Multiple sequence alignment - TraesCS2A01G495100

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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 TraesCS2A01G495100 chr2A 100.000 2456 0 0 1 2456 726755077 726757532 0.000000e+00 4536.0
1 TraesCS2A01G495100 chr2A 85.242 393 36 12 940 1327 726592740 726593115 3.830000e-103 385.0
2 TraesCS2A01G495100 chr2A 85.799 338 24 11 990 1327 726560850 726561163 1.090000e-88 337.0
3 TraesCS2A01G495100 chr2A 93.827 81 5 0 627 707 639990069 639990149 3.320000e-24 122.0
4 TraesCS2A01G495100 chr2D 92.781 1219 30 26 702 1881 592273832 592275031 0.000000e+00 1711.0
5 TraesCS2A01G495100 chr2D 91.374 626 52 2 1 625 592273213 592273837 0.000000e+00 856.0
6 TraesCS2A01G495100 chr2D 83.388 614 33 30 1873 2450 592275062 592275642 2.820000e-139 505.0
7 TraesCS2A01G495100 chr2D 86.514 393 31 12 940 1327 592115456 592115831 1.760000e-111 412.0
8 TraesCS2A01G495100 chr2D 85.496 393 35 11 940 1327 592092221 592092596 8.230000e-105 390.0
9 TraesCS2A01G495100 chr2D 85.279 394 34 15 940 1327 592080401 592080776 3.830000e-103 385.0
10 TraesCS2A01G495100 chr2D 79.568 602 54 39 775 1327 592030958 592031539 1.390000e-97 366.0
11 TraesCS2A01G495100 chr2D 81.333 225 20 12 1115 1337 591320567 591320771 1.950000e-36 163.0
12 TraesCS2A01G495100 chr2B 92.626 1207 40 20 702 1877 717895750 717896938 0.000000e+00 1690.0
13 TraesCS2A01G495100 chr2B 88.907 622 57 8 5 625 717895145 717895755 0.000000e+00 756.0
14 TraesCS2A01G495100 chr2B 84.841 409 32 9 1874 2279 717896974 717897355 3.830000e-103 385.0
15 TraesCS2A01G495100 chr2B 85.175 371 33 11 963 1327 717678647 717679001 6.460000e-96 361.0
16 TraesCS2A01G495100 chr2B 91.111 90 7 1 625 713 132621916 132622005 1.190000e-23 121.0
17 TraesCS2A01G495100 chrUn 81.567 217 21 10 1115 1329 317867826 317868025 7.030000e-36 161.0
18 TraesCS2A01G495100 chr1A 95.000 80 4 0 627 706 550132499 550132420 2.560000e-25 126.0
19 TraesCS2A01G495100 chr6B 92.045 88 6 1 621 707 78622236 78622323 3.320000e-24 122.0
20 TraesCS2A01G495100 chr5B 92.045 88 6 1 621 707 522943451 522943364 3.320000e-24 122.0
21 TraesCS2A01G495100 chr5D 91.860 86 6 1 625 709 335104245 335104330 4.290000e-23 119.0
22 TraesCS2A01G495100 chr7D 89.362 94 8 2 621 712 22260966 22260873 1.540000e-22 117.0
23 TraesCS2A01G495100 chr7D 83.117 77 8 4 5 79 599485256 599485183 5.670000e-07 65.8
24 TraesCS2A01G495100 chr4A 90.909 88 7 1 627 713 141988033 141988120 1.540000e-22 117.0
25 TraesCS2A01G495100 chr3D 90.909 88 7 1 622 708 465762252 465762339 1.540000e-22 117.0


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 TraesCS2A01G495100 chr2A 726755077 726757532 2455 False 4536.000000 4536 100.000000 1 2456 1 chr2A.!!$F4 2455
1 TraesCS2A01G495100 chr2D 592273213 592275642 2429 False 1024.000000 1711 89.181000 1 2450 3 chr2D.!!$F6 2449
2 TraesCS2A01G495100 chr2D 592030958 592031539 581 False 366.000000 366 79.568000 775 1327 1 chr2D.!!$F2 552
3 TraesCS2A01G495100 chr2B 717895145 717897355 2210 False 943.666667 1690 88.791333 5 2279 3 chr2B.!!$F3 2274

