Multiple sequence alignment - TraesCS7A01G074400

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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 TraesCS7A01G074400 chr7A 100.000 2813 0 0 1 2813 40177936 40175124 0.000000e+00 5195.0
1 TraesCS7A01G074400 chr7A 80.556 288 48 4 1535 1817 40138024 40137740 6.100000e-52 215.0
2 TraesCS7A01G074400 chr7D 89.958 1414 113 14 1420 2813 40249087 40247683 0.000000e+00 1797.0
3 TraesCS7A01G074400 chr7D 91.774 1240 68 14 1 1235 40250300 40249090 0.000000e+00 1694.0
4 TraesCS7A01G074400 chr7D 82.573 241 40 2 1547 1786 40201983 40201744 7.890000e-51 211.0
5 TraesCS7A01G074400 chr4A 92.522 1257 76 10 1420 2672 646635155 646633913 0.000000e+00 1784.0
6 TraesCS7A01G074400 chr4A 90.698 946 62 16 255 1186 646639530 646638597 0.000000e+00 1236.0
7 TraesCS7A01G074400 chr4A 89.106 716 62 11 532 1237 646635862 646635153 0.000000e+00 876.0
8 TraesCS7A01G074400 chr4A 81.250 288 46 4 1535 1817 646619759 646619475 2.820000e-55 226.0
9 TraesCS7A01G074400 chr4A 77.005 187 39 4 2629 2813 532599450 532599266 1.380000e-18 104.0
10 TraesCS7A01G074400 chr4A 81.890 127 19 4 2629 2753 686629583 686629459 1.380000e-18 104.0
11 TraesCS7A01G074400 chr3A 90.957 188 16 1 1237 1423 466062930 466062743 4.650000e-63 252.0
12 TraesCS7A01G074400 chr5D 88.542 192 21 1 1235 1425 262680539 262680348 6.060000e-57 231.0
13 TraesCS7A01G074400 chr4D 87.895 190 20 3 1235 1422 62477126 62476938 1.310000e-53 220.0
14 TraesCS7A01G074400 chr4D 87.363 182 14 5 365 546 68663820 68663992 1.710000e-47 200.0
15 TraesCS7A01G074400 chr7B 86.598 194 23 3 1236 1427 11678548 11678356 7.890000e-51 211.0
16 TraesCS7A01G074400 chr7B 87.861 173 15 3 362 534 74657991 74658157 6.150000e-47 198.0
17 TraesCS7A01G074400 chr7B 85.870 184 21 4 1242 1422 734383499 734383318 1.030000e-44 191.0
18 TraesCS7A01G074400 chr7B 83.529 170 22 4 365 534 339685441 339685604 1.350000e-33 154.0
19 TraesCS7A01G074400 chr6D 86.813 182 23 1 1245 1425 295618453 295618272 4.750000e-48 202.0
20 TraesCS7A01G074400 chr3B 88.824 170 12 3 365 534 540175090 540174928 4.750000e-48 202.0
21 TraesCS7A01G074400 chr3B 85.294 170 18 2 365 534 539939023 539938861 4.820000e-38 169.0
22 TraesCS7A01G074400 chr2B 85.185 189 27 1 1235 1422 763962603 763962415 2.860000e-45 193.0
23 TraesCS7A01G074400 chr2B 86.364 176 16 2 365 540 478189799 478189632 4.790000e-43 185.0
24 TraesCS7A01G074400 chr1B 86.188 181 21 4 1241 1419 334322348 334322526 2.860000e-45 193.0
25 TraesCS7A01G074400 chr1B 94.286 35 1 1 2627 2660 20577315 20577281 5.000000e-03 52.8
26 TraesCS7A01G074400 chrUn 86.782 174 16 4 364 537 22162695 22162861 1.330000e-43 187.0
27 TraesCS7A01G074400 chr5A 87.578 161 13 5 365 525 531233383 531233536 2.230000e-41 180.0
28 TraesCS7A01G074400 chr4B 86.792 159 20 1 1233 1390 61314102 61314260 2.880000e-40 176.0
29 TraesCS7A01G074400 chr4B 97.917 48 1 0 2676 2723 364487109 364487156 1.800000e-12 84.2
30 TraesCS7A01G074400 chr6A 86.164 159 15 4 364 522 574159537 574159688 6.230000e-37 165.0
31 TraesCS7A01G074400 chr1D 91.589 107 8 1 1312 1417 484616344 484616450 2.260000e-31 147.0


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 TraesCS7A01G074400 chr7A 40175124 40177936 2812 True 5195.000000 5195 100.000000 1 2813 1 chr7A.!!$R2 2812
1 TraesCS7A01G074400 chr7D 40247683 40250300 2617 True 1745.500000 1797 90.866000 1 2813 2 chr7D.!!$R2 2812
2 TraesCS7A01G074400 chr4A 646633913 646639530 5617 True 1298.666667 1784 90.775333 255 2672 3 chr4A.!!$R4 2417

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
295 296 0.684153 AACCACTATGGGGCACATGC 60.684 55.0 13.7 0.0 43.37 4.06 F
1256 4664 0.750249 GGTGGTGTTTGGTTTCAGGG 59.250 55.0 0.0 0.0 0.00 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1334 4742 0.401738 CAAGGAGGTGCTTCCAAGGA 59.598 55.0 3.2 0.0 39.84 3.36 R
2315 5746 0.550393 TAGGTACACCAATGGCCCCA 60.550 55.0 0.0 0.0 38.89 4.96 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
120 121 6.818644 GCTTCAGATGTATGGACTTCAAGTTA 59.181 38.462 0.00 0.00 33.23 2.24
192 193 6.016610 GTCAATTAGTGGTTGGAAAACTAGCA 60.017 38.462 0.00 0.00 32.01 3.49
224 225 6.403866 ACAAACCACAATGATGCTCTTTAA 57.596 33.333 0.00 0.00 0.00 1.52
243 244 8.911918 TCTTTAAGTTTTATTAGTGCTCCACA 57.088 30.769 0.00 0.00 36.74 4.17
261 262 6.979817 GCTCCACATTTTGCATATGTTTGATA 59.020 34.615 11.16 0.00 34.11 2.15
295 296 0.684153 AACCACTATGGGGCACATGC 60.684 55.000 13.70 0.00 43.37 4.06
