Multiple sequence alignment - TraesCS1B01G013000
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 | TraesCS1B01G013000 | chr1B | 100.000 | 2683 | 0 | 0 | 1 | 2683 | 6283924 | 6286606 | 0.000000e+00 | 4955.0 |
1 | TraesCS1B01G013000 | chr1B | 87.173 | 1263 | 147 | 10 | 991 | 2249 | 6064224 | 6065475 | 0.000000e+00 | 1421.0 |
2 | TraesCS1B01G013000 | chr1B | 86.922 | 1277 | 130 | 16 | 991 | 2249 | 5698691 | 5699948 | 0.000000e+00 | 1399.0 |
3 | TraesCS1B01G013000 | chr1B | 86.941 | 850 | 80 | 12 | 1402 | 2249 | 629661883 | 629662703 | 0.000000e+00 | 926.0 |
4 | TraesCS1B01G013000 | chr1B | 88.987 | 681 | 72 | 3 | 329 | 1007 | 5697967 | 5698646 | 0.000000e+00 | 839.0 |
5 | TraesCS1B01G013000 | chr1B | 87.920 | 654 | 74 | 5 | 357 | 1007 | 6484672 | 6484021 | 0.000000e+00 | 765.0 |
6 | TraesCS1B01G013000 | chr1B | 85.599 | 743 | 92 | 12 | 991 | 1723 | 7253209 | 7252472 | 0.000000e+00 | 765.0 |
7 | TraesCS1B01G013000 | chr1B | 86.217 | 682 | 89 | 5 | 329 | 1007 | 5989042 | 5989721 | 0.000000e+00 | 734.0 |
8 | TraesCS1B01G013000 | chr1B | 85.369 | 704 | 91 | 5 | 991 | 1688 | 5757887 | 5758584 | 0.000000e+00 | 719.0 |
9 | TraesCS1B01G013000 | chr1B | 84.789 | 710 | 93 | 9 | 991 | 1688 | 6483976 | 6483270 | 0.000000e+00 | 699.0 |
10 | TraesCS1B01G013000 | chr1B | 89.528 | 487 | 48 | 2 | 1734 | 2219 | 7698167 | 7697683 | 4.910000e-172 | 614.0 |
11 | TraesCS1B01G013000 | chr1B | 83.008 | 665 | 92 | 13 | 991 | 1638 | 5989766 | 5990426 | 1.380000e-162 | 582.0 |
12 | TraesCS1B01G013000 | chr1B | 88.848 | 269 | 24 | 2 | 1990 | 2252 | 22666220 | 22665952 | 2.580000e-85 | 326.0 |
13 | TraesCS1B01G013000 | chr1B | 86.149 | 296 | 41 | 0 | 1 | 296 | 7339971 | 7340266 | 1.200000e-83 | 320.0 |
14 | TraesCS1B01G013000 | chr1B | 83.612 | 299 | 45 | 3 | 1 | 297 | 22680566 | 22680270 | 7.320000e-71 | 278.0 |
15 | TraesCS1B01G013000 | chr1B | 83.051 | 295 | 48 | 2 | 1 | 294 | 629655506 | 629655799 | 1.580000e-67 | 267.0 |
16 | TraesCS1B01G013000 | chr1B | 94.000 | 150 | 6 | 2 | 2248 | 2395 | 629662753 | 629662901 | 9.670000e-55 | 224.0 |
17 | TraesCS1B01G013000 | chr1B | 88.889 | 153 | 11 | 3 | 2248 | 2395 | 22665905 | 22665754 | 1.640000e-42 | 183.0 |
18 | TraesCS1B01G013000 | chr1B | 84.884 | 172 | 21 | 5 | 2080 | 2249 | 7345149 | 7345317 | 4.590000e-38 | 169.0 |
19 | TraesCS1B01G013000 | chr1B | 86.986 | 146 | 17 | 1 | 2517 | 2662 | 22299467 | 22299324 | 2.140000e-36 | 163.0 |
20 | TraesCS1B01G013000 | chr1B | 93.396 | 106 | 4 | 1 | 2248 | 2350 | 7345367 | 7345472 | 1.290000e-33 | 154.0 |
21 | TraesCS1B01G013000 | chr1B | 88.800 | 125 | 13 | 1 | 1865 | 1988 | 6483134 | 6483010 | 4.630000e-33 | 152.0 |
22 | TraesCS1B01G013000 | chr1B | 90.909 | 99 | 8 | 1 | 2565 | 2662 | 7697329 | 7697231 | 6.030000e-27 | 132.0 |
23 | TraesCS1B01G013000 | chr1B | 88.889 | 54 | 5 | 1 | 2543 | 2595 | 7251749 | 7251696 | 6.200000e-07 | 65.8 |
24 | TraesCS1B01G013000 | chr1A | 85.737 | 1262 | 146 | 19 | 991 | 2239 | 6294845 | 6293605 | 0.000000e+00 | 1303.0 |
25 | TraesCS1B01G013000 | chr1A | 88.856 | 682 | 71 | 5 | 329 | 1007 | 4500806 | 4501485 | 0.000000e+00 | 833.0 |
26 | TraesCS1B01G013000 | chr1A | 88.227 | 671 | 76 | 3 | 339 | 1007 | 5502937 | 5502268 | 0.000000e+00 | 798.0 |
27 | TraesCS1B01G013000 | chr1A | 87.262 | 683 | 80 | 7 | 329 | 1007 | 4505017 | 4505696 | 0.000000e+00 | 773.0 |
28 | TraesCS1B01G013000 | chr1A | 87.054 | 672 | 82 | 5 | 339 | 1007 | 6338203 | 6337534 | 0.000000e+00 | 754.0 |
29 | TraesCS1B01G013000 | chr1A | 83.502 | 297 | 40 | 7 | 10 | 297 | 4500535 | 4500831 | 4.400000e-68 | 268.0 |
30 | TraesCS1B01G013000 | chr1A | 92.683 | 82 | 3 | 1 | 2248 | 2326 | 6293559 | 6293478 | 6.070000e-22 | 115.0 |
31 | TraesCS1B01G013000 | chr1A | 85.981 | 107 | 10 | 1 | 1990 | 2096 | 4502238 | 4502339 | 2.820000e-20 | 110.0 |
32 | TraesCS1B01G013000 | chr1A | 85.981 | 107 | 10 | 1 | 1990 | 2096 | 5500339 | 5500238 | 2.820000e-20 | 110.0 |
33 | TraesCS1B01G013000 | chr1D | 82.554 | 1026 | 120 | 24 | 991 | 2011 | 3971286 | 3970315 | 0.000000e+00 | 848.0 |
34 | TraesCS1B01G013000 | chr1D | 86.189 | 753 | 93 | 5 | 991 | 1739 | 74010 | 73265 | 0.000000e+00 | 804.0 |
35 | TraesCS1B01G013000 | chr1D | 85.034 | 735 | 102 | 6 | 991 | 1723 | 4217495 | 4216767 | 0.000000e+00 | 741.0 |
36 | TraesCS1B01G013000 | chr1D | 85.924 | 682 | 91 | 5 | 329 | 1007 | 5132188 | 5131509 | 0.000000e+00 | 723.0 |
37 | TraesCS1B01G013000 | chr1D | 85.505 | 683 | 92 | 7 | 329 | 1007 | 74734 | 74055 | 0.000000e+00 | 706.0 |
38 | TraesCS1B01G013000 | chr1D | 86.532 | 297 | 40 | 0 | 1 | 297 | 75005 | 74709 | 7.160000e-86 | 327.0 |
39 | TraesCS1B01G013000 | chr1D | 85.235 | 298 | 42 | 2 | 1 | 297 | 3972281 | 3971985 | 3.360000e-79 | 305.0 |
40 | TraesCS1B01G013000 | chr1D | 86.770 | 257 | 32 | 2 | 42 | 297 | 4196196 | 4195941 | 4.370000e-73 | 285.0 |
