Multiple sequence alignment - TraesCS7A01G217100

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


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 TraesCS7A01G217100 chr7A 100.000 5498 0 0 1 5498 183657006 183651509 0.000000e+00 10154.0
1 TraesCS7A01G217100 chr7A 95.091 2098 94 3 2657 4745 183481789 183479692 0.000000e+00 3295.0
2 TraesCS7A01G217100 chr7A 95.069 1440 71 0 2538 3977 183307371 183305932 0.000000e+00 2266.0
3 TraesCS7A01G217100 chr7A 89.627 1446 107 22 1038 2448 183483249 183481812 0.000000e+00 1799.0
4 TraesCS7A01G217100 chr7A 88.018 1544 153 14 1021 2539 183308975 183307439 0.000000e+00 1797.0
5 TraesCS7A01G217100 chr7A 90.748 1243 96 6 1022 2262 182856911 182855686 0.000000e+00 1640.0
6 TraesCS7A01G217100 chr7A 91.771 802 57 4 3953 4745 183305908 183305107 0.000000e+00 1107.0
7 TraesCS7A01G217100 chr7A 89.782 597 44 6 419 1010 183309621 183309037 0.000000e+00 749.0
8 TraesCS7A01G217100 chr7A 95.257 253 12 0 2904 3156 182855638 182855386 8.580000e-108 401.0
9 TraesCS7A01G217100 chr7A 91.986 287 19 4 728 1014 182857293 182857011 3.090000e-107 399.0
10 TraesCS7A01G217100 chr7A 86.567 335 21 9 1 311 183309950 183309616 1.130000e-91 348.0
11 TraesCS7A01G217100 chr7A 95.714 210 9 0 95 304 182858003 182857794 6.820000e-89 339.0
12 TraesCS7A01G217100 chr7A 86.120 317 28 10 704 1007 183483716 183483403 1.480000e-85 327.0
13 TraesCS7A01G217100 chr7A 80.656 305 54 3 4047 4347 183641237 183640934 1.190000e-56 231.0
14 TraesCS7A01G217100 chr7A 88.372 172 13 6 4949 5117 183304753 183304586 3.360000e-47 200.0
15 TraesCS7A01G217100 chr7A 95.575 113 5 0 303 415 547358739 547358851 1.220000e-41 182.0
16 TraesCS7A01G217100 chr7A 83.495 206 19 9 122 314 183484322 183484119 1.570000e-40 178.0
17 TraesCS7A01G217100 chr7A 90.977 133 7 3 4824 4951 183479551 183479419 2.040000e-39 174.0
18 TraesCS7A01G217100 chr7A 84.571 175 15 6 477 640 183483980 183483807 4.410000e-36 163.0
19 TraesCS7A01G217100 chr7A 94.845 97 5 0 1 97 182858424 182858328 9.540000e-33 152.0
20 TraesCS7A01G217100 chr7A 90.909 99 7 1 1 97 183484489 183484391 1.240000e-26 132.0
21 TraesCS7A01G217100 chr7A 92.857 56 4 0 5360 5415 666152375 666152320 1.270000e-11 82.4
22 TraesCS7A01G217100 chr7A 100.000 42 0 0 5335 5376 183711485 183711444 1.640000e-10 78.7
23 TraesCS7A01G217100 chr7A 100.000 32 0 0 5375 5406 42500748 42500779 5.950000e-05 60.2
24 TraesCS7A01G217100 chr7B 95.555 2857 107 7 2256 5099 145053958 145051109 0.000000e+00 4554.0
25 TraesCS7A01G217100 chr7B 94.614 2098 104 3 2657 4745 144811936 144809839 0.000000e+00 3240.0
26 TraesCS7A01G217100 chr7B 97.101 1242 36 0 1021 2262 145055220 145053979 0.000000e+00 2095.0
27 TraesCS7A01G217100 chr7B 92.200 1423 108 1 2558 3977 144735059 144733637 0.000000e+00 2010.0
28 TraesCS7A01G217100 chr7B 88.399 1543 150 11 1021 2538 144736680 144735142 0.000000e+00 1831.0
29 TraesCS7A01G217100 chr7B 89.419 1446 110 26 1038 2448 144813396 144811959 0.000000e+00 1783.0
30 TraesCS7A01G217100 chr7B 97.655 597 10 3 416 1011 145055928 145055335 0.000000e+00 1022.0
31 TraesCS7A01G217100 chr7B 91.962 734 44 6 3952 4676 144733614 144732887 0.000000e+00 1014.0
32 TraesCS7A01G217100 chr7B 88.790 562 46 6 419 975 144737311 144736762 0.000000e+00 673.0
33 TraesCS7A01G217100 chr7B 97.452 314 8 0 1 314 145056230 145055917 2.250000e-148 536.0
34 TraesCS7A01G217100 chr7B 82.353 561 51 22 477 1007 144814092 144813550 1.410000e-120 444.0
35 TraesCS7A01G217100 chr7B 85.864 382 33 10 4824 5196 144809699 144809330 2.400000e-103 387.0
36 TraesCS7A01G217100 chr7B 86.351 359 20 5 5084 5415 145049737 145049381 1.130000e-96 364.0
37 TraesCS7A01G217100 chr7B 87.087 333 19 5 1 311 144737636 144737306 6.770000e-94 355.0
38 TraesCS7A01G217100 chr7B 83.663 202 18 9 122 310 144814433 144814234 5.660000e-40 176.0
39 TraesCS7A01G217100 chr7B 100.000 67 0 0 5310 5376 145370886 145370820 2.080000e-24 124.0
40 TraesCS7A01G217100 chr7B 92.000 75 2 1 5424 5498 145049341 145049271 9.740000e-18 102.0
41 TraesCS7A01G217100 chr7B 94.872 39 2 0 5373 5411 137526322 137526360 1.650000e-05 62.1
42 TraesCS7A01G217100 chr7D 95.186 2098 92 3 2657 4745 178939232 178937135 0.000000e+00 3306.0