309 310 2.099098 GCACATGCGCCTTTATAACCTT 59.901 45.455 4.18 0.00 0.00 3.50
336 337 8.183536 CACAATCTAAATAGCTTGCACATTACA 58.816 33.333 0.00 0.00 33.89 2.41
370 371 8.497910 TCTTCTTATGCATAATTCCTACTCCT 57.502 34.615 19.17 0.00 0.00 3.69
378 379 5.684030 GCATAATTCCTACTCCTTCCGTTCA 60.684 44.000 0.00 0.00 0.00 3.18
396 397 8.882415 TCCGTTCATAAATATAGGTCTTTGTC 57.118 34.615 0.00 0.00 0.00 3.18
472 475 8.604035 CCAAAATGCATCTATATACATCCGTAC 58.396 37.037 0.00 0.00 0.00 3.67
483 486 1.406539 ACATCCGTACGTGGTCCATAC 59.593 52.381 15.21 0.00 0.00 2.39
497 500 6.239204 CGTGGTCCATACTCCATAGTGAAATA 60.239 42.308 0.00 0.00 36.36 1.40
528 531 5.021458 AGACTTGTATTTAGGAACGGAGGA 58.979 41.667 0.00 0.00 0.00 3.71
570 577 3.608241 CGTTCTTCCGTAGCATTTGCAAA 60.608 43.478 15.44 15.44 45.16 3.68
608 615 6.056090 TGGTGTACCAATAAGTTAGCATGA 57.944 37.500 0.24 0.00 44.35 3.07
612 619 7.201617 GGTGTACCAATAAGTTAGCATGAAGAC 60.202 40.741 0.00 0.00 35.64 3.01
623 630 1.804151 GCATGAAGACGTTGTGGCTAA 59.196 47.619 0.00 0.00 0.00 3.09
645 652 9.622004 GCTAAAGGGTAGTCAAAATTTTACTTC 57.378 33.333 2.44 6.02 0.00 3.01
788 795 5.182760 AGAAGAAAATCAGTGCAGATTGGAC 59.817 40.000 2.24 0.00 38.21 4.02
795 802 0.810031 GTGCAGATTGGACGCCGTAT 60.810 55.000 0.00 0.00 0.00 3.06
811 818 3.181469 GCCGTATGTTATGACCTTCCAGA 60.181 47.826 0.00 0.00 0.00 3.86
836 843 8.718102 ATTGACGCTATATACCCATGTAATTC 57.282 34.615 0.00 0.00 0.00 2.17
905 4305 8.197988 ACACTGTTTAATTGCATAGTAGTAGC 57.802 34.615 0.00 0.00 0.00 3.58
918 4322 6.867293 GCATAGTAGTAGCACATTAGTAACCC 59.133 42.308 0.00 0.00 0.00 4.11
933 4337 4.881920 AGTAACCCAACAAATCAATGCAC 58.118 39.130 0.00 0.00 0.00 4.57
940 4344 6.941436 ACCCAACAAATCAATGCACAATTTAT 59.059 30.769 0.00 0.00 0.00 1.40
1011 4415 4.838423 ACCAGCACTGCACTATATATACCA 59.162 41.667 3.30 0.00 0.00 3.25
1045 4449 1.004745 ACACCAGCATAGTGGGGAAAG 59.995 52.381 0.00 0.00 44.81 2.62
1046 4450 1.004745 CACCAGCATAGTGGGGAAAGT 59.995 52.381 0.00 0.00 44.81 2.66
1130 4535 3.798337 GCATGGAAACCAAGAATATTGCG 59.202 43.478 0.00 0.00 36.95 4.85
1139 4544 0.882042 AGAATATTGCGGCGCTCCTG 60.882 55.000 33.26 0.00 0.00 3.86
1190 4595 1.078759 GCACAGGTTCGTCTCCATCG 61.079 60.000 0.00 0.00 0.00 3.84
1205 4613 2.893489 TCCATCGCATGCATAGTAGTCT 59.107 45.455 19.57 0.00 0.00 3.24
1210 4618 4.112634 TCGCATGCATAGTAGTCTTTGTC 58.887 43.478 19.57 0.00 0.00 3.18
1226 4634 6.558014 AGTCTTTGTCATATCCATGGAGATCT 59.442 38.462 19.11 7.89 32.61 2.75
1232 4640 7.887032 TGTCATATCCATGGAGATCTATCCTA 58.113 38.462 19.11 3.65 40.29 2.94
1235 4643 8.573097 TCATATCCATGGAGATCTATCCTAGTT 58.427 37.037 19.11 0.00 40.29 2.24
1236 4644 9.874195 CATATCCATGGAGATCTATCCTAGTTA 57.126 37.037 19.11 1.70 40.29 2.24
1238 4646 6.736581 TCCATGGAGATCTATCCTAGTTAGG 58.263 44.000 11.44 0.00 45.02 2.69
1239 4647 6.278239 TCCATGGAGATCTATCCTAGTTAGGT 59.722 42.308 11.44 0.00 44.02 3.08
1240 4648 6.379703 CCATGGAGATCTATCCTAGTTAGGTG 59.620 46.154 5.56 0.00 44.02 4.00
1241 4649 5.893500 TGGAGATCTATCCTAGTTAGGTGG 58.106 45.833 0.00 0.00 44.02 4.61
1242 4650 5.375956 TGGAGATCTATCCTAGTTAGGTGGT 59.624 44.000 0.00 0.00 44.02 4.16
1243 4651 5.712917 GGAGATCTATCCTAGTTAGGTGGTG 59.287 48.000 0.00 0.00 44.02 4.17
1244 4652 6.282568 AGATCTATCCTAGTTAGGTGGTGT 57.717 41.667 0.00 0.00 44.02 4.16
1245 4653 6.684538 AGATCTATCCTAGTTAGGTGGTGTT 58.315 40.000 0.00 0.00 44.02 3.32
1246 4654 7.133483 AGATCTATCCTAGTTAGGTGGTGTTT 58.867 38.462 0.00 0.00 44.02 2.83
1247 4655 6.540438 TCTATCCTAGTTAGGTGGTGTTTG 57.460 41.667 5.16 0.00 44.02 2.93
1248 4656 4.569719 ATCCTAGTTAGGTGGTGTTTGG 57.430 45.455 5.16 0.00 44.02 3.28
1249 4657 3.320129 TCCTAGTTAGGTGGTGTTTGGT 58.680 45.455 5.16 0.00 44.02 3.67
1250 4658 3.717913 TCCTAGTTAGGTGGTGTTTGGTT 59.282 43.478 5.16 0.00 44.02 3.67
1251 4659 4.166531 TCCTAGTTAGGTGGTGTTTGGTTT 59.833 41.667 5.16 0.00 44.02 3.27
1252 4660 4.517832 CCTAGTTAGGTGGTGTTTGGTTTC 59.482 45.833 0.00 0.00 38.69 2.78
1253 4661 3.970842 AGTTAGGTGGTGTTTGGTTTCA 58.029 40.909 0.00 0.00 0.00 2.69
1254 4662 3.951680 AGTTAGGTGGTGTTTGGTTTCAG 59.048 43.478 0.00 0.00 0.00 3.02
1255 4663 1.775385 AGGTGGTGTTTGGTTTCAGG 58.225 50.000 0.00 0.00 0.00 3.86
1256 4664 0.750249 GGTGGTGTTTGGTTTCAGGG 59.250 55.000 0.00 0.00 0.00 4.45
1257 4665 1.686741 GGTGGTGTTTGGTTTCAGGGA 60.687 52.381 0.00 0.00 0.00 4.20
1258 4666 1.407618 GTGGTGTTTGGTTTCAGGGAC 59.592 52.381 0.00 0.00 0.00 4.46
1259 4667 1.006043 TGGTGTTTGGTTTCAGGGACA 59.994 47.619 0.00 0.00 0.00 4.02
