |
5 | TraesCS3B01G240200 | chr3D | 85.484 | 62 | 9 | 0 | 1455 | 1516 | 454510031 | 454510092 | 6.770000e-07 | 65.8 |
6 | TraesCS3B01G240200 | chr3A | 95.622 | 1462 | 44 | 5 | 413 | 1871 | 374445450 | 374446894 | 0.000000e+00 | 2327.0 |
7 | TraesCS3B01G240200 | chr3A | 88.220 | 382 | 43 | 2 | 2195 | 2575 | 374447051 | 374447431 | 3.440000e-124 | 455.0 |
8 | TraesCS3B01G240200 | chr3A | 86.455 | 347 | 29 | 6 | 2591 | 2922 | 374447701 | 374448044 | 5.960000e-97 | 364.0 |
9 | TraesCS3B01G240200 | chr3A | 96.914 | 162 | 5 | 0 | 1912 | 2073 | 374446892 | 374447053 | 3.710000e-69 | 272.0 |
10 | TraesCS3B01G240200 | chr3A | 93.631 | 157 | 9 | 1 | 269 | 425 | 374445168 | 374445323 | 1.750000e-57 | 233.0 |
11 | TraesCS3B01G240200 | chr3A | 85.484 | 62 | 9 | 0 | 1455 | 1516 | 596515438 | 596515499 | 6.770000e-07 | 65.8 |
12 | TraesCS3B01G240200 | chr1A | 81.349 | 504 | 67 | 18 | 2439 | 2925 | 48776992 | 48776499 | 4.570000e-103 | 385.0 |
13 | TraesCS3B01G240200 | chr1A | 86.939 | 245 | 30 | 2 | 2197 | 2440 | 398055704 | 398055461 | 1.030000e-69 | 274.0 |
14 | TraesCS3B01G240200 | chr2D | 80.632 | 506 | 66 | 16 | 2439 | 2925 | 2079123 | 2078631 | 2.140000e-96 | 363.0 |
15 | TraesCS3B01G240200 | chr2D | 79.960 | 504 | 73 | 13 | 2439 | 2925 | 630314891 | 630315383 | 2.160000e-91 | 346.0 |
16 | TraesCS3B01G240200 | chr2D | 85.656 | 244 | 31 | 4 | 2194 | 2436 | 117214171 | 117214411 | 1.350000e-63 | 254.0 |
17 | TraesCS3B01G240200 | chr1D | 79.842 | 506 | 76 | 11 | 2439 | 2925 | 297541653 | 297541155 | 2.160000e-91 | 346.0 |
18 | TraesCS3B01G240200 | chr1D | 79.365 | 504 | 74 | 14 | 2439 | 2925 | 434608176 | 434607686 | 7.820000e-86 | 327.0 |
19 | TraesCS3B01G240200 | chr1D | 83.240 | 358 | 44 | 4 | 2583 | 2925 | 111952850 | 111953206 | 6.080000e-82 | 315.0 |
20 | TraesCS3B01G240200 | chr1D | 86.853 | 251 | 29 | 4 | 2194 | 2442 | 401156386 | 401156634 | 7.980000e-71 | 278.0 |
21 | TraesCS3B01G240200 | chr4A | 78.854 | 506 | 76 | 14 | 2439 | 2925 | 435430608 | 435430115 | 2.190000e-81 | 313.0 |
22 | TraesCS3B01G240200 | chr6D | 83.239 | 352 | 43 | 4 | 2589 | 2925 | 297307665 | 297308015 | 2.830000e-80 | 309.0 |
23 | TraesCS3B01G240200 | chr6D | 77.095 | 358 | 55 | 16 | 2540 | 2878 | 47657190 | 47656841 | 6.440000e-42 | 182.0 |
24 | TraesCS3B01G240200 | chr4B | 82.670 | 352 | 45 | 3 | 2589 | 2925 | 615553758 | 615553408 | 6.130000e-77 | 298.0 |
25 | TraesCS3B01G240200 | chr4B | 90.977 | 133 | 10 | 2 | 2066 | 2197 | 55925900 | 55926031 | 8.330000e-41 | 178.0 |
26 | TraesCS3B01G240200 | chr5A | 86.290 | 248 | 32 | 2 | 2194 | 2440 | 144028099 | 144028345 | 4.800000e-68 | 268.0 |
27 | TraesCS3B01G240200 | chr5A | 85.484 | 248 | 34 | 2 | 2194 | 2440 | 224874992 | 224875238 | 1.040000e-64 | 257.0 |
28 | TraesCS3B01G240200 | chr7B | 86.235 | 247 | 32 | 2 | 2197 | 2442 | 712736618 | 712736373 | 1.730000e-67 | 267.0 |
29 | TraesCS3B01G240200 | chr7B | 85.200 | 250 | 32 | 5 | 2197 | 2444 | 595460164 | 595459918 | 4.840000e-63 | 252.0 |
30 | TraesCS3B01G240200 | chr7B | 83.650 | 263 | 38 | 5 | 2197 | 2457 | 74202600 | 74202341 | 2.910000e-60 | 243.0 |
31 | TraesCS3B01G240200 | chr7B | 91.603 | 131 | 10 | 1 | 2071 | 2200 | 401136687 | 401136817 | 2.320000e-41 | 180.0 |
32 | TraesCS3B01G240200 | chr7A | 77.451 | 510 | 73 | 17 | 2434 | 2924 | 316534441 | 316533955 | 1.730000e-67 | 267.0 |
33 | TraesCS3B01G240200 | chr7A | 91.045 | 134 | 10 | 2 | 2066 | 2198 | 135923271 | 135923403 | 2.320000e-41 | 180.0 |
34 | TraesCS3B01G240200 | chr7D | 77.183 | 504 | 84 | 13 | 2439 | 2924 | 366453751 | 366454241 | 6.220000e-67 | 265.0 |
35 | TraesCS3B01G240200 | chr5B | 85.827 | 254 | 31 | 5 | 2197 | 2448 | 464900019 | 464899769 | 6.220000e-67 | 265.0 |
36 | TraesCS3B01G240200 | chr5B | 77.872 | 235 | 37 | 10 | 2440 | 2671 | 423727888 | 423728110 | 6.580000e-27 | 132.0 |
37 | TraesCS3B01G240200 | chr5B | 97.619 | 42 | 0 | 1 | 2585 | 2626 | 478396867 | 478396827 | 1.450000e-08 | 71.3 |
38 | TraesCS3B01G240200 | chr2A | 80.480 | 333 | 55 | 8 | 2590 | 2915 | 82532376 | 82532047 | 2.250000e-61 | 246.0 |
39 | TraesCS3B01G240200 | chr4D | 92.857 | 126 | 9 | 0 | 2072 | 2197 | 165913357 | 165913232 | 1.790000e-42 | 183.0 |
40 | TraesCS3B01G240200 | chr4D | 100.000 | 28 | 0 | 0 | 2468 | 2495 | 370362721 | 370362694 | 5.000000e-03 | 52.8 |
41 | TraesCS3B01G240200 | chr2B | 92.248 | 129 | 9 | 1 | 2070 | 2197 | 571949461 | 571949589 | 6.440000e-42 | 182.0 |
42 | TraesCS3B01G240200 | chr2B | 91.045 | 134 | 11 | 1 | 2065 | 2197 | 525520824 | 525520957 | 2.320000e-41 | 180.0 |
43 | TraesCS3B01G240200 | chr6B | 90.000 | 140 | 13 | 1 | 2065 | 2203 | 68120836 | 68120697 | 2.320000e-41 | 180.0 |
44 | TraesCS3B01G240200 | chr6B | 90.441 | 136 | 12 | 1 | 2071 | 2205 | 604109280 | 604109145 | 8.330000e-41 | 178.0 |
45 | TraesCS3B01G240200 | chr5D | 88.732 | 142 | 14 | 2 | 2066 | 2206 | 409447953 | 409448093 | 3.880000e-39 | 172.0 |
46 | TraesCS3B01G240200 | chr5D | 76.177 | 361 | 65 | 7 | 2582 | 2925 | 342612673 | 342613029 | 1.390000e-38 | 171.0 |
