Multiple sequence alignment - TraesCS7D01G237200

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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 TraesCS7D01G237200 chr7D 100.000 2687 0 0 1 2687 200770854 200768168 0.000000e+00 4963.0
1 TraesCS7D01G237200 chr7D 82.716 162 22 5 276 433 617736584 617736425 3.610000e-29 139.0
2 TraesCS7D01G237200 chr7B 93.793 1160 47 5 764 1923 165103316 165102182 0.000000e+00 1720.0
3 TraesCS7D01G237200 chr7B 89.231 520 18 18 1864 2362 165102191 165101689 1.370000e-172 616.0
4 TraesCS7D01G237200 chr7B 91.694 301 8 6 2404 2687 165101691 165101391 4.170000e-108 401.0
5 TraesCS7D01G237200 chr7A 97.325 785 21 0 948 1732 214306377 214305593 0.000000e+00 1334.0
6 TraesCS7D01G237200 chr7A 93.155 336 22 1 1725 2059 214305567 214305232 2.400000e-135 492.0
7 TraesCS7D01G237200 chr7A 81.041 269 22 15 2434 2687 214304804 214304550 1.270000e-43 187.0
8 TraesCS7D01G237200 chr7A 93.578 109 7 0 772 880 214306907 214306799 2.140000e-36 163.0
9 TraesCS7D01G237200 chr3D 82.555 728 78 22 2 705 21684496 21685198 1.780000e-166 595.0
10 TraesCS7D01G237200 chr3D 91.304 46 4 0 642 687 2912316 2912361 2.230000e-06 63.9
11 TraesCS7D01G237200 chr3B 86.909 550 47 15 171 699 609891993 609892538 6.410000e-166 593.0
12 TraesCS7D01G237200 chr6D 82.730 718 73 29 2 697 41334190 41334878 2.300000e-165 592.0
13 TraesCS7D01G237200 chr1A 83.005 659 64 24 8 644 185120345 185119713 1.090000e-153 553.0
14 TraesCS7D01G237200 chr2A 80.392 714 76 29 23 698 306688566 306689253 4.020000e-133 484.0
15 TraesCS7D01G237200 chr6B 82.948 563 47 22 171 705 296408268 296407727 1.880000e-126 462.0
16 TraesCS7D01G237200 chr5D 77.273 176 29 10 530 697 536086175 536086347 2.850000e-15 93.5


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 TraesCS7D01G237200 chr7D 200768168 200770854 2686 True 4963.000000 4963 100.000000 1 2687 1 chr7D.!!$R1 2686
1 TraesCS7D01G237200 chr7B 165101391 165103316 1925 True 912.333333 1720 91.572667 764 2687 3 chr7B.!!$R1 1923
2 TraesCS7D01G237200 chr7A 214304550 214306907 2357 True 544.000000 1334 91.274750 772 2687 4 chr7A.!!$R1 1915
3 TraesCS7D01G237200 chr3D 21684496 21685198 702 False 595.000000 595 82.555000 2 705 1 chr3D.!!$F2 703
4 TraesCS7D01G237200 chr3B 609891993 609892538 545 False 593.000000 593 86.909000 171 699 1 chr3B.!!$F1 528