43 TraesCS7A01G217100 chr7D 95.831 1847 64 2 416 2262 179124179 179122346 0.000000e+00 2972.0
44 TraesCS7A01G217100 chr7D 95.174 1264 48 3 2714 3977 178860205 178858955 0.000000e+00 1984.0
45 TraesCS7A01G217100 chr7D 89.820 1444 108 23 1038 2448 178940692 178939255 0.000000e+00 1816.0
46 TraesCS7A01G217100 chr7D 88.148 1544 153 12 1021 2539 178861903 178860365 0.000000e+00 1810.0
47 TraesCS7A01G217100 chr7D 93.179 733 41 3 3953 4676 178858931 178858199 0.000000e+00 1068.0
48 TraesCS7A01G217100 chr7D 95.194 541 25 1 2258 2797 179122323 179121783 0.000000e+00 854.0
49 TraesCS7A01G217100 chr7D 76.278 1467 300 41 2908 4347 178990013 178988568 0.000000e+00 737.0
50 TraesCS7A01G217100 chr7D 89.130 598 48 6 419 1011 178862549 178861964 0.000000e+00 728.0
51 TraesCS7A01G217100 chr7D 87.136 412 39 9 4794 5196 178858021 178857615 6.490000e-124 455.0
52 TraesCS7A01G217100 chr7D 81.294 572 48 20 477 1007 178941399 178940846 5.130000e-110 409.0
53 TraesCS7A01G217100 chr7D 97.071 239 7 0 1 239 179124540 179124302 2.390000e-108 403.0
54 TraesCS7A01G217100 chr7D 86.269 335 22 3 1 311 178862878 178862544 5.270000e-90 342.0
55 TraesCS7A01G217100 chr7D 98.969 97 1 0 2538 2634 178860297 178860201 2.040000e-39 174.0
56 TraesCS7A01G217100 chr7D 85.714 133 16 2 5031 5163 178936819 178936690 2.670000e-28 137.0
57 TraesCS7A01G217100 chr7D 100.000 71 0 0 244 314 179124238 179124168 1.240000e-26 132.0
58 TraesCS7A01G217100 chr7D 88.889 99 9 1 1 97 178941907 178941809 2.690000e-23 121.0
59 TraesCS7A01G217100 chr7D 98.529 68 0 1 5310 5376 179182258 179182191 9.670000e-23 119.0
60 TraesCS7A01G217100 chr7D 94.340 53 1 2 5198 5250 179182981 179182931 4.570000e-11 80.5
61 TraesCS7A01G217100 chr5B 100.000 101 0 0 315 415 487599575 487599675 2.610000e-43 187.0
62 TraesCS7A01G217100 chr5B 94.262 122 6 1 295 415 271946289 271946410 9.400000e-43 185.0
63 TraesCS7A01G217100 chr5A 99.038 104 1 0 312 415 266134635 266134738 2.610000e-43 187.0
64 TraesCS7A01G217100 chr5A 91.489 47 3 1 5373 5419 24432045 24432000 4.600000e-06 63.9
65 TraesCS7A01G217100 chr3B 98.148 108 1 1 309 415 471687437 471687544 2.610000e-43 187.0
66 TraesCS7A01G217100 chr2A 99.038 104 1 0 312 415 377827928 377827825 2.610000e-43 187.0
67 TraesCS7A01G217100 chr1A 97.248 109 2 1 308 415 160608297 160608405 3.380000e-42 183.0
68 TraesCS7A01G217100 chr6A 93.388 121 5 2 298 415 269984743 269984623 5.660000e-40 176.0
69 TraesCS7A01G217100 chr2B 98.020 101 2 0 315 415 726694769 726694669 5.660000e-40 176.0
70 TraesCS7A01G217100 chr3A 92.683 41 3 0 5375 5415 594490384 594490424 5.950000e-05 60.2
71 TraesCS7A01G217100 chr3A 100.000 32 0 0 5380 5411 644918437 644918406 5.950000e-05 60.2
72 TraesCS7A01G217100 chr4A 97.059 34 1 0 5375 5408 683870321 683870354 2.140000e-04 58.4
73 TraesCS7A01G217100 chr1D 97.143 35 0 1 5375 5409 476441640 476441673 2.140000e-04 58.4


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 TraesCS7A01G217100 chr7A 183651509 183657006 5497 True 10154.000000 10154 100.000000 1 5498 1 chr7A.!!$R2 5497
1 TraesCS7A01G217100 chr7A 183304586 183309950 5364 True 1077.833333 2266 89.929833 1 5117 6 chr7A.!!$R6 5116
2 TraesCS7A01G217100 chr7A 183479419 183484489 5070 True 866.857143 3295 88.684286 1 4951 7 chr7A.!!$R7 4950
3 TraesCS7A01G217100 chr7A 182855386 182858424 3038 True 586.200000 1640 93.710000 1 3156 5 chr7A.!!$R5 3155
4 TraesCS7A01G217100 chr7B 145049271 145056230 6959 True 1445.500000 4554 94.352333 1 5498 6 chr7B.!!$R4 5497
5 TraesCS7A01G217100 chr7B 144809330 144814433 5103 True 1206.000000 3240 87.182600 122 5196 5 chr7B.!!$R3 5074
6 TraesCS7A01G217100 chr7B 144732887 144737636 4749 True 1176.600000 2010 89.687600 1 4676 5 chr7B.!!$R2 4675
7 TraesCS7A01G217100 chr7D 178936690 178941907 5217 True 1157.800000 3306 88.180600 1 5163 5 chr7D.!!$R3 5162
8 TraesCS7A01G217100 chr7D 179121783 179124540 2757 True 1090.250000 2972 97.024000 1 2797 4 chr7D.!!$R4 2796
9 TraesCS7A01G217100 chr7D 178857615 178862878 5263 True 937.285714 1984 91.143571 1 5196 7 chr7D.!!$R2 5195
10 TraesCS7A01G217100 chr7D 178988568 178990013 1445 True 737.000000 737 76.278000 2908 4347 1 chr7D.!!$R1 1439