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 | TraesCS3B01G240200 | chr3B | 379171224 | 379174148 | 2924 | False | 5402.0 | 5402 | 100.0000 | 1 | 2925 | 1 | chr3B.!!$F1 | 2924 |
1 | TraesCS3B01G240200 | chr3D | 286187280 | 286190625 | 3345 | False | 1525.0 | 2420 | 93.7620 | 1 | 2073 | 2 | chr3D.!!$F3 | 2072 |
2 | TraesCS3B01G240200 | chr3A | 374445168 | 374448044 | 2876 | False | 730.2 | 2327 | 92.1684 | 269 | 2922 | 5 | chr3A.!!$F2 | 2653 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
21 | 24 | 0.036022 | AAGCAGTGTTCTCCTGAGGC | 59.964 | 55.0 | 0.0 | 0.00 | 31.38 | 4.70 | F |
215 | 218 | 0.319083 | ACCACATGTTGCAAGCATGG | 59.681 | 50.0 | 29.1 | 22.71 | 45.68 | 3.66 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1361 | 2697 | 0.389817 | CTGGACAATTCGGCGACAGA | 60.390 | 55.0 | 10.16 | 0.0 | 0.0 | 3.41 | R |
2180 | 3526 | 0.251297 | TGTTACTCCCTTCGTCCGGA | 60.251 | 55.0 | 0.00 | 0.0 | 0.0 | 5.14 | 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 |
---|---|---|---|---|---|---|---|---|---|
21 | 24 | 0.036022 | AAGCAGTGTTCTCCTGAGGC | 59.964 | 55.000 | 0.00 | 0.00 | 31.38 | 4.70 |
22 | 25 | 1.739562 | GCAGTGTTCTCCTGAGGCG | 60.740 | 63.158 | 0.00 | 0.00 | 31.38 | 5.52 |
31 | 34 | 2.743928 | CCTGAGGCGTGCTTCCAC | 60.744 | 66.667 | 1.28 | 0.00 | 38.62 | 4.02 |
33 | 36 | 1.376424 | CTGAGGCGTGCTTCCACAT | 60.376 | 57.895 | 1.28 | 0.00 | 42.17 | 3.21 |
34 | 37 | 1.642037 | CTGAGGCGTGCTTCCACATG | 61.642 | 60.000 | 1.28 | 0.00 | 42.17 | 3.21 |
53 | 56 | 3.126001 | TGATGGAATCCTCGGCATAAC | 57.874 | 47.619 | 0.00 | 0.00 | 44.73 | 1.89 |
95 | 98 | 2.223735 | ACGTAGCATTAGTCGGGTGATG | 60.224 | 50.000 | 0.00 | 0.00 | 0.00 | 3.07 |
142 | 145 | 3.125829 | CGACACAACTAGATGCTGCAAAT | 59.874 | 43.478 | 6.36 | 0.15 | 0.00 | 2.32 |
143 | 146 | 4.378770 | CGACACAACTAGATGCTGCAAATT | 60.379 | 41.667 | 6.36 | 0.00 | 0.00 | 1.82 |
144 | 147 | 5.163864 | CGACACAACTAGATGCTGCAAATTA | 60.164 | 40.000 | 6.36 | 0.00 | 0.00 | 1.40 |
145 | 148 | 6.573664 | ACACAACTAGATGCTGCAAATTAA | 57.426 | 33.333 | 6.36 | 0.00 | 0.00 | 1.40 |
146 | 149 | 6.980593 | ACACAACTAGATGCTGCAAATTAAA | 58.019 | 32.000 | 6.36 | 0.00 | 0.00 | 1.52 |
147 | 150 | 6.863126 | ACACAACTAGATGCTGCAAATTAAAC | 59.137 | 34.615 | 6.36 | 0.00 | 0.00 | 2.01 |
148 | 151 | 6.032775 | CACAACTAGATGCTGCAAATTAAACG | 59.967 | 38.462 | 6.36 | 0.00 | 0.00 | 3.60 |
149 | 152 | 5.235305 | ACTAGATGCTGCAAATTAAACGG | 57.765 | 39.130 | 6.36 | 0.00 | 0.00 | 4.44 |
150 | 153 | 2.879826 | AGATGCTGCAAATTAAACGGC | 58.120 | 42.857 | 6.36 | 0.00 | 36.21 | 5.68 |
152 | 155 | 2.515926 | TGCTGCAAATTAAACGGCAA | 57.484 | 40.000 | 0.00 | 0.00 | 42.46 | 4.52 |
153 | 156 | 2.131183 | TGCTGCAAATTAAACGGCAAC | 58.869 | 42.857 | 0.00 | 0.00 | 42.46 | 4.17 |
154 | 157 | 2.131183 | GCTGCAAATTAAACGGCAACA | 58.869 | 42.857 | 0.00 | 0.00 | 35.59 | 3.33 |
215 | 218 | 0.319083 | ACCACATGTTGCAAGCATGG | 59.681 | 50.000 | 29.10 | 22.71 | 45.68 | 3.66 |
221 | 224 | 0.901114 | TGTTGCAAGCATGGATGGCT | 60.901 | 50.000 | 0.00 | 0.00 | 45.15 | 4.75 |
578 | 1907 | 4.600576 | TGCCACGCGAACAGAGCA | 62.601 | 61.111 | 15.93 | 9.27 | 34.19 | 4.26 |
722 | 2051 | 5.702266 | TGATACCAGTATACCACTAGCTGT | 58.298 | 41.667 | 0.00 | 0.00 | 34.98 | 4.40 |
723 | 2052 | 6.134055 | TGATACCAGTATACCACTAGCTGTT | 58.866 | 40.000 | 0.00 | 0.00 | 34.98 | 3.16 |
812 | 2141 | 1.328986 | GCAGCGATCTAGTTTTCCAGC | 59.671 | 52.381 | 0.00 | 0.00 | 0.00 | 4.85 |
965 | 2294 | 1.443194 | CCACTTGCGCATGCTCAAC | 60.443 | 57.895 | 18.74 | 4.58 | 43.34 | 3.18 |
1032 | 2361 | 1.000646 | GTCCCTCCTCTCCGTGAGT | 60.001 | 63.158 | 1.60 | 0.00 | 41.11 | 3.41 |
1062 | 2391 | 0.832135 | AGATCGGTGGGTATGCGGAT | 60.832 | 55.000 | 0.00 | 0.00 | 0.00 | 4.18 |
1086 | 2415 | 2.813908 | GACCACGACGACATGGCC | 60.814 | 66.667 | 0.00 | 0.00 | 39.84 | 5.36 |
1275 | 2607 | 5.977635 | TCACAAGGACTCGACAATATCAAT | 58.022 | 37.500 | 0.00 | 0.00 | 0.00 | 2.57 |
1329 | 2661 | 7.504403 | ACTGTCTCCCTTCATTATCATTACTG | 58.496 | 38.462 | 0.00 | 0.00 | 0.00 | 2.74 |
1341 | 2677 | 1.078426 | ATTACTGGTGCGTGGCTCC | 60.078 | 57.895 | 1.92 | 1.92 | 41.88 | 4.70 |
1361 | 2697 | 3.581332 | TCCCAAGTCTGAACCTCGTTATT | 59.419 | 43.478 | 0.00 | 0.00 | 0.00 | 1.40 |
1368 | 2704 | 2.599082 | CTGAACCTCGTTATTCTGTCGC | 59.401 | 50.000 | 0.00 | 0.00 | 0.00 | 5.19 |
1370 | 2706 | 0.179145 | ACCTCGTTATTCTGTCGCCG | 60.179 | 55.000 | 0.00 | 0.00 | 0.00 | 6.46 |
1445 | 2781 | 0.879765 | GTTCAAGACGAGGTCGGAGA | 59.120 | 55.000 | 4.13 | 0.00 | 44.95 | 3.71 |
1521 | 2857 | 0.558712 | AACAGCCCAAACCCAAGGTA | 59.441 | 50.000 | 0.00 | 0.00 | 33.12 | 3.08 |
1522 | 2858 | 0.178973 | ACAGCCCAAACCCAAGGTAC | 60.179 | 55.000 | 0.00 | 0.00 | 33.12 | 3.34 |
1523 | 2859 | 1.074248 | AGCCCAAACCCAAGGTACG | 59.926 | 57.895 | 0.00 | 0.00 | 33.12 | 3.67 |
1524 | 2860 | 2.632544 | GCCCAAACCCAAGGTACGC | 61.633 | 63.158 | 0.00 | 0.00 | 33.12 | 4.42 |
1525 | 2861 | 1.228306 | CCCAAACCCAAGGTACGCA | 60.228 | 57.895 | 0.00 | 0.00 | 33.12 | 5.24 |
1526 | 2862 | 1.520600 | CCCAAACCCAAGGTACGCAC | 61.521 | 60.000 | 0.00 | 0.00 | 33.12 | 5.34 |
1527 | 2863 | 1.572447 | CAAACCCAAGGTACGCACG | 59.428 | 57.895 | 0.00 | 0.00 | 33.12 | 5.34 |
1528 | 2864 | 2.255881 | AAACCCAAGGTACGCACGC | 61.256 | 57.895 | 0.00 | 0.00 | 33.12 | 5.34 |
1593 | 2937 | 5.879223 | ACGCATTTTGATTCTCTTCTCTGAT | 59.121 | 36.000 | 0.00 | 0.00 | 0.00 | 2.90 |
1595 | 2939 | 6.496571 | GCATTTTGATTCTCTTCTCTGATGG | 58.503 | 40.000 | 0.00 | 0.00 | 0.00 | 3.51 |
1596 | 2940 | 6.318144 | GCATTTTGATTCTCTTCTCTGATGGA | 59.682 | 38.462 | 0.00 | 0.00 | 0.00 | 3.41 |
1600 | 2944 | 4.706962 | TGATTCTCTTCTCTGATGGAACGA | 59.293 | 41.667 | 0.00 | 0.00 | 0.00 | 3.85 |
1957 | 3302 | 7.730332 | ACATGTCCAGGATATTATGTGAGACTA | 59.270 | 37.037 | 0.00 | 0.00 | 0.00 | 2.59 |
2060 | 3406 | 5.421693 | TGGTACGAGGCACCTTATTACTTAA | 59.578 | 40.000 | 0.00 | 0.00 | 36.96 | 1.85 |
2073 | 3419 | 9.842775 | ACCTTATTACTTAAGCCTAATTGGTAC | 57.157 | 33.333 | 1.29 | 0.00 | 36.71 | 3.34 |
2078 | 3424 | 8.613922 | TTACTTAAGCCTAATTGGTACTACCT | 57.386 | 34.615 | 1.29 | 0.00 | 39.58 | 3.08 |
2079 | 3425 | 7.122138 | ACTTAAGCCTAATTGGTACTACCTC | 57.878 | 40.000 | 1.29 | 0.00 | 39.58 | 3.85 |
2080 | 3426 | 6.099413 | ACTTAAGCCTAATTGGTACTACCTCC | 59.901 | 42.308 | 1.29 | 0.00 | 39.58 | 4.30 |
2081 | 3427 | 2.963782 | AGCCTAATTGGTACTACCTCCG | 59.036 | 50.000 | 6.79 | 0.00 | 39.58 | 4.63 |
2082 | 3428 | 2.697229 | GCCTAATTGGTACTACCTCCGT | 59.303 | 50.000 | 6.79 | 0.00 | 39.58 | 4.69 |
2083 | 3429 | 3.243670 | GCCTAATTGGTACTACCTCCGTC | 60.244 | 52.174 | 6.79 | 0.00 | 39.58 | 4.79 |
2084 | 3430 | 3.320256 | CCTAATTGGTACTACCTCCGTCC | 59.680 | 52.174 | 6.79 | 0.00 | 39.58 | 4.79 |
2085 | 3431 | 1.396653 | ATTGGTACTACCTCCGTCCG | 58.603 | 55.000 | 6.79 | 0.00 | 39.58 | 4.79 |
2086 | 3432 | 0.327924 | TTGGTACTACCTCCGTCCGA | 59.672 | 55.000 | 6.79 | 0.00 | 39.58 | 4.55 |
2087 | 3433 | 0.327924 | TGGTACTACCTCCGTCCGAA | 59.672 | 55.000 | 6.79 | 0.00 | 39.58 | 4.30 |
2088 | 3434 | 1.271871 | TGGTACTACCTCCGTCCGAAA | 60.272 | 52.381 | 6.79 | 0.00 | 39.58 | 3.46 |
2089 | 3435 | 1.818674 | GGTACTACCTCCGTCCGAAAA | 59.181 | 52.381 | 0.00 | 0.00 | 34.73 | 2.29 |
2090 | 3436 | 2.428530 | GGTACTACCTCCGTCCGAAAAT | 59.571 | 50.000 | 0.00 | 0.00 | 34.73 | 1.82 |
2091 | 3437 | 3.632145 | GGTACTACCTCCGTCCGAAAATA | 59.368 | 47.826 | 0.00 | 0.00 | 34.73 | 1.40 |
2092 | 3438 | 3.790152 | ACTACCTCCGTCCGAAAATAC | 57.210 | 47.619 | 0.00 | 0.00 | 0.00 | 1.89 |
2093 | 3439 | 3.359950 | ACTACCTCCGTCCGAAAATACT | 58.640 | 45.455 | 0.00 | 0.00 | 0.00 | 2.12 |
2094 | 3440 | 3.766051 | ACTACCTCCGTCCGAAAATACTT | 59.234 | 43.478 | 0.00 | 0.00 | 0.00 | 2.24 |
2095 | 3441 | 2.968675 | ACCTCCGTCCGAAAATACTTG | 58.031 | 47.619 | 0.00 | 0.00 | 0.00 | 3.16 |
2096 | 3442 | 2.301009 | ACCTCCGTCCGAAAATACTTGT | 59.699 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
2097 | 3443 | 3.244318 | ACCTCCGTCCGAAAATACTTGTT | 60.244 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
2098 | 3444 | 4.021192 | ACCTCCGTCCGAAAATACTTGTTA | 60.021 | 41.667 | 0.00 | 0.00 | 0.00 | 2.41 |
2099 | 3445 | 5.114081 | CCTCCGTCCGAAAATACTTGTTAT | 58.886 | 41.667 | 0.00 | 0.00 | 0.00 | 1.89 |
2100 | 3446 | 5.233689 | CCTCCGTCCGAAAATACTTGTTATC | 59.766 | 44.000 | 0.00 | 0.00 | 0.00 | 1.75 |
2101 | 3447 | 5.722263 | TCCGTCCGAAAATACTTGTTATCA | 58.278 | 37.500 | 0.00 | 0.00 | 0.00 | 2.15 |
2102 | 3448 | 6.164876 | TCCGTCCGAAAATACTTGTTATCAA | 58.835 | 36.000 | 0.00 | 0.00 | 0.00 | 2.57 |
2103 | 3449 | 6.649973 | TCCGTCCGAAAATACTTGTTATCAAA | 59.350 | 34.615 | 0.00 | 0.00 | 32.87 | 2.69 |
2104 | 3450 | 7.172875 | TCCGTCCGAAAATACTTGTTATCAAAA | 59.827 | 33.333 | 0.00 | 0.00 | 32.87 | 2.44 |
2105 | 3451 | 7.480542 | CCGTCCGAAAATACTTGTTATCAAAAG | 59.519 | 37.037 | 0.00 | 0.00 | 32.87 | 2.27 |
2106 | 3452 | 7.480542 | CGTCCGAAAATACTTGTTATCAAAAGG | 59.519 | 37.037 | 0.00 | 0.00 | 32.87 | 3.11 |
2107 | 3453 | 8.508875 | GTCCGAAAATACTTGTTATCAAAAGGA | 58.491 | 33.333 | 0.00 | 0.00 | 32.87 | 3.36 |
2108 | 3454 | 9.069082 | TCCGAAAATACTTGTTATCAAAAGGAA | 57.931 | 29.630 | 0.00 | 0.00 | 32.87 | 3.36 |
2109 | 3455 | 9.855021 | CCGAAAATACTTGTTATCAAAAGGAAT | 57.145 | 29.630 | 0.00 | 0.00 | 32.87 | 3.01 |
2117 | 3463 | 9.996554 | ACTTGTTATCAAAAGGAATAAAAAGGG | 57.003 | 29.630 | 8.93 | 0.00 | 31.44 | 3.95 |
2124 | 3470 | 8.129496 | TCAAAAGGAATAAAAAGGGATGTACC | 57.871 | 34.615 | 0.00 | 0.00 | 38.08 | 3.34 |
2125 | 3471 | 7.953493 | TCAAAAGGAATAAAAAGGGATGTACCT | 59.047 | 33.333 | 0.00 | 0.00 | 44.56 | 3.08 |
2126 | 3472 | 9.250246 | CAAAAGGAATAAAAAGGGATGTACCTA | 57.750 | 33.333 | 0.00 | 0.00 | 40.87 | 3.08 |
2127 | 3473 | 9.475620 | AAAAGGAATAAAAAGGGATGTACCTAG | 57.524 | 33.333 | 0.00 | 0.00 | 40.87 | 3.02 |
2128 | 3474 | 8.401955 | AAGGAATAAAAAGGGATGTACCTAGA | 57.598 | 34.615 | 0.00 | 0.00 | 40.87 | 2.43 |
2129 | 3475 | 8.401955 | AGGAATAAAAAGGGATGTACCTAGAA | 57.598 | 34.615 | 0.00 | 0.00 | 40.87 | 2.10 |
2130 | 3476 | 8.272889 | AGGAATAAAAAGGGATGTACCTAGAAC | 58.727 | 37.037 | 0.00 | 0.00 | 40.87 | 3.01 |
2131 | 3477 | 8.272889 | GGAATAAAAAGGGATGTACCTAGAACT | 58.727 | 37.037 | 0.00 | 0.00 | 40.87 | 3.01 |