5 TraesCS7D01G237200 chr6D 41334190 41334878 688 False 592.000000 592 82.730000 2 697 1 chr6D.!!$F1 695
6 TraesCS7D01G237200 chr1A 185119713 185120345 632 True 553.000000 553 83.005000 8 644 1 chr1A.!!$R1 636
7 TraesCS7D01G237200 chr2A 306688566 306689253 687 False 484.000000 484 80.392000 23 698 1 chr2A.!!$F1 675
8 TraesCS7D01G237200 chr6B 296407727 296408268 541 True 462.000000 462 82.948000 171 705 1 chr6B.!!$R1 534

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
150 156 0.112995 ATCTGCAGGGCAAACCAAGA 59.887 50.0 15.13 0.0 43.89 3.02 F
153 159 0.112995 TGCAGGGCAAACCAAGATCT 59.887 50.0 0.00 0.0 43.89 2.75 F
882 932 0.748367 CCCTTCCTTCCTTAAGCCGC 60.748 60.0 0.00 0.0 0.00 6.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1509 1913 0.388649 CCTTGGACAGGTCGAACGAG 60.389 60.000 0.00 0.0 37.99 4.18 R
1512 1916 0.670854 GCTCCTTGGACAGGTCGAAC 60.671 60.000 0.00 0.0 44.37 3.95 R
2622 3225 1.080569 CAACAATCCGGCTTGGTGC 60.081 57.895 22.04 0.0 37.05 5.01 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
124 130 8.105097 TGTAGTAATTTTGCTTACATGCTTCA 57.895 30.769 0.00 0.00 34.66 3.02
144 150 2.953648 CACATGATATCTGCAGGGCAAA 59.046 45.455 15.13 0.00 38.41 3.68
145 151 2.954318 ACATGATATCTGCAGGGCAAAC 59.046 45.455 15.13 2.00 38.41 2.93
146 152 2.057137 TGATATCTGCAGGGCAAACC 57.943 50.000 15.13 0.00 38.41 3.27
148 154 2.291475 TGATATCTGCAGGGCAAACCAA 60.291 45.455 15.13 0.00 43.89 3.67
149 155 1.838112 TATCTGCAGGGCAAACCAAG 58.162 50.000 15.13 0.00 43.89 3.61
150 156 0.112995 ATCTGCAGGGCAAACCAAGA 59.887 50.000 15.13 0.00 43.89 3.02
151 157 0.112995 TCTGCAGGGCAAACCAAGAT 59.887 50.000 15.13 0.00 43.89 2.40
152 158 0.529378 CTGCAGGGCAAACCAAGATC 59.471 55.000 5.57 0.00 43.89 2.75
153 159 0.112995 TGCAGGGCAAACCAAGATCT 59.887 50.000 0.00 0.00 43.89 2.75
154 160 1.260544 GCAGGGCAAACCAAGATCTT 58.739 50.000 0.88 0.88 43.89 2.40
155 161 1.203287 GCAGGGCAAACCAAGATCTTC 59.797 52.381 4.57 0.00 43.89 2.87
156 162 2.517959 CAGGGCAAACCAAGATCTTCA 58.482 47.619 4.57 0.00 43.89 3.02
157 163 3.094572 CAGGGCAAACCAAGATCTTCAT 58.905 45.455 4.57 0.00 43.89 2.57
158 164 3.094572 AGGGCAAACCAAGATCTTCATG 58.905 45.455 4.57 3.71 43.89 3.07
159 165 2.417787 GGGCAAACCAAGATCTTCATGC 60.418 50.000 4.57 12.79 39.85 4.06
160 166 2.231964 GGCAAACCAAGATCTTCATGCA 59.768 45.455 22.50 0.00 34.37 3.96
161 167 3.306225 GGCAAACCAAGATCTTCATGCAA 60.306 43.478 22.50 0.00 34.37 4.08
162 168 3.924686 GCAAACCAAGATCTTCATGCAAG 59.075 43.478 18.93 0.00 33.00 4.01
163 169 4.560108 GCAAACCAAGATCTTCATGCAAGT 60.560 41.667 18.93 3.55 33.27 3.16
164 170 5.535333 CAAACCAAGATCTTCATGCAAGTT 58.465 37.500 4.57 0.00 33.27 2.66
165 171 5.382618 AACCAAGATCTTCATGCAAGTTC 57.617 39.130 4.57 0.00 33.27 3.01
166 172 4.401022 ACCAAGATCTTCATGCAAGTTCA 58.599 39.130 4.57 0.00 34.39 3.18
167 173 4.217118 ACCAAGATCTTCATGCAAGTTCAC 59.783 41.667 4.57 0.00 34.39 3.18
168 174 4.216902 CCAAGATCTTCATGCAAGTTCACA 59.783 41.667 4.57 0.00 34.39 3.58
169 175 5.105877 CCAAGATCTTCATGCAAGTTCACAT 60.106 40.000 4.57 0.00 34.39 3.21
213 219 1.888512 TCTTCATGCAAGTTCAAGCCC 59.111 47.619 0.00 0.00 33.27 5.19
227 233 1.535204 AAGCCCCTTTGTTGGATGCG 61.535 55.000 0.00 0.00 32.47 4.73
230 236 1.185315 CCCCTTTGTTGGATGCGAAT 58.815 50.000 0.00 0.00 0.00 3.34
327 337 7.066374 AGCTATGAACATTCGAAGAACTTTC 57.934 36.000 3.35 2.45 45.90 2.62
572 622 5.960811 TGGCATTTATTTCACAAATCCCCTA 59.039 36.000 0.00 0.00 32.38 3.53
584 634 0.862554 ATCCCCTATGGCAGCCAAAT 59.137 50.000 20.84 5.30 36.95 2.32
676 726 8.953368 ATTTCTATCAAATGAAATGAAAGCCC 57.047 30.769 0.00 0.00 40.20 5.19
705 755 5.531287 GCCAAACGATCTGTTAGGGATATTT 59.469 40.000 17.22 0.00 40.84 1.40
706 756 6.039382 GCCAAACGATCTGTTAGGGATATTTT 59.961 38.462 17.22 0.00 40.84 1.82
707 757 7.417612 CCAAACGATCTGTTAGGGATATTTTG 58.582 38.462 11.86 0.00 40.84 2.44
708 758 7.282224 CCAAACGATCTGTTAGGGATATTTTGA 59.718 37.037 11.86 0.00 40.84 2.69
709 759 8.338259 CAAACGATCTGTTAGGGATATTTTGAG 58.662 37.037 0.00 0.00 40.84 3.02
710 760 7.125792 ACGATCTGTTAGGGATATTTTGAGT 57.874 36.000 0.00 0.00 0.00 3.41
711 761 8.246430 ACGATCTGTTAGGGATATTTTGAGTA 57.754 34.615 0.00 0.00 0.00 2.59
712 762 8.701895 ACGATCTGTTAGGGATATTTTGAGTAA 58.298 33.333 0.00 0.00 0.00 2.24
713 763 9.712305 CGATCTGTTAGGGATATTTTGAGTAAT 57.288 33.333 0.00 0.00 0.00 1.89
847 897 2.229784 ACTAAAGTACTCGACCGTTGGG 59.770 50.000 0.00 0.00 40.11 4.12
880 930 2.357257 CCTTCCCTTCCTTCCTTAAGCC 60.357 54.545 0.00 0.00 0.00 4.35
881 931 0.909623 TCCCTTCCTTCCTTAAGCCG 59.090 55.000 0.00 0.00 0.00 5.52
882 932 0.748367 CCCTTCCTTCCTTAAGCCGC 60.748 60.000 0.00 0.00 0.00 6.53
883 933 1.090052 CCTTCCTTCCTTAAGCCGCG 61.090 60.000 0.00 0.00 0.00 6.46
884 934 1.706287 CTTCCTTCCTTAAGCCGCGC 61.706 60.000 0.00 0.00 0.00 6.86
885 935 3.564027 CCTTCCTTAAGCCGCGCG 61.564 66.667 25.67 25.67 0.00 6.86
886 936 2.508439 CTTCCTTAAGCCGCGCGA 60.508 61.111 34.63 8.46 0.00 5.87
887 937 2.508439 TTCCTTAAGCCGCGCGAG 60.508 61.111 34.63 22.41 0.00 5.03
900 950 4.789075 GCGAGCGCGACTACCCAA 62.789 66.667 15.92 0.00 40.82 4.12
901 951 2.879462 CGAGCGCGACTACCCAAC 60.879 66.667 12.10 0.00 40.82 3.77
902 952 2.260434 GAGCGCGACTACCCAACA 59.740 61.111 12.10 0.00 0.00 3.33
903 953 2.048503 AGCGCGACTACCCAACAC 60.049 61.111 12.10 0.00 0.00 3.32
927 977 2.145397 TCATCACGCTTCTACTCCCT 57.855 50.000 0.00 0.00 0.00 4.20
928 978 2.025155 TCATCACGCTTCTACTCCCTC 58.975 52.381 0.00 0.00 0.00 4.30
929 979 1.751351 CATCACGCTTCTACTCCCTCA 59.249 52.381 0.00 0.00 0.00 3.86
945 995 3.102204 CCCTCATTTCCATTTCTGCCTT 58.898 45.455 0.00 0.00 0.00 4.35
961 1365 1.323412 CCTTCCGAGTCCGATCTCAT 58.677 55.000 7.38 0.00 38.22 2.90
1656 2060 4.197498 GTCGCCGCCGTAGCCTTA 62.197 66.667 0.00 0.00 34.57 2.69
1660 2064 3.463585 CCGCCGTAGCCTTACCCA 61.464 66.667 0.00 0.00 34.57 4.51
1738 2175 9.274206 GAGTTGAATTTACCTCTTGTTTACTCT 57.726 33.333 0.00 0.00 0.00 3.24
1739 2176 9.057089 AGTTGAATTTACCTCTTGTTTACTCTG 57.943 33.333 0.00 0.00 0.00 3.35
1805 2242 3.445096 AGCAGATTTGGTATGGCTGAAAC 59.555 43.478 0.00 0.00 32.18 2.78
1806 2243 3.193267 GCAGATTTGGTATGGCTGAAACA 59.807 43.478 0.00 0.00 0.00 2.83
1860 2297 6.255020 TGACGAAATAACGCTTCTCTAATTCC 59.745 38.462 0.00 0.00 36.70 3.01
2034 2519 7.573627 ACTCTTTGTAACGATTCAAAGCTTAC 58.426 34.615 16.52 0.97 45.53 2.34
2043 2528 7.849804 ACGATTCAAAGCTTACTTGTATGAT 57.150 32.000 0.00 0.00 35.85 2.45
2112 2597 9.036671 GTTATTCTGACTTCCTGCTTTATACTC 57.963 37.037 0.00 0.00 0.00 2.59
2113 2598 5.599999 TCTGACTTCCTGCTTTATACTCC 57.400 43.478 0.00 0.00 0.00 3.85
2115 2600 5.663106 TCTGACTTCCTGCTTTATACTCCAT 59.337 40.000 0.00 0.00 0.00 3.41
2116 2601 5.674525 TGACTTCCTGCTTTATACTCCATG 58.325 41.667 0.00 0.00 0.00 3.66
2119 2604 3.808728 TCCTGCTTTATACTCCATGTGC 58.191 45.455 0.00 0.00 0.00 4.57
2120 2605 3.455910 TCCTGCTTTATACTCCATGTGCT 59.544 43.478 0.00 0.00 0.00 4.40
2122 2607 4.993584 CCTGCTTTATACTCCATGTGCTAG 59.006 45.833 0.00 0.00 0.00 3.42
2124 2609 6.233905 TGCTTTATACTCCATGTGCTAGAA 57.766 37.500 0.00 0.00 0.00 2.10
2128 2613 8.930760 GCTTTATACTCCATGTGCTAGAATTAG 58.069 37.037 0.00 0.00 0.00 1.73
2129 2614 9.429359 CTTTATACTCCATGTGCTAGAATTAGG 57.571 37.037 0.00 0.00 0.00 2.69
2168 2723 2.181975 CAACCCAATTCTCCCTGCAAT 58.818 47.619 0.00 0.00 0.00 3.56
2241 2801 1.003851 CGTCGTTGTGGTTGTTCTGT 58.996 50.000 0.00 0.00 0.00 3.41
2242 2802 1.395608 CGTCGTTGTGGTTGTTCTGTT 59.604 47.619 0.00 0.00 0.00 3.16
2243 2803 2.780993 GTCGTTGTGGTTGTTCTGTTG 58.219 47.619 0.00 0.00 0.00 3.33
2244 2804 2.160813 GTCGTTGTGGTTGTTCTGTTGT 59.839 45.455 0.00 0.00 0.00 3.32
2245 2805 2.417239 TCGTTGTGGTTGTTCTGTTGTC 59.583 45.455 0.00 0.00 0.00 3.18
2246 2806 2.418628 CGTTGTGGTTGTTCTGTTGTCT 59.581 45.455 0.00 0.00 0.00 3.41
2247 2807 3.119990 CGTTGTGGTTGTTCTGTTGTCTT 60.120 43.478 0.00 0.00 0.00 3.01
2248 2808 4.165779 GTTGTGGTTGTTCTGTTGTCTTG 58.834 43.478 0.00 0.00 0.00 3.02
2249 2809 3.417101 TGTGGTTGTTCTGTTGTCTTGT 58.583 40.909 0.00 0.00 0.00 3.16
2250 2810 3.190327 TGTGGTTGTTCTGTTGTCTTGTG 59.810 43.478 0.00 0.00 0.00 3.33
2251 2811 2.752354 TGGTTGTTCTGTTGTCTTGTGG 59.248 45.455 0.00 0.00 0.00 4.17
2252 2812 2.752903 GGTTGTTCTGTTGTCTTGTGGT 59.247 45.455 0.00 0.00 0.00 4.16
2253 2813 3.192633 GGTTGTTCTGTTGTCTTGTGGTT 59.807 43.478 0.00 0.00 0.00 3.67
2254 2814 4.165779 GTTGTTCTGTTGTCTTGTGGTTG 58.834 43.478 0.00 0.00 0.00 3.77
2255 2815 3.417101 TGTTCTGTTGTCTTGTGGTTGT 58.583 40.909 0.00 0.00 0.00 3.32
2256 2816 3.823873 TGTTCTGTTGTCTTGTGGTTGTT 59.176 39.130 0.00 0.00 0.00 2.83
2257 2817 4.083003 TGTTCTGTTGTCTTGTGGTTGTTC 60.083 41.667 0.00 0.00 0.00 3.18
2258 2818 3.950397 TCTGTTGTCTTGTGGTTGTTCT 58.050 40.909 0.00 0.00 0.00 3.01
2259 2819 3.689161 TCTGTTGTCTTGTGGTTGTTCTG 59.311 43.478 0.00 0.00 0.00 3.02
2300 2860 2.410392 TCGTGATTGCGTCATTACACAC 59.590 45.455 0.00 0.00 39.48 3.82
2411 2999 4.340950 GGAGTGGAAACCTGTGAAAATCAA 59.659 41.667 0.00 0.00 0.00 2.57
2422 3010 9.617523 AACCTGTGAAAATCAAGAAAAATCAAT 57.382 25.926 0.00 0.00 0.00 2.57
2520 3114 4.095483 GCATACTTCTGGAACATCAACCTG 59.905 45.833 0.00 0.00 38.20 4.00
2521 3115 3.864789 ACTTCTGGAACATCAACCTGT 57.135 42.857 0.00 0.00 38.20 4.00
2522 3116 4.974645 ACTTCTGGAACATCAACCTGTA 57.025 40.909 0.00 0.00 38.20 2.74
2523 3117 5.505181 ACTTCTGGAACATCAACCTGTAT 57.495 39.130 0.00 0.00 38.20 2.29
2525 3119 4.908601 TCTGGAACATCAACCTGTATGT 57.091 40.909 0.00 0.00 38.20 2.29
2622 3225 7.066284 CACCTGATACTTACTTCCAAAGGATTG 59.934 40.741 0.00 0.00 36.25 2.67
2683 3294 1.819632 GGCAAGGGGAGTGCATACG 60.820 63.158 0.00 0.00 44.07 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 106 8.020819 TGTGAAGCATGTAAGCAAAATTACTAC 58.979 33.333 0.00 0.00 36.73 2.73