41 | TraesCS1B01G013000 | chr1D | 88.128 | 219 | 21 | 1 | 1990 | 2203 | 5130761 | 5130543 | 3.430000e-64 | 255.0 |
42 | TraesCS1B01G013000 | chr1D | 82.007 | 289 | 26 | 12 | 2397 | 2659 | 4762749 | 4762461 | 3.480000e-54 | 222.0 |
43 | TraesCS1B01G013000 | chr1D | 88.679 | 159 | 17 | 1 | 2045 | 2203 | 3970310 | 3970153 | 2.730000e-45 | 193.0 |
44 | TraesCS1B01G013000 | chr1D | 87.742 | 155 | 17 | 1 | 2508 | 2662 | 3374229 | 3374381 | 2.120000e-41 | 180.0 |
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 | TraesCS1B01G013000 | chr1B | 6283924 | 6286606 | 2682 | False | 4955.000000 | 4955 | 100.000000 | 1 | 2683 | 1 | chr1B.!!$F3 | 2682 |
1 | TraesCS1B01G013000 | chr1B | 6064224 | 6065475 | 1251 | False | 1421.000000 | 1421 | 87.173000 | 991 | 2249 | 1 | chr1B.!!$F2 | 1258 |
2 | TraesCS1B01G013000 | chr1B | 5697967 | 5699948 | 1981 | False | 1119.000000 | 1399 | 87.954500 | 329 | 2249 | 2 | chr1B.!!$F6 | 1920 |
3 | TraesCS1B01G013000 | chr1B | 5757887 | 5758584 | 697 | False | 719.000000 | 719 | 85.369000 | 991 | 1688 | 1 | chr1B.!!$F1 | 697 |
4 | TraesCS1B01G013000 | chr1B | 5989042 | 5990426 | 1384 | False | 658.000000 | 734 | 84.612500 | 329 | 1638 | 2 | chr1B.!!$F7 | 1309 |
5 | TraesCS1B01G013000 | chr1B | 629661883 | 629662901 | 1018 | False | 575.000000 | 926 | 90.470500 | 1402 | 2395 | 2 | chr1B.!!$F9 | 993 |
6 | TraesCS1B01G013000 | chr1B | 6483010 | 6484672 | 1662 | True | 538.666667 | 765 | 87.169667 | 357 | 1988 | 3 | chr1B.!!$R3 | 1631 |
7 | TraesCS1B01G013000 | chr1B | 7251696 | 7253209 | 1513 | True | 415.400000 | 765 | 87.244000 | 991 | 2595 | 2 | chr1B.!!$R4 | 1604 |
8 | TraesCS1B01G013000 | chr1B | 7697231 | 7698167 | 936 | True | 373.000000 | 614 | 90.218500 | 1734 | 2662 | 2 | chr1B.!!$R5 | 928 |
9 | TraesCS1B01G013000 | chr1A | 6337534 | 6338203 | 669 | True | 754.000000 | 754 | 87.054000 | 339 | 1007 | 1 | chr1A.!!$R1 | 668 |
10 | TraesCS1B01G013000 | chr1A | 6293478 | 6294845 | 1367 | True | 709.000000 | 1303 | 89.210000 | 991 | 2326 | 2 | chr1A.!!$R3 | 1335 |
11 | TraesCS1B01G013000 | chr1A | 4500535 | 4505696 | 5161 | False | 496.000000 | 833 | 86.400250 | 10 | 2096 | 4 | chr1A.!!$F1 | 2086 |
12 | TraesCS1B01G013000 | chr1A | 5500238 | 5502937 | 2699 | True | 454.000000 | 798 | 87.104000 | 339 | 2096 | 2 | chr1A.!!$R2 | 1757 |
13 | TraesCS1B01G013000 | chr1D | 4216767 | 4217495 | 728 | True | 741.000000 | 741 | 85.034000 | 991 | 1723 | 1 | chr1D.!!$R2 | 732 |
14 | TraesCS1B01G013000 | chr1D | 73265 | 75005 | 1740 | True | 612.333333 | 804 | 86.075333 | 1 | 1739 | 3 | chr1D.!!$R4 | 1738 |
15 | TraesCS1B01G013000 | chr1D | 5130543 | 5132188 | 1645 | True | 489.000000 | 723 | 87.026000 | 329 | 2203 | 2 | chr1D.!!$R6 | 1874 |
16 | TraesCS1B01G013000 | chr1D | 3970153 | 3972281 | 2128 | True | 448.666667 | 848 | 85.489333 | 1 | 2203 | 3 | chr1D.!!$R5 | 2202 |
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 |
---|---|---|---|---|---|---|---|---|---|---|
50 | 51 | 0.589223 | CAGCGTTTCCTGCCGTAAAA | 59.411 | 50.000 | 0.0 | 0.0 | 0.0 | 1.52 | F |
53 | 54 | 1.002142 | GCGTTTCCTGCCGTAAAAGTT | 60.002 | 47.619 | 0.0 | 0.0 | 0.0 | 2.66 | F |
270 | 280 | 1.002430 | TGACCAATCTGACACTGAGGC | 59.998 | 52.381 | 0.0 | 0.0 | 0.0 | 4.70 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1069 | 1150 | 1.945394 | GCCAGCACAGTTCCATATCAG | 59.055 | 52.381 | 0.0 | 0.0 | 0.00 | 2.90 | R |
1071 | 1152 | 2.042686 | TGCCAGCACAGTTCCATATC | 57.957 | 50.000 | 0.0 | 0.0 | 0.00 | 1.63 | R |
2057 | 3718 | 0.583438 | CTGCGACACAGTTCAGTTGG | 59.417 | 55.000 | 0.0 | 0.0 | 41.86 | 3.77 | 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 |
---|---|---|---|---|---|---|---|---|---|
29 | 30 | 4.304939 | GAGGTGGTTATAGATTGGTACGC | 58.695 | 47.826 | 0.00 | 0.00 | 0.00 | 4.42 |
45 | 46 | 3.793144 | GCTCAGCGTTTCCTGCCG | 61.793 | 66.667 | 0.00 | 0.00 | 32.87 | 5.69 |
50 | 51 | 0.589223 | CAGCGTTTCCTGCCGTAAAA | 59.411 | 50.000 | 0.00 | 0.00 | 0.00 | 1.52 |
53 | 54 | 1.002142 | GCGTTTCCTGCCGTAAAAGTT | 60.002 | 47.619 | 0.00 | 0.00 | 0.00 | 2.66 |
65 | 66 | 5.242838 | TGCCGTAAAAGTTCTCAAAATGGAT | 59.757 | 36.000 | 0.00 | 0.00 | 0.00 | 3.41 |
77 | 78 | 6.882656 | TCTCAAAATGGATGACTTAGAGAGG | 58.117 | 40.000 | 0.00 | 0.00 | 0.00 | 3.69 |
109 | 119 | 2.019984 | GGATGCAGTTGAAGGGACATC | 58.980 | 52.381 | 0.00 | 0.00 | 34.54 | 3.06 |
110 | 120 | 2.618816 | GGATGCAGTTGAAGGGACATCA | 60.619 | 50.000 | 0.00 | 0.00 | 36.49 | 3.07 |
138 | 148 | 5.947228 | TCAGCTTGAGAAACTACCAATTG | 57.053 | 39.130 | 0.00 | 0.00 | 0.00 | 2.32 |
139 | 149 | 5.376625 | TCAGCTTGAGAAACTACCAATTGT | 58.623 | 37.500 | 4.43 | 0.00 | 0.00 | 2.71 |
167 | 177 | 4.079787 | TGCCCAAAGATAGCAGATTTACCT | 60.080 | 41.667 | 0.00 | 0.00 | 31.65 | 3.08 |
184 | 194 | 2.024414 | ACCTGAAGCACCAAAACTCAC | 58.976 | 47.619 | 0.00 | 0.00 | 0.00 | 3.51 |
265 | 275 | 5.233083 | TCTTCATTGACCAATCTGACACT | 57.767 | 39.130 | 0.00 | 0.00 | 0.00 | 3.55 |
266 | 276 | 4.999311 | TCTTCATTGACCAATCTGACACTG | 59.001 | 41.667 | 0.00 | 0.00 | 0.00 | 3.66 |
267 | 277 | 4.622260 | TCATTGACCAATCTGACACTGA | 57.378 | 40.909 | 0.00 | 0.00 | 0.00 | 3.41 |
268 | 278 | 4.572909 | TCATTGACCAATCTGACACTGAG | 58.427 | 43.478 | 0.00 | 0.00 | 0.00 | 3.35 |
269 | 279 | 3.407424 | TTGACCAATCTGACACTGAGG | 57.593 | 47.619 | 0.00 | 0.00 | 0.00 | 3.86 |
270 | 280 | 1.002430 | TGACCAATCTGACACTGAGGC | 59.998 | 52.381 | 0.00 | 0.00 | 0.00 | 4.70 |
271 | 281 | 1.277557 | GACCAATCTGACACTGAGGCT | 59.722 | 52.381 | 0.00 | 0.00 | 0.00 | 4.58 |
272 | 282 | 2.497675 | GACCAATCTGACACTGAGGCTA | 59.502 | 50.000 | 0.00 | 0.00 | 0.00 | 3.93 |
273 | 283 | 2.499289 | ACCAATCTGACACTGAGGCTAG | 59.501 | 50.000 | 0.00 | 0.00 | 0.00 | 3.42 |
274 | 284 | 2.762887 | CCAATCTGACACTGAGGCTAGA | 59.237 | 50.000 | 0.00 | 0.00 | 0.00 | 2.43 |
275 | 285 | 3.196469 | CCAATCTGACACTGAGGCTAGAA | 59.804 | 47.826 | 0.00 | 0.00 | 0.00 | 2.10 |
276 | 286 | 4.431809 | CAATCTGACACTGAGGCTAGAAG | 58.568 | 47.826 | 0.00 | 0.00 | 0.00 | 2.85 |
277 | 287 | 3.441500 | TCTGACACTGAGGCTAGAAGA | 57.558 | 47.619 | 0.00 | 0.00 | 0.00 | 2.87 |
278 | 288 | 3.085533 | TCTGACACTGAGGCTAGAAGAC | 58.914 | 50.000 | 0.00 | 0.00 | 0.00 | 3.01 |
279 | 289 | 2.822561 | CTGACACTGAGGCTAGAAGACA | 59.177 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
280 | 290 | 2.558795 | TGACACTGAGGCTAGAAGACAC | 59.441 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
281 | 291 | 2.558795 | GACACTGAGGCTAGAAGACACA | 59.441 | 50.000 | 0.00 | 0.00 | 0.00 | 3.72 |
282 | 292 | 2.560542 | ACACTGAGGCTAGAAGACACAG | 59.439 | 50.000 | 5.76 | 5.76 | 45.80 | 3.66 |
283 | 293 | 2.822561 | CACTGAGGCTAGAAGACACAGA | 59.177 | 50.000 | 13.23 | 0.00 | 43.51 | 3.41 |
284 | 294 | 3.256879 | CACTGAGGCTAGAAGACACAGAA | 59.743 | 47.826 | 13.23 | 0.00 | 43.51 | 3.02 |
285 | 295 | 3.898123 | ACTGAGGCTAGAAGACACAGAAA | 59.102 | 43.478 | 13.23 | 0.00 | 43.51 | 2.52 |
286 | 296 | 4.530161 | ACTGAGGCTAGAAGACACAGAAAT | 59.470 | 41.667 | 13.23 | 0.00 | 43.51 | 2.17 |
287 | 297 | 5.717178 | ACTGAGGCTAGAAGACACAGAAATA | 59.283 | 40.000 | 13.23 | 0.00 | 43.51 | 1.40 |
288 | 298 | 6.211584 | ACTGAGGCTAGAAGACACAGAAATAA | 59.788 | 38.462 | 13.23 | 0.00 | 43.51 | 1.40 |
289 | 299 | 6.398918 | TGAGGCTAGAAGACACAGAAATAAC | 58.601 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
290 | 300 | 6.014584 | TGAGGCTAGAAGACACAGAAATAACA | 60.015 | 38.462 | 0.00 | 0.00 | 0.00 | 2.41 |
291 | 301 | 6.951971 | AGGCTAGAAGACACAGAAATAACAT | 58.048 | 36.000 | 0.00 | 0.00 | 0.00 | 2.71 |
292 | 302 | 7.044798 | AGGCTAGAAGACACAGAAATAACATC | 58.955 | 38.462 | 0.00 | 0.00 | 0.00 | 3.06 |
293 | 303 | 6.818644 | GGCTAGAAGACACAGAAATAACATCA | 59.181 | 38.462 | 0.00 | 0.00 | 0.00 | 3.07 |
294 | 304 | 7.010923 | GGCTAGAAGACACAGAAATAACATCAG | 59.989 | 40.741 | 0.00 | 0.00 | 0.00 | 2.90 |
295 | 305 | 7.761704 | GCTAGAAGACACAGAAATAACATCAGA | 59.238 | 37.037 | 0.00 | 0.00 | 0.00 | 3.27 |
296 | 306 | 9.299963 | CTAGAAGACACAGAAATAACATCAGAG | 57.700 | 37.037 | 0.00 | 0.00 | 0.00 | 3.35 |
297 | 307 | 7.901029 | AGAAGACACAGAAATAACATCAGAGA | 58.099 | 34.615 | 0.00 | 0.00 | 0.00 | 3.10 |
298 | 308 | 7.816995 | AGAAGACACAGAAATAACATCAGAGAC | 59.183 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
299 | 309 | 6.997655 | AGACACAGAAATAACATCAGAGACA | 58.002 | 36.000 | 0.00 | 0.00 | 0.00 | 3.41 |
300 | 310 | 7.445121 | AGACACAGAAATAACATCAGAGACAA | 58.555 | 34.615 | 0.00 | 0.00 | 0.00 | 3.18 |
301 | 311 | 7.386299 | AGACACAGAAATAACATCAGAGACAAC | 59.614 | 37.037 | 0.00 | 0.00 | 0.00 | 3.32 |
302 | 312 | 6.992123 | ACACAGAAATAACATCAGAGACAACA | 59.008 | 34.615 | 0.00 | 0.00 | 0.00 | 3.33 |
303 | 313 | 7.663081 | ACACAGAAATAACATCAGAGACAACAT | 59.337 | 33.333 | 0.00 | 0.00 | 0.00 | 2.71 |
304 | 314 | 8.173775 | CACAGAAATAACATCAGAGACAACATC | 58.826 | 37.037 | 0.00 | 0.00 | 0.00 | 3.06 |
305 | 315 | 7.879677 | ACAGAAATAACATCAGAGACAACATCA | 59.120 | 33.333 | 0.00 | 0.00 | 0.00 | 3.07 |
306 | 316 | 8.388853 | CAGAAATAACATCAGAGACAACATCAG | 58.611 | 37.037 | 0.00 | 0.00 | 0.00 | 2.90 |
307 | 317 | 8.316946 | AGAAATAACATCAGAGACAACATCAGA | 58.683 | 33.333 | 0.00 | 0.00 | 0.00 | 3.27 |
308 | 318 | 8.489990 | AAATAACATCAGAGACAACATCAGAG | 57.510 | 34.615 | 0.00 | 0.00 | 0.00 | 3.35 |
309 | 319 | 4.468765 | ACATCAGAGACAACATCAGAGG | 57.531 | 45.455 | 0.00 | 0.00 | 0.00 | 3.69 |
310 | 320 | 4.092279 | ACATCAGAGACAACATCAGAGGA | 58.908 | 43.478 | 0.00 | 0.00 | 0.00 | 3.71 |
311 | 321 | 4.715792 | ACATCAGAGACAACATCAGAGGAT | 59.284 | 41.667 | 0.00 | 0.00 | 0.00 | 3.24 |
324 | 334 | 3.687551 | ATCAGAGGATGCTCCAATTGTGG | 60.688 | 47.826 | 11.06 | 0.00 | 39.61 | 4.17 |
350 | 360 | 8.594881 | AGTTAGAACTCATAGAAACAACACTG | 57.405 | 34.615 | 0.00 | 0.00 | 32.86 | 3.66 |
351 | 361 | 8.421784 | AGTTAGAACTCATAGAAACAACACTGA | 58.578 | 33.333 | 0.00 | 0.00 | 32.86 | 3.41 |
352 | 362 | 8.704234 | GTTAGAACTCATAGAAACAACACTGAG | 58.296 | 37.037 | 0.00 | 0.00 | 36.92 | 3.35 |
354 | 364 | 4.319177 | ACTCATAGAAACAACACTGAGGC | 58.681 | 43.478 | 0.00 | 0.00 | 35.55 | 4.70 |
382 | 393 | 2.159627 | GCACTTCAATTGTACCGGTGAG | 59.840 | 50.000 | 19.93 | 4.60 | 0.00 | 3.51 |
399 | 410 | 3.688673 | GGTGAGAGCAAAGAGAAATGGAG | 59.311 | 47.826 | 0.00 | 0.00 | 0.00 | 3.86 |
401 | 412 | 3.008813 | TGAGAGCAAAGAGAAATGGAGCT | 59.991 | 43.478 | 0.00 | 0.00 | 0.00 | 4.09 |
413 | 424 | 5.227593 | AGAAATGGAGCTAGAAATCCCCTA | 58.772 | 41.667 | 0.00 | 0.00 | 34.47 | 3.53 |
443 | 454 | 1.350684 | TGGAGTTAGGATGCTGCAACA | 59.649 | 47.619 | 6.36 | 0.00 | 30.30 | 3.33 |
444 | 455 | 2.224744 | TGGAGTTAGGATGCTGCAACAA | 60.225 | 45.455 | 6.36 | 0.00 | 30.30 | 2.83 |
456 | 467 | 3.384146 | TGCTGCAACAAATTCTTTGGAGA | 59.616 | 39.130 | 18.87 | 6.62 | 42.15 | 3.71 |
493 | 504 | 3.682858 | CGTGGGACTATTTTGTACACCTG | 59.317 | 47.826 | 0.00 | 0.00 | 0.00 | 4.00 |
499 | 510 | 6.436218 | GGGACTATTTTGTACACCTGGAAAAT | 59.564 | 38.462 | 0.00 | 4.55 | 33.64 | 1.82 |
513 | 524 | 6.426633 | CACCTGGAAAATTTGGAAATTGGTAC | 59.573 | 38.462 | 0.00 | 0.00 | 38.53 | 3.34 |
516 | 527 | 7.334171 | CCTGGAAAATTTGGAAATTGGTACATC | 59.666 | 37.037 | 0.00 | 0.00 | 38.53 | 3.06 |
602 | 613 | 5.569059 | GTGATTACAAACTGCGAAAATCTGG | 59.431 | 40.000 | 0.00 | 0.00 | 0.00 | 3.86 |
612 | 623 | 2.880890 | GCGAAAATCTGGCTGGATATGT | 59.119 | 45.455 | 0.00 | 0.00 | 0.00 | 2.29 |
683 | 694 | 4.390264 | AGGTTTGGAGTCTCTTTGCTTAC | 58.610 | 43.478 | 0.00 | 0.00 | 0.00 | 2.34 |
686 | 697 | 5.241728 | GGTTTGGAGTCTCTTTGCTTACAAT | 59.758 | 40.000 | 0.00 | 0.00 | 35.21 | 2.71 |
739 | 750 | 3.519510 | TCCCGACATCTCTCAAGGAAATT | 59.480 | 43.478 | 0.00 | 0.00 | 0.00 | 1.82 |
765 | 776 | 8.469309 | AATATTAGTGGATGCATTAAGCTTGT | 57.531 | 30.769 | 9.86 | 0.00 | 45.94 | 3.16 |
775 | 786 | 6.528537 | TGCATTAAGCTTGTGTCCATATTT | 57.471 | 33.333 | 9.86 | 0.00 | 45.94 | 1.40 |
820 | 831 | 7.039363 | CCATAGTTAGTCCAAGGATCTTCTAGG | 60.039 | 44.444 | 0.00 | 0.00 | 0.00 | 3.02 |
879 | 890 | 3.474600 | CATCCTCACCCATGAATCACTC | 58.525 | 50.000 | 0.00 | 0.00 | 33.30 | 3.51 |
897 | 908 | 4.125703 | CACTCTTGTCCATGCCTAGAATC | 58.874 | 47.826 | 0.00 | 0.00 | 0.00 | 2.52 |
946 | 957 | 1.678728 | CCAGCGGTTCTAAATCTGCCA | 60.679 | 52.381 | 0.00 | 0.00 | 36.71 | 4.92 |
1048 | 1129 | 3.318839 | TGCTGCAAGTGAGCATTTACTTT | 59.681 | 39.130 | 0.00 | 0.00 | 44.68 | 2.66 |
1051 | 1132 | 5.106555 | GCTGCAAGTGAGCATTTACTTTCTA | 60.107 | 40.000 | 0.00 | 0.00 | 44.68 | 2.10 |
1069 | 1150 | 3.478509 | TCTACCCATCTCGAAGCTCTAC | 58.521 | 50.000 | 0.00 | 0.00 | 0.00 | 2.59 |
1071 | 1152 | 2.028130 | ACCCATCTCGAAGCTCTACTG | 58.972 | 52.381 | 0.00 | 0.00 | 0.00 | 2.74 |
1177 | 1258 | 1.079543 | ACATCGCTGGAGTGTCTGC | 60.080 | 57.895 | 0.00 | 0.00 | 0.00 | 4.26 |
1226 | 1308 | 4.574599 | ACCTTGTTCTTCAAAGATGCAC | 57.425 | 40.909 | 0.00 | 0.00 | 35.48 | 4.57 |
1228 | 1310 | 4.037208 | ACCTTGTTCTTCAAAGATGCACTG | 59.963 | 41.667 | 0.00 | 0.00 | 35.48 | 3.66 |
1233 | 1315 | 1.471684 | CTTCAAAGATGCACTGCCCTC | 59.528 | 52.381 | 0.00 | 0.00 | 0.00 | 4.30 |
1258 | 1340 | 1.503542 | CTGCCGAATGAGCCACAAC | 59.496 | 57.895 | 0.00 | 0.00 | 0.00 | 3.32 |
1270 | 1352 | 4.820897 | TGAGCCACAACTATACAGTTCTG | 58.179 | 43.478 | 0.00 | 0.00 | 43.30 | 3.02 |
1274 | 1356 | 4.865365 | GCCACAACTATACAGTTCTGTCTC | 59.135 | 45.833 | 8.80 | 0.00 | 43.30 | 3.36 |
1292 | 1374 | 7.599171 | TCTGTCTCGTATCTTCAAATTACACA | 58.401 | 34.615 | 0.00 | 0.00 | 0.00 | 3.72 |
1326 | 1408 | 3.336509 | AAGAAGCTCCCTAGATGCCTA | 57.663 | 47.619 | 0.00 | 0.00 | 0.00 | 3.93 |
1343 | 1428 | 0.890542 | CTACAGCAGCAACTGGGCAA | 60.891 | 55.000 | 10.35 | 0.00 | 42.21 | 4.52 |
1416 | 1507 | 5.359009 | ACATCCTTCTATCTTTGCCACATTG | 59.641 | 40.000 | 0.00 | 0.00 | 0.00 | 2.82 |
1419 | 1510 | 6.009589 | TCCTTCTATCTTTGCCACATTGAAA | 58.990 | 36.000 | 0.00 | 0.00 | 0.00 | 2.69 |
1568 | 1675 | 8.817100 | GTTAATCTGACGTCATTTGTGATATGA | 58.183 | 33.333 | 20.40 | 8.96 | 0.00 | 2.15 |
1626 | 1742 | 2.016905 | ACCAAGGCTAGTCTGTGAGT | 57.983 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
1709 | 1890 | 1.264295 | GGAAACCACGTAGAGAGGGT | 58.736 | 55.000 | 0.00 | 0.00 | 33.73 | 4.34 |
1757 | 1939 | 2.341257 | ACAAGATCATGTCGTGACTGC | 58.659 | 47.619 | 14.48 | 0.00 | 40.28 | 4.40 |
1778 | 1960 | 3.366273 | GCAATCAATCGGCTTTGTTGAGA | 60.366 | 43.478 | 12.13 | 0.00 | 35.56 | 3.27 |
1783 | 1965 | 2.704725 | TCGGCTTTGTTGAGATTTGC | 57.295 | 45.000 | 0.00 | 0.00 | 0.00 | 3.68 |
1836 | 2018 | 0.596082 | CAAACGAATCTGCCCGGTTT | 59.404 | 50.000 | 0.00 | 0.00 | 32.93 | 3.27 |