1260 4668 2.316108 GGTGTTTGGTTTCAGGGACAT 58.684 47.619 0.00 0.00 0.00 3.06
1261 4669 2.698274 GGTGTTTGGTTTCAGGGACATT 59.302 45.455 0.00 0.00 0.00 2.71
1262 4670 3.133901 GGTGTTTGGTTTCAGGGACATTT 59.866 43.478 0.00 0.00 0.00 2.32
1263 4671 4.383661 GGTGTTTGGTTTCAGGGACATTTT 60.384 41.667 0.00 0.00 0.00 1.82
1264 4672 5.182487 GTGTTTGGTTTCAGGGACATTTTT 58.818 37.500 0.00 0.00 0.00 1.94
1265 4673 5.064579 GTGTTTGGTTTCAGGGACATTTTTG 59.935 40.000 0.00 0.00 0.00 2.44
1266 4674 5.182487 GTTTGGTTTCAGGGACATTTTTGT 58.818 37.500 0.00 0.00 0.00 2.83
1267 4675 4.399004 TGGTTTCAGGGACATTTTTGTG 57.601 40.909 0.00 0.00 0.00 3.33
1268 4676 3.772025 TGGTTTCAGGGACATTTTTGTGT 59.228 39.130 0.00 0.00 34.39 3.72
1269 4677 4.223923 TGGTTTCAGGGACATTTTTGTGTT 59.776 37.500 0.00 0.00 31.16 3.32
1270 4678 4.570369 GGTTTCAGGGACATTTTTGTGTTG 59.430 41.667 0.00 0.00 31.16 3.33
1271 4679 4.399004 TTCAGGGACATTTTTGTGTTGG 57.601 40.909 0.00 0.00 31.16 3.77
1272 4680 2.697751 TCAGGGACATTTTTGTGTTGGG 59.302 45.455 0.00 0.00 31.16 4.12
1273 4681 2.697751 CAGGGACATTTTTGTGTTGGGA 59.302 45.455 0.00 0.00 31.16 4.37
1274 4682 2.698274 AGGGACATTTTTGTGTTGGGAC 59.302 45.455 0.00 0.00 31.16 4.46
1275 4683 2.698274 GGGACATTTTTGTGTTGGGACT 59.302 45.455 0.00 0.00 31.16 3.85
1276 4684 3.892588 GGGACATTTTTGTGTTGGGACTA 59.107 43.478 0.00 0.00 31.16 2.59
1277 4685 4.022329 GGGACATTTTTGTGTTGGGACTAG 60.022 45.833 0.00 0.00 31.16 2.57
1278 4686 4.825085 GGACATTTTTGTGTTGGGACTAGA 59.175 41.667 0.00 0.00 31.16 2.43
1279 4687 5.300792 GGACATTTTTGTGTTGGGACTAGAA 59.699 40.000 0.00 0.00 31.16 2.10
1280 4688 6.183360 GGACATTTTTGTGTTGGGACTAGAAA 60.183 38.462 0.00 0.00 31.16 2.52
1281 4689 7.176589 ACATTTTTGTGTTGGGACTAGAAAA 57.823 32.000 0.00 0.00 0.00 2.29
1282 4690 7.616313 ACATTTTTGTGTTGGGACTAGAAAAA 58.384 30.769 0.00 0.00 0.00 1.94
1303 4711 6.544928 AAAATCCCTAGCAAACCAAATAGG 57.455 37.500 0.00 0.00 45.67 2.57
1304 4712 5.466127 AATCCCTAGCAAACCAAATAGGA 57.534 39.130 0.00 0.00 41.22 2.94
1305 4713 5.669798 ATCCCTAGCAAACCAAATAGGAT 57.330 39.130 0.00 0.00 41.22 3.24
1306 4714 4.792068 TCCCTAGCAAACCAAATAGGATG 58.208 43.478 0.00 0.00 41.22 3.51
1307 4715 4.476846 TCCCTAGCAAACCAAATAGGATGA 59.523 41.667 0.00 0.00 41.22 2.92
1308 4716 5.044476 TCCCTAGCAAACCAAATAGGATGAA 60.044 40.000 0.00 0.00 41.22 2.57
1309 4717 5.835280 CCCTAGCAAACCAAATAGGATGAAT 59.165 40.000 0.00 0.00 41.22 2.57
1310 4718 6.324770 CCCTAGCAAACCAAATAGGATGAATT 59.675 38.462 0.00 0.00 41.22 2.17
1311 4719 7.147672 CCCTAGCAAACCAAATAGGATGAATTT 60.148 37.037 0.00 0.00 41.22 1.82
1312 4720 8.260114 CCTAGCAAACCAAATAGGATGAATTTT 58.740 33.333 0.00 0.00 41.22 1.82
1313 4721 9.657419 CTAGCAAACCAAATAGGATGAATTTTT 57.343 29.630 0.00 0.00 41.22 1.94
1343 4751 7.643528 GATTTTTGCTAAAAGTCCTTGGAAG 57.356 36.000 11.55 0.00 36.73 3.46
1344 4752 4.584327 TTTGCTAAAAGTCCTTGGAAGC 57.416 40.909 3.96 3.96 0.00 3.86
1345 4753 3.222173 TGCTAAAAGTCCTTGGAAGCA 57.778 42.857 8.42 8.42 0.00 3.91
1346 4754 2.884639 TGCTAAAAGTCCTTGGAAGCAC 59.115 45.455 8.42 0.00 0.00 4.40
1347 4755 2.229062 GCTAAAAGTCCTTGGAAGCACC 59.771 50.000 5.66 0.00 39.54 5.01
1348 4756 2.755952 AAAAGTCCTTGGAAGCACCT 57.244 45.000 0.00 0.00 39.86 4.00
1349 4757 2.278332 AAAGTCCTTGGAAGCACCTC 57.722 50.000 0.00 0.00 39.86 3.85
1350 4758 0.402121 AAGTCCTTGGAAGCACCTCC 59.598 55.000 0.00 0.00 39.86 4.30
1351 4759 0.474660 AGTCCTTGGAAGCACCTCCT 60.475 55.000 0.00 0.00 39.86 3.69
1352 4760 0.402121 GTCCTTGGAAGCACCTCCTT 59.598 55.000 0.00 0.00 39.86 3.36
1353 4761 0.401738 TCCTTGGAAGCACCTCCTTG 59.598 55.000 1.91 0.00 39.86 3.61
1354 4762 0.401738 CCTTGGAAGCACCTCCTTGA 59.598 55.000 1.91 0.00 39.86 3.02
1355 4763 1.612726 CCTTGGAAGCACCTCCTTGAG 60.613 57.143 1.91 0.00 39.86 3.02
1356 4764 1.349026 CTTGGAAGCACCTCCTTGAGA 59.651 52.381 1.91 0.00 39.86 3.27
1357 4765 1.661463 TGGAAGCACCTCCTTGAGAT 58.339 50.000 1.91 0.00 39.86 2.75
1358 4766 1.988107 TGGAAGCACCTCCTTGAGATT 59.012 47.619 1.91 0.00 39.86 2.40
1359 4767 2.026822 TGGAAGCACCTCCTTGAGATTC 60.027 50.000 1.91 0.00 39.86 2.52
1360 4768 2.238395 GGAAGCACCTCCTTGAGATTCT 59.762 50.000 0.00 0.00 35.41 2.40
1361 4769 3.308046 GGAAGCACCTCCTTGAGATTCTT 60.308 47.826 0.00 0.00 35.41 2.52
1362 4770 4.331108 GAAGCACCTCCTTGAGATTCTTT 58.669 43.478 0.00 0.00 0.00 2.52
1363 4771 4.379302 AGCACCTCCTTGAGATTCTTTT 57.621 40.909 0.00 0.00 0.00 2.27
1364 4772 4.734266 AGCACCTCCTTGAGATTCTTTTT 58.266 39.130 0.00 0.00 0.00 1.94
1365 4773 4.764308 AGCACCTCCTTGAGATTCTTTTTC 59.236 41.667 0.00 0.00 0.00 2.29
1366 4774 4.520492 GCACCTCCTTGAGATTCTTTTTCA 59.480 41.667 0.00 0.00 0.00 2.69
1367 4775 5.335504 GCACCTCCTTGAGATTCTTTTTCAG 60.336 44.000 0.00 0.00 0.00 3.02
1368 4776 6.000219 CACCTCCTTGAGATTCTTTTTCAGA 59.000 40.000 0.00 0.00 0.00 3.27
1369 4777 6.488006 CACCTCCTTGAGATTCTTTTTCAGAA 59.512 38.462 0.00 0.00 46.01 3.02
1370 4778 7.013655 CACCTCCTTGAGATTCTTTTTCAGAAA 59.986 37.037 0.00 0.00 45.06 2.52
1371 4779 7.230309 ACCTCCTTGAGATTCTTTTTCAGAAAG 59.770 37.037 0.00 0.00 45.06 2.62
1372 4780 7.230309 CCTCCTTGAGATTCTTTTTCAGAAAGT 59.770 37.037 0.00 0.00 45.06 2.66
1373 4781 8.159344 TCCTTGAGATTCTTTTTCAGAAAGTC 57.841 34.615 0.00 0.00 45.06 3.01
1374 4782 7.229506 TCCTTGAGATTCTTTTTCAGAAAGTCC 59.770 37.037 0.00 0.00 45.06 3.85
1375 4783 7.230309 CCTTGAGATTCTTTTTCAGAAAGTCCT 59.770 37.037 0.00 0.00 45.06 3.85
1376 4784 9.277783 CTTGAGATTCTTTTTCAGAAAGTCCTA 57.722 33.333 0.00 0.00 45.06 2.94
1377 4785 9.627123 TTGAGATTCTTTTTCAGAAAGTCCTAA 57.373 29.630 0.00 0.00 45.06 2.69
1378 4786 9.277783 TGAGATTCTTTTTCAGAAAGTCCTAAG 57.722 33.333 0.00 0.00 45.06 2.18
1379 4787 9.495572 GAGATTCTTTTTCAGAAAGTCCTAAGA 57.504 33.333 3.71 3.71 45.06 2.10
1380 4788 9.853177 AGATTCTTTTTCAGAAAGTCCTAAGAA 57.147 29.630 16.67 16.67 45.06 2.52
1381 4789 9.885934 GATTCTTTTTCAGAAAGTCCTAAGAAC 57.114 33.333 16.67 10.32 45.06 3.01
1382 4790 9.634021 ATTCTTTTTCAGAAAGTCCTAAGAACT 57.366 29.630 16.67 8.06 45.06 3.01
1384 4792 9.765795 TCTTTTTCAGAAAGTCCTAAGAACTAG 57.234 33.333 4.98 0.00 0.00 2.57
1385 4793 9.765795 CTTTTTCAGAAAGTCCTAAGAACTAGA 57.234 33.333 0.00 0.00 0.00 2.43
1390 4798 9.765795 TCAGAAAGTCCTAAGAACTAGAAAAAG 57.234 33.333 0.00 0.00 0.00 2.27
1391 4799 9.549078 CAGAAAGTCCTAAGAACTAGAAAAAGT 57.451 33.333 0.00 0.00 0.00 2.66
1392 4800 9.767228 AGAAAGTCCTAAGAACTAGAAAAAGTC 57.233 33.333 0.00 0.00 0.00 3.01
1393 4801 8.905660 AAAGTCCTAAGAACTAGAAAAAGTCC 57.094 34.615 0.00 0.00 0.00 3.85
1394 4802 7.859026 AGTCCTAAGAACTAGAAAAAGTCCT 57.141 36.000 0.00 0.00 0.00 3.85
1395 4803 8.953223 AGTCCTAAGAACTAGAAAAAGTCCTA 57.047 34.615 0.00 0.00 0.00 2.94
1396 4804 9.027202 AGTCCTAAGAACTAGAAAAAGTCCTAG 57.973 37.037 0.00 0.00 38.57 3.02
1397 4805 8.252417 GTCCTAAGAACTAGAAAAAGTCCTAGG 58.748 40.741 0.82 0.82 37.32 3.02
1398 4806 8.175431 TCCTAAGAACTAGAAAAAGTCCTAGGA 58.825 37.037 7.62 7.62 37.32 2.94
1399 4807 8.252417 CCTAAGAACTAGAAAAAGTCCTAGGAC 58.748 40.741 31.29 31.29 44.86 3.85
1400 4808 6.608539 AGAACTAGAAAAAGTCCTAGGACC 57.391 41.667 33.81 20.19 45.59 4.46
1401 4809 6.082707 AGAACTAGAAAAAGTCCTAGGACCA 58.917 40.000 33.81 12.57 45.59 4.02
1402 4810 6.211785 AGAACTAGAAAAAGTCCTAGGACCAG 59.788 42.308 33.81 21.25 45.59 4.00
1403 4811 5.652324 ACTAGAAAAAGTCCTAGGACCAGA 58.348 41.667 33.81 14.28 45.59 3.86
1404 4812 5.717654 ACTAGAAAAAGTCCTAGGACCAGAG 59.282 44.000 33.81 22.87 45.59 3.35
1405 4813 4.753186 AGAAAAAGTCCTAGGACCAGAGA 58.247 43.478 33.81 0.00 45.59 3.10
1406 4814 5.155905 AGAAAAAGTCCTAGGACCAGAGAA 58.844 41.667 33.81 0.00 45.59 2.87
1407 4815 4.893829 AAAAGTCCTAGGACCAGAGAAC 57.106 45.455 33.81 11.29 45.59 3.01
1408 4816 2.535836 AGTCCTAGGACCAGAGAACC 57.464 55.000 33.81 9.99 45.59 3.62
1409 4817 1.717077 AGTCCTAGGACCAGAGAACCA 59.283 52.381 33.81 0.00 45.59 3.67
1410 4818 2.111972 AGTCCTAGGACCAGAGAACCAA 59.888 50.000 33.81 0.00 45.59 3.67
1411 4819 2.904434 GTCCTAGGACCAGAGAACCAAA 59.096 50.000 28.87 0.00 39.08 3.28
1412 4820 2.904434 TCCTAGGACCAGAGAACCAAAC 59.096 50.000 7.62 0.00 0.00 2.93
1413 4821 2.637872 CCTAGGACCAGAGAACCAAACA 59.362 50.000 1.05 0.00 0.00 2.83
1414 4822 2.640316 AGGACCAGAGAACCAAACAC 57.360 50.000 0.00 0.00 0.00 3.32
1415 4823 1.143073 AGGACCAGAGAACCAAACACC 59.857 52.381 0.00 0.00 0.00 4.16
1416 4824 1.133915 GGACCAGAGAACCAAACACCA 60.134 52.381 0.00 0.00 0.00 4.17
1417 4825 1.947456 GACCAGAGAACCAAACACCAC 59.053 52.381 0.00 0.00 0.00 4.16
1418 4826 1.318576 CCAGAGAACCAAACACCACC 58.681 55.000 0.00 0.00 0.00 4.61
1716 5128 1.874019 CTCGCCGGTCATCTTCACG 60.874 63.158 1.90 0.00 0.00 4.35
1722 5134 1.471287 CCGGTCATCTTCACGTACTCA 59.529 52.381 0.00 0.00 0.00 3.41
1863 5275 8.462143 TCGTGAATAAGACACTACTCAATTTC 57.538 34.615 0.00 0.00 36.29 2.17
1892 5304 3.239449 TCTGCTTTCTGGGTGTCTTCTA 58.761 45.455 0.00 0.00 0.00 2.10
1901 5313 6.121776 TCTGGGTGTCTTCTAGCAATTTTA 57.878 37.500 0.00 0.00 0.00 1.52
1946 5359 5.102346 TGGATAAATAGACTCCCCTACCCTT 60.102 44.000 0.00 0.00 0.00 3.95
1955 5368 4.500452 ACTCCCCTACCCTTCCAATATAC 58.500 47.826 0.00 0.00 0.00 1.47
1957 5370 4.759953 TCCCCTACCCTTCCAATATACTC 58.240 47.826 0.00 0.00 0.00 2.59
1958 5371 3.844804 CCCCTACCCTTCCAATATACTCC 59.155 52.174 0.00 0.00 0.00 3.85
1960 5373 5.222695 CCCCTACCCTTCCAATATACTCCTA 60.223 48.000 0.00 0.00 0.00 2.94
1961 5374 6.513033 CCCTACCCTTCCAATATACTCCTAT 58.487 44.000 0.00 0.00 0.00 2.57
1962 5375 6.966461 CCCTACCCTTCCAATATACTCCTATT 59.034 42.308 0.00 0.00 0.00 1.73
1963 5376 7.461363 CCCTACCCTTCCAATATACTCCTATTT 59.539 40.741 0.00 0.00 0.00 1.40
1964 5377 8.322091 CCTACCCTTCCAATATACTCCTATTTG 58.678 40.741 0.00 0.00 0.00 2.32
1965 5378 7.707467 ACCCTTCCAATATACTCCTATTTGT 57.293 36.000 0.00 0.00 0.00 2.83
1979 5392 3.632145 CCTATTTGTTATGGGTGGCTCAC 59.368 47.826 0.00 0.00 0.00 3.51
2033 5450 1.636003 GGATGTTTCCTCCTCCCAACT 59.364 52.381 0.00 0.00 39.14 3.16
2074 5505 3.465403 CTCCCGCACCTCCTCCAG 61.465 72.222 0.00 0.00 0.00 3.86
2147 5578 1.834188 TCCCCTCGGCAAAATCTTTC 58.166 50.000 0.00 0.00 0.00 2.62
2284 5715 2.046314 CAACGCCTCCCCGTCAAT 60.046 61.111 0.00 0.00 41.16 2.57
2306 5737 1.039233 CCTTGGATGGAGCGGCATTT 61.039 55.000 1.45 0.00 0.00 2.32
2315 5746 1.202348 GGAGCGGCATTTGTAGCTTTT 59.798 47.619 1.45 0.00 40.39 2.27
2330 5761 1.638529 CTTTTGGGGCCATTGGTGTA 58.361 50.000 4.39 0.00 0.00 2.90
2335 5766 0.850784 GGGGCCATTGGTGTACCTAT 59.149 55.000 4.39 0.00 36.82 2.57
2425 5856 6.476378 ACACAATCAACTAACTCCATAGCTT 58.524 36.000 0.00 0.00 0.00 3.74
2431 5862 0.179056 TAACTCCATAGCTTGGCGCC 60.179 55.000 22.73 22.73 46.01 6.53
2432 5863 2.190313 CTCCATAGCTTGGCGCCA 59.810 61.111 29.03 29.03 46.01 5.69
2568 5999 2.309898 CGTTAGCGTGAAAAAGGTGG 57.690 50.000 0.00 0.00 0.00 4.61
2669 6100 4.753662 CTGCCCAGCCATGCCAGT 62.754 66.667 0.00 0.00 0.00 4.00
2713 6144 1.604604 AAGTTGTTGGATCCCACACG 58.395 50.000 17.91 0.00 30.78 4.49
2722 6153 0.037326 GATCCCACACGAGAGCACAA 60.037 55.000 0.00 0.00 0.00 3.33
2767 6198 7.391620 TCCGAAACCTAAGATTTTATGTGTCT 58.608 34.615 1.79 0.00 0.00 3.41
2793 6224 6.912591 CAGCTTCTGAAACTTACGATTTTGTT 59.087 34.615 0.00 0.00 32.44 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 8.863086 ACTCTACCAAGTTACATGTAGTTAACA 58.137 33.333 8.61 0.00 43.86 2.41
48 49 6.560253 AAAAGCACTCTACCAAGTTACATG 57.440 37.500 0.00 0.00 0.00 3.21
51 52 7.153315 ACTCTAAAAGCACTCTACCAAGTTAC 58.847 38.462 0.00 0.00 0.00 2.50
85 86 7.343316 GTCCATACATCTGAAGCTATAGGGTAT 59.657 40.741 1.04 0.00 0.00 2.73
88 89 5.719085 AGTCCATACATCTGAAGCTATAGGG 59.281 44.000 1.04 0.00 0.00 3.53
95 96 5.181748 ACTTGAAGTCCATACATCTGAAGC 58.818 41.667 0.00 0.00 0.00 3.86
120 121 9.686683 ATCTGTTTAATATGCCTAAACTTCACT 57.313 29.630 9.03 0.00 39.14 3.41
192 193 3.766591 TCATTGTGGTTTGTTGACAACCT 59.233 39.130 15.59 0.00 35.28 3.50
224 225 6.868339 GCAAAATGTGGAGCACTAATAAAACT 59.132 34.615 0.00 0.00 35.11 2.66
295 296 7.548196 TTAGATTGTGAAGGTTATAAAGGCG 57.452 36.000 0.00 0.00 0.00 5.52
370 371 9.321562 GACAAAGACCTATATTTATGAACGGAA 57.678 33.333 0.00 0.00 0.00 4.30
378 379 9.930693 GGAATCTCGACAAAGACCTATATTTAT 57.069 33.333 0.00 0.00 0.00 1.40
442 444 8.671921 GGATGTATATAGATGCATTTTGGAGTG 58.328 37.037 0.00 0.00 38.38 3.51
472 475 2.956333 TCACTATGGAGTATGGACCACG 59.044 50.000 0.00 0.00 39.06 4.94
528 531 7.834803 AGAACGCATACCTTAACTAAGTACTT 58.165 34.615 13.68 13.68 0.00 2.24
608 615 1.142262 ACCCTTTAGCCACAACGTCTT 59.858 47.619 0.00 0.00 0.00 3.01
612 619 2.289195 TGACTACCCTTTAGCCACAACG 60.289 50.000 0.00 0.00 0.00 4.10
623 630 8.541899 TTGGAAGTAAAATTTTGACTACCCTT 57.458 30.769 13.76 4.28 0.00 3.95
645 652 8.796475 ACTAATATGGGATTCGATTGATTTTGG 58.204 33.333 0.00 0.00 0.00 3.28
652 659 7.848223 TGCATACTAATATGGGATTCGATTG 57.152 36.000 0.00 0.00 38.97 2.67
781 788 3.183775 GTCATAACATACGGCGTCCAATC 59.816 47.826 19.21 0.00 0.00 2.67
788 795 2.132762 GGAAGGTCATAACATACGGCG 58.867 52.381 4.80 4.80 0.00 6.46
795 802 4.503910 CGTCAATCTGGAAGGTCATAACA 58.496 43.478 0.00 0.00 0.00 2.41
811 818 7.769044 GGAATTACATGGGTATATAGCGTCAAT 59.231 37.037 5.88 0.00 0.00 2.57
891 4291 7.924412 GGTTACTAATGTGCTACTACTATGCAA 59.076 37.037 0.00 0.00 38.50 4.08
892 4292 7.431249 GGTTACTAATGTGCTACTACTATGCA 58.569 38.462 0.00 0.00 0.00 3.96
893 4293 6.867293 GGGTTACTAATGTGCTACTACTATGC 59.133 42.308 0.00 0.00 0.00 3.14
905 4305 7.063308 GCATTGATTTGTTGGGTTACTAATGTG 59.937 37.037 0.00 0.00 0.00 3.21