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
868 877 0.64438 AGTCCATCATCTCCCTCCCA 59.356 55.0 0.0 0.0 0.0 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2371 2549 0.026933 CGTGACGGTGATCTCTCGAG 59.973 60.0 5.93 5.93 0.0 4.04 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
80 81 3.380637 GGACCTTAGCACGATGACTTCTA 59.619 47.826 0.00 0.00 0.00 2.10
97 98 6.320418 TGACTTCTAGACCGCAAGATACAATA 59.680 38.462 0.00 0.00 43.02 1.90
101 102 6.914259 TCTAGACCGCAAGATACAATATCAG 58.086 40.000 0.00 0.00 43.02 2.90
104 105 2.744202 CCGCAAGATACAATATCAGGGC 59.256 50.000 0.00 0.00 43.02 5.19
105 106 3.402110 CGCAAGATACAATATCAGGGCA 58.598 45.455 0.00 0.00 43.02 5.36
116 117 4.679373 ATATCAGGGCAGCGATATTAGG 57.321 45.455 0.00 0.00 32.14 2.69
126 127 2.438021 AGCGATATTAGGTTGCCTTCCA 59.562 45.455 0.00 0.00 34.61 3.53
138 139 1.433879 CCTTCCACTAGCTCGTCCG 59.566 63.158 0.00 0.00 0.00 4.79
185 186 6.993902 CACTAGTAACCAGGTTGTCCTTTTTA 59.006 38.462 15.82 0.00 43.07 1.52
207 208 9.785982 TTTTATGGGAATGTCATATATCGTTGA 57.214 29.630 0.00 0.00 0.00 3.18
271 272 3.272574 TCAACTCTCCATTGATGAGGC 57.727 47.619 9.52 0.00 31.11 4.70
282 283 3.581024 TTGATGAGGCATTGCAAAGAC 57.419 42.857 11.39 0.00 0.00 3.01
313 314 4.475944 GTGCACATACACAAGGAAACATC 58.524 43.478 13.17 0.00 40.40 3.06
330 331 7.332182 AGGAAACATCGAACTTGATAAAGAGAC 59.668 37.037 0.00 0.00 0.00 3.36
381 382 3.882888 ACCATGGCATACTATTTTCGGTG 59.117 43.478 13.04 0.00 0.00 4.94
385 386 3.951037 TGGCATACTATTTTCGGTGCATT 59.049 39.130 0.00 0.00 34.45 3.56
458 459 6.237781 GCATCAACATGCGTATAATTTTGCAA 60.238 34.615 0.00 0.00 46.06 4.08
461 462 7.893824 TCAACATGCGTATAATTTTGCAATTC 58.106 30.769 0.00 0.00 41.22 2.17
464 465 6.917477 ACATGCGTATAATTTTGCAATTCGAT 59.083 30.769 0.00 0.00 41.22 3.59
514 516 7.661437 TGGCAGTATTGTTTCCATAGATATGTC 59.339 37.037 0.00 0.00 31.82 3.06
549 551 5.919272 AGAAAGCGTACAACTTTTAGGTC 57.081 39.130 11.10 0.91 37.47 3.85
625 627 7.117812 CACTAACGACCTTCATTTGTGAGTATT 59.882 37.037 0.00 0.00 32.89 1.89
626 628 6.481954 AACGACCTTCATTTGTGAGTATTC 57.518 37.500 0.00 0.00 0.00 1.75
627 629 4.935808 ACGACCTTCATTTGTGAGTATTCC 59.064 41.667 0.00 0.00 0.00 3.01
628 630 5.178797 CGACCTTCATTTGTGAGTATTCCT 58.821 41.667 0.00 0.00 0.00 3.36
629 631 5.292101 CGACCTTCATTTGTGAGTATTCCTC 59.708 44.000 0.00 0.00 40.89 3.71
630 632 6.380079 ACCTTCATTTGTGAGTATTCCTCT 57.620 37.500 0.00 0.00 41.11 3.69
631 633 7.496346 ACCTTCATTTGTGAGTATTCCTCTA 57.504 36.000 0.00 0.00 41.11 2.43
632 634 8.095452 ACCTTCATTTGTGAGTATTCCTCTAT 57.905 34.615 0.00 0.00 41.11 1.98
633 635 9.213777 ACCTTCATTTGTGAGTATTCCTCTATA 57.786 33.333 0.00 0.00 41.11 1.31
700 702 9.574516 AAATGCTCTAATATTAGTTTACAGGGG 57.425 33.333 19.58 0.00 32.61 4.79
701 703 7.074653 TGCTCTAATATTAGTTTACAGGGGG 57.925 40.000 19.58 0.00 32.61 5.40
702 704 6.847567 TGCTCTAATATTