Multiple sequence alignment - TraesCS5D01G408000

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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 TraesCS5D01G408000 chr5D 100.000 2405 0 0 1 2405 472747020 472744616 0.000000e+00 4442.0
1 TraesCS5D01G408000 chr5D 85.271 516 46 18 1197 1706 472768609 472768118 2.760000e-139 505.0
2 TraesCS5D01G408000 chr5B 90.071 1551 96 29 181 1701 580116580 580115058 0.000000e+00 1958.0
3 TraesCS5D01G408000 chr5B 90.369 623 37 10 1798 2405 580110759 580110145 0.000000e+00 797.0
4 TraesCS5D01G408000 chr5B 90.756 595 30 13 1190 1767 580111346 580110760 0.000000e+00 771.0
5 TraesCS5D01G408000 chr5B 79.671 851 79 45 306 1102 580112280 580111470 5.890000e-146 527.0
6 TraesCS5D01G408000 chr5B 78.284 921 103 56 849 1706 580125225 580124339 9.920000e-139 503.0
7 TraesCS5D01G408000 chr5B 95.758 165 7 0 1 165 580117569 580117405 1.420000e-67 267.0
8 TraesCS5D01G408000 chr5B 100.000 33 0 0 393 425 580112133 580112101 7.180000e-06 62.1
9 TraesCS5D01G408000 chr5A 87.928 1665 115 32 759 2399 592303129 592301527 0.000000e+00 1882.0
10 TraesCS5D01G408000 chr5A 85.368 1032 78 35 634 1646 592475017 592474040 0.000000e+00 1002.0
11 TraesCS5D01G408000 chr5A 85.000 420 23 13 341 746 592303583 592303190 8.060000e-105 390.0
12 TraesCS5D01G408000 chr5A 96.347 219 8 0 1190 1408 592520085 592519867 6.320000e-96 361.0
13 TraesCS5D01G408000 chr5A 85.321 327 32 9 249 568 592475480 592475163 8.290000e-85 324.0
14 TraesCS5D01G408000 chr5A 86.667 120 9 3 577 695 592475113 592475000 2.510000e-25 126.0


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 TraesCS5D01G408000 chr5D 472744616 472747020 2404 True 4442.00 4442 100.000000 1 2405 1 chr5D.!!$R1 2404
1 TraesCS5D01G408000 chr5B 580110145 580117569 7424 True 730.35 1958 91.104167 1 2405 6 chr5B.!!$R2 2404
2 TraesCS5D01G408000 chr5B 580124339 580125225 886 True 503.00 503 78.284000 849 1706 1 chr5B.!!$R1 857
3 TraesCS5D01G408000 chr5A 592301527 592303583 2056 True 1136.00 1882 86.464000 341 2399 2 chr5A.!!$R2 2058
4 TraesCS5D01G408000 chr5A 592474040 592475480 1440 True 484.00 1002 85.785333 249 1646 3 chr5A.!!$R3 1397

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