1873 | 2055 | 8.580720 | AGGATAATATACTCACATGTGTGTCTC | 58.419 | 37.037 | 30.80 | 19.18 | 45.76 | 3.36 |
1875 | 2057 | 9.619316 | GATAATATACTCACATGTGTGTCTCTC | 57.381 | 37.037 | 30.80 | 17.97 | 45.76 | 3.20 |
1882 | 2064 | 3.864003 | CACATGTGTGTCTCTCAGCTATG | 59.136 | 47.826 | 18.03 | 0.00 | 40.96 | 2.23 |
1897 | 2080 | 8.219546 | TCTCAGCTATGTATGTATCTATCTGC | 57.780 | 38.462 | 0.00 | 0.00 | 0.00 | 4.26 |
1932 | 2116 | 6.726490 | TTAGTTAACTGAGAAGACACTGGT | 57.274 | 37.500 | 18.56 | 0.00 | 0.00 | 4.00 |
1971 | 2156 | 7.713764 | ATAAACAATTTCAACTGTGGCTTTC | 57.286 | 32.000 | 0.00 | 0.00 | 0.00 | 2.62 |
2057 | 3718 | 1.760192 | ATGGCCTGTGATTGCTTCTC | 58.240 | 50.000 | 3.32 | 0.00 | 0.00 | 2.87 |
2071 | 3732 | 2.092968 | TGCTTCTCCAACTGAACTGTGT | 60.093 | 45.455 | 0.00 | 0.00 | 0.00 | 3.72 |
2097 | 3775 | 0.734253 | CGCTCTTGGTCGAGAACTGG | 60.734 | 60.000 | 0.00 | 0.00 | 32.74 | 4.00 |
2188 | 3900 | 5.415701 | GGCCAAGACTATCTCATTTTGTTCA | 59.584 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2295 | 5906 | 7.391554 | TGACCTTTATCTTGTTCAAGATTCAGG | 59.608 | 37.037 | 28.35 | 28.35 | 40.11 | 3.86 |
2316 | 6833 | 5.030820 | AGGTACTTGCCAGGTTTAGTAGAT | 58.969 | 41.667 | 0.00 | 0.00 | 27.25 | 1.98 |
2379 | 6898 | 4.091655 | GCCTCGTTACTTTAGTTGAGAAGC | 59.908 | 45.833 | 7.59 | 0.00 | 0.00 | 3.86 |
2409 | 7038 | 3.502123 | TTAACTACCCTGCTTGCTTGT | 57.498 | 42.857 | 0.00 | 0.00 | 0.00 | 3.16 |
2410 | 7039 | 1.609208 | AACTACCCTGCTTGCTTGTG | 58.391 | 50.000 | 0.00 | 0.00 | 0.00 | 3.33 |
2424 | 7053 | 2.423892 | TGCTTGTGGCGAAGTTTTACAA | 59.576 | 40.909 | 0.00 | 0.00 | 45.43 | 2.41 |
2426 | 7055 | 3.860536 | GCTTGTGGCGAAGTTTTACAAAA | 59.139 | 39.130 | 0.00 | 0.00 | 31.67 | 2.44 |
2451 | 7080 | 2.592861 | GAGGTGCGGGATGGATGC | 60.593 | 66.667 | 0.00 | 0.00 | 0.00 | 3.91 |
2452 | 7081 | 4.195334 | AGGTGCGGGATGGATGCC | 62.195 | 66.667 | 0.00 | 0.00 | 34.56 | 4.40 |
2454 | 7083 | 3.211963 | GTGCGGGATGGATGCCAC | 61.212 | 66.667 | 0.00 | 0.00 | 38.32 | 5.01 |
2462 | 7097 | 1.142465 | GGATGGATGCCACATCTCTGT | 59.858 | 52.381 | 7.45 | 0.00 | 43.25 | 3.41 |
2475 | 7110 | 7.046652 | GCCACATCTCTGTATTATGCAGATAT | 58.953 | 38.462 | 13.04 | 9.04 | 41.49 | 1.63 |
2505 | 7227 | 7.516198 | ACAGACAGTTAAGAAGCAATTTCAT | 57.484 | 32.000 | 0.00 | 0.00 | 38.31 | 2.57 |
2507 | 7229 | 6.740002 | CAGACAGTTAAGAAGCAATTTCATCG | 59.260 | 38.462 | 0.00 | 0.00 | 38.31 | 3.84 |
2510 | 7232 | 6.204688 | ACAGTTAAGAAGCAATTTCATCGTCA | 59.795 | 34.615 | 0.00 | 0.00 | 38.31 | 4.35 |
2512 | 7234 | 6.650807 | AGTTAAGAAGCAATTTCATCGTCAGA | 59.349 | 34.615 | 0.00 | 0.00 | 38.31 | 3.27 |
2513 | 7235 | 4.935885 | AGAAGCAATTTCATCGTCAGAC | 57.064 | 40.909 | 0.00 | 0.00 | 38.31 | 3.51 |
2514 | 7236 | 3.369147 | AGAAGCAATTTCATCGTCAGACG | 59.631 | 43.478 | 17.33 | 17.33 | 39.56 | 4.18 |
2515 | 7237 | 4.855841 | AGAAGCAATTTCATCGTCAGACGA | 60.856 | 41.667 | 27.27 | 27.27 | 43.19 | 4.20 |
2526 | 7248 | 1.585668 | CGTCAGACGATTAAGCAGCAG | 59.414 | 52.381 | 18.63 | 0.00 | 46.05 | 4.24 |
2528 | 7250 | 1.066929 | TCAGACGATTAAGCAGCAGCA | 60.067 | 47.619 | 3.17 | 0.00 | 45.49 | 4.41 |
2529 | 7251 | 1.326852 | CAGACGATTAAGCAGCAGCAG | 59.673 | 52.381 | 3.17 | 0.00 | 45.49 | 4.24 |
2532 | 7254 | 0.027716 | CGATTAAGCAGCAGCAGCAG | 59.972 | 55.000 | 12.92 | 0.00 | 45.49 | 4.24 |
2533 | 7255 | 0.381089 | GATTAAGCAGCAGCAGCAGG | 59.619 | 55.000 | 12.92 | 0.00 | 45.49 | 4.85 |
2535 | 7257 | 1.239296 | TTAAGCAGCAGCAGCAGGTG | 61.239 | 55.000 | 12.92 | 12.39 | 45.49 | 4.00 |
2537 | 7259 | 3.735029 | GCAGCAGCAGCAGGTGTC | 61.735 | 66.667 | 17.23 | 7.15 | 44.89 | 3.67 |
2539 | 7261 | 2.032223 | AGCAGCAGCAGGTGTCAG | 59.968 | 61.111 | 10.14 | 0.00 | 44.89 | 3.51 |
2543 | 7265 | 1.436600 | CAGCAGCAGGTGTCAGTTAG | 58.563 | 55.000 | 0.66 | 0.00 | 38.42 | 2.34 |
2545 | 7267 | 1.301677 | GCAGCAGGTGTCAGTTAGGC | 61.302 | 60.000 | 0.66 | 0.00 | 0.00 | 3.93 |
2546 | 7268 | 0.674895 | CAGCAGGTGTCAGTTAGGCC | 60.675 | 60.000 | 0.00 | 0.00 | 0.00 | 5.19 |
2547 | 7269 | 1.741770 | GCAGGTGTCAGTTAGGCCG | 60.742 | 63.158 | 0.00 | 0.00 | 0.00 | 6.13 |
2549 | 7271 | 2.436115 | GGTGTCAGTTAGGCCGGC | 60.436 | 66.667 | 21.18 | 21.18 | 0.00 | 6.13 |
2550 | 7272 | 2.345991 | GTGTCAGTTAGGCCGGCA | 59.654 | 61.111 | 30.85 | 5.28 | 0.00 | 5.69 |
2622 | 7353 | 5.638596 | TCGACAGTTGAATTACTCTGCTA | 57.361 | 39.130 | 0.00 | 0.00 | 0.00 | 3.49 |
2627 | 7358 | 5.814705 | ACAGTTGAATTACTCTGCTATGCTC | 59.185 | 40.000 | 0.00 | 0.00 | 0.00 | 4.26 |
2656 | 7388 | 1.327303 | TGTTTGCTTGCGGAGGAATT | 58.673 | 45.000 | 0.00 | 0.00 | 37.12 | 2.17 |
2659 | 7391 | 3.509575 | TGTTTGCTTGCGGAGGAATTAAT | 59.490 | 39.130 | 0.00 | 0.00 | 37.12 | 1.40 |
2662 | 7394 | 5.906113 | TTGCTTGCGGAGGAATTAATTTA | 57.094 | 34.783 | 1.43 | 0.00 | 37.12 | 1.40 |