918 4322 9.961266 CTACATAAATTGTGCATTGATTTGTTG 57.039 29.630 12.40 11.77 39.48 3.33
1073 4478 5.729510 TCCCTTTTGTTTCCTTTTCTTGTG 58.270 37.500 0.00 0.00 0.00 3.33
1130 4535 3.378399 GAGGAGGAACAGGAGCGCC 62.378 68.421 2.29 0.00 0.00 6.53
1139 4544 2.860972 GAAGGGCAGCGAGGAGGAAC 62.861 65.000 0.00 0.00 0.00 3.62
1190 4595 5.998454 ATGACAAAGACTACTATGCATGC 57.002 39.130 11.82 11.82 0.00 4.06
1205 4613 7.681598 AGGATAGATCTCCATGGATATGACAAA 59.318 37.037 16.63 0.00 37.81 2.83
1210 4618 8.780616 AACTAGGATAGATCTCCATGGATATG 57.219 38.462 16.63 3.71 42.77 1.78
1226 4634 5.095809 ACCAAACACCACCTAACTAGGATA 58.904 41.667 9.83 0.00 46.63 2.59
1232 4640 3.951680 CTGAAACCAAACACCACCTAACT 59.048 43.478 0.00 0.00 0.00 2.24
1235 4643 2.423660 CCCTGAAACCAAACACCACCTA 60.424 50.000 0.00 0.00 0.00 3.08
1236 4644 1.687996 CCCTGAAACCAAACACCACCT 60.688 52.381 0.00 0.00 0.00 4.00
1237 4645 0.750249 CCCTGAAACCAAACACCACC 59.250 55.000 0.00 0.00 0.00 4.61
1238 4646 1.407618 GTCCCTGAAACCAAACACCAC 59.592 52.381 0.00 0.00 0.00 4.16
1239 4647 1.006043 TGTCCCTGAAACCAAACACCA 59.994 47.619 0.00 0.00 0.00 4.17
1240 4648 1.770294 TGTCCCTGAAACCAAACACC 58.230 50.000 0.00 0.00 0.00 4.16
1241 4649 4.400529 AAATGTCCCTGAAACCAAACAC 57.599 40.909 0.00 0.00 0.00 3.32
1242 4650 5.181748 CAAAAATGTCCCTGAAACCAAACA 58.818 37.500 0.00 0.00 0.00 2.83
1243 4651 5.064579 CACAAAAATGTCCCTGAAACCAAAC 59.935 40.000 0.00 0.00 0.00 2.93
1244 4652 5.181748 CACAAAAATGTCCCTGAAACCAAA 58.818 37.500 0.00 0.00 0.00 3.28
1245 4653 4.223923 ACACAAAAATGTCCCTGAAACCAA 59.776 37.500 0.00 0.00 0.00 3.67
1246 4654 3.772025 ACACAAAAATGTCCCTGAAACCA 59.228 39.130 0.00 0.00 0.00 3.67
1247 4655 4.400529 ACACAAAAATGTCCCTGAAACC 57.599 40.909 0.00 0.00 0.00 3.27
1248 4656 4.570369 CCAACACAAAAATGTCCCTGAAAC 59.430 41.667 0.00 0.00 30.55 2.78
1249 4657 4.383552 CCCAACACAAAAATGTCCCTGAAA 60.384 41.667 0.00 0.00 30.55 2.69
1250 4658 3.133721 CCCAACACAAAAATGTCCCTGAA 59.866 43.478 0.00 0.00 30.55 3.02
1251 4659 2.697751 CCCAACACAAAAATGTCCCTGA 59.302 45.455 0.00 0.00 30.55 3.86
1252 4660 2.697751 TCCCAACACAAAAATGTCCCTG 59.302 45.455 0.00 0.00 30.55 4.45
1253 4661 2.698274 GTCCCAACACAAAAATGTCCCT 59.302 45.455 0.00 0.00 30.55 4.20
1254 4662 2.698274 AGTCCCAACACAAAAATGTCCC 59.302 45.455 0.00 0.00 30.55 4.46
1255 4663 4.825085 TCTAGTCCCAACACAAAAATGTCC 59.175 41.667 0.00 0.00 30.55 4.02
1256 4664 6.385649 TTCTAGTCCCAACACAAAAATGTC 57.614 37.500 0.00 0.00 30.55 3.06
1257 4665 6.783708 TTTCTAGTCCCAACACAAAAATGT 57.216 33.333 0.00 0.00 0.00 2.71
1279 4687 6.728632 TCCTATTTGGTTTGCTAGGGATTTTT 59.271 34.615 0.00 0.00 37.07 1.94
1280 4688 6.260663 TCCTATTTGGTTTGCTAGGGATTTT 58.739 36.000 0.00 0.00 37.07 1.82
1281 4689 5.837829 TCCTATTTGGTTTGCTAGGGATTT 58.162 37.500 0.00 0.00 37.07 2.17
1282 4690 5.466127 TCCTATTTGGTTTGCTAGGGATT 57.534 39.130 0.00 0.00 37.07 3.01
1283 4691 5.134339 TCATCCTATTTGGTTTGCTAGGGAT 59.866 40.000 0.00 0.00 37.07 3.85
1284 4692 4.476846 TCATCCTATTTGGTTTGCTAGGGA 59.523 41.667 0.00 0.00 37.07 4.20
1285 4693 4.792068 TCATCCTATTTGGTTTGCTAGGG 58.208 43.478 0.00 0.00 37.07 3.53
1286 4694 6.966534 ATTCATCCTATTTGGTTTGCTAGG 57.033 37.500 0.00 0.00 37.07 3.02
1287 4695 9.657419 AAAAATTCATCCTATTTGGTTTGCTAG 57.343 29.630 0.00 0.00 37.07 3.42
1313 4721 9.541143 CAAGGACTTTTAGCAAAAATCCTAAAA 57.459 29.630 18.26 4.64 39.30 1.52
1314 4722 8.147704 CCAAGGACTTTTAGCAAAAATCCTAAA 58.852 33.333 18.26 0.00 39.30 1.85
1315 4723 7.507616 TCCAAGGACTTTTAGCAAAAATCCTAA 59.492 33.333 18.26 9.33 39.30 2.69
1316 4724 7.007723 TCCAAGGACTTTTAGCAAAAATCCTA 58.992 34.615 18.26 6.71 39.30 2.94
1317 4725 5.838521 TCCAAGGACTTTTAGCAAAAATCCT 59.161 36.000 14.52 14.52 40.48 3.24
1318 4726 6.096673 TCCAAGGACTTTTAGCAAAAATCC 57.903 37.500 11.47 11.47 34.18 3.01
1319 4727 6.146184 GCTTCCAAGGACTTTTAGCAAAAATC 59.854 38.462 5.15 0.00 34.18 2.17
1320 4728 5.991606 GCTTCCAAGGACTTTTAGCAAAAAT 59.008 36.000 5.15 0.00 34.18 1.82
1321 4729 5.105146 TGCTTCCAAGGACTTTTAGCAAAAA 60.105 36.000 9.37 0.00 33.58 1.94
1322 4730 4.404073 TGCTTCCAAGGACTTTTAGCAAAA 59.596 37.500 9.37 0.00 0.00 2.44
1323 4731 3.957497 TGCTTCCAAGGACTTTTAGCAAA 59.043 39.130 9.37 0.00 0.00 3.68
1324 4732 3.317993 GTGCTTCCAAGGACTTTTAGCAA 59.682 43.478 12.57 0.00 43.15 3.91
1325 4733 2.884639 GTGCTTCCAAGGACTTTTAGCA 59.115 45.455 8.04 8.04 43.15 3.49
1326 4734 2.229062 GGTGCTTCCAAGGACTTTTAGC 59.771 50.000 10.39 3.37 45.42 3.09