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
358 1258 0.036306 CAAACAAGTCGGGGTAGGCT 59.964 55.000 0.0 0.0 0.00 4.58 F
363 1263 0.106116 AAGTCGGGGTAGGCTAGAGG 60.106 60.000 0.0 0.0 0.00 3.69 F
415 1315 0.108207 GCTCTGGCACATGGATAGCT 59.892 55.000 0.0 0.0 38.20 3.32 F
1790 3034 1.204231 GGGTACTTCTGTTCTCCGGAC 59.796 57.143 0.0 0.0 0.00 4.79 F
3061 4407 0.977627 TGAGGACACCCATCATCGCT 60.978 55.000 0.0 0.0 31.99 4.93 F
4116 5519 0.107214 ATGTACCAGGCAATCCCGTG 60.107 55.000 0.0 0.0 39.21 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2218 3462 0.953727 GCAGGTGCATCAGTTGAACA 59.046 50.0 0.00 0.00 35.29 3.18 R
2344 3618 2.941064 CTGATGGATGCTGTGTGTTAGG 59.059 50.0 0.00 0.00 0.00 2.69 R
2460 3734 1.357258 GATGCTGTGAGCTGGACACG 61.357 60.0 0.00 0.00 42.97 4.49 R
3585 4934 2.799126 AGCGTTTTGGATGGGTATCA 57.201 45.0 0.00 0.00 34.90 2.15 R
4281 5690 0.455633 CCGCAGCAAAAGCTGTCATC 60.456 55.0 17.58 1.73 39.75 2.92 R
5473 8543 0.253610 AAATGGGCCCAACATGCATG 59.746 50.0 32.58 25.09 0.00 4.06 R

All possible primers

Listed 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.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
242 688 7.676004 TGGAAGAAAAACAAAGGGAAATATCC 58.324 34.615 0.00 0.00 45.77 2.59
313 1213 8.750515 TCATGTATATGATGTTGTTGTTGGAT 57.249 30.769 0.00 0.00 38.37 3.41
314 1214 9.844257 TCATGTATATGATGTTGTTGTTGGATA 57.156 29.630 0.00 0.00 38.37 2.59
315 1215 9.882996 CATGTATATGATGTTGTTGTTGGATAC 57.117 33.333 0.00 0.00 36.36 2.24
331 1231 4.584327 GGATACAACAACAACAAAGCCT 57.416 40.909 0.00 0.00 0.00 4.58
332 1232 4.944048 GGATACAACAACAACAAAGCCTT 58.056 39.130 0.00 0.00 0.00 4.35
333 1233 5.356426 GGATACAACAACAACAAAGCCTTT 58.644 37.500 0.00 0.00 0.00 3.11
334 1234 6.508777 GGATACAACAACAACAAAGCCTTTA 58.491 36.000 0.00 0.00 0.00 1.85
335 1235 6.640907 GGATACAACAACAACAAAGCCTTTAG 59.359 38.462 0.00 0.00 0.00 1.85
336 1236 5.400066 ACAACAACAACAAAGCCTTTAGT 57.600 34.783 0.00 0.00 0.00 2.24
337 1237 5.407502 ACAACAACAACAAAGCCTTTAGTC 58.592 37.500 0.00 0.00 0.00 2.59
338 1238 4.649088 ACAACAACAAAGCCTTTAGTCC 57.351 40.909 0.00 0.00 0.00 3.85
339 1239 3.383505 ACAACAACAAAGCCTTTAGTCCC 59.616 43.478 0.00 0.00 0.00 4.46
340 1240 3.306472 ACAACAAAGCCTTTAGTCCCA 57.694 42.857 0.00 0.00 0.00 4.37
341 1241 3.637769 ACAACAAAGCCTTTAGTCCCAA 58.362 40.909 0.00 0.00 0.00 4.12
342 1242 4.027437 ACAACAAAGCCTTTAGTCCCAAA 58.973 39.130 0.00 0.00 0.00 3.28
343 1243 4.142026 ACAACAAAGCCTTTAGTCCCAAAC 60.142 41.667 0.00 0.00 0.00 2.93
344 1244 3.637769 ACAAAGCCTTTAGTCCCAAACA 58.362 40.909 0.00 0.00 0.00 2.83
345 1245 4.027437 ACAAAGCCTTTAGTCCCAAACAA 58.973 39.130 0.00 0.00 0.00 2.83
346 1246 4.099419 ACAAAGCCTTTAGTCCCAAACAAG 59.901 41.667 0.00 0.00 0.00 3.16
347 1247 3.595190 AGCCTTTAGTCCCAAACAAGT 57.405 42.857 0.00 0.00 0.00 3.16
348 1248 3.487372 AGCCTTTAGTCCCAAACAAGTC 58.513 45.455 0.00 0.00 0.00 3.01
349 1249 2.225727 GCCTTTAGTCCCAAACAAGTCG 59.774 50.000 0.00 0.00 0.00 4.18
350 1250 2.812011 CCTTTAGTCCCAAACAAGTCGG 59.188 50.000 0.00 0.00 0.00 4.79
351 1251 2.554370 TTAGTCCCAAACAAGTCGGG 57.446 50.000 2.08 2.08 41.76 5.14
352 1252 0.688487 TAGTCCCAAACAAGTCGGGG 59.312 55.000 7.57 5.55 40.68 5.73
353 1253 1.149854 GTCCCAAACAAGTCGGGGT 59.850 57.895 7.57 0.00 41.51 4.95
354 1254 0.397564 GTCCCAAACAAGTCGGGGTA 59.602 55.000 7.57 0.00 41.51 3.69
355 1255 0.688487 TCCCAAACAAGTCGGGGTAG 59.312 55.000 7.57 0.00 41.51 3.18
356 1256 0.322187 CCCAAACAAGTCGGGGTAGG 60.322 60.000 0.00 0.00 36.21 3.18
357 1257 0.958876 CCAAACAAGTCGGGGTAGGC 60.959 60.000 0.00 0.00 0.00 3.93
358 1258 0.036306 CAAACAAGTCGGGGTAGGCT 59.964 55.000 0.00 0.00 0.00 4.58
359 1259 1.276989 CAAACAAGTCGGGGTAGGCTA 59.723 52.381 0.00 0.00 0.00 3.93
360 1260 1.192428 AACAAGTCGGGGTAGGCTAG 58.808 55.000 0.00 0.00 0.00 3.42
361 1261 0.333993 ACAAGTCGGGGTAGGCTAGA 59.666 55.000 0.00 0.00 0.00 2.43
362 1262 1.033574 CAAGTCGGGGTAGGCTAGAG 58.966 60.000 0.00 0.00 0.00 2.43
363 1263 0.106116 AAGTCGGGGTAGGCTAGAGG 60.106 60.000 0.00 0.00 0.00 3.69
364 1264 1.229643 GTCGGGGTAGGCTAGAGGT 59.770 63.158 0.00 0.00 0.00 3.85
365 1265 1.108132 GTCGGGGTAGGCTAGAGGTG 61.108 65.000 0.00 0.00 0.00 4.00