2663 | 7395 | 6.463995 | TTGCTTGCGGAGGAATTAATTTAT | 57.536 | 33.333 | 1.43 | 0.00 | 37.12 | 1.40 |
2664 | 7396 | 5.830912 | TGCTTGCGGAGGAATTAATTTATG | 58.169 | 37.500 | 1.43 | 0.00 | 37.12 | 1.90 |
2665 | 7397 | 5.359576 | TGCTTGCGGAGGAATTAATTTATGT | 59.640 | 36.000 | 1.43 | 0.00 | 37.12 | 2.29 |
2666 | 7398 | 6.544197 | TGCTTGCGGAGGAATTAATTTATGTA | 59.456 | 34.615 | 1.43 | 0.00 | 37.12 | 2.29 |
2667 | 7399 | 7.230510 | TGCTTGCGGAGGAATTAATTTATGTAT | 59.769 | 33.333 | 1.43 | 0.00 | 37.12 | 2.29 |
2668 | 7400 | 8.082242 | GCTTGCGGAGGAATTAATTTATGTATT | 58.918 | 33.333 | 1.43 | 0.00 | 37.12 | 1.89 |
2669 | 7401 | 9.612620 | CTTGCGGAGGAATTAATTTATGTATTC | 57.387 | 33.333 | 1.43 | 0.00 | 37.12 | 1.75 |
2670 | 7402 | 8.918202 | TGCGGAGGAATTAATTTATGTATTCT | 57.082 | 30.769 | 1.43 | 0.00 | 0.00 | 2.40 |
2671 | 7403 | 9.349713 | TGCGGAGGAATTAATTTATGTATTCTT | 57.650 | 29.630 | 1.43 | 0.00 | 0.00 | 2.52 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
4 | 5 | 5.163385 | CGTACCAATCTATAACCACCTCCAA | 60.163 | 44.000 | 0.00 | 0.00 | 0.00 | 3.53 |
29 | 30 | 0.669318 | TTACGGCAGGAAACGCTGAG | 60.669 | 55.000 | 0.00 | 0.00 | 38.84 | 3.35 |
35 | 36 | 3.562557 | TGAGAACTTTTACGGCAGGAAAC | 59.437 | 43.478 | 0.00 | 0.00 | 0.00 | 2.78 |
50 | 51 | 7.911651 | TCTCTAAGTCATCCATTTTGAGAACT | 58.088 | 34.615 | 0.00 | 0.00 | 32.51 | 3.01 |
53 | 54 | 6.441924 | ACCTCTCTAAGTCATCCATTTTGAGA | 59.558 | 38.462 | 0.00 | 0.00 | 33.73 | 3.27 |
65 | 66 | 5.420421 | CCATCTCTGAAACCTCTCTAAGTCA | 59.580 | 44.000 | 0.00 | 0.00 | 0.00 | 3.41 |
71 | 72 | 3.481559 | TCCCATCTCTGAAACCTCTCT | 57.518 | 47.619 | 0.00 | 0.00 | 0.00 | 3.10 |
77 | 78 | 2.996631 | ACTGCATCCCATCTCTGAAAC | 58.003 | 47.619 | 0.00 | 0.00 | 0.00 | 2.78 |
109 | 119 | 5.123027 | GGTAGTTTCTCAAGCTGAGGAAATG | 59.877 | 44.000 | 13.84 | 0.00 | 43.15 | 2.32 |
110 | 120 | 5.221925 | TGGTAGTTTCTCAAGCTGAGGAAAT | 60.222 | 40.000 | 10.56 | 10.56 | 43.15 | 2.17 |
139 | 149 | 2.241941 | TCTGCTATCTTTGGGCATTCCA | 59.758 | 45.455 | 0.00 | 0.00 | 45.43 | 3.53 |
141 | 151 | 5.526506 | AAATCTGCTATCTTTGGGCATTC | 57.473 | 39.130 | 0.00 | 0.00 | 35.37 | 2.67 |
153 | 163 | 4.080356 | TGGTGCTTCAGGTAAATCTGCTAT | 60.080 | 41.667 | 0.00 | 0.00 | 34.91 | 2.97 |
157 | 167 | 5.010012 | AGTTTTGGTGCTTCAGGTAAATCTG | 59.990 | 40.000 | 0.00 | 0.00 | 36.17 | 2.90 |
167 | 177 | 2.722094 | ACAGTGAGTTTTGGTGCTTCA | 58.278 | 42.857 | 0.00 | 0.00 | 0.00 | 3.02 |
184 | 194 | 9.455847 | GCTTGCCATCTTTAATTTCTAATACAG | 57.544 | 33.333 | 0.00 | 0.00 | 0.00 | 2.74 |
198 | 208 | 3.965694 | AGATCTCTTGCTTGCCATCTTT | 58.034 | 40.909 | 0.00 | 0.00 | 0.00 | 2.52 |
265 | 275 | 6.014584 | TGTTATTTCTGTGTCTTCTAGCCTCA | 60.015 | 38.462 | 0.00 | 0.00 | 0.00 | 3.86 |
266 | 276 | 6.398918 | TGTTATTTCTGTGTCTTCTAGCCTC | 58.601 | 40.000 | 0.00 | 0.00 | 0.00 | 4.70 |
267 | 277 | 6.360370 | TGTTATTTCTGTGTCTTCTAGCCT | 57.640 | 37.500 | 0.00 | 0.00 | 0.00 | 4.58 |
268 | 278 | 6.818644 | TGATGTTATTTCTGTGTCTTCTAGCC | 59.181 | 38.462 | 0.00 | 0.00 | 0.00 | 3.93 |
269 | 279 | 7.761704 | TCTGATGTTATTTCTGTGTCTTCTAGC | 59.238 | 37.037 | 0.00 | 0.00 | 0.00 | 3.42 |
270 | 280 | 9.299963 | CTCTGATGTTATTTCTGTGTCTTCTAG | 57.700 | 37.037 | 0.00 | 0.00 | 0.00 | 2.43 |
271 | 281 | 9.025041 | TCTCTGATGTTATTTCTGTGTCTTCTA | 57.975 | 33.333 | 0.00 | 0.00 | 0.00 | 2.10 |
272 | 282 | 7.816995 | GTCTCTGATGTTATTTCTGTGTCTTCT | 59.183 | 37.037 | 0.00 | 0.00 | 0.00 | 2.85 |
273 | 283 | 7.600375 | TGTCTCTGATGTTATTTCTGTGTCTTC | 59.400 | 37.037 | 0.00 | 0.00 | 0.00 | 2.87 |
274 | 284 | 7.445121 | TGTCTCTGATGTTATTTCTGTGTCTT | 58.555 | 34.615 | 0.00 | 0.00 | 0.00 | 3.01 |
275 | 285 | 6.997655 | TGTCTCTGATGTTATTTCTGTGTCT | 58.002 | 36.000 | 0.00 | 0.00 | 0.00 | 3.41 |
276 | 286 | 7.171508 | TGTTGTCTCTGATGTTATTTCTGTGTC | 59.828 | 37.037 | 0.00 | 0.00 | 0.00 | 3.67 |
277 | 287 | 6.992123 | TGTTGTCTCTGATGTTATTTCTGTGT | 59.008 | 34.615 | 0.00 | 0.00 | 0.00 | 3.72 |
278 | 288 | 7.425577 | TGTTGTCTCTGATGTTATTTCTGTG | 57.574 | 36.000 | 0.00 | 0.00 | 0.00 | 3.66 |
279 | 289 | 7.879677 | TGATGTTGTCTCTGATGTTATTTCTGT | 59.120 | 33.333 | 0.00 | 0.00 | 0.00 | 3.41 |
280 | 290 | 8.260270 | TGATGTTGTCTCTGATGTTATTTCTG | 57.740 | 34.615 | 0.00 | 0.00 | 0.00 | 3.02 |
281 | 291 | 8.316946 | TCTGATGTTGTCTCTGATGTTATTTCT | 58.683 | 33.333 | 0.00 | 0.00 | 0.00 | 2.52 |
282 | 292 | 8.484641 | TCTGATGTTGTCTCTGATGTTATTTC | 57.515 | 34.615 | 0.00 | 0.00 | 0.00 | 2.17 |
283 | 293 | 7.551974 | CCTCTGATGTTGTCTCTGATGTTATTT | 59.448 | 37.037 | 0.00 | 0.00 | 0.00 | 1.40 |
284 | 294 | 7.046652 | CCTCTGATGTTGTCTCTGATGTTATT | 58.953 | 38.462 | 0.00 | 0.00 | 0.00 | 1.40 |
285 | 295 | 6.382282 | TCCTCTGATGTTGTCTCTGATGTTAT | 59.618 | 38.462 | 0.00 | 0.00 | 0.00 | 1.89 |
286 | 296 | 5.716703 | TCCTCTGATGTTGTCTCTGATGTTA | 59.283 | 40.000 | 0.00 | 0.00 | 0.00 | 2.41 |
287 | 297 | 4.529769 | TCCTCTGATGTTGTCTCTGATGTT | 59.470 | 41.667 | 0.00 | 0.00 | 0.00 | 2.71 |
288 | 298 | 4.092279 | TCCTCTGATGTTGTCTCTGATGT | 58.908 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
289 | 299 | 4.732672 | TCCTCTGATGTTGTCTCTGATG | 57.267 | 45.455 | 0.00 | 0.00 | 0.00 | 3.07 |
290 | 300 | 5.279255 | CATCCTCTGATGTTGTCTCTGAT | 57.721 | 43.478 | 0.00 | 0.00 | 42.87 | 2.90 |
291 | 301 | 4.732672 | CATCCTCTGATGTTGTCTCTGA | 57.267 | 45.455 | 0.00 | 0.00 | 42.87 | 3.27 |
327 | 337 | 7.872993 | CCTCAGTGTTGTTTCTATGAGTTCTAA | 59.127 | 37.037 | 0.00 | 0.00 | 33.86 | 2.10 |
334 | 344 | 3.327757 | AGGCCTCAGTGTTGTTTCTATGA | 59.672 | 43.478 | 0.00 | 0.00 | 0.00 | 2.15 |
337 | 347 | 2.703536 | TCAGGCCTCAGTGTTGTTTCTA | 59.296 | 45.455 | 0.00 | 0.00 | 0.00 | 2.10 |
348 | 358 | 1.093159 | GAAGTGCATTCAGGCCTCAG | 58.907 | 55.000 | 0.00 | 0.00 | 37.88 | 3.35 |
349 | 359 | 0.401356 | TGAAGTGCATTCAGGCCTCA | 59.599 | 50.000 | 0.00 | 0.00 | 43.09 | 3.86 |
350 | 360 | 3.254629 | TGAAGTGCATTCAGGCCTC | 57.745 | 52.632 | 0.00 | 0.00 | 43.09 | 4.70 |
382 | 393 | 4.764172 | TCTAGCTCCATTTCTCTTTGCTC | 58.236 | 43.478 | 0.00 | 0.00 | 0.00 | 4.26 |
399 | 410 | 6.483640 | CACAACTGTAATAGGGGATTTCTAGC | 59.516 | 42.308 | 0.00 | 0.00 | 0.00 | 3.42 |
401 | 412 | 6.674861 | TCCACAACTGTAATAGGGGATTTCTA | 59.325 | 38.462 | 0.00 | 0.00 | 0.00 | 2.10 |
413 | 424 | 5.045578 | AGCATCCTAACTCCACAACTGTAAT | 60.046 | 40.000 | 0.00 | 0.00 | 0.00 | 1.89 |
443 | 454 | 4.218312 | AGTGCACCTTCTCCAAAGAATTT | 58.782 | 39.130 | 14.63 | 0.00 | 40.68 | 1.82 |
444 | 455 | 3.837355 | AGTGCACCTTCTCCAAAGAATT | 58.163 | 40.909 | 14.63 | 0.00 | 40.68 | 2.17 |
456 | 467 | 1.293498 | CACGGCTCTAGTGCACCTT | 59.707 | 57.895 | 14.63 | 0.00 | 32.52 | 3.50 |
493 | 504 | 6.312672 | CGGATGTACCAATTTCCAAATTTTCC | 59.687 | 38.462 | 0.00 | 0.00 | 36.52 | 3.13 |
499 | 510 | 5.013547 | ACATCGGATGTACCAATTTCCAAA | 58.986 | 37.500 | 21.49 | 0.00 | 42.78 | 3.28 |
602 | 613 | 3.323403 | AGAGGAGCTTGTACATATCCAGC | 59.677 | 47.826 | 18.52 | 14.07 | 32.21 | 4.85 |
641 | 652 | 3.562393 | CCTCTCAGGTGTTCACTCCTAGA | 60.562 | 52.174 | 0.21 | 4.44 | 37.73 | 2.43 |
642 | 653 | 2.757868 | CCTCTCAGGTGTTCACTCCTAG | 59.242 | 54.545 | 0.21 | 0.00 | 37.73 | 3.02 |
643 | 654 | 2.808919 | CCTCTCAGGTGTTCACTCCTA | 58.191 | 52.381 | 0.21 | 0.00 | 37.73 | 2.94 |
665 | 676 | 6.650807 | CAGTATTGTAAGCAAAGAGACTCCAA | 59.349 | 38.462 | 0.00 | 0.00 | 38.21 | 3.53 |
683 | 694 | 6.640518 | TCTCTACTAAACTTGGGCAGTATTG | 58.359 | 40.000 | 0.00 | 0.00 | 32.94 | 1.90 |
686 | 697 | 5.720041 | ACATCTCTACTAAACTTGGGCAGTA | 59.280 | 40.000 | 0.00 | 0.00 | 32.94 | 2.74 |
739 | 750 | 9.573166 | ACAAGCTTAATGCATCCACTAATATTA | 57.427 | 29.630 | 0.00 | 0.00 | 45.94 | 0.98 |
751 | 762 | 6.720112 | AATATGGACACAAGCTTAATGCAT | 57.280 | 33.333 | 0.00 | 7.29 | 45.94 | 3.96 |
775 | 786 | 4.689549 | ATGCCCTGCTGCTTGCCA | 62.690 | 61.111 | 0.00 | 0.00 | 42.00 | 4.92 |
797 | 808 | 7.091902 | ACTCCTAGAAGATCCTTGGACTAACTA | 60.092 | 40.741 | 0.00 | 0.00 | 34.09 | 2.24 |
837 | 848 | 2.158842 | GGCAACTCTGATACAGCTCCAT | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 3.41 |
840 | 851 | 2.680312 | TGGCAACTCTGATACAGCTC | 57.320 | 50.000 | 0.00 | 0.00 | 37.61 | 4.09 |
879 | 890 | 4.686191 | AGAGATTCTAGGCATGGACAAG | 57.314 | 45.455 | 0.00 | 0.00 | 0.00 | 3.16 |
897 | 908 | 6.478344 | GCTTCCACAATCAGATAACTGTAGAG | 59.522 | 42.308 | 0.00 | 0.00 | 43.81 | 2.43 |
973 | 984 | 9.828852 | GATAGGACTTGAATACTACTACAATCG | 57.171 | 37.037 | 0.00 | 0.00 | 0.00 | 3.34 |
1048 | 1129 | 2.738587 | AGAGCTTCGAGATGGGTAGA | 57.261 | 50.000 | 0.00 | 0.00 | 0.00 | 2.59 |
1051 | 1132 | 2.028130 | CAGTAGAGCTTCGAGATGGGT | 58.972 | 52.381 | 0.00 | 0.00 | 0.00 | 4.51 |
1069 | 1150 | 1.945394 | GCCAGCACAGTTCCATATCAG | 59.055 | 52.381 | 0.00 | 0.00 | 0.00 | 2.90 |
1071 | 1152 | 2.042686 | TGCCAGCACAGTTCCATATC | 57.957 | 50.000 | 0.00 | 0.00 | 0.00 | 1.63 |
1204 | 1286 | 4.646492 | AGTGCATCTTTGAAGAACAAGGTT | 59.354 | 37.500 | 0.00 | 0.00 | 39.77 | 3.50 |
1233 | 1315 | 2.203056 | TCATTCGGCAGGGATGCG | 60.203 | 61.111 | 0.00 | 0.00 | 35.24 | 4.73 |
1258 | 1340 | 8.144155 | TGAAGATACGAGACAGAACTGTATAG | 57.856 | 38.462 | 7.46 | 7.67 | 45.05 | 1.31 |
1270 | 1352 | 7.636359 | GCAATGTGTAATTTGAAGATACGAGAC | 59.364 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
1274 | 1356 | 5.971202 | GGGCAATGTGTAATTTGAAGATACG | 59.029 | 40.000 | 0.00 | 0.00 | 0.00 | 3.06 |
1292 | 1374 | 4.140536 | GAGCTTCTTTATAGCAGGGCAAT | 58.859 | 43.478 | 0.00 | 0.00 | 41.11 | 3.56 |
1326 | 1408 | 2.123769 | TTGCCCAGTTGCTGCTGT | 60.124 | 55.556 | 0.00 | 0.00 | 34.84 | 4.40 |
1343 | 1428 | 3.386486 | TCTAGTCGTTTGCGTTTGATGT | 58.614 | 40.909 | 0.00 | 0.00 | 39.49 | 3.06 |
1394 | 1485 | 5.759059 | TCAATGTGGCAAAGATAGAAGGAT | 58.241 | 37.500 | 0.00 | 0.00 | 0.00 | 3.24 |