2139 | 3485 | 7.949434 | AGGGATGTACCTAGAACTAAAATACG | 58.051 | 38.462 | 0.00 | 0.00 | 39.65 | 3.06 |
2140 | 3486 | 7.562821 | AGGGATGTACCTAGAACTAAAATACGT | 59.437 | 37.037 | 0.00 | 0.00 | 39.65 | 3.57 |
2141 | 3487 | 8.200120 | GGGATGTACCTAGAACTAAAATACGTT | 58.800 | 37.037 | 0.00 | 0.00 | 38.98 | 3.99 |
2142 | 3488 | 9.591792 | GGATGTACCTAGAACTAAAATACGTTT | 57.408 | 33.333 | 0.00 | 0.00 | 35.41 | 3.60 |
2183 | 3529 | 8.915871 | ATTCATTTTGATGACAAGTATTTCCG | 57.084 | 30.769 | 0.00 | 0.00 | 37.32 | 4.30 |
2184 | 3530 | 6.851609 | TCATTTTGATGACAAGTATTTCCGG | 58.148 | 36.000 | 0.00 | 0.00 | 37.32 | 5.14 |
2185 | 3531 | 6.657117 | TCATTTTGATGACAAGTATTTCCGGA | 59.343 | 34.615 | 0.00 | 0.00 | 37.32 | 5.14 |
2186 | 3532 | 5.873179 | TTTGATGACAAGTATTTCCGGAC | 57.127 | 39.130 | 1.83 | 0.00 | 37.32 | 4.79 |
2187 | 3533 | 3.517602 | TGATGACAAGTATTTCCGGACG | 58.482 | 45.455 | 1.83 | 0.00 | 0.00 | 4.79 |
2188 | 3534 | 3.193903 | TGATGACAAGTATTTCCGGACGA | 59.806 | 43.478 | 1.83 | 0.00 | 0.00 | 4.20 |
2189 | 3535 | 3.663995 | TGACAAGTATTTCCGGACGAA | 57.336 | 42.857 | 1.83 | 0.00 | 0.00 | 3.85 |
2190 | 3536 | 3.581755 | TGACAAGTATTTCCGGACGAAG | 58.418 | 45.455 | 1.83 | 0.00 | 0.00 | 3.79 |
2191 | 3537 | 2.928116 | GACAAGTATTTCCGGACGAAGG | 59.072 | 50.000 | 1.83 | 0.00 | 0.00 | 3.46 |
2192 | 3538 | 2.277084 | CAAGTATTTCCGGACGAAGGG | 58.723 | 52.381 | 1.83 | 0.00 | 0.00 | 3.95 |
2193 | 3539 | 1.856629 | AGTATTTCCGGACGAAGGGA | 58.143 | 50.000 | 1.83 | 0.00 | 0.00 | 4.20 |
2194 | 3540 | 1.755380 | AGTATTTCCGGACGAAGGGAG | 59.245 | 52.381 | 1.83 | 0.00 | 33.01 | 4.30 |
2195 | 3541 | 1.479730 | GTATTTCCGGACGAAGGGAGT | 59.520 | 52.381 | 1.83 | 0.00 | 33.01 | 3.85 |
2196 | 3542 | 1.856629 | ATTTCCGGACGAAGGGAGTA | 58.143 | 50.000 | 1.83 | 0.00 | 33.01 | 2.59 |
2203 | 3549 | 1.897802 | GGACGAAGGGAGTAACAAGGA | 59.102 | 52.381 | 0.00 | 0.00 | 0.00 | 3.36 |
2204 | 3550 | 2.301009 | GGACGAAGGGAGTAACAAGGAA | 59.699 | 50.000 | 0.00 | 0.00 | 0.00 | 3.36 |
2209 | 3555 | 4.384208 | CGAAGGGAGTAACAAGGAATCCAT | 60.384 | 45.833 | 0.61 | 0.00 | 0.00 | 3.41 |
2216 | 3562 | 7.116736 | GGAGTAACAAGGAATCCATAGGAAAA | 58.883 | 38.462 | 0.61 | 0.00 | 34.34 | 2.29 |
2217 | 3563 | 7.614192 | GGAGTAACAAGGAATCCATAGGAAAAA | 59.386 | 37.037 | 0.61 | 0.00 | 34.34 | 1.94 |
2241 | 3587 | 9.956640 | AAATTTCCTATAAATGCATTTGGTTCA | 57.043 | 25.926 | 30.43 | 13.70 | 0.00 | 3.18 |
2245 | 3591 | 9.639563 | TTCCTATAAATGCATTTGGTTCATAGA | 57.360 | 29.630 | 30.43 | 16.14 | 0.00 | 1.98 |
2266 | 3612 | 9.454585 | CATAGAAAATGCGTACATGAATTTCAT | 57.545 | 29.630 | 6.06 | 6.06 | 37.65 | 2.57 |
2306 | 3652 | 7.455641 | TTTCTGTGTTTTTGAGGAAACTACA | 57.544 | 32.000 | 2.68 | 4.64 | 44.43 | 2.74 |
2311 | 3657 | 6.601613 | TGTGTTTTTGAGGAAACTACACATCT | 59.398 | 34.615 | 0.00 | 0.00 | 44.43 | 2.90 |
2319 | 3665 | 7.378966 | TGAGGAAACTACACATCTACTCAAAG | 58.621 | 38.462 | 0.00 | 0.00 | 44.43 | 2.77 |
2342 | 3688 | 9.941664 | AAAGATCATTTTATGCGTAGAAATGAG | 57.058 | 29.630 | 24.32 | 7.25 | 46.67 | 2.90 |
2351 | 3697 | 2.742053 | GCGTAGAAATGAGGCAAGTCAA | 59.258 | 45.455 | 0.00 | 0.00 | 0.00 | 3.18 |
2363 | 3709 | 7.572523 | TGAGGCAAGTCAATTCCTTATAATG | 57.427 | 36.000 | 0.00 | 0.00 | 0.00 | 1.90 |
2374 | 3720 | 7.560991 | TCAATTCCTTATAATGGCAAGTGTCAT | 59.439 | 33.333 | 0.00 | 0.00 | 43.07 | 3.06 |
2375 | 3721 | 6.942532 | TTCCTTATAATGGCAAGTGTCATC | 57.057 | 37.500 | 0.00 | 0.00 | 39.84 | 2.92 |
2376 | 3722 | 5.376625 | TCCTTATAATGGCAAGTGTCATCC | 58.623 | 41.667 | 0.00 | 0.00 | 39.84 | 3.51 |
2438 | 3785 | 1.485066 | TCCTCTAAACCGAATGAGGCC | 59.515 | 52.381 | 0.00 | 0.00 | 44.09 | 5.19 |
2446 | 3793 | 3.434940 | ACCGAATGAGGCCTTAAAAGT | 57.565 | 42.857 | 6.77 | 0.00 | 33.69 | 2.66 |
2454 | 3801 | 7.218204 | CGAATGAGGCCTTAAAAGTTTTAATCG | 59.782 | 37.037 | 18.65 | 17.13 | 0.00 | 3.34 |
2460 | 3807 | 8.799367 | AGGCCTTAAAAGTTTTAATCGTTACAT | 58.201 | 29.630 | 18.65 | 3.48 | 0.00 | 2.29 |
2461 | 3808 | 9.414295 | GGCCTTAAAAGTTTTAATCGTTACATT | 57.586 | 29.630 | 18.65 | 0.00 | 0.00 | 2.71 |
2466 | 3813 | 5.225899 | AGTTTTAATCGTTACATTCGGCC | 57.774 | 39.130 | 0.00 | 0.00 | 0.00 | 6.13 |
2474 | 3821 | 1.599542 | GTTACATTCGGCCTCTGCATC | 59.400 | 52.381 | 0.00 | 0.00 | 40.13 | 3.91 |
2478 | 3825 | 1.123077 | ATTCGGCCTCTGCATCACTA | 58.877 | 50.000 | 0.00 | 0.00 | 40.13 | 2.74 |
2480 | 3827 | 0.901827 | TCGGCCTCTGCATCACTAAA | 59.098 | 50.000 | 0.00 | 0.00 | 40.13 | 1.85 |
2495 | 3842 | 4.930963 | TCACTAAAATGCACACAACCAAG | 58.069 | 39.130 | 0.00 | 0.00 | 0.00 | 3.61 |
2497 | 3844 | 1.569708 | AAAATGCACACAACCAAGCG | 58.430 | 45.000 | 0.00 | 0.00 | 0.00 | 4.68 |
2566 | 3913 | 8.954350 | AGTAAACATGTAGAGTCTGTATAACGT | 58.046 | 33.333 | 1.86 | 0.00 | 0.00 | 3.99 |
2575 | 3922 | 5.065731 | AGAGTCTGTATAACGTCTAAACCGG | 59.934 | 44.000 | 0.00 | 0.00 | 0.00 | 5.28 |
2577 | 3924 | 5.065731 | AGTCTGTATAACGTCTAAACCGGAG | 59.934 | 44.000 | 9.46 | 0.00 | 0.00 | 4.63 |
2616 | 4217 | 6.293698 | TCCTAAGATCATGTTGTCATCCATG | 58.706 | 40.000 | 0.00 | 6.65 | 39.82 | 3.66 |