1327 4735 3.753797 GAGGTGCTTCCAAGGACTTTTAG 59.246 47.826 10.39 0.00 45.42 1.85
1328 4736 3.497942 GGAGGTGCTTCCAAGGACTTTTA 60.498 47.826 10.39 0.00 45.42 1.52
1329 4737 2.587522 GAGGTGCTTCCAAGGACTTTT 58.412 47.619 10.39 0.00 45.42 2.27
1330 4738 1.202940 GGAGGTGCTTCCAAGGACTTT 60.203 52.381 10.39 0.63 45.42 2.66
1331 4739 0.402121 GGAGGTGCTTCCAAGGACTT 59.598 55.000 10.39 3.25 45.42 3.01
1332 4740 0.474660 AGGAGGTGCTTCCAAGGACT 60.475 55.000 10.39 0.00 45.42 3.85
1333 4741 0.402121 AAGGAGGTGCTTCCAAGGAC 59.598 55.000 2.48 2.48 45.39 3.85
1334 4742 0.401738 CAAGGAGGTGCTTCCAAGGA 59.598 55.000 3.20 0.00 39.84 3.36
1335 4743 0.401738 TCAAGGAGGTGCTTCCAAGG 59.598 55.000 3.20 0.00 39.84 3.61
1336 4744 1.349026 TCTCAAGGAGGTGCTTCCAAG 59.651 52.381 3.20 0.00 39.84 3.61
1337 4745 1.434188 TCTCAAGGAGGTGCTTCCAA 58.566 50.000 3.20 0.00 39.84 3.53
1338 4746 1.661463 ATCTCAAGGAGGTGCTTCCA 58.339 50.000 3.20 0.00 39.84 3.53
1339 4747 2.238395 AGAATCTCAAGGAGGTGCTTCC 59.762 50.000 0.00 0.00 37.52 3.46
1340 4748 3.625649 AGAATCTCAAGGAGGTGCTTC 57.374 47.619 0.00 0.00 19.26 3.86
1341 4749 4.379302 AAAGAATCTCAAGGAGGTGCTT 57.621 40.909 0.00 0.00 40.14 3.91
1342 4750 4.379302 AAAAGAATCTCAAGGAGGTGCT 57.621 40.909 0.00 0.00 27.96 4.40
1343 4751 4.520492 TGAAAAAGAATCTCAAGGAGGTGC 59.480 41.667 0.00 0.00 0.00 5.01
1344 4752 6.000219 TCTGAAAAAGAATCTCAAGGAGGTG 59.000 40.000 0.00 0.00 29.54 4.00
1345 4753 6.192970 TCTGAAAAAGAATCTCAAGGAGGT 57.807 37.500 0.00 0.00 29.54 3.85
1346 4754 7.230309 ACTTTCTGAAAAAGAATCTCAAGGAGG 59.770 37.037 4.18 0.00 44.46 4.30
1347 4755 8.164058 ACTTTCTGAAAAAGAATCTCAAGGAG 57.836 34.615 4.18 0.00 44.46 3.69
1348 4756 7.229506 GGACTTTCTGAAAAAGAATCTCAAGGA 59.770 37.037 4.18 0.00 44.46 3.36
1349 4757 7.230309 AGGACTTTCTGAAAAAGAATCTCAAGG 59.770 37.037 4.18 0.00 44.46 3.61
1350 4758 8.164058 AGGACTTTCTGAAAAAGAATCTCAAG 57.836 34.615 4.18 0.00 44.46 3.02
1351 4759 9.627123 TTAGGACTTTCTGAAAAAGAATCTCAA 57.373 29.630 4.18 0.00 44.46 3.02
1352 4760 9.277783 CTTAGGACTTTCTGAAAAAGAATCTCA 57.722 33.333 4.18 0.00 44.46 3.27
1353 4761 9.495572 TCTTAGGACTTTCTGAAAAAGAATCTC 57.504 33.333 10.29 0.00 44.46 2.75
1354 4762 9.853177 TTCTTAGGACTTTCTGAAAAAGAATCT 57.147 29.630 16.89 7.56 44.46 2.40
1355 4763 9.885934 GTTCTTAGGACTTTCTGAAAAAGAATC 57.114 33.333 20.83 14.40 44.46 2.52
1356 4764 9.634021 AGTTCTTAGGACTTTCTGAAAAAGAAT 57.366 29.630 20.83 12.38 44.46 2.40
1358 4766 9.765795 CTAGTTCTTAGGACTTTCTGAAAAAGA 57.234 33.333 0.00 7.11 0.00 2.52
1359 4767 9.765795 TCTAGTTCTTAGGACTTTCTGAAAAAG 57.234 33.333 0.00 4.98 0.00 2.27
1364 4772 9.765795 CTTTTTCTAGTTCTTAGGACTTTCTGA 57.234 33.333 0.00 0.00 0.00 3.27
1365 4773 9.549078 ACTTTTTCTAGTTCTTAGGACTTTCTG 57.451 33.333 0.00 0.00 0.00 3.02
1366 4774 9.767228 GACTTTTTCTAGTTCTTAGGACTTTCT 57.233 33.333 0.00 0.00 0.00 2.52
1367 4775 8.991026 GGACTTTTTCTAGTTCTTAGGACTTTC 58.009 37.037 0.00 0.00 0.00 2.62
1368 4776 8.715842 AGGACTTTTTCTAGTTCTTAGGACTTT 58.284 33.333 0.00 0.00 29.32 2.66
1369 4777 8.265108 AGGACTTTTTCTAGTTCTTAGGACTT 57.735 34.615 0.00 0.00 29.32 3.01
1370 4778 7.859026 AGGACTTTTTCTAGTTCTTAGGACT 57.141 36.000 0.00 0.00 29.32 3.85
1371 4779 8.252417 CCTAGGACTTTTTCTAGTTCTTAGGAC 58.748 40.741 1.05 0.00 35.57 3.85
1372 4780 8.175431 TCCTAGGACTTTTTCTAGTTCTTAGGA 58.825 37.037 7.62 4.21 35.57 2.94
1373 4781 8.252417 GTCCTAGGACTTTTTCTAGTTCTTAGG 58.748 40.741 31.12 0.00 41.57 2.69
1374 4782 8.252417 GGTCCTAGGACTTTTTCTAGTTCTTAG 58.748 40.741 35.12 0.00 44.04 2.18
1375 4783 7.731688 TGGTCCTAGGACTTTTTCTAGTTCTTA 59.268 37.037 35.12 3.23 44.04 2.10
1376 4784 6.557633 TGGTCCTAGGACTTTTTCTAGTTCTT 59.442 38.462 35.12 0.00 44.04 2.52
1377 4785 6.082707 TGGTCCTAGGACTTTTTCTAGTTCT 58.917 40.000 35.12 0.00 44.04 3.01
1378 4786 6.210984 TCTGGTCCTAGGACTTTTTCTAGTTC 59.789 42.308 35.12 17.86 44.04 3.01
1379 4787 6.082707 TCTGGTCCTAGGACTTTTTCTAGTT 58.917 40.000 35.12 0.00 44.04 2.24
1380 4788 5.652324 TCTGGTCCTAGGACTTTTTCTAGT 58.348 41.667 35.12 0.00 44.04 2.57
1381 4789 5.952947 TCTCTGGTCCTAGGACTTTTTCTAG 59.047 44.000 35.12 22.83 44.04 2.43
1382 4790 5.900437 TCTCTGGTCCTAGGACTTTTTCTA 58.100 41.667 35.12 16.13 44.04 2.10
1383 4791 4.753186 TCTCTGGTCCTAGGACTTTTTCT 58.247 43.478 35.12 0.00 44.04 2.52
1384 4792 5.239351 GTTCTCTGGTCCTAGGACTTTTTC 58.761 45.833 35.12 21.53 44.04 2.29
1385 4793 4.041815 GGTTCTCTGGTCCTAGGACTTTTT 59.958 45.833 35.12 0.00 44.04 1.94
1386 4794 3.583526 GGTTCTCTGGTCCTAGGACTTTT 59.416 47.826 35.12 0.00 44.04 2.27