709 1613 2.43251 CCTTTCCCTCAGACGCTCTAAT 59.567 50.0 0.0 0.0 0.0 1.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2172 7465 0.462581 TTGATCGTGCTGCCATCTCC 60.463 55.0 0.0 0.0 0.0 3.71 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
25 26 7.039313 ACAGTGGGTTTTCTTTCAGTATTTC 57.961 36.000 0.00 0.00 0.00 2.17
80 81 7.935210 CACTGAAACCTAAACTCTAAACCCTAA 59.065 37.037 0.00 0.00 0.00 2.69
105 106 6.829229 TCTGAATTCTAAGAACGTACCTCA 57.171 37.500 7.05 0.00 0.00 3.86
112 113 5.507637 TCTAAGAACGTACCTCAAGGAGAT 58.492 41.667 2.30 0.00 38.94 2.75
128 129 7.640313 TCAAGGAGATGTAAGAGGTAAGAGTA 58.360 38.462 0.00 0.00 0.00 2.59
129 130 7.776030 TCAAGGAGATGTAAGAGGTAAGAGTAG 59.224 40.741 0.00 0.00 0.00 2.57
165 166 9.150348 GTTAATTTTATCAAATGGTGGGTCAAG 57.850 33.333 0.00 0.00 32.57 3.02
166 167 7.552050 AATTTTATCAAATGGTGGGTCAAGA 57.448 32.000 0.00 0.00 32.57 3.02
167 168 6.985653 TTTTATCAAATGGTGGGTCAAGAA 57.014 33.333 0.00 0.00 0.00 2.52
168 169 6.985653 TTTATCAAATGGTGGGTCAAGAAA 57.014 33.333 0.00 0.00 0.00 2.52
171 172 8.657387 TTATCAAATGGTGGGTCAAGAAATTA 57.343 30.769 0.00 0.00 0.00 1.40
172 173 6.588719 TCAAATGGTGGGTCAAGAAATTAG 57.411 37.500 0.00 0.00 0.00 1.73
173 174 5.047377 TCAAATGGTGGGTCAAGAAATTAGC 60.047 40.000 0.00 0.00 0.00 3.09
174 175 3.517296 TGGTGGGTCAAGAAATTAGCA 57.483 42.857 0.00 0.00 0.00 3.49
175 176 4.046286 TGGTGGGTCAAGAAATTAGCAT 57.954 40.909 0.00 0.00 0.00 3.79
177 178 3.763897 GGTGGGTCAAGAAATTAGCATGT 59.236 43.478 0.00 0.00 0.00 3.21
178 179 4.380867 GGTGGGTCAAGAAATTAGCATGTG 60.381 45.833 0.00 0.00 0.00 3.21
179 180 4.218417 GTGGGTCAAGAAATTAGCATGTGT 59.782 41.667 0.00 0.00 0.00 3.72
245 1055 6.207417 TGATGAGAAAACACTTCTCCCAAATC 59.793 38.462 11.04 8.19 43.14 2.17
391 1206 4.518970 TGTTCTGCTTAACCATGTTCCTTC 59.481 41.667 0.00 0.00 0.00 3.46
432 1247 8.612619 CGTCATTTTACTTAACCATGCTAATCT 58.387 33.333 0.00 0.00 0.00 2.40
473 1291 6.435428 GTTTGTTCTATGGTGTTCGTCATTT 58.565 36.000 0.00 0.00 0.00 2.32
474 1292 6.627395 TTGTTCTATGGTGTTCGTCATTTT 57.373 33.333 0.00 0.00 0.00 1.82
475 1293 7.731882 TTGTTCTATGGTGTTCGTCATTTTA 57.268 32.000 0.00 0.00 0.00 1.52
476 1294 7.124347 TGTTCTATGGTGTTCGTCATTTTAC 57.876 36.000 0.00 0.00 0.00 2.01
480 1298 9.491675 TTCTATGGTGTTCGTCATTTTACTTAA 57.508 29.630 0.00 0.00 0.00 1.85
582 1441 9.844790 TCATGTCATGTTATTCTCATTTTTCAC 57.155 29.630 12.54 0.00 0.00 3.18
693 1597 8.593492 AATTAGAAATGCAACAGTTTCCTTTC 57.407 30.769 6.85 5.83 35.46 2.62
709 1613 2.432510 CCTTTCCCTCAGACGCTCTAAT 59.567 50.000 0.00 0.00 0.00 1.73
710 1614 3.637229 CCTTTCCCTCAGACGCTCTAATA 59.363 47.826 0.00 0.00 0.00 0.98
711 1615 4.099573 CCTTTCCCTCAGACGCTCTAATAA 59.900 45.833 0.00 0.00 0.00 1.40
746 1655 8.418662 AGTACTGTTTTTACCATTTCCCTTTTC 58.581 33.333 0.00 0.00 0.00 2.29
747 1656 7.432148 ACTGTTTTTACCATTTCCCTTTTCT 57.568 32.000 0.00 0.00 0.00 2.52
751 1660 7.984617 TGTTTTTACCATTTCCCTTTTCTTGAG 59.015 33.333 0.00 0.00 0.00 3.02
752 1661 6.664428 TTTACCATTTCCCTTTTCTTGAGG 57.336 37.500 0.00 0.00 0.00 3.86
753 1662 4.199002 ACCATTTCCCTTTTCTTGAGGT 57.801 40.909 0.00 0.00 32.15 3.85
754 1663 3.897505 ACCATTTCCCTTTTCTTGAGGTG 59.102 43.478 0.00 0.00 32.15 4.00
756 1665 4.262164 CCATTTCCCTTTTCTTGAGGTGTG 60.262 45.833 0.00 0.00 32.15 3.82
762 1719 3.314080 CCTTTTCTTGAGGTGTGCGTAAA 59.686 43.478 0.00 0.00 0.00 2.01
775 1732 4.802563 GTGTGCGTAAACTATTACCTCTCC 59.197 45.833 0.00 0.00 38.55 3.71
783 1740 3.907221 ACTATTACCTCTCCTGGCGTTA 58.093 45.455 0.00 0.00 0.00 3.18
784 1741 3.890147 ACTATTACCTCTCCTGGCGTTAG 59.110 47.826 0.00 0.00 0.00 2.34
1106 2100 4.080919 TGGATCAGGTTAGTCAAGTGATGG 60.081 45.833 0.00 0.00 0.00 3.51
1134 2128 5.228579 TGTTGTATTGTGTATCGCCATTG 57.771 39.130 0.00 0.00 0.00 2.82
1162 2168 1.602377 GTTCTTTGGTCGTTCCCTGTG 59.398 52.381 0.00 0.00 34.77 3.66
1163 2169 0.834612 TCTTTGGTCGTTCCCTGTGT 59.165 50.000 0.00 0.00 34.77 3.72
1164 2170 2.040939 TCTTTGGTCGTTCCCTGTGTA 58.959 47.619 0.00 0.00 34.77 2.90
1341 6568 2.975799 GCCGGCAACAAGGACGAA 60.976 61.111 24.80 0.00 0.00 3.85
1410 6637 0.323633 CCAAGTGCCCATGATCCACA 60.324 55.000 0.00 0.00 32.09 4.17
1411 6638 1.687054 CCAAGTGCCCATGATCCACAT 60.687 52.381 0.00 0.00 40.17 3.21
1412 6639 1.679680 CAAGTGCCCATGATCCACATC 59.320 52.381 0.00 0.00 37.07 3.06
1413 6640 0.184451 AGTGCCCATGATCCACATCC 59.816 55.000 0.00 0.00 37.07 3.51
1414 6641 0.106569 GTGCCCATGATCCACATCCA 60.107 55.000 0.00 0.00 37.07 3.41
1415 6642 0.106569 TGCCCATGATCCACATCCAC 60.107 55.000 0.00 0.00 37.07 4.02
1420 6647 0.181114 ATGATCCACATCCACCACCG 59.819 55.000 0.00 0.00 33.46 4.94
1503 6751 6.679146 GCATCCCTATCTATCATGTCGTACTG 60.679 46.154 0.00 0.00 0.00 2.74
1505 6753 5.938710 TCCCTATCTATCATGTCGTACTGTC 59.061 44.000 0.00 0.00 0.00 3.51
1592 6864 7.967890 TCCTACTATGTGTTGATAATGCATG 57.032 36.000 0.00 0.00 0.00 4.06
1603 6875 1.324383 TAATGCATGATGCTGGCCTG 58.676 50.000 19.19 4.26 45.31 4.85
1607 6883 2.833582 ATGATGCTGGCCTGCTGC 60.834 61.111 31.50 23.33 40.16 5.25
1624 6900 2.731217 CTGCTATGCCGGTAAAAATGC 58.269 47.619 1.90 0.95 0.00 3.56
1708 6996 7.444183 TGTTCTGTTTCTGTTTTCTATGGGTAG 59.556 37.037 0.00 0.00 0.00 3.18
1718 7006 6.826741 TGTTTTCTATGGGTAGAATTACAGCC 59.173 38.462 0.00 0.98 44.24 4.85
1878 7166 2.494073 AGTTACTCCTCTCCTGAAAGCG 59.506 50.000 0.00 0.00 0.00 4.68
1880 7168 0.543174 ACTCCTCTCCTGAAAGCGGT 60.543 55.000 0.00 0.00 0.00 5.68
1881 7169 1.272536 ACTCCTCTCCTGAAAGCGGTA 60.273 52.381 0.00 0.00 0.00 4.02
1909 7197 2.047274 AATGTGACGCGTCAGGGG 60.047 61.111 39.98 0.00 40.75 4.79
1945 7233 3.842923 CCGCCCTCGCTGAGTCAT 61.843 66.667 0.00 0.00 0.00 3.06
2071 7363 2.646175 CGTGGGATCCAGTGTCGGT 61.646 63.158 15.23 0.00 32.34 4.69
2087 7379 1.554042 CGGTTGTTTGTCCTCGTCCG 61.554 60.000 0.00 0.00 0.00 4.79
2101 7393 1.079336 GTCCGGGTACAGAAGCCAC 60.079 63.158 0.00 0.00 46.87 5.01
2102 7394 2.267961 CCGGGTACAGAAGCCACC 59.732 66.667 0.00 0.00 46.87 4.61
2103 7395 2.267961 CGGGTACAGAAGCCACCC 59.732 66.667 0.00 0.00 46.87 4.61
2110 7402 1.062488 ACAGAAGCCACCCTGTTCCT 61.062 55.000 0.00 0.00 40.40 3.36
2111 7403 0.984230 CAGAAGCCACCCTGTTCCTA 59.016 55.000 0.00 0.00 0.00 2.94
2113 7405 1.351350 AGAAGCCACCCTGTTCCTAAC 59.649 52.381 0.00 0.00 0.00 2.34
2116 7408 0.109723 GCCACCCTGTTCCTAACACA 59.890 55.000 0.00 0.00 36.25 3.72
2118 7410 2.817839 GCCACCCTGTTCCTAACACAAT 60.818 50.000 0.00 0.00 36.25 2.71
2126 7418 7.145323 CCCTGTTCCTAACACAATTTTTACTG 58.855 38.462 0.00 0.00 36.25 2.74
2127 7419 7.013846 CCCTGTTCCTAACACAATTTTTACTGA 59.986 37.037 0.00 0.00 36.25 3.41
2139 7432 6.811170 ACAATTTTTACTGACCAGTGTTGTTG 59.189 34.615 12.54 11.99 42.52 3.33
2150 7443 4.183101 CCAGTGTTGTTGCTGTTTTTCAT 58.817 39.130 0.00 0.00 0.00 2.57
2152 7445 4.268405 CAGTGTTGTTGCTGTTTTTCATCC 59.732 41.667 0.00 0.00 0.00 3.51
2156 7449 2.364970 TGTTGCTGTTTTTCATCCTGGG 59.635 45.455 0.00 0.00 0.00 4.45
2169 7462 5.920193 TCATCCTGGGTGATTGAAAATTC 57.080 39.130 5.31 0.00 0.00 2.17
2172 7465 3.505680 TCCTGGGTGATTGAAAATTCACG 59.494 43.478 0.00 0.00 42.51 4.35
2189 7482 1.953138 CGGAGATGGCAGCACGATC 60.953 63.158 13.32 0.00 33.91 3.69
2249 7543 5.067674 TGGTCTGTTCAGATTTTGAAACCAG 59.932 40.000 5.80 5.12 46.85 4.00
2250 7544 5.507985 GGTCTGTTCAGATTTTGAAACCAGG 60.508 44.000 5.80 0.00 46.85 4.45
2335 7642 1.899534 TAGGGCGTGTTTGGTTGCC 60.900 57.895 0.00 0.00 46.82 4.52
2341 7648 3.893763 TGTTTGGTTGCCCGCACG 61.894 61.111 0.00 0.00 0.00 5.34
2355 7662 1.002900 CCGCACGAACTTCAAACATGT 60.003 47.619 0.00 0.00 0.00 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 7.441157 TCTTCTTTTCGCTGAAATACTGAAAGA 59.559 33.333 4.91 0.00 32.24 2.52
25 26 5.566774 CACTTATTTGCTCTTCTTTTCGCTG 59.433 40.000 0.00 0.00 0.00 5.18
80 81 7.837863 TGAGGTACGTTCTTAGAATTCAGAAT 58.162 34.615 8.44 0.00 31.71 2.40
105 106 7.874252 TCTACTCTTACCTCTTACATCTCCTT 58.126 38.462 0.00 0.00 0.00 3.36
112 113 7.283580 GCTTCAGATCTACTCTTACCTCTTACA 59.716 40.741 0.00 0.00 29.16 2.41
166 167 9.586435 GCCTTCTTAATTTACACATGCTAATTT 57.414 29.630 0.00 0.00 0.00 1.82
167 168 8.971073 AGCCTTCTTAATTTACACATGCTAATT 58.029 29.630 0.00 0.00 0.00 1.40
168 169 8.408601 CAGCCTTCTTAATTTACACATGCTAAT 58.591 33.333 0.00 0.00 0.00 1.73
171 172 5.393461 GCAGCCTTCTTAATTTACACATGCT 60.393 40.000 0.00 0.00 0.00 3.79
172 173 4.800471 GCAGCCTTCTTAATTTACACATGC 59.200 41.667 0.00 0.00 0.00 4.06
173 174 5.953183 TGCAGCCTTCTTAATTTACACATG 58.047 37.500 0.00 0.00 0.00 3.21
174 175 6.389906 GTTGCAGCCTTCTTAATTTACACAT 58.610 36.000 0.00 0.00 0.00 3.21
175 176 5.278758 GGTTGCAGCCTTCTTAATTTACACA 60.279 40.000 13.08 0.00 0.00 3.72
177 178 4.083003 CGGTTGCAGCCTTCTTAATTTACA 60.083 41.667 18.19 0.00 0.00 2.41
178 179 4.412207 CGGTTGCAGCCTTCTTAATTTAC 58.588 43.478 18.19 0.00 0.00 2.01
179 180 3.442273 CCGGTTGCAGCCTTCTTAATTTA 59.558 43.478 18.19 0.00 0.00 1.40
226 1036 6.391227 TTCAGATTTGGGAGAAGTGTTTTC 57.609 37.500 0.00 0.00 0.00 2.29
245 1055 3.064545 GCCGATTTGGTGAGAGATTTCAG 59.935 47.826 0.00 0.00 41.21 3.02
391 1206 9.878599 AGTAAAATGACGAACTTCATAAAACAG 57.121 29.630 0.00 0.00 35.02 3.16
432 1247 5.147330 ACAAACGAGACAACCATCATAGA 57.853 39.130 0.00 0.00 0.00 1.98
582 1441 6.431198 AGCCATTAAATACCACAGTTTACG 57.569 37.500 0.00 0.00 0.00 3.18