124 130 2.954318 GTTTGCCCTGCAGATATCATGT 59.046 45.455 17.39 0.00 40.61 3.21
144 150 4.217118 GTGAACTTGCATGAAGATCTTGGT 59.783 41.667 14.00 0.00 35.11 3.67
145 151 4.216902 TGTGAACTTGCATGAAGATCTTGG 59.783 41.667 14.00 3.36 35.11 3.61
146 152 5.366829 TGTGAACTTGCATGAAGATCTTG 57.633 39.130 14.00 0.00 35.11 3.02
148 154 5.250982 TCATGTGAACTTGCATGAAGATCT 58.749 37.500 6.60 0.00 45.60 2.75
149 155 5.556355 TCATGTGAACTTGCATGAAGATC 57.444 39.130 6.60 2.83 45.60 2.75
154 160 2.229543 GGCTTCATGTGAACTTGCATGA 59.770 45.455 6.60 3.45 46.51 3.07
155 161 2.029739 TGGCTTCATGTGAACTTGCATG 60.030 45.455 0.00 0.00 42.62 4.06
156 162 2.230508 CTGGCTTCATGTGAACTTGCAT 59.769 45.455 7.47 0.00 0.00 3.96
157 163 1.610038 CTGGCTTCATGTGAACTTGCA 59.390 47.619 7.47 0.00 0.00 4.08
158 164 1.881973 TCTGGCTTCATGTGAACTTGC 59.118 47.619 0.00 0.00 0.00 4.01
159 165 3.057736 CCTTCTGGCTTCATGTGAACTTG 60.058 47.826 0.00 0.00 0.00 3.16
160 166 3.152341 CCTTCTGGCTTCATGTGAACTT 58.848 45.455 0.00 0.00 0.00 2.66
161 167 2.787994 CCTTCTGGCTTCATGTGAACT 58.212 47.619 0.00 0.00 0.00 3.01
213 219 8.647143 AAATAAATATTCGCATCCAACAAAGG 57.353 30.769 0.00 0.00 0.00 3.11
244 252 3.968096 CGCATTACAAATGCATTAGGACG 59.032 43.478 20.90 6.99 44.75 4.79
313 323 4.150098 CGTCGGAAAGAAAGTTCTTCGAAT 59.850 41.667 15.17 0.00 46.22 3.34
322 332 1.202486 TGTGCTCGTCGGAAAGAAAGT 60.202 47.619 0.00 0.00 0.00 2.66
327 337 1.217882 AACTTGTGCTCGTCGGAAAG 58.782 50.000 0.00 0.00 0.00 2.62
555 605 5.136068 TGCCATAGGGGATTTGTGAAATA 57.864 39.130 0.00 0.00 40.01 1.40
572 622 6.052405 TCAATTTTCTTATTTGGCTGCCAT 57.948 33.333 24.03 11.42 31.53 4.40
658 708 2.233431 CCCGGGCTTTCATTTCATTTGA 59.767 45.455 8.08 0.00 0.00 2.69
676 726 1.234615 AACAGATCGTTTGGCACCCG 61.235 55.000 0.00 0.00 32.35 5.28
755 805 9.347240 CCCTTTCACATGTTCATCTAATTATCT 57.653 33.333 0.00 0.00 0.00 1.98
756 806 8.078596 GCCCTTTCACATGTTCATCTAATTATC 58.921 37.037 0.00 0.00 0.00 1.75
757 807 7.014615 GGCCCTTTCACATGTTCATCTAATTAT 59.985 37.037 0.00 0.00 0.00 1.28
758 808 6.321181 GGCCCTTTCACATGTTCATCTAATTA 59.679 38.462 0.00 0.00 0.00 1.40
759 809 5.127682 GGCCCTTTCACATGTTCATCTAATT 59.872 40.000 0.00 0.00 0.00 1.40
760 810 4.646492 GGCCCTTTCACATGTTCATCTAAT 59.354 41.667 0.00 0.00 0.00 1.73
761 811 4.016444 GGCCCTTTCACATGTTCATCTAA 58.984 43.478 0.00 0.00 0.00 2.10
762 812 3.010027 TGGCCCTTTCACATGTTCATCTA 59.990 43.478 0.00 0.00 0.00 1.98
770 820 2.993471 GCGGTGGCCCTTTCACATG 61.993 63.158 0.00 0.00 36.90 3.21
883 933 4.789075 TTGGGTAGTCGCGCTCGC 62.789 66.667 5.56 3.90 35.26 5.03
884 934 2.879462 GTTGGGTAGTCGCGCTCG 60.879 66.667 5.56 0.00 0.00 5.03
885 935 2.092882 GTGTTGGGTAGTCGCGCTC 61.093 63.158 5.56 0.00 0.00 5.03
886 936 2.048503 GTGTTGGGTAGTCGCGCT 60.049 61.111 5.56 4.52 0.00 5.92
887 937 3.116531 GGTGTTGGGTAGTCGCGC 61.117 66.667 0.00 0.00 0.00 6.86
888 938 2.807895 CGGTGTTGGGTAGTCGCG 60.808 66.667 0.00 0.00 0.00 5.87
889 939 2.234913 ATCCGGTGTTGGGTAGTCGC 62.235 60.000 0.00 0.00 0.00 5.19
890 940 0.179119 GATCCGGTGTTGGGTAGTCG 60.179 60.000 0.00 0.00 0.00 4.18
891 941 0.899720 TGATCCGGTGTTGGGTAGTC 59.100 55.000 0.00 0.00 0.00 2.59
892 942 1.485066 GATGATCCGGTGTTGGGTAGT 59.515 52.381 0.00 0.00 0.00 2.73
893 943 1.484653 TGATGATCCGGTGTTGGGTAG 59.515 52.381 0.00 0.00 0.00 3.18
894 944 1.208535 GTGATGATCCGGTGTTGGGTA 59.791 52.381 0.00 0.00 0.00 3.69
895 945 0.035439 GTGATGATCCGGTGTTGGGT 60.035 55.000 0.00 0.00 0.00 4.51
896 946 1.089481 CGTGATGATCCGGTGTTGGG 61.089 60.000 0.00 0.00 0.00 4.12
897 947 1.705337 GCGTGATGATCCGGTGTTGG 61.705 60.000 0.00 0.00 0.00 3.77
898 948 0.740868 AGCGTGATGATCCGGTGTTG 60.741 55.000 0.00 0.00 32.98 3.33
899 949 0.036388 AAGCGTGATGATCCGGTGTT 60.036 50.000 0.00 0.00 34.68 3.32
900 950 0.460284 GAAGCGTGATGATCCGGTGT 60.460 55.000 0.00 0.00 34.68 4.16
901 951 0.179100 AGAAGCGTGATGATCCGGTG 60.179 55.000 0.00 0.00 34.68 4.94
902 952 1.067212 GTAGAAGCGTGATGATCCGGT 59.933 52.381 0.00 2.94 36.18 5.28
903 953 1.338337 AGTAGAAGCGTGATGATCCGG 59.662 52.381 0.00 0.00 0.00 5.14
927 977 2.754552 CGGAAGGCAGAAATGGAAATGA 59.245 45.455 0.00 0.00 0.00 2.57
928 978 2.754552 TCGGAAGGCAGAAATGGAAATG 59.245 45.455 0.00 0.00 0.00 2.32
929 979 3.019564 CTCGGAAGGCAGAAATGGAAAT 58.980 45.455 0.00 0.00 0.00 2.17
945 995 3.418684 TGATATGAGATCGGACTCGGA 57.581 47.619 0.00 0.00 39.49 4.55
961 1365 7.723616 TCTGAATTGGAAGGTTTTGAGTTGATA 59.276 33.333 0.00 0.00 0.00 2.15
1509 1913 0.388649 CCTTGGACAGGTCGAACGAG 60.389 60.000 0.00 0.00 37.99 4.18
1512 1916 0.670854 GCTCCTTGGACAGGTCGAAC 60.671 60.000 0.00 0.00 44.37 3.95
1656 2060 3.628646 GATGAGCTTGCCGGTGGGT 62.629 63.158 1.90 0.00 34.97 4.51
1660 2064 2.270205 CAGGATGAGCTTGCCGGT 59.730 61.111 1.90 0.00 39.69 5.28
1805 2242 8.060020 TCAGAACAAATTTGAAGCGTAAAATG 57.940 30.769 24.64 8.06 0.00 2.32