1387 4795 3.174779 GGTTCTCTGGTCCTAGGACTTT 58.825 50.000 35.12 0.00 44.04 2.66
1388 4796 2.111972 TGGTTCTCTGGTCCTAGGACTT 59.888 50.000 35.12 0.00 44.04 3.01
1389 4797 1.717077 TGGTTCTCTGGTCCTAGGACT 59.283 52.381 35.12 0.00 44.04 3.85
1390 4798 2.233305 TGGTTCTCTGGTCCTAGGAC 57.767 55.000 30.72 30.72 43.87 3.85
1391 4799 2.904434 GTTTGGTTCTCTGGTCCTAGGA 59.096 50.000 7.62 7.62 0.00 2.94
1392 4800 2.637872 TGTTTGGTTCTCTGGTCCTAGG 59.362 50.000 0.82 0.82 0.00 3.02
1393 4801 3.557264 GGTGTTTGGTTCTCTGGTCCTAG 60.557 52.174 0.00 0.00 0.00 3.02
1394 4802 2.370849 GGTGTTTGGTTCTCTGGTCCTA 59.629 50.000 0.00 0.00 0.00 2.94
1395 4803 1.143073 GGTGTTTGGTTCTCTGGTCCT 59.857 52.381 0.00 0.00 0.00 3.85
1396 4804 1.133915 TGGTGTTTGGTTCTCTGGTCC 60.134 52.381 0.00 0.00 0.00 4.46
1397 4805 1.947456 GTGGTGTTTGGTTCTCTGGTC 59.053 52.381 0.00 0.00 0.00 4.02
1398 4806 1.409661 GGTGGTGTTTGGTTCTCTGGT 60.410 52.381 0.00 0.00 0.00 4.00
1399 4807 1.133792 AGGTGGTGTTTGGTTCTCTGG 60.134 52.381 0.00 0.00 0.00 3.86
1400 4808 2.348411 AGGTGGTGTTTGGTTCTCTG 57.652 50.000 0.00 0.00 0.00 3.35
1401 4809 4.513406 TTAAGGTGGTGTTTGGTTCTCT 57.487 40.909 0.00 0.00 0.00 3.10
1402 4810 5.070685 AGATTAAGGTGGTGTTTGGTTCTC 58.929 41.667 0.00 0.00 0.00 2.87
1403 4811 5.061721 AGATTAAGGTGGTGTTTGGTTCT 57.938 39.130 0.00 0.00 0.00 3.01
1404 4812 5.784578 AAGATTAAGGTGGTGTTTGGTTC 57.215 39.130 0.00 0.00 0.00 3.62
1405 4813 6.780522 ACATAAGATTAAGGTGGTGTTTGGTT 59.219 34.615 0.00 0.00 0.00 3.67
1406 4814 6.311735 ACATAAGATTAAGGTGGTGTTTGGT 58.688 36.000 0.00 0.00 0.00 3.67
1407 4815 6.834168 ACATAAGATTAAGGTGGTGTTTGG 57.166 37.500 0.00 0.00 0.00 3.28
1408 4816 9.787532 CATTACATAAGATTAAGGTGGTGTTTG 57.212 33.333 0.00 0.00 0.00 2.93
1409 4817 9.528489 ACATTACATAAGATTAAGGTGGTGTTT 57.472 29.630 0.00 0.00 0.00 2.83
1410 4818 8.956426 CACATTACATAAGATTAAGGTGGTGTT 58.044 33.333 0.00 0.00 36.69 3.32
1411 4819 8.107095 ACACATTACATAAGATTAAGGTGGTGT 58.893 33.333 9.98 0.00 41.86 4.16
1412 4820 8.506168 ACACATTACATAAGATTAAGGTGGTG 57.494 34.615 9.98 0.00 41.86 4.17
1823 5235 9.909644 TCTTATTCACGAGGAATTAATAGTAGC 57.090 33.333 11.21 0.00 43.76 3.58
1863 5275 1.610522 CCCAGAAAGCAGAACCACTTG 59.389 52.381 0.00 0.00 0.00 3.16
1892 5304 9.323985 TGCACAAAAGTAATTTCTAAAATTGCT 57.676 25.926 9.15 9.15 34.74 3.91
1901 5313 7.288810 TCCAAGATGCACAAAAGTAATTTCT 57.711 32.000 0.00 0.00 0.00 2.52
1920 5332 5.248705 GGGTAGGGGAGTCTATTTATCCAAG 59.751 48.000 0.00 0.00 34.62 3.61
1930 5342 1.702699 TGGAAGGGTAGGGGAGTCTA 58.297 55.000 0.00 0.00 0.00 2.59
1946 5359 9.177927 ACCCATAACAAATAGGAGTATATTGGA 57.822 33.333 0.00 0.00 0.00 3.53
1955 5368 4.137543 GAGCCACCCATAACAAATAGGAG 58.862 47.826 0.00 0.00 0.00 3.69
1957 5370 3.632145 GTGAGCCACCCATAACAAATAGG 59.368 47.826 0.00 0.00 0.00 2.57
1958 5371 4.900635 GTGAGCCACCCATAACAAATAG 57.099 45.455 0.00 0.00 0.00 1.73
1979 5392 4.410400 GTTCTGGGGACGCCAGGG 62.410 72.222 31.78 13.98 36.11 4.45
2074 5505 2.414161 GCAAAGTGCTCAATTCGGGTAC 60.414 50.000 0.00 0.00 40.96 3.34
2169 5600 1.133823 TGTGTGCTCATGTTCACCCTT 60.134 47.619 14.29 0.00 32.51 3.95
2269 5700 2.683933 AGATTGACGGGGAGGCGT 60.684 61.111 0.00 0.00 0.00 5.68
2278 5709 2.988010 TCCATCCAAGGAGATTGACG 57.012 50.000 0.00 0.00 41.83 4.35
2306 5737 1.265236 CAATGGCCCCAAAAGCTACA 58.735 50.000 0.00 0.00 0.00 2.74
2315 5746 0.550393 TAGGTACACCAATGGCCCCA 60.550 55.000 0.00 0.00 38.89 4.96
2330 5761 3.537874 GCTCGTGCGGGGATAGGT 61.538 66.667 0.00 0.00 0.00 3.08
2425 5856 3.451004 GCATGTTGGATGGCGCCA 61.451 61.111 34.80 34.80 35.78 5.69
2431 5862 4.665833 ATCAATCTTGGCATGTTGGATG 57.334 40.909 0.00 0.00 0.00 3.51
2432 5863 5.687166 AAATCAATCTTGGCATGTTGGAT 57.313 34.783 0.00 5.95 0.00 3.41
2557 5988 6.293004 ACAAGATTTCAACCACCTTTTTCA 57.707 33.333 0.00 0.00 0.00 2.69
2617 6048 5.000591 TGTGAATTTCCGCAATCTTGTCTA 58.999 37.500 0.00 0.00 0.00 2.59
2672 6103 2.329339 GATCGCAAGGCAATCGGC 59.671 61.111 0.00 0.00 43.74 5.54
2674 6105 1.353103 GTGGATCGCAAGGCAATCG 59.647 57.895 0.00 0.00 38.47 3.34
2683 6114 1.336440 CCAACAACTTTGTGGATCGCA 59.664 47.619 0.00 0.00 41.31 5.10
2745 6176 8.178313 GCTGAGACACATAAAATCTTAGGTTTC 58.822 37.037 0.00 0.00 29.75 2.78
2767 6198 6.260050 ACAAAATCGTAAGTTTCAGAAGCTGA 59.740 34.615 0.00 0.00 37.39 4.26
2793 6224 2.027003 AAACTTGGTTCGAACGACCA 57.973 45.000 21.34 12.69 0.00 4.02


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

AutoCloner maintained by Alex Coulton.