693 1597 6.920758 GCATATATTATTAGAGCGTCTGAGGG 59.079 42.308 0.00 0.00 0.00 4.30
724 1628 7.984617 TCAAGAAAAGGGAAATGGTAAAAACAG 59.015 33.333 0.00 0.00 0.00 3.16
739 1648 0.593128 CGCACACCTCAAGAAAAGGG 59.407 55.000 0.00 0.00 38.29 3.95
746 1655 5.063060 GGTAATAGTTTACGCACACCTCAAG 59.937 44.000 0.00 0.00 38.90 3.02
747 1656 4.931002 GGTAATAGTTTACGCACACCTCAA 59.069 41.667 0.00 0.00 38.90 3.02
751 1660 4.752146 AGAGGTAATAGTTTACGCACACC 58.248 43.478 0.00 0.00 38.90 4.16
752 1661 4.802563 GGAGAGGTAATAGTTTACGCACAC 59.197 45.833 0.00 0.00 38.90 3.82
753 1662 4.708421 AGGAGAGGTAATAGTTTACGCACA 59.292 41.667 0.00 0.00 38.90 4.57
754 1663 5.041940 CAGGAGAGGTAATAGTTTACGCAC 58.958 45.833 0.00 0.00 38.90 5.34
756 1665 4.618965 CCAGGAGAGGTAATAGTTTACGC 58.381 47.826 0.00 0.00 38.90 4.42
762 1719 2.456073 ACGCCAGGAGAGGTAATAGT 57.544 50.000 0.00 0.00 0.00 2.12
775 1732 0.608640 AGGGTCAAGACTAACGCCAG 59.391 55.000 0.00 0.00 0.00 4.85
783 1740 7.855784 AATTTTTAATCCAAGGGTCAAGACT 57.144 32.000 0.00 0.00 0.00 3.24
784 1741 9.586435 CATAATTTTTAATCCAAGGGTCAAGAC 57.414 33.333 0.00 0.00 0.00 3.01
1022 2013 2.237534 GAGGAGGAGAGCCACAGTGC 62.238 65.000 0.00 0.00 36.29 4.40
1106 2100 6.136071 GGCGATACACAATACAACATCAATC 58.864 40.000 0.00 0.00 0.00 2.67
1134 2128 1.940613 ACGACCAAAGAACTTCAGCAC 59.059 47.619 0.00 0.00 0.00 4.40
1162 2168 4.453136 ACCACGGTTAACATCAACACATAC 59.547 41.667 8.10 0.00 0.00 2.39
1163 2169 4.452795 CACCACGGTTAACATCAACACATA 59.547 41.667 8.10 0.00 0.00 2.29
1164 2170 3.252215 CACCACGGTTAACATCAACACAT 59.748 43.478 8.10 0.00 0.00 3.21
1592 6864 1.228184 ATAGCAGCAGGCCAGCATC 60.228 57.895 23.38 12.87 46.50 3.91
1603 6875 2.731217 CATTTTTACCGGCATAGCAGC 58.269 47.619 0.00 0.00 0.00 5.25
1607 6883 2.399396 CGGCATTTTTACCGGCATAG 57.601 50.000 0.00 0.00 45.74 2.23
1624 6900 3.242739 GGTTCATTATTACAGCACAGCGG 60.243 47.826 0.00 0.00 0.00 5.52
1708 6996 6.494842 TCGCAAATATTCTTGGCTGTAATTC 58.505 36.000 0.00 0.00 0.00 2.17
1718 7006 5.026462 CACTCTTGCTCGCAAATATTCTTG 58.974 41.667 5.77 0.00 35.33 3.02
1848 7136 3.020984 GAGAGGAGTAACTGACAGGGAG 58.979 54.545 7.51 0.00 0.00 4.30
1851 7139 2.757868 CAGGAGAGGAGTAACTGACAGG 59.242 54.545 7.51 0.00 0.00 4.00
1854 7142 4.619628 GCTTTCAGGAGAGGAGTAACTGAC 60.620 50.000 0.00 0.00 37.86 3.51
1878 7166 3.850273 CGTCACATTCAGTTCGTACTACC 59.150 47.826 0.00 0.00 31.96 3.18
1880 7168 3.495193 GCGTCACATTCAGTTCGTACTA 58.505 45.455 0.00 0.00 31.96 1.82
1881 7169 2.325761 GCGTCACATTCAGTTCGTACT 58.674 47.619 0.00 0.00 34.00 2.73
1945 7233 3.552132 TGTAGCACAGTTTCAGTCCAA 57.448 42.857 0.00 0.00 0.00 3.53
2071 7363 1.070105 CCCGGACGAGGACAAACAA 59.930 57.895 0.73 0.00 0.00 2.83
2101 7393 7.013846 TCAGTAAAAATTGTGTTAGGAACAGGG 59.986 37.037 0.00 0.00 43.10 4.45
2102 7394 7.860872 GTCAGTAAAAATTGTGTTAGGAACAGG 59.139 37.037 0.00 0.00 43.10 4.00
2103 7395 7.860872 GGTCAGTAAAAATTGTGTTAGGAACAG 59.139 37.037 0.00 0.00 43.10 3.16
2104 7396 7.339721 TGGTCAGTAAAAATTGTGTTAGGAACA 59.660 33.333 0.00 0.00 39.52 3.18
2105 7397 7.708998 TGGTCAGTAAAAATTGTGTTAGGAAC 58.291 34.615 0.00 0.00 0.00 3.62
2110 7402 7.633193 ACACTGGTCAGTAAAAATTGTGTTA 57.367 32.000 3.06 0.00 40.20 2.41
2111 7403 6.524101 ACACTGGTCAGTAAAAATTGTGTT 57.476 33.333 3.06 0.00 40.20 3.32
2113 7405 6.329496 ACAACACTGGTCAGTAAAAATTGTG 58.671 36.000 3.06 0.00 40.20 3.33
2116 7408 5.810074 GCAACAACACTGGTCAGTAAAAATT 59.190 36.000 3.06 0.00 40.20 1.82
2118 7410 4.461081 AGCAACAACACTGGTCAGTAAAAA 59.539 37.500 3.06 0.00 40.20 1.94
2126 7418 2.939460 AAACAGCAACAACACTGGTC 57.061 45.000 0.00 0.00 38.25 4.02
2127 7419 3.006323 TGAAAAACAGCAACAACACTGGT 59.994 39.130 0.00 0.00 38.25 4.00
2139 7432 2.238521 TCACCCAGGATGAAAAACAGC 58.761 47.619 0.00 0.00 39.69 4.40
2150 7443 3.505680 CGTGAATTTTCAATCACCCAGGA 59.494 43.478 0.00 0.00 42.29 3.86
2152 7445 3.505680 TCCGTGAATTTTCAATCACCCAG 59.494 43.478 0.00 0.00 42.29 4.45
2156 7449 5.335127 CCATCTCCGTGAATTTTCAATCAC 58.665 41.667 0.00 0.00 41.95 3.06
2169 7462 2.913054 ATCGTGCTGCCATCTCCGTG 62.913 60.000 0.00 0.00 0.00 4.94
2172 7465 0.462581 TTGATCGTGCTGCCATCTCC 60.463 55.000 0.00 0.00 0.00 3.71
2189 7482 1.068588 CATCCTTCCAGGCATGCATTG 59.931 52.381 21.36 16.51 34.61 2.82
2250 7544 0.886490 CACTTGGTGGAGCAGGTCAC 60.886 60.000 1.20 0.00 0.00 3.67
2335 7642 1.002900 ACATGTTTGAAGTTCGTGCGG 60.003 47.619 0.00 0.00 0.00 5.69
2341 7648 8.094798 TGTATCCACTTACATGTTTGAAGTTC 57.905 34.615 2.30 0.00 31.04 3.01
2374 7682 0.586319 CACGTGAGCAACCAAACGAT 59.414 50.000 10.90 0.00 39.27 3.73


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

AutoCloner maintained by Alex Coulton.