366 1266 1.229359 CGGGGTAGGCTAGAGGTGA 59.771 63.158 0.00 0.00 0.00 4.02
367 1267 0.396695 CGGGGTAGGCTAGAGGTGAA 60.397 60.000 0.00 0.00 0.00 3.18
368 1268 1.875488 GGGGTAGGCTAGAGGTGAAA 58.125 55.000 0.00 0.00 0.00 2.69
369 1269 1.485480 GGGGTAGGCTAGAGGTGAAAC 59.515 57.143 0.00 0.00 0.00 2.78
384 1284 3.531538 GTGAAACCCATAAGATCTCGCA 58.468 45.455 0.00 0.00 0.00 5.10
385 1285 3.938963 GTGAAACCCATAAGATCTCGCAA 59.061 43.478 0.00 0.00 0.00 4.85
386 1286 3.938963 TGAAACCCATAAGATCTCGCAAC 59.061 43.478 0.00 0.00 0.00 4.17
387 1287 2.622064 ACCCATAAGATCTCGCAACC 57.378 50.000 0.00 0.00 0.00 3.77
388 1288 1.837439 ACCCATAAGATCTCGCAACCA 59.163 47.619 0.00 0.00 0.00 3.67
389 1289 2.238646 ACCCATAAGATCTCGCAACCAA 59.761 45.455 0.00 0.00 0.00 3.67
390 1290 2.614057 CCCATAAGATCTCGCAACCAAC 59.386 50.000 0.00 0.00 0.00 3.77
391 1291 3.535561 CCATAAGATCTCGCAACCAACT 58.464 45.455 0.00 0.00 0.00 3.16
392 1292 3.557595 CCATAAGATCTCGCAACCAACTC 59.442 47.826 0.00 0.00 0.00 3.01
393 1293 2.839486 AAGATCTCGCAACCAACTCA 57.161 45.000 0.00 0.00 0.00 3.41
394 1294 3.340814 AAGATCTCGCAACCAACTCAT 57.659 42.857 0.00 0.00 0.00 2.90
395 1295 2.625737 AGATCTCGCAACCAACTCATG 58.374 47.619 0.00 0.00 0.00 3.07
403 1303 3.915575 CCAACTCATGGCTCTGGC 58.084 61.111 0.00 0.00 43.80 4.85
404 1304 1.001764 CCAACTCATGGCTCTGGCA 60.002 57.895 0.00 0.00 43.80 4.92
405 1305 1.310933 CCAACTCATGGCTCTGGCAC 61.311 60.000 0.00 0.00 43.80 5.01
406 1306 0.607217 CAACTCATGGCTCTGGCACA 60.607 55.000 0.00 0.00 41.84 4.57
407 1307 0.330604 AACTCATGGCTCTGGCACAT 59.669 50.000 0.00 0.00 41.84 3.21
408 1308 0.393944 ACTCATGGCTCTGGCACATG 60.394 55.000 8.97 8.97 41.84 3.21
409 1309 1.077285 TCATGGCTCTGGCACATGG 60.077 57.895 13.76 0.00 41.84 3.66
410 1310 1.077285 CATGGCTCTGGCACATGGA 60.077 57.895 7.68 0.00 41.84 3.41
411 1311 0.467474 CATGGCTCTGGCACATGGAT 60.467 55.000 7.68 0.00 41.84 3.41
412 1312 1.142936 ATGGCTCTGGCACATGGATA 58.857 50.000 0.00 0.00 41.84 2.59
413 1313 0.471191 TGGCTCTGGCACATGGATAG 59.529 55.000 0.00 0.00 38.20 2.08
414 1314 0.888285 GGCTCTGGCACATGGATAGC 60.888 60.000 0.00 0.00 38.20 2.97
415 1315 0.108207 GCTCTGGCACATGGATAGCT 59.892 55.000 0.00 0.00 38.20 3.32
416 1316 1.476471 GCTCTGGCACATGGATAGCTT 60.476 52.381 0.00 0.00 38.20 3.74
417 1317 2.219458 CTCTGGCACATGGATAGCTTG 58.781 52.381 0.00 0.00 38.20 4.01
418 1318 1.561076 TCTGGCACATGGATAGCTTGT 59.439 47.619 0.00 0.00 38.20 3.16
419 1319 2.025981 TCTGGCACATGGATAGCTTGTT 60.026 45.455 0.00 0.00 38.20 2.83
420 1320 2.093890 TGGCACATGGATAGCTTGTTG 58.906 47.619 0.00 0.00 0.00 3.33
421 1321 2.094675 GGCACATGGATAGCTTGTTGT 58.905 47.619 0.00 0.00 0.00 3.32
422 1322 2.493278 GGCACATGGATAGCTTGTTGTT 59.507 45.455 0.00 0.00 0.00 2.83
423 1323 3.504863 GCACATGGATAGCTTGTTGTTG 58.495 45.455 0.00 0.00 0.00 3.33
450 1353 9.696917 GATGAGAAACACAATTAATTTCCAACT 57.303 29.630 0.00 0.00 33.64 3.16
494 1483 9.905713 ATAACCAATAGAACTCTATGCTCAAAA 57.094 29.630 0.00 0.00 39.02 2.44
725 1768 5.756347 GCTAATAATTCGTATGGTGGTCACA 59.244 40.000 3.40 0.00 0.00 3.58
869 1936 6.469782 TCTTTGCCTTTTCTTGTTCAGAAT 57.530 33.333 0.00 0.00 41.42 2.40
1030 2274 3.059188 CAGTGAAACACCCAATGTCGTAC 60.059 47.826 0.00 0.00 42.31 3.67
1105 2349 2.800250 CTTTTGAGCTCTTGTGGGGAT 58.200 47.619 16.19 0.00 0.00 3.85
1247 2491 2.429250 TCATGCATGATGGCTTTTCTGG 59.571 45.455 25.42 0.00 32.26 3.86
1790 3034 1.204231 GGGTACTTCTGTTCTCCGGAC 59.796 57.143 0.00 0.00 0.00 4.79
1870 3114 6.712095 GGCATCTTTGGTCATAATCATACTGA 59.288 38.462 0.00 0.00 0.00 3.41
1890 3134 1.609208 TTCTGAGCCCAAAACTGAGC 58.391 50.000 0.00 0.00 0.00 4.26
1955 3199 2.289565 GGACCTACTGTGCCTAATTGC 58.710 52.381 0.00 0.00 0.00 3.56
2048 3292 5.353394 TGGATATCCTTCGCAGTTTTAGT 57.647 39.130 22.35 0.00 36.82 2.24
2114 3358 3.253188 GTCAAATCAAGCAGCCTGTGTTA 59.747 43.478 0.00 0.00 0.00 2.41
2147 3391 1.353804 GCCGTGCACTTTCGTTGAA 59.646 52.632 16.19 0.00 0.00 2.69
2218 3462 3.054576 AGGAATCATCAATCTCCAGCCT 58.945 45.455 0.00 0.00 0.00 4.58
2344 3618 1.467734 CAGATGTTCAAGAGGCTGTGC 59.532 52.381 0.00 0.00 0.00 4.57
2397 3671 6.038356 CCAGCAATCAACAAATATTCAGGAC 58.962 40.000 0.00 0.00 0.00 3.85