1568 | 1675 | 2.747446 | CGGTTTAAGTGCCATAACTGCT | 59.253 | 45.455 | 0.00 | 0.00 | 0.00 | 4.24 |
1658 | 1777 | 3.021695 | CTCCTGCATGATGGATTGTTGT | 58.978 | 45.455 | 0.00 | 0.00 | 0.00 | 3.32 |
1709 | 1890 | 6.647334 | TGTTTAGAGCAATCAAAATCCACA | 57.353 | 33.333 | 0.00 | 0.00 | 0.00 | 4.17 |
1757 | 1939 | 4.424061 | TCTCAACAAAGCCGATTGATTG | 57.576 | 40.909 | 1.92 | 3.65 | 32.16 | 2.67 |
1778 | 1960 | 4.362677 | TCTGAACTAGGTAGAGGGCAAAT | 58.637 | 43.478 | 0.00 | 0.00 | 0.00 | 2.32 |
1783 | 1965 | 7.604657 | ACAAATATCTGAACTAGGTAGAGGG | 57.395 | 40.000 | 0.00 | 0.00 | 0.00 | 4.30 |
1873 | 2055 | 8.224389 | AGCAGATAGATACATACATAGCTGAG | 57.776 | 38.462 | 0.00 | 0.00 | 34.41 | 3.35 |
1875 | 2057 | 9.650539 | AAAAGCAGATAGATACATACATAGCTG | 57.349 | 33.333 | 0.00 | 0.00 | 35.34 | 4.24 |
1882 | 2064 | 7.589221 | GCAAAGCAAAAGCAGATAGATACATAC | 59.411 | 37.037 | 0.00 | 0.00 | 0.00 | 2.39 |
1897 | 2080 | 7.417612 | TCTCAGTTAACTAAGCAAAGCAAAAG | 58.582 | 34.615 | 8.04 | 0.00 | 0.00 | 2.27 |
1954 | 2138 | 4.037208 | CACAGAGAAAGCCACAGTTGAAAT | 59.963 | 41.667 | 0.00 | 0.00 | 0.00 | 2.17 |
1971 | 2156 | 6.485984 | CCTATCATCCAAGAAAATCCACAGAG | 59.514 | 42.308 | 0.00 | 0.00 | 0.00 | 3.35 |
2057 | 3718 | 0.583438 | CTGCGACACAGTTCAGTTGG | 59.417 | 55.000 | 0.00 | 0.00 | 41.86 | 3.77 |
2188 | 3900 | 3.451665 | CTGGGCAGCAGCAAACTT | 58.548 | 55.556 | 2.65 | 0.00 | 44.61 | 2.66 |
2295 | 5906 | 4.571176 | GCATCTACTAAACCTGGCAAGTAC | 59.429 | 45.833 | 0.00 | 0.00 | 0.00 | 2.73 |
2316 | 6833 | 2.640332 | TCACATTACAAGTACCCCAGCA | 59.360 | 45.455 | 0.00 | 0.00 | 0.00 | 4.41 |
2347 | 6866 | 6.932947 | ACTAAAGTAACGAGGCTGAAACTAT | 58.067 | 36.000 | 0.00 | 0.00 | 0.00 | 2.12 |
2379 | 6898 | 3.119137 | GCAGGGTAGTTAAAAGCCATTGG | 60.119 | 47.826 | 0.00 | 0.00 | 36.95 | 3.16 |
2395 | 6914 | 2.914097 | GCCACAAGCAAGCAGGGT | 60.914 | 61.111 | 0.00 | 0.00 | 42.97 | 4.34 |
2409 | 7038 | 8.784994 | TCACTATATTTTTGTAAAACTTCGCCA | 58.215 | 29.630 | 0.00 | 0.00 | 0.00 | 5.69 |
2410 | 7039 | 9.274065 | CTCACTATATTTTTGTAAAACTTCGCC | 57.726 | 33.333 | 0.00 | 0.00 | 0.00 | 5.54 |
2424 | 7053 | 4.389374 | CATCCCGCACCTCACTATATTTT | 58.611 | 43.478 | 0.00 | 0.00 | 0.00 | 1.82 |
2426 | 7055 | 2.303022 | CCATCCCGCACCTCACTATATT | 59.697 | 50.000 | 0.00 | 0.00 | 0.00 | 1.28 |
2494 | 7216 | 3.325870 | TCGTCTGACGATGAAATTGCTT | 58.674 | 40.909 | 27.26 | 0.00 | 46.73 | 3.91 |
2507 | 7229 | 1.325943 | GCTGCTGCTTAATCGTCTGAC | 59.674 | 52.381 | 8.53 | 0.00 | 36.03 | 3.51 |
2510 | 7232 | 1.649664 | CTGCTGCTGCTTAATCGTCT | 58.350 | 50.000 | 17.00 | 0.00 | 40.48 | 4.18 |
2512 | 7234 | 0.674581 | TGCTGCTGCTGCTTAATCGT | 60.675 | 50.000 | 27.67 | 0.00 | 40.48 | 3.73 |
2513 | 7235 | 0.027716 | CTGCTGCTGCTGCTTAATCG | 59.972 | 55.000 | 27.67 | 9.21 | 40.48 | 3.34 |
2514 | 7236 | 0.381089 | CCTGCTGCTGCTGCTTAATC | 59.619 | 55.000 | 27.67 | 3.30 | 40.48 | 1.75 |
2515 | 7237 | 0.323178 | ACCTGCTGCTGCTGCTTAAT | 60.323 | 50.000 | 27.67 | 11.43 | 40.48 | 1.40 |
2516 | 7238 | 1.073722 | ACCTGCTGCTGCTGCTTAA | 59.926 | 52.632 | 27.67 | 10.73 | 40.48 | 1.85 |
2517 | 7239 | 1.673337 | CACCTGCTGCTGCTGCTTA | 60.673 | 57.895 | 27.67 | 11.39 | 40.48 | 3.09 |
2519 | 7241 | 4.266543 | ACACCTGCTGCTGCTGCT | 62.267 | 61.111 | 27.67 | 9.19 | 40.48 | 4.24 |
2520 | 7242 | 3.735029 | GACACCTGCTGCTGCTGC | 61.735 | 66.667 | 22.51 | 22.51 | 40.48 | 5.25 |
2521 | 7243 | 2.281276 | TGACACCTGCTGCTGCTG | 60.281 | 61.111 | 17.00 | 15.58 | 40.48 | 4.41 |
2526 | 7248 | 1.301677 | GCCTAACTGACACCTGCTGC | 61.302 | 60.000 | 0.00 | 0.00 | 0.00 | 5.25 |
2528 | 7250 | 1.679898 | GGCCTAACTGACACCTGCT | 59.320 | 57.895 | 0.00 | 0.00 | 0.00 | 4.24 |
2529 | 7251 | 1.741770 | CGGCCTAACTGACACCTGC | 60.742 | 63.158 | 0.00 | 0.00 | 0.00 | 4.85 |
2532 | 7254 | 2.436115 | GCCGGCCTAACTGACACC | 60.436 | 66.667 | 18.11 | 0.00 | 0.00 | 4.16 |
2533 | 7255 | 0.676782 | ATTGCCGGCCTAACTGACAC | 60.677 | 55.000 | 26.77 | 0.00 | 0.00 | 3.67 |
2535 | 7257 | 0.451783 | CAATTGCCGGCCTAACTGAC | 59.548 | 55.000 | 26.77 | 0.00 | 0.00 | 3.51 |
2537 | 7259 | 0.887933 | AACAATTGCCGGCCTAACTG | 59.112 | 50.000 | 26.77 | 15.42 | 0.00 | 3.16 |
2539 | 7261 | 0.885196 | TCAACAATTGCCGGCCTAAC | 59.115 | 50.000 | 26.77 | 0.00 | 0.00 | 2.34 |
2543 | 7265 | 0.037419 | ACATTCAACAATTGCCGGCC | 60.037 | 50.000 | 26.77 | 6.44 | 0.00 | 6.13 |
2545 | 7267 | 2.721274 | TCACATTCAACAATTGCCGG | 57.279 | 45.000 | 5.05 | 0.00 | 0.00 | 6.13 |
2546 | 7268 | 2.924926 | CCATCACATTCAACAATTGCCG | 59.075 | 45.455 | 5.05 | 0.00 | 0.00 | 5.69 |
2547 | 7269 | 2.674357 | GCCATCACATTCAACAATTGCC | 59.326 | 45.455 | 5.05 | 0.00 | 0.00 | 4.52 |
2549 | 7271 | 3.055675 | AGGGCCATCACATTCAACAATTG | 60.056 | 43.478 | 6.18 | 3.24 | 0.00 | 2.32 |
2550 | 7272 | 3.055675 | CAGGGCCATCACATTCAACAATT | 60.056 | 43.478 | 6.18 | 0.00 | 0.00 | 2.32 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.