2617 | 4218 | 6.060136 | CCTAAGATCATGTTGTCATCCATGT | 58.940 | 40.000 | 10.95 | 2.37 | 39.53 | 3.21 |
2622 | 4223 | 2.673775 | TGTTGTCATCCATGTTGGGT | 57.326 | 45.000 | 0.00 | 0.00 | 38.32 | 4.51 |
2629 | 4230 | 4.522405 | TGTCATCCATGTTGGGTAAAGTTG | 59.478 | 41.667 | 0.00 | 0.00 | 38.32 | 3.16 |
2631 | 4232 | 4.764823 | TCATCCATGTTGGGTAAAGTTGTC | 59.235 | 41.667 | 0.00 | 0.00 | 38.32 | 3.18 |
2638 | 4239 | 2.414612 | TGGGTAAAGTTGTCCCTCACT | 58.585 | 47.619 | 14.27 | 0.00 | 41.58 | 3.41 |
2647 | 4248 | 3.031736 | GTTGTCCCTCACTATAGCCTGA | 58.968 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2664 | 4265 | 3.802685 | GCCTGAAATCGTGTACATACCTC | 59.197 | 47.826 | 0.00 | 0.00 | 0.00 | 3.85 |
2672 | 4273 | 3.755905 | TCGTGTACATACCTCCGTAAACA | 59.244 | 43.478 | 0.00 | 0.00 | 0.00 | 2.83 |
2673 | 4274 | 4.217334 | TCGTGTACATACCTCCGTAAACAA | 59.783 | 41.667 | 0.00 | 0.00 | 0.00 | 2.83 |
2674 | 4275 | 4.922692 | CGTGTACATACCTCCGTAAACAAA | 59.077 | 41.667 | 0.00 | 0.00 | 0.00 | 2.83 |
2677 | 4278 | 6.424812 | GTGTACATACCTCCGTAAACAAAGTT | 59.575 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
2688 | 4289 | 6.822676 | TCCGTAAACAAAGTTTTAGTTCTCCA | 59.177 | 34.615 | 0.03 | 0.00 | 0.00 | 3.86 |
2698 | 4313 | 7.506328 | AGTTTTAGTTCTCCACACCATAAAC | 57.494 | 36.000 | 0.00 | 0.00 | 0.00 | 2.01 |
2699 | 4314 | 6.204108 | AGTTTTAGTTCTCCACACCATAAACG | 59.796 | 38.462 | 0.00 | 0.00 | 0.00 | 3.60 |
2707 | 4322 | 2.482721 | CCACACCATAAACGAAGTGTCC | 59.517 | 50.000 | 0.00 | 0.00 | 45.00 | 4.02 |
2708 | 4323 | 3.399330 | CACACCATAAACGAAGTGTCCT | 58.601 | 45.455 | 0.00 | 0.00 | 45.00 | 3.85 |
2731 | 4346 | 4.959839 | TGGTACATCTGTAGATAACCTGCA | 59.040 | 41.667 | 18.74 | 0.00 | 39.06 | 4.41 |
2796 | 4411 | 2.004583 | CCAAAGCGACCAGATAACGA | 57.995 | 50.000 | 0.00 | 0.00 | 0.00 | 3.85 |
2807 | 4422 | 0.179108 | AGATAACGACAAGCGCTCCC | 60.179 | 55.000 | 12.06 | 1.42 | 46.04 | 4.30 |
2808 | 4423 | 0.459585 | GATAACGACAAGCGCTCCCA | 60.460 | 55.000 | 12.06 | 0.00 | 46.04 | 4.37 |
2809 | 4424 | 0.739813 | ATAACGACAAGCGCTCCCAC | 60.740 | 55.000 | 12.06 | 1.77 | 46.04 | 4.61 |
2813 | 4428 | 4.335647 | ACAAGCGCTCCCACCCTG | 62.336 | 66.667 | 12.06 | 5.80 | 0.00 | 4.45 |
2818 | 4433 | 3.036429 | GCGCTCCCACCCTGAGAAT | 62.036 | 63.158 | 0.00 | 0.00 | 31.26 | 2.40 |
2833 | 4448 | 7.066284 | CACCCTGAGAATAATTCTAAACCTGTG | 59.934 | 40.741 | 0.00 | 0.00 | 40.87 | 3.66 |
2836 | 4451 | 9.050601 | CCTGAGAATAATTCTAAACCTGTGATC | 57.949 | 37.037 | 0.00 | 0.00 | 40.87 | 2.92 |
2840 | 4455 | 9.566432 | AGAATAATTCTAAACCTGTGATCCATC | 57.434 | 33.333 | 0.00 | 0.00 | 38.49 | 3.51 |
2841 | 4456 | 9.342308 | GAATAATTCTAAACCTGTGATCCATCA | 57.658 | 33.333 | 0.00 | 0.00 | 0.00 | 3.07 |
2913 | 4528 | 4.946157 | AGCCAGAAACTATTTGGATGACTG | 59.054 | 41.667 | 0.00 | 0.00 | 33.76 | 3.51 |
2915 | 4530 | 5.591877 | GCCAGAAACTATTTGGATGACTGAT | 59.408 | 40.000 | 0.00 | 0.00 | 33.76 | 2.90 |
2916 | 4531 | 6.238593 | GCCAGAAACTATTTGGATGACTGATC | 60.239 | 42.308 | 0.00 | 0.00 | 33.76 | 2.92 |
2917 | 4532 | 6.825213 | CCAGAAACTATTTGGATGACTGATCA | 59.175 | 38.462 | 0.00 | 0.00 | 39.83 | 2.92 |
2919 | 4534 | 9.551734 | CAGAAACTATTTGGATGACTGATCATA | 57.448 | 33.333 | 0.00 | 0.00 | 46.01 | 2.15 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
9 | 12 | 1.004440 | AAGCACGCCTCAGGAGAAC | 60.004 | 57.895 | 0.00 | 0.00 | 0.00 | 3.01 |
31 | 34 | 2.195741 | ATGCCGAGGATTCCATCATG | 57.804 | 50.000 | 5.29 | 0.00 | 0.00 | 3.07 |
33 | 36 | 2.224523 | GGTTATGCCGAGGATTCCATCA | 60.225 | 50.000 | 5.29 | 0.00 | 0.00 | 3.07 |
34 | 37 | 2.427506 | GGTTATGCCGAGGATTCCATC | 58.572 | 52.381 | 5.29 | 0.00 | 0.00 | 3.51 |
64 | 67 | 4.683832 | ACTAATGCTACGTTAAGCTCCTG | 58.316 | 43.478 | 11.40 | 3.07 | 43.19 | 3.86 |
95 | 98 | 6.510638 | GCTTGTAACACCACAACTACACTAAC | 60.511 | 42.308 | 0.00 | 0.00 | 34.75 | 2.34 |
142 | 145 | 3.001736 | GCAGCATTTTTGTTGCCGTTTAA | 59.998 | 39.130 | 3.75 | 0.00 | 41.06 | 1.52 |
143 | 146 | 2.541762 | GCAGCATTTTTGTTGCCGTTTA | 59.458 | 40.909 | 3.75 | 0.00 | 41.06 | 2.01 |
144 | 147 | 1.330213 | GCAGCATTTTTGTTGCCGTTT | 59.670 | 42.857 | 3.75 | 0.00 | 41.06 | 3.60 |
145 | 148 | 0.936600 | GCAGCATTTTTGTTGCCGTT | 59.063 | 45.000 | 3.75 | 0.00 | 41.06 | 4.44 |
146 | 149 | 1.214373 | CGCAGCATTTTTGTTGCCGT | 61.214 | 50.000 | 8.83 | 0.00 | 41.90 | 5.68 |
147 | 150 | 0.938637 | TCGCAGCATTTTTGTTGCCG | 60.939 | 50.000 | 8.83 | 5.20 | 41.90 | 5.69 |
148 | 151 | 0.785979 | CTCGCAGCATTTTTGTTGCC | 59.214 | 50.000 | 8.83 | 0.00 | 41.90 | 4.52 |
149 | 152 | 0.162294 | GCTCGCAGCATTTTTGTTGC | 59.838 | 50.000 | 4.92 | 4.92 | 41.89 | 4.17 |
171 | 174 | 1.891919 | GGTTGTGGCGTCTCTTGCA | 60.892 | 57.895 | 0.00 | 0.00 | 0.00 | 4.08 |
215 | 218 | 1.354506 | GCTCGCAACATCAGCCATC | 59.645 | 57.895 | 0.00 | 0.00 | 0.00 | 3.51 |
221 | 224 | 2.337583 | GTCTAACTGCTCGCAACATCA | 58.662 | 47.619 | 0.00 | 0.00 | 0.00 | 3.07 |
243 | 246 | 2.190981 | GCCTCGTCAATTGTAGTACGG | 58.809 | 52.381 | 14.96 | 7.76 | 36.08 | 4.02 |
559 | 1888 | 3.782244 | CTCTGTTCGCGTGGCAGC | 61.782 | 66.667 | 5.77 | 0.00 | 0.00 | 5.25 |
696 | 2025 | 6.434340 | CAGCTAGTGGTATACTGGTATCATCA | 59.566 | 42.308 | 2.25 | 0.00 | 40.65 | 3.07 |
697 | 2026 | 6.434652 | ACAGCTAGTGGTATACTGGTATCATC | 59.565 | 42.308 | 2.25 | 0.00 | 40.65 | 2.92 |
698 | 2027 | 6.315714 | ACAGCTAGTGGTATACTGGTATCAT | 58.684 | 40.000 | 2.25 | 0.00 | 40.65 | 2.45 |
722 | 2051 | 2.485677 | GCAAGCTGCTATGAGGCAA | 58.514 | 52.632 | 0.90 | 0.00 | 41.94 | 4.52 |
723 | 2052 | 4.230603 | GCAAGCTGCTATGAGGCA | 57.769 | 55.556 | 0.90 | 0.00 | 40.96 | 4.75 |
922 | 2251 | 0.166814 | GCATGGCAACTCGTGTTCTC | 59.833 | 55.000 | 0.00 | 0.00 | 33.52 | 2.87 |
965 | 2294 | 0.034059 | AACCAGACAGACTCGCCTTG | 59.966 | 55.000 | 0.00 | 0.00 | 0.00 | 3.61 |
1062 | 2391 | 2.203379 | TCGTCGTGGTCACCTCCA | 60.203 | 61.111 | 0.00 | 0.00 | 34.85 | 3.86 |
1285 | 2617 | 9.784680 | GAGACAGTTTCGATCTATAGTAACAAA | 57.215 | 33.333 | 0.00 | 0.00 | 0.00 | 2.83 |
1288 | 2620 | 7.229106 | AGGGAGACAGTTTCGATCTATAGTAAC | 59.771 | 40.741 | 0.00 | 0.00 | 0.00 | 2.50 |
1289 | 2621 | 7.288560 | AGGGAGACAGTTTCGATCTATAGTAA | 58.711 | 38.462 | 0.00 | 0.00 | 0.00 | 2.24 |
1291 | 2623 | 5.697067 | AGGGAGACAGTTTCGATCTATAGT | 58.303 | 41.667 | 0.00 | 0.00 | 0.00 | 2.12 |
1292 | 2624 | 6.263392 | TGAAGGGAGACAGTTTCGATCTATAG | 59.737 | 42.308 | 0.00 | 0.00 | 0.00 | 1.31 |
1293 | 2625 | 6.127101 | TGAAGGGAGACAGTTTCGATCTATA | 58.873 | 40.000 | 0.00 | 0.00 | 0.00 | 1.31 |
1294 | 2626 | 4.956700 | TGAAGGGAGACAGTTTCGATCTAT | 59.043 | 41.667 | 0.00 | 0.00 | 0.00 | 1.98 |
1329 | 2661 | 4.643387 | ACTTGGGAGCCACGCACC | 62.643 | 66.667 | 0.00 | 0.00 | 41.04 | 5.01 |
1341 | 2677 | 4.627467 | CAGAATAACGAGGTTCAGACTTGG | 59.373 | 45.833 | 0.00 | 0.00 | 0.00 | 3.61 |
1361 | 2697 | 0.389817 | CTGGACAATTCGGCGACAGA | 60.390 | 55.000 | 10.16 | 0.00 | 0.00 | 3.41 |
1368 | 2704 | 1.089920 | CAAGCTCCTGGACAATTCGG | 58.910 | 55.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1370 | 2706 | 1.734465 | CGTCAAGCTCCTGGACAATTC | 59.266 | 52.381 | 0.00 | 0.00 | 34.28 | 2.17 |
1445 | 2781 | 2.982130 | GTCGTCCAGCACCTCCAT | 59.018 | 61.111 | 0.00 | 0.00 | 0.00 | 3.41 |
1471 | 2807 | 0.606604 | TCTTGCCGTACTTCCTCCAC | 59.393 | 55.000 | 0.00 | 0.00 | 0.00 | 4.02 |
1593 | 2937 | 2.717044 | ATCATCGCCCGTCGTTCCA | 61.717 | 57.895 | 0.00 | 0.00 | 39.67 | 3.53 |
1595 | 2939 | 2.237751 | CCATCATCGCCCGTCGTTC | 61.238 | 63.158 | 0.00 | 0.00 | 39.67 | 3.95 |
1596 | 2940 | 2.202878 | CCATCATCGCCCGTCGTT | 60.203 | 61.111 | 0.00 | 0.00 | 39.67 | 3.85 |
1616 | 2960 | 2.005560 | GCAACGGTAGTAGTTCCTGCC | 61.006 | 57.143 | 0.00 | 0.00 | 34.21 | 4.85 |
1724 | 3068 | 3.357079 | CAGTGGCGCAAGGTGGTC | 61.357 | 66.667 | 10.83 | 0.00 | 38.28 | 4.02 |
1756 | 3100 | 1.873863 | CGATAGCGAGTATCCGGCA | 59.126 | 57.895 | 0.00 | 0.00 | 40.82 | 5.69 |
1957 | 3302 | 9.265901 | CACATAATATCCTGTTCTCGAGAAAAT | 57.734 | 33.333 | 28.58 | 19.96 | 35.58 | 1.82 |
2041 | 3387 | 3.808174 | GGCTTAAGTAATAAGGTGCCTCG | 59.192 | 47.826 | 4.02 | 0.00 | 41.19 | 4.63 |
2060 | 3406 | 2.963782 | CGGAGGTAGTACCAATTAGGCT | 59.036 | 50.000 | 21.49 | 0.00 | 41.95 | 4.58 |
2073 | 3419 | 4.110482 | CAAGTATTTTCGGACGGAGGTAG | 58.890 | 47.826 | 0.00 | 0.00 | 0.00 | 3.18 |
2074 | 3420 | 3.511146 | ACAAGTATTTTCGGACGGAGGTA | 59.489 | 43.478 | 0.00 | 0.00 | 0.00 | 3.08 |
2075 | 3421 | 2.301009 | ACAAGTATTTTCGGACGGAGGT | 59.699 | 45.455 | 0.00 | 0.00 | 0.00 | 3.85 |
2076 | 3422 | 2.968675 | ACAAGTATTTTCGGACGGAGG | 58.031 | 47.619 | 0.00 | 0.00 | 0.00 | 4.30 |
2077 | 3423 | 5.808540 | TGATAACAAGTATTTTCGGACGGAG | 59.191 | 40.000 | 0.00 | 0.00 | 0.00 | 4.63 |
2078 | 3424 | 5.722263 | TGATAACAAGTATTTTCGGACGGA | 58.278 | 37.500 | 0.00 | 0.00 | 0.00 | 4.69 |
2079 | 3425 | 6.411630 | TTGATAACAAGTATTTTCGGACGG | 57.588 | 37.500 | 0.00 | 0.00 | 0.00 | 4.79 |
2080 | 3426 | 7.480542 | CCTTTTGATAACAAGTATTTTCGGACG | 59.519 | 37.037 | 0.00 | 0.00 | 37.32 | 4.79 |
2081 | 3427 | 8.508875 | TCCTTTTGATAACAAGTATTTTCGGAC | 58.491 | 33.333 | 0.00 | 0.00 | 37.32 | 4.79 |
2082 | 3428 | 8.624367 | TCCTTTTGATAACAAGTATTTTCGGA | 57.376 | 30.769 | 0.00 | 0.00 | 37.32 | 4.55 |
2083 | 3429 | 9.855021 | ATTCCTTTTGATAACAAGTATTTTCGG | 57.145 | 29.630 | 0.00 | 0.00 | 37.32 | 4.30 |
2091 | 3437 | 9.996554 | CCCTTTTTATTCCTTTTGATAACAAGT | 57.003 | 29.630 | 0.00 | 0.00 | 37.32 | 3.16 |
2098 | 3444 | 8.758829 | GGTACATCCCTTTTTATTCCTTTTGAT | 58.241 | 33.333 | 0.00 | 0.00 | 0.00 | 2.57 |
2099 | 3445 | 7.953493 | AGGTACATCCCTTTTTATTCCTTTTGA | 59.047 | 33.333 | 0.00 | 0.00 | 36.75 | 2.69 |
2100 | 3446 | 8.134202 | AGGTACATCCCTTTTTATTCCTTTTG | 57.866 | 34.615 | 0.00 | 0.00 | 36.75 | 2.44 |
2101 | 3447 | 9.475620 | CTAGGTACATCCCTTTTTATTCCTTTT | 57.524 | 33.333 | 0.00 | 0.00 | 35.97 | 2.27 |
2102 | 3448 | 8.842764 | TCTAGGTACATCCCTTTTTATTCCTTT | 58.157 | 33.333 | 0.00 | 0.00 | 35.97 | 3.11 |
2103 | 3449 | 8.401955 | TCTAGGTACATCCCTTTTTATTCCTT | 57.598 | 34.615 | 0.00 | 0.00 | 35.97 | 3.36 |
2104 | 3450 | 8.272889 | GTTCTAGGTACATCCCTTTTTATTCCT | 58.727 | 37.037 | 0.00 | 0.00 | 35.97 | 3.36 |