2510 3784 2.158957 ACTGTCAACGACCAGAACATGT 60.159 45.455 0.00 0.00 0.00 3.21
2637 3980 3.458857 AGCAATCTTCACCTGATGATCCT 59.541 43.478 4.60 2.87 37.78 3.24
3005 4351 1.341080 CCAGGTGGCTTTTGGTCAAT 58.659 50.000 0.00 0.00 0.00 2.57
3061 4407 0.977627 TGAGGACACCCATCATCGCT 60.978 55.000 0.00 0.00 31.99 4.93
3156 4502 2.191128 AGATGGTGAGCAACAAGGTC 57.809 50.000 0.00 0.00 44.96 3.85
3271 4617 5.847304 AGACTATTTTCATATCAGCGCTCA 58.153 37.500 7.13 0.00 0.00 4.26
3585 4934 1.696063 CGGGCAATCCAATCCTTCAT 58.304 50.000 0.00 0.00 34.36 2.57
3648 4997 4.545823 TTCAGTTTCATTTGTGTCGTCC 57.454 40.909 0.00 0.00 0.00 4.79
4116 5519 0.107214 ATGTACCAGGCAATCCCGTG 60.107 55.000 0.00 0.00 39.21 4.94
4191 5594 2.479837 GCATTCATGGCATCCATTGTG 58.520 47.619 0.00 0.00 42.23 3.33
4281 5690 5.219343 TGATACTGGATATGTTGGCTCTG 57.781 43.478 0.00 0.00 0.00 3.35
4521 5930 3.255888 GCTCCCTTTTTACAAGAACCCTG 59.744 47.826 0.00 0.00 0.00 4.45
4530 5939 8.754991 TTTTTACAAGAACCCTGTTCATCTAA 57.245 30.769 9.42 0.00 0.00 2.10
4576 5985 4.081752 TGCAAACAATTTGTGTGTCTCCTT 60.082 37.500 18.59 0.00 40.60 3.36
4578 5987 5.351189 GCAAACAATTTGTGTGTCTCCTTTT 59.649 36.000 18.59 0.00 40.60 2.27
4628 6042 2.028043 GGTGTTGCTGCCTGTTGC 59.972 61.111 0.00 0.00 41.77 4.17
4638 6053 1.598130 GCCTGTTGCAGTTCTCGGT 60.598 57.895 0.00 0.00 40.77 4.69
4649 6064 8.784994 TGTTGCAGTTCTCGGTAATTATTTTAA 58.215 29.630 0.00 0.00 0.00 1.52
4723 6139 2.837591 TGTAATGGAGCTACAAGCAGGA 59.162 45.455 0.66 0.00 45.56 3.86
4725 6141 2.409948 ATGGAGCTACAAGCAGGAAC 57.590 50.000 0.66 0.00 45.56 3.62
4853 6374 7.109501 TGGCTTCAGTATTCTTGCACTTTATA 58.890 34.615 0.00 0.00 0.00 0.98
4926 6449 9.342308 TGATCCCATATTCTCATCTAAAACAAC 57.658 33.333 0.00 0.00 0.00 3.32
4991 6605 7.875316 TTCGCTTCTCTGATATTATTAGTGC 57.125 36.000 0.00 0.00 0.00 4.40
4992 6606 6.086871 TCGCTTCTCTGATATTATTAGTGCG 58.913 40.000 14.53 14.53 38.72 5.34
5012 6626 4.878397 TGCGTAAAGGGAGTAGAGTAGTAC 59.122 45.833 0.00 0.00 0.00 2.73
5013 6627 4.878397 GCGTAAAGGGAGTAGAGTAGTACA 59.122 45.833 2.52 0.00 0.00 2.90
5014 6628 5.530543 GCGTAAAGGGAGTAGAGTAGTACAT 59.469 44.000 2.52 0.00 0.00 2.29
5015 6629 6.708054 GCGTAAAGGGAGTAGAGTAGTACATA 59.292 42.308 2.52 0.00 0.00 2.29
5016 6630 7.307692 GCGTAAAGGGAGTAGAGTAGTACATAC 60.308 44.444 2.52 5.45 34.30 2.39
5018 6632 9.054922 GTAAAGGGAGTAGAGTAGTACATACTG 57.945 40.741 17.99 0.00 45.06 2.74
5019 6633 6.190346 AGGGAGTAGAGTAGTACATACTGG 57.810 45.833 17.99 0.00 45.06 4.00
5165 8177 3.815401 GGGATCTGTATTGTGTACATGGC 59.185 47.826 0.00 0.00 0.00 4.40
5197 8211 2.033299 CGTTGTTGTGGAAGCAGTTCAT 59.967 45.455 0.00 0.00 33.93 2.57
5288 8302 6.363357 GCAACTGCTTTTAGATTTGGTAACAG 59.637 38.462 0.00 0.00 43.35 3.16
5320 8359 3.132925 CAGACACCCAAAATTTTGCCTG 58.867 45.455 22.90 20.00 36.86 4.85
5352 8391 3.589951 AGGGCATTGCTGATAGTTCAT 57.410 42.857 8.82 0.00 0.00 2.57
5360 8399 6.678655 GCATTGCTGATAGTTCATGCAAGTAA 60.679 38.462 0.16 0.00 43.08 2.24
5361 8400 5.801350 TGCTGATAGTTCATGCAAGTAAC 57.199 39.130 0.00 0.00 34.93 2.50
5382 8421 8.204836 AGTAACATTGTTGTCATATACTCCCTC 58.795 37.037 12.30 0.00 34.06 4.30
5420 8459 6.980416 AAAGCGTTTAGATCTCTATACCCT 57.020 37.500 0.00 0.00 30.04 4.34
5421 8460 6.578163 AAGCGTTTAGATCTCTATACCCTC 57.422 41.667 0.00 0.00 30.04 4.30
5422 8461 5.883180 AGCGTTTAGATCTCTATACCCTCT 58.117 41.667 0.00 0.00 30.04 3.69
5423 8462 5.708230 AGCGTTTAGATCTCTATACCCTCTG 59.292 44.000 0.00 0.00 30.04 3.35
5424 8463 5.706369 GCGTTTAGATCTCTATACCCTCTGA 59.294 44.000 0.00 0.00 30.04 3.27
5425 8464 6.128117 GCGTTTAGATCTCTATACCCTCTGAG 60.128 46.154 0.00 0.00 30.04 3.35
5447 8517 5.978814 AGTATGTCTTGATCCACTGTTACC 58.021 41.667 0.00 0.00 0.00 2.85
5473 8543 0.675837 TCACTGGAAGCTGCTGCATC 60.676 55.000 18.42 14.99 42.74 3.91
5474 8544 0.958876 CACTGGAAGCTGCTGCATCA 60.959 55.000 20.14 12.51 42.74 3.07
5475 8545 0.034380 ACTGGAAGCTGCTGCATCAT 60.034 50.000 20.14 4.75 42.74 2.45
5476 8546 0.382158 CTGGAAGCTGCTGCATCATG 59.618 55.000 20.14 9.69 42.74 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
242 688 4.344104 ACCCCACCAAAATAAGTGATCTG 58.656 43.478 0.00 0.00 36.01 2.90
311 1211 7.200455 ACTAAAGGCTTTGTTGTTGTTGTATC 58.800 34.615 22.32 0.00 0.00 2.24
312 1212 7.107639 ACTAAAGGCTTTGTTGTTGTTGTAT 57.892 32.000 22.32 0.00 0.00 2.29
313 1213 6.404954 GGACTAAAGGCTTTGTTGTTGTTGTA 60.405 38.462 22.32 0.00 0.00 2.41
314 1214 5.400066 ACTAAAGGCTTTGTTGTTGTTGT 57.600 34.783 22.32 0.00 0.00 3.32
315 1215 4.803613 GGACTAAAGGCTTTGTTGTTGTTG 59.196 41.667 22.32 0.00 0.00 3.33
316 1216 4.142026 GGGACTAAAGGCTTTGTTGTTGTT 60.142 41.667 22.32 0.00 0.00 2.83
317 1217 3.383505 GGGACTAAAGGCTTTGTTGTTGT 59.616 43.478 22.32 10.58 0.00 3.32
318 1218 3.383185 TGGGACTAAAGGCTTTGTTGTTG 59.617 43.478 22.32 7.79 0.00 3.33
319 1219 3.637769 TGGGACTAAAGGCTTTGTTGTT 58.362 40.909 22.32 1.84 0.00 2.83
320 1220 3.306472 TGGGACTAAAGGCTTTGTTGT 57.694 42.857 22.32 16.69 0.00 3.32
321 1221 4.142049 TGTTTGGGACTAAAGGCTTTGTTG 60.142 41.667 22.32 13.85 0.00 3.33
322 1222 4.027437 TGTTTGGGACTAAAGGCTTTGTT 58.973 39.130 22.32 8.73 0.00 2.83
323 1223 3.637769 TGTTTGGGACTAAAGGCTTTGT 58.362 40.909 22.32 16.86 0.00 2.83
324 1224 4.099419 ACTTGTTTGGGACTAAAGGCTTTG 59.901 41.667 22.32 13.97 0.00 2.77
325 1225 4.286707 ACTTGTTTGGGACTAAAGGCTTT 58.713 39.130 17.76 17.76 0.00 3.51
326 1226 3.889538 GACTTGTTTGGGACTAAAGGCTT 59.110 43.478 0.00 0.00 0.00 4.35
327 1227 3.487372 GACTTGTTTGGGACTAAAGGCT 58.513 45.455 0.00 0.00 0.00 4.58
328 1228 2.225727 CGACTTGTTTGGGACTAAAGGC 59.774 50.000 0.00 0.00 0.00 4.35
329 1229 2.812011 CCGACTTGTTTGGGACTAAAGG 59.188 50.000 0.00 0.00 0.00 3.11
338 1238 0.958876 GCCTACCCCGACTTGTTTGG 60.959 60.000 0.00 0.00 0.00 3.28
339 1239 0.036306 AGCCTACCCCGACTTGTTTG 59.964 55.000 0.00 0.00 0.00 2.93
340 1240 1.553704 CTAGCCTACCCCGACTTGTTT 59.446 52.381 0.00 0.00 0.00 2.83
341 1241 1.192428 CTAGCCTACCCCGACTTGTT 58.808 55.000 0.00 0.00 0.00 2.83
342 1242 0.333993 TCTAGCCTACCCCGACTTGT 59.666 55.000 0.00 0.00 0.00 3.16
343 1243 1.033574 CTCTAGCCTACCCCGACTTG 58.966 60.000 0.00 0.00 0.00 3.16
344 1244 0.106116 CCTCTAGCCTACCCCGACTT 60.106 60.000 0.00 0.00 0.00 3.01
345 1245 1.287773 ACCTCTAGCCTACCCCGACT 61.288 60.000 0.00 0.00 0.00 4.18
346 1246 1.108132 CACCTCTAGCCTACCCCGAC 61.108 65.000 0.00 0.00 0.00 4.79
347 1247 1.229359 CACCTCTAGCCTACCCCGA 59.771 63.158 0.00 0.00 0.00 5.14
348 1248 0.396695 TTCACCTCTAGCCTACCCCG 60.397 60.000 0.00 0.00 0.00 5.73
349 1249 1.485480 GTTTCACCTCTAGCCTACCCC 59.515 57.143 0.00 0.00 0.00 4.95
350 1250 1.485480 GGTTTCACCTCTAGCCTACCC 59.515 57.143 0.00 0.00 34.73 3.69
351 1251 1.485480 GGGTTTCACCTCTAGCCTACC 59.515 57.143 0.00 0.00 38.64 3.18
352 1252 2.185387 TGGGTTTCACCTCTAGCCTAC 58.815 52.381 0.00 0.00 38.64 3.18
353 1253 2.634639 TGGGTTTCACCTCTAGCCTA 57.365 50.000 0.00 0.00 38.64 3.93
354 1254 1.972588 ATGGGTTTCACCTCTAGCCT 58.027 50.000 0.00 0.00 38.64 4.58
355 1255 3.454812 TCTTATGGGTTTCACCTCTAGCC 59.545 47.826 0.00 0.00 38.64 3.93
356 1256 4.755266 TCTTATGGGTTTCACCTCTAGC 57.245 45.455 0.00 0.00 38.64 3.42
357 1257 6.515862 CGAGATCTTATGGGTTTCACCTCTAG 60.516 46.154 0.00 0.00 38.64 2.43
358 1258 5.302059 CGAGATCTTATGGGTTTCACCTCTA 59.698 44.000 0.00 0.00 38.64 2.43
359 1259 4.100189 CGAGATCTTATGGGTTTCACCTCT 59.900 45.833 0.00 0.00 38.64 3.69
360 1260 4.372656 CGAGATCTTATGGGTTTCACCTC 58.627 47.826 0.00 0.00 38.64 3.85
361 1261 3.432326 GCGAGATCTTATGGGTTTCACCT 60.432 47.826 0.00 0.00 38.64 4.00
362 1262 2.872858 GCGAGATCTTATGGGTTTCACC 59.127 50.000 0.00 0.00 37.60 4.02
363 1263 3.531538 TGCGAGATCTTATGGGTTTCAC 58.468 45.455 0.00 0.00 0.00 3.18
364 1264 3.904800 TGCGAGATCTTATGGGTTTCA 57.095 42.857 0.00 0.00 0.00 2.69
365 1265 3.312697 GGTTGCGAGATCTTATGGGTTTC 59.687 47.826 0.00 0.00 0.00 2.78
366 1266 3.279434 GGTTGCGAGATCTTATGGGTTT 58.721 45.455 0.00 0.00 0.00 3.27
367 1267 2.238646 TGGTTGCGAGATCTTATGGGTT 59.761 45.455 0.00 0.00 0.00 4.11
368 1268 1.837439 TGGTTGCGAGATCTTATGGGT 59.163 47.619 0.00 0.00 0.00 4.51
369 1269 2.614057 GTTGGTTGCGAGATCTTATGGG 59.386 50.000 0.00 0.00 0.00 4.00
370 1270 3.535561 AGTTGGTTGCGAGATCTTATGG 58.464 45.455 0.00 0.00 0.00 2.74
371 1271 4.183865 TGAGTTGGTTGCGAGATCTTATG 58.816 43.478 0.00 0.00 0.00 1.90
372 1272 4.471904 TGAGTTGGTTGCGAGATCTTAT 57.528 40.909 0.00 0.00 0.00 1.73
373 1273 3.953712 TGAGTTGGTTGCGAGATCTTA 57.046 42.857 0.00 0.00 0.00 2.10
374 1274 2.839486 TGAGTTGGTTGCGAGATCTT 57.161 45.000 0.00 0.00 0.00 2.40
375 1275 2.625737 CATGAGTTGGTTGCGAGATCT 58.374 47.619 0.00 0.00 0.00 2.75
376 1276 1.667724 CCATGAGTTGGTTGCGAGATC 59.332 52.381 0.00 0.00 40.99 2.75
377 1277 1.742761 CCATGAGTTGGTTGCGAGAT 58.257 50.000 0.00 0.00 40.99 2.75
378 1278 3.231734 CCATGAGTTGGTTGCGAGA 57.768 52.632 0.00 0.00 40.99 4.04
387 1287 0.607217 TGTGCCAGAGCCATGAGTTG 60.607 55.000 0.00 0.00 38.69 3.16
388 1288 0.330604 ATGTGCCAGAGCCATGAGTT 59.669 50.000 0.00 0.00 38.69 3.01
389 1289 0.393944 CATGTGCCAGAGCCATGAGT 60.394 55.000 0.00 0.00 44.14 3.41
390 1290 1.101635 CCATGTGCCAGAGCCATGAG 61.102 60.000 14.22 5.17 44.14 2.90
391 1291 1.077285 CCATGTGCCAGAGCCATGA 60.077 57.895 14.22 0.00 44.14 3.07
392 1292 0.467474 ATCCATGTGCCAGAGCCATG 60.467 55.000 8.59 8.59 42.54 3.66
393 1293 1.073444 CTATCCATGTGCCAGAGCCAT 59.927 52.381 0.00 0.00 38.69 4.40
394 1294 0.471191 CTATCCATGTGCCAGAGCCA 59.529 55.000 0.00 0.00 38.69 4.75
395 1295 0.888285 GCTATCCATGTGCCAGAGCC 60.888 60.000 0.00 0.00 38.69 4.70
396 1296 0.108207 AGCTATCCATGTGCCAGAGC 59.892 55.000 0.00 0.00 40.48 4.09
397 1297 2.219458 CAAGCTATCCATGTGCCAGAG 58.781 52.381 0.00 0.00 0.00 3.35
398 1298 1.561076 ACAAGCTATCCATGTGCCAGA 59.439 47.619 0.00 0.00 0.00 3.86
399 1299 2.048444 ACAAGCTATCCATGTGCCAG 57.952 50.000 0.00 0.00 0.00 4.85
400 1300 2.093890 CAACAAGCTATCCATGTGCCA 58.906 47.619 0.00 0.00 0.00 4.92
401 1301 2.094675 ACAACAAGCTATCCATGTGCC 58.905 47.619 0.00 0.00 0.00 5.01
402 1302 3.504863 CAACAACAAGCTATCCATGTGC 58.495 45.455 0.00 0.00 0.00 4.57
403 1303 3.758023 TCCAACAACAAGCTATCCATGTG 59.242 43.478 0.00 0.00 0.00 3.21
404 1304 4.032960 TCCAACAACAAGCTATCCATGT 57.967 40.909 0.00 0.00 0.00 3.21
405 1305 4.641541 TCATCCAACAACAAGCTATCCATG 59.358 41.667 0.00 0.00 0.00 3.66
406 1306 4.858850 TCATCCAACAACAAGCTATCCAT 58.141 39.130 0.00 0.00 0.00 3.41
407 1307 4.019411 TCTCATCCAACAACAAGCTATCCA 60.019 41.667 0.00 0.00 0.00 3.41
408 1308 4.517285 TCTCATCCAACAACAAGCTATCC 58.483 43.478 0.00 0.00 0.00 2.59
409 1309 6.072508 TGTTTCTCATCCAACAACAAGCTATC 60.073 38.462 0.00 0.00 29.81 2.08
410 1310 5.769662 TGTTTCTCATCCAACAACAAGCTAT 59.230 36.000 0.00 0.00 29.81 2.97
411 1311 5.008613 GTGTTTCTCATCCAACAACAAGCTA 59.991 40.000 0.00 0.00 34.70 3.32
412 1312 3.953612 TGTTTCTCATCCAACAACAAGCT 59.046 39.130 0.00 0.00 29.81 3.74
413 1313 4.044426 GTGTTTCTCATCCAACAACAAGC 58.956 43.478 0.00 0.00 34.70 4.01
414 1314 5.247507 TGTGTTTCTCATCCAACAACAAG 57.752 39.130 0.00 0.00 34.70 3.16
415 1315 5.651387 TTGTGTTTCTCATCCAACAACAA 57.349 34.783 0.00 0.00 34.70 2.83
416 1316 5.850557 ATTGTGTTTCTCATCCAACAACA 57.149 34.783 0.00 0.00 34.70 3.33
417 1317 8.816640 ATTAATTGTGTTTCTCATCCAACAAC 57.183 30.769 0.00 0.00 34.70 3.32
418 1318 9.829507 AAATTAATTGTGTTTCTCATCCAACAA 57.170 25.926 0.39 0.00 34.70 2.83
419 1319 9.474920 GAAATTAATTGTGTTTCTCATCCAACA 57.525 29.630 0.39 0.00 0.00 3.33
420 1320 8.925700 GGAAATTAATTGTGTTTCTCATCCAAC 58.074 33.333 0.39 0.00 33.51 3.77
421 1321 8.646004 TGGAAATTAATTGTGTTTCTCATCCAA 58.354 29.630 0.39 0.00 33.51 3.53
422 1322 8.187913 TGGAAATTAATTGTGTTTCTCATCCA 57.812 30.769 0.39 4.34 33.51 3.41
423 1323 8.925700 GTTGGAAATTAATTGTGTTTCTCATCC 58.074 33.333 0.39 1.75 33.51 3.51
869 1936 9.705103 AAGGATTCAAAGATAATTCAAGGATGA 57.295 29.630 0.00 0.00 0.00 2.92
1030 2274 2.626266 GGGGTAATAAATTTCCGCTGGG 59.374 50.000 0.00 0.00 37.25 4.45
1105 2349 8.205512 TCCAAGCAGTACCAAATATTTACGATA 58.794 33.333 0.00 0.00 0.00 2.92
1247 2491 6.237861 GCAGTAAAAGAACACCTCATATCGTC 60.238 42.308 0.00 0.00 0.00 4.20
1890 3134 3.275617 TTGGTCCTTATTCCATGTCCG 57.724 47.619 0.00 0.00 33.50 4.79
2031 3275 4.015872 TCCAACTAAAACTGCGAAGGAT 57.984 40.909 0.00 0.00 0.00 3.24
2048 3292 3.140144 AGGTCCCTGAACAAAGAATCCAA 59.860 43.478 0.00 0.00 0.00 3.53
2087 3331 2.560105 AGGCTGCTTGATTTGACCTTTC 59.440 45.455 0.00 0.00 0.00 2.62
2218 3462 0.953727 GCAGGTGCATCAGTTGAACA 59.046 50.000 0.00 0.00 35.29 3.18
2243 3487 5.186256 TGAATGTTGCTCAGGGGTATTAA 57.814 39.130 0.00 0.00 0.00 1.40
2344 3618 2.941064 CTGATGGATGCTGTGTGTTAGG 59.059 50.000 0.00 0.00 0.00 2.69
2460 3734 1.357258 GATGCTGTGAGCTGGACACG 61.357 60.000 0.00 0.00 42.97 4.49