1806 2243 8.816640 ATCAGAACAAATTTGAAGCGTAAAAT 57.183 26.923 24.64 3.84 0.00 1.82
1860 2297 3.710722 AGGAAGCCTGCGACCCTG 61.711 66.667 0.00 0.00 29.57 4.45
2043 2528 2.019249 GTTGCAGCTGCTATGAATGGA 58.981 47.619 36.61 12.87 42.66 3.41
2122 2607 6.060788 AGAGCACATGGAGAATTCCTAATTC 58.939 40.000 0.65 4.55 45.98 2.17
2124 2609 5.643421 AGAGCACATGGAGAATTCCTAAT 57.357 39.130 0.65 0.00 44.36 1.73
2128 2613 3.614092 TGAAGAGCACATGGAGAATTCC 58.386 45.455 0.65 0.00 44.31 3.01
2129 2614 4.142513 GGTTGAAGAGCACATGGAGAATTC 60.143 45.833 0.00 0.00 0.00 2.17
2168 2723 2.093394 TGGAGTCGTCAAAACAACAGGA 60.093 45.455 0.00 0.00 0.00 3.86
2241 2801 3.823873 ACAACAGAACAACCACAAGACAA 59.176 39.130 0.00 0.00 0.00 3.18
2242 2802 3.417101 ACAACAGAACAACCACAAGACA 58.583 40.909 0.00 0.00 0.00 3.41
2243 2803 3.485216 CGACAACAGAACAACCACAAGAC 60.485 47.826 0.00 0.00 0.00 3.01
2244 2804 2.675844 CGACAACAGAACAACCACAAGA 59.324 45.455 0.00 0.00 0.00 3.02
2245 2805 2.675844 TCGACAACAGAACAACCACAAG 59.324 45.455 0.00 0.00 0.00 3.16
2246 2806 2.701107 TCGACAACAGAACAACCACAA 58.299 42.857 0.00 0.00 0.00 3.33
2247 2807 2.388310 TCGACAACAGAACAACCACA 57.612 45.000 0.00 0.00 0.00 4.17
2248 2808 2.538939 GCTTCGACAACAGAACAACCAC 60.539 50.000 0.00 0.00 0.00 4.16
2249 2809 1.668751 GCTTCGACAACAGAACAACCA 59.331 47.619 0.00 0.00 0.00 3.67
2250 2810 1.940613 AGCTTCGACAACAGAACAACC 59.059 47.619 0.00 0.00 0.00 3.77
2251 2811 3.675467 AAGCTTCGACAACAGAACAAC 57.325 42.857 0.00 0.00 0.00 3.32
2252 2812 5.295787 ACAATAAGCTTCGACAACAGAACAA 59.704 36.000 0.00 0.00 0.00 2.83
2253 2813 4.814234 ACAATAAGCTTCGACAACAGAACA 59.186 37.500 0.00 0.00 0.00 3.18
2254 2814 5.050363 TGACAATAAGCTTCGACAACAGAAC 60.050 40.000 0.00 0.00 0.00 3.01
2255 2815 5.053811 TGACAATAAGCTTCGACAACAGAA 58.946 37.500 0.00 0.00 0.00 3.02
2256 2816 4.627058 TGACAATAAGCTTCGACAACAGA 58.373 39.130 0.00 0.00 0.00 3.41
2257 2817 4.990543 TGACAATAAGCTTCGACAACAG 57.009 40.909 0.00 0.00 0.00 3.16
2258 2818 4.091365 CGATGACAATAAGCTTCGACAACA 59.909 41.667 0.00 0.00 34.74 3.33
2259 2819 4.091509 ACGATGACAATAAGCTTCGACAAC 59.908 41.667 0.00 0.00 36.12 3.32
2376 2937 4.508662 GTTTCCACTCCAAGATAGTCTGG 58.491 47.826 0.00 0.00 0.00 3.86
2622 3225 1.080569 CAACAATCCGGCTTGGTGC 60.081 57.895 22.04 0.00 37.05 5.01


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

AutoCloner maintained by Alex Coulton.