2105 | 3451 | 8.272889 | AGTTCTAGGTACATCCCTTTTTATTCC | 58.727 | 37.037 | 0.00 | 0.00 | 35.97 | 3.01 |
2113 | 3459 | 8.419442 | CGTATTTTAGTTCTAGGTACATCCCTT | 58.581 | 37.037 | 0.00 | 0.00 | 35.97 | 3.95 |
2114 | 3460 | 7.562821 | ACGTATTTTAGTTCTAGGTACATCCCT | 59.437 | 37.037 | 0.00 | 0.00 | 38.70 | 4.20 |
2115 | 3461 | 7.720442 | ACGTATTTTAGTTCTAGGTACATCCC | 58.280 | 38.462 | 0.00 | 0.00 | 36.75 | 3.85 |
2116 | 3462 | 9.591792 | AAACGTATTTTAGTTCTAGGTACATCC | 57.408 | 33.333 | 0.00 | 0.00 | 0.00 | 3.51 |
2158 | 3504 | 7.975616 | CCGGAAATACTTGTCATCAAAATGAAT | 59.024 | 33.333 | 0.00 | 0.00 | 43.42 | 2.57 |
2159 | 3505 | 7.175816 | TCCGGAAATACTTGTCATCAAAATGAA | 59.824 | 33.333 | 0.00 | 0.00 | 43.42 | 2.57 |
2160 | 3506 | 6.657117 | TCCGGAAATACTTGTCATCAAAATGA | 59.343 | 34.615 | 0.00 | 0.00 | 39.63 | 2.57 |
2161 | 3507 | 6.747280 | GTCCGGAAATACTTGTCATCAAAATG | 59.253 | 38.462 | 5.23 | 0.00 | 32.87 | 2.32 |
2162 | 3508 | 6.403200 | CGTCCGGAAATACTTGTCATCAAAAT | 60.403 | 38.462 | 5.23 | 0.00 | 32.87 | 1.82 |
2163 | 3509 | 5.106869 | CGTCCGGAAATACTTGTCATCAAAA | 60.107 | 40.000 | 5.23 | 0.00 | 32.87 | 2.44 |
2164 | 3510 | 4.390603 | CGTCCGGAAATACTTGTCATCAAA | 59.609 | 41.667 | 5.23 | 0.00 | 32.87 | 2.69 |
2165 | 3511 | 3.930229 | CGTCCGGAAATACTTGTCATCAA | 59.070 | 43.478 | 5.23 | 0.00 | 0.00 | 2.57 |
2166 | 3512 | 3.193903 | TCGTCCGGAAATACTTGTCATCA | 59.806 | 43.478 | 5.23 | 0.00 | 0.00 | 3.07 |
2167 | 3513 | 3.777478 | TCGTCCGGAAATACTTGTCATC | 58.223 | 45.455 | 5.23 | 0.00 | 0.00 | 2.92 |
2168 | 3514 | 3.880047 | TCGTCCGGAAATACTTGTCAT | 57.120 | 42.857 | 5.23 | 0.00 | 0.00 | 3.06 |
2169 | 3515 | 3.581755 | CTTCGTCCGGAAATACTTGTCA | 58.418 | 45.455 | 5.23 | 0.00 | 33.34 | 3.58 |
2170 | 3516 | 2.928116 | CCTTCGTCCGGAAATACTTGTC | 59.072 | 50.000 | 5.23 | 0.00 | 33.34 | 3.18 |
2171 | 3517 | 2.354403 | CCCTTCGTCCGGAAATACTTGT | 60.354 | 50.000 | 5.23 | 0.00 | 33.34 | 3.16 |
2172 | 3518 | 2.093869 | TCCCTTCGTCCGGAAATACTTG | 60.094 | 50.000 | 5.23 | 0.00 | 33.34 | 3.16 |
2173 | 3519 | 2.167900 | CTCCCTTCGTCCGGAAATACTT | 59.832 | 50.000 | 5.23 | 0.00 | 33.34 | 2.24 |
2174 | 3520 | 1.755380 | CTCCCTTCGTCCGGAAATACT | 59.245 | 52.381 | 5.23 | 0.00 | 33.34 | 2.12 |
2175 | 3521 | 1.479730 | ACTCCCTTCGTCCGGAAATAC | 59.520 | 52.381 | 5.23 | 0.00 | 33.34 | 1.89 |
2176 | 3522 | 1.856629 | ACTCCCTTCGTCCGGAAATA | 58.143 | 50.000 | 5.23 | 0.00 | 33.34 | 1.40 |
2177 | 3523 | 1.856629 | TACTCCCTTCGTCCGGAAAT | 58.143 | 50.000 | 5.23 | 0.00 | 33.34 | 2.17 |
2178 | 3524 | 1.273327 | GTTACTCCCTTCGTCCGGAAA | 59.727 | 52.381 | 5.23 | 0.00 | 33.34 | 3.13 |
2179 | 3525 | 0.890683 | GTTACTCCCTTCGTCCGGAA | 59.109 | 55.000 | 5.23 | 0.00 | 0.00 | 4.30 |
2180 | 3526 | 0.251297 | TGTTACTCCCTTCGTCCGGA | 60.251 | 55.000 | 0.00 | 0.00 | 0.00 | 5.14 |
2181 | 3527 | 0.604578 | TTGTTACTCCCTTCGTCCGG | 59.395 | 55.000 | 0.00 | 0.00 | 0.00 | 5.14 |
2182 | 3528 | 1.403780 | CCTTGTTACTCCCTTCGTCCG | 60.404 | 57.143 | 0.00 | 0.00 | 0.00 | 4.79 |
2183 | 3529 | 1.897802 | TCCTTGTTACTCCCTTCGTCC | 59.102 | 52.381 | 0.00 | 0.00 | 0.00 | 4.79 |
2184 | 3530 | 3.672767 | TTCCTTGTTACTCCCTTCGTC | 57.327 | 47.619 | 0.00 | 0.00 | 0.00 | 4.20 |
2185 | 3531 | 3.055312 | GGATTCCTTGTTACTCCCTTCGT | 60.055 | 47.826 | 0.00 | 0.00 | 0.00 | 3.85 |
2186 | 3532 | 3.055385 | TGGATTCCTTGTTACTCCCTTCG | 60.055 | 47.826 | 3.95 | 0.00 | 0.00 | 3.79 |
2187 | 3533 | 4.569719 | TGGATTCCTTGTTACTCCCTTC | 57.430 | 45.455 | 3.95 | 0.00 | 0.00 | 3.46 |
2188 | 3534 | 5.132816 | CCTATGGATTCCTTGTTACTCCCTT | 59.867 | 44.000 | 3.95 | 0.00 | 0.00 | 3.95 |
2189 | 3535 | 4.660771 | CCTATGGATTCCTTGTTACTCCCT | 59.339 | 45.833 | 3.95 | 0.00 | 0.00 | 4.20 |
2190 | 3536 | 4.658901 | TCCTATGGATTCCTTGTTACTCCC | 59.341 | 45.833 | 3.95 | 0.00 | 0.00 | 4.30 |
2191 | 3537 | 5.888982 | TCCTATGGATTCCTTGTTACTCC | 57.111 | 43.478 | 3.95 | 0.00 | 0.00 | 3.85 |
2192 | 3538 | 8.575649 | TTTTTCCTATGGATTCCTTGTTACTC | 57.424 | 34.615 | 3.95 | 0.00 | 0.00 | 2.59 |
2193 | 3539 | 9.547279 | AATTTTTCCTATGGATTCCTTGTTACT | 57.453 | 29.630 | 3.95 | 0.00 | 0.00 | 2.24 |
2235 | 3581 | 5.877564 | TCATGTACGCATTTTCTATGAACCA | 59.122 | 36.000 | 0.00 | 0.00 | 31.99 | 3.67 |
2237 | 3583 | 8.841444 | AATTCATGTACGCATTTTCTATGAAC | 57.159 | 30.769 | 0.00 | 0.00 | 36.33 | 3.18 |
2245 | 3591 | 7.995289 | TCCTATGAAATTCATGTACGCATTTT | 58.005 | 30.769 | 17.93 | 0.00 | 37.70 | 1.82 |
2279 | 3625 | 7.832503 | AGTTTCCTCAAAAACACAGAAAATG | 57.167 | 32.000 | 2.73 | 0.00 | 40.77 | 2.32 |
2284 | 3630 | 5.941058 | TGTGTAGTTTCCTCAAAAACACAGA | 59.059 | 36.000 | 10.65 | 1.77 | 41.38 | 3.41 |
2294 | 3640 | 6.911250 | TTGAGTAGATGTGTAGTTTCCTCA | 57.089 | 37.500 | 0.00 | 0.00 | 0.00 | 3.86 |
2306 | 3652 | 8.554528 | CGCATAAAATGATCTTTGAGTAGATGT | 58.445 | 33.333 | 0.00 | 0.00 | 35.06 | 3.06 |
2311 | 3657 | 9.594478 | TTCTACGCATAAAATGATCTTTGAGTA | 57.406 | 29.630 | 0.00 | 0.00 | 0.00 | 2.59 |
2319 | 3665 | 6.798959 | GCCTCATTTCTACGCATAAAATGATC | 59.201 | 38.462 | 13.04 | 0.00 | 44.18 | 2.92 |
2329 | 3675 | 2.289382 | TGACTTGCCTCATTTCTACGCA | 60.289 | 45.455 | 0.00 | 0.00 | 0.00 | 5.24 |
2342 | 3688 | 5.068987 | TGCCATTATAAGGAATTGACTTGCC | 59.931 | 40.000 | 0.00 | 0.00 | 0.00 | 4.52 |
2351 | 3697 | 6.491403 | GGATGACACTTGCCATTATAAGGAAT | 59.509 | 38.462 | 0.00 | 0.00 | 0.00 | 3.01 |
2363 | 3709 | 5.221126 | GGAATTTGATAGGATGACACTTGCC | 60.221 | 44.000 | 0.00 | 0.00 | 0.00 | 4.52 |
2446 | 3793 | 5.064198 | CAGAGGCCGAATGTAACGATTAAAA | 59.936 | 40.000 | 0.00 | 0.00 | 0.00 | 1.52 |
2454 | 3801 | 1.599542 | GATGCAGAGGCCGAATGTAAC | 59.400 | 52.381 | 0.00 | 0.00 | 40.13 | 2.50 |
2460 | 3807 | 0.901827 | TTAGTGATGCAGAGGCCGAA | 59.098 | 50.000 | 0.00 | 0.00 | 40.13 | 4.30 |
2461 | 3808 | 0.901827 | TTTAGTGATGCAGAGGCCGA | 59.098 | 50.000 | 0.00 | 0.00 | 40.13 | 5.54 |
2462 | 3809 | 1.737838 | TTTTAGTGATGCAGAGGCCG | 58.262 | 50.000 | 0.00 | 0.00 | 40.13 | 6.13 |
2474 | 3821 | 3.490526 | GCTTGGTTGTGTGCATTTTAGTG | 59.509 | 43.478 | 0.00 | 0.00 | 0.00 | 2.74 |
2478 | 3825 | 1.135915 | TCGCTTGGTTGTGTGCATTTT | 59.864 | 42.857 | 0.00 | 0.00 | 0.00 | 1.82 |
2480 | 3827 | 0.961019 | ATCGCTTGGTTGTGTGCATT | 59.039 | 45.000 | 0.00 | 0.00 | 0.00 | 3.56 |
2488 | 3835 | 2.096069 | CAGAGTGAACATCGCTTGGTTG | 60.096 | 50.000 | 0.00 | 0.00 | 37.35 | 3.77 |
2495 | 3842 | 3.878086 | TGTTTTCAGAGTGAACATCGC | 57.122 | 42.857 | 0.00 | 0.00 | 35.89 | 4.58 |
2533 | 3880 | 7.819900 | ACAGACTCTACATGTTTACTTTCATCC | 59.180 | 37.037 | 2.30 | 0.00 | 0.00 | 3.51 |
2563 | 3910 | 1.986210 | CCCCCTCCGGTTTAGACGT | 60.986 | 63.158 | 0.00 | 0.00 | 0.00 | 4.34 |
2582 | 3929 | 2.418669 | TGATCTTAGGATTGGACCCCC | 58.581 | 52.381 | 0.00 | 0.00 | 31.46 | 5.40 |
2583 | 3930 | 3.395941 | ACATGATCTTAGGATTGGACCCC | 59.604 | 47.826 | 0.00 | 0.00 | 31.46 | 4.95 |
2584 | 3931 | 4.713792 | ACATGATCTTAGGATTGGACCC | 57.286 | 45.455 | 0.00 | 0.00 | 31.46 | 4.46 |
2585 | 3932 | 5.440610 | ACAACATGATCTTAGGATTGGACC | 58.559 | 41.667 | 0.00 | 0.00 | 31.46 | 4.46 |
2586 | 3933 | 6.115446 | TGACAACATGATCTTAGGATTGGAC | 58.885 | 40.000 | 0.00 | 0.00 | 31.46 | 4.02 |
2587 | 3934 | 6.312141 | TGACAACATGATCTTAGGATTGGA | 57.688 | 37.500 | 0.00 | 0.00 | 31.46 | 3.53 |
2588 | 3935 | 6.206243 | GGATGACAACATGATCTTAGGATTGG | 59.794 | 42.308 | 0.00 | 0.00 | 36.82 | 3.16 |
2589 | 3936 | 6.769341 | TGGATGACAACATGATCTTAGGATTG | 59.231 | 38.462 | 0.00 | 0.00 | 36.82 | 2.67 |
2616 | 4217 | 2.882761 | GTGAGGGACAACTTTACCCAAC | 59.117 | 50.000 | 0.00 | 0.00 | 45.43 | 3.77 |
2617 | 4218 | 2.781174 | AGTGAGGGACAACTTTACCCAA | 59.219 | 45.455 | 0.00 | 0.00 | 45.43 | 4.12 |
2622 | 4223 | 5.128827 | CAGGCTATAGTGAGGGACAACTTTA | 59.871 | 44.000 | 0.84 | 0.00 | 0.00 | 1.85 |
2629 | 4230 | 4.559704 | CGATTTCAGGCTATAGTGAGGGAC | 60.560 | 50.000 | 0.84 | 0.00 | 0.00 | 4.46 |
2631 | 4232 | 3.322254 | ACGATTTCAGGCTATAGTGAGGG | 59.678 | 47.826 | 0.84 | 0.00 | 0.00 | 4.30 |
2638 | 4239 | 6.492429 | AGGTATGTACACGATTTCAGGCTATA | 59.508 | 38.462 | 0.00 | 0.00 | 0.00 | 1.31 |
2647 | 4248 | 5.581126 | TTACGGAGGTATGTACACGATTT | 57.419 | 39.130 | 0.00 | 0.00 | 0.00 | 2.17 |
2664 | 4265 | 6.908820 | GTGGAGAACTAAAACTTTGTTTACGG | 59.091 | 38.462 | 0.00 | 0.00 | 0.00 | 4.02 |
2672 | 4273 | 8.410912 | GTTTATGGTGTGGAGAACTAAAACTTT | 58.589 | 33.333 | 0.00 | 0.00 | 0.00 | 2.66 |
2673 | 4274 | 7.255001 | CGTTTATGGTGTGGAGAACTAAAACTT | 60.255 | 37.037 | 0.00 | 0.00 | 0.00 | 2.66 |
2674 | 4275 | 6.204108 | CGTTTATGGTGTGGAGAACTAAAACT | 59.796 | 38.462 | 0.00 | 0.00 | 0.00 | 2.66 |
2677 | 4278 | 5.856156 | TCGTTTATGGTGTGGAGAACTAAA | 58.144 | 37.500 | 0.00 | 0.00 | 0.00 | 1.85 |
2688 | 4289 | 3.399330 | CAGGACACTTCGTTTATGGTGT | 58.601 | 45.455 | 0.00 | 0.00 | 44.18 | 4.16 |
2698 | 4313 | 2.231478 | ACAGATGTACCAGGACACTTCG | 59.769 | 50.000 | 0.00 | 0.00 | 30.52 | 3.79 |
2699 | 4314 | 3.963428 | ACAGATGTACCAGGACACTTC | 57.037 | 47.619 | 0.00 | 0.00 | 30.52 | 3.01 |
2707 | 4322 | 5.069119 | TGCAGGTTATCTACAGATGTACCAG | 59.931 | 44.000 | 19.30 | 15.02 | 40.25 | 4.00 |
2708 | 4323 | 4.959839 | TGCAGGTTATCTACAGATGTACCA | 59.040 | 41.667 | 19.30 | 4.91 | 40.25 | 3.25 |
2769 | 4384 | 1.133025 | CTGGTCGCTTTGGCTATTTGG | 59.867 | 52.381 | 0.00 | 0.00 | 36.09 | 3.28 |
2796 | 4411 | 4.335647 | CAGGGTGGGAGCGCTTGT | 62.336 | 66.667 | 13.26 | 0.00 | 0.00 | 3.16 |
2807 | 4422 | 7.066284 | CACAGGTTTAGAATTATTCTCAGGGTG | 59.934 | 40.741 | 11.06 | 9.55 | 41.14 | 4.61 |
2808 | 4423 | 7.037586 | TCACAGGTTTAGAATTATTCTCAGGGT | 60.038 | 37.037 | 11.06 | 1.65 | 41.14 | 4.34 |
2809 | 4424 | 7.338710 | TCACAGGTTTAGAATTATTCTCAGGG | 58.661 | 38.462 | 11.06 | 0.00 | 41.14 | 4.45 |
2813 | 4428 | 8.964476 | TGGATCACAGGTTTAGAATTATTCTC | 57.036 | 34.615 | 11.06 | 0.00 | 41.14 | 2.87 |
2833 | 4448 | 6.545666 | TGGTAATTGGTTACATGTGATGGATC | 59.454 | 38.462 | 9.11 | 0.00 | 41.59 | 3.36 |
2836 | 4451 | 6.522625 | TTGGTAATTGGTTACATGTGATGG | 57.477 | 37.500 | 9.11 | 0.00 | 41.59 | 3.51 |
2877 | 4492 | 5.006386 | AGTTTCTGGCTTGTATCCTTCTTG | 58.994 | 41.667 | 0.00 | 0.00 | 0.00 | 3.02 |
2881 | 4496 | 6.378280 | CCAAATAGTTTCTGGCTTGTATCCTT | 59.622 | 38.462 | 0.00 | 0.00 | 0.00 | 3.36 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.