2510 3784 5.003160 CCATGTTAGACACAACATCCTTGA 58.997 41.667 0.00 0.00 45.18 3.02
2637 3980 3.758755 ACTGAAAGAGCAGTCATGTCA 57.241 42.857 0.00 0.00 45.54 3.58
3005 4351 7.226128 CAGCAGCTGAATGATGATCTTTACTTA 59.774 37.037 20.43 0.00 38.89 2.24
3061 4407 6.417258 TGAGATAGAAGAATGCAATGAACCA 58.583 36.000 0.00 0.00 0.00 3.67
3156 4502 3.722295 AATGCACGCCGTTCGGTG 61.722 61.111 20.80 20.80 43.86 4.94
3271 4617 7.050377 AGAACATAAGCAAGTACACTGCATAT 58.950 34.615 18.76 14.36 0.00 1.78
3585 4934 2.799126 AGCGTTTTGGATGGGTATCA 57.201 45.000 0.00 0.00 34.90 2.15
3990 5393 8.097038 AGCATCAGATACTTGTGTCTCTTTTTA 58.903 33.333 0.00 0.00 28.78 1.52
3992 5395 6.471146 AGCATCAGATACTTGTGTCTCTTTT 58.529 36.000 0.00 0.00 28.78 2.27
4191 5594 1.941294 CTCAGCAGAAGCATGATCACC 59.059 52.381 0.00 0.00 45.49 4.02
4242 5651 7.940688 TCCAGTATCATGATCAAGTGCAATATT 59.059 33.333 12.53 0.00 0.00 1.28
4243 5652 7.455891 TCCAGTATCATGATCAAGTGCAATAT 58.544 34.615 12.53 0.00 0.00 1.28
4281 5690 0.455633 CCGCAGCAAAAGCTGTCATC 60.456 55.000 17.58 1.73 39.75 2.92
4406 5815 1.219393 CCCTCTCTTGGCTTCCGAC 59.781 63.158 0.00 0.00 0.00 4.79
4443 5852 2.169769 TGAAACAGGTTCAGGACGTCTT 59.830 45.455 16.46 4.52 41.47 3.01
4576 5985 8.825745 GGTCAAAACATGAAGAAAAATGCTAAA 58.174 29.630 0.00 0.00 40.50 1.85
4578 5987 7.652909 CAGGTCAAAACATGAAGAAAAATGCTA 59.347 33.333 0.00 0.00 39.53 3.49
4649 6064 5.163814 GCTCGAGCTCAAATTTCAAGTATGT 60.164 40.000 29.88 0.00 38.21 2.29
4734 6150 7.149112 CGCTCGTTACATGACTATAATGAAGAC 60.149 40.741 0.00 0.00 0.00 3.01
4745 6161 3.784701 ATTCTCGCTCGTTACATGACT 57.215 42.857 0.00 0.00 0.00 3.41
4926 6449 6.575162 ACAAAATAAGCCTGGTAGTCAAAG 57.425 37.500 0.00 0.00 0.00 2.77
4991 6605 7.930865 AGTATGTACTACTCTACTCCCTTTACG 59.069 40.741 0.00 0.00 35.73 3.18
4992 6606 9.054922 CAGTATGTACTACTCTACTCCCTTTAC 57.945 40.741 0.00 0.00 38.68 2.01
5018 6632 1.595109 GCAAAGCCTTGGTGTTGCC 60.595 57.895 14.36 0.00 40.35 4.52
5019 6633 0.461693 TTGCAAAGCCTTGGTGTTGC 60.462 50.000 16.88 16.88 45.19 4.17
5165 8177 1.204062 CAACAACGGCAGTAGCACG 59.796 57.895 0.00 0.00 44.61 5.34
5177 8191 3.715628 ATGAACTGCTTCCACAACAAC 57.284 42.857 0.00 0.00 0.00 3.32
5178 8192 4.036262 GTGTATGAACTGCTTCCACAACAA 59.964 41.667 0.00 0.00 0.00 2.83
5197 8211 9.244292 TGTTACCAAATTATGCATTTAGGTGTA 57.756 29.630 3.54 0.00 37.11 2.90
5294 8308 5.124617 GGCAAAATTTTGGGTGTCTGAAAAA 59.875 36.000 27.60 0.00 38.57 1.94
5295 8309 4.637977 GGCAAAATTTTGGGTGTCTGAAAA 59.362 37.500 27.60 0.00 38.57 2.29
5320 8359 1.325476 AATGCCCTAAAGCTGCAGGC 61.325 55.000 17.12 10.04 44.13 4.85
5352 8391 8.560355 AGTATATGACAACAATGTTACTTGCA 57.440 30.769 0.00 0.00 40.74 4.08
5360 8399 5.453339 CGGAGGGAGTATATGACAACAATGT 60.453 44.000 0.00 0.00 44.25 2.71
5361 8400 4.991056 CGGAGGGAGTATATGACAACAATG 59.009 45.833 0.00 0.00 0.00 2.82
5398 8437 6.207810 CAGAGGGTATAGAGATCTAAACGCTT 59.792 42.308 13.47 5.46 31.39 4.68
5411 8450 7.150447 TCAAGACATACTCAGAGGGTATAGA 57.850 40.000 1.53 0.00 0.00 1.98
5415 8454 5.141182 GGATCAAGACATACTCAGAGGGTA 58.859 45.833 1.53 0.00 0.00 3.69
5417 8456 3.963374 TGGATCAAGACATACTCAGAGGG 59.037 47.826 1.53 0.00 0.00 4.30
5418 8457 4.648762 AGTGGATCAAGACATACTCAGAGG 59.351 45.833 1.53 0.00 0.00 3.69
5419 8458 5.126869 ACAGTGGATCAAGACATACTCAGAG 59.873 44.000 0.00 0.00 0.00 3.35
5420 8459 5.019470 ACAGTGGATCAAGACATACTCAGA 58.981 41.667 0.00 0.00 0.00 3.27
5421 8460 5.336150 ACAGTGGATCAAGACATACTCAG 57.664 43.478 0.00 0.00 0.00 3.35
5422 8461 5.745312 AACAGTGGATCAAGACATACTCA 57.255 39.130 0.00 0.00 0.00 3.41
5423 8462 6.043411 GGTAACAGTGGATCAAGACATACTC 58.957 44.000 0.00 0.00 0.00 2.59
5424 8463 5.483937 TGGTAACAGTGGATCAAGACATACT 59.516 40.000 0.00 0.00 46.17 2.12
5425 8464 5.730550 TGGTAACAGTGGATCAAGACATAC 58.269 41.667 0.00 0.00 46.17 2.39
5473 8543 0.253610 AAATGGGCCCAACATGCATG 59.746 50.000 32.58 25.09 0.00 4.06
5474 8544 1.876849 TAAATGGGCCCAACATGCAT 58.123 45.000 32.58 7.43 0.00 3.96
5475 8545 1.649321 TTAAATGGGCCCAACATGCA 58.351 45.000 32.58 8.23 0.00 3.96
5476 8546 4.622260 ATATTAAATGGGCCCAACATGC 57.378 40.909 32.58 0.00 0.00 4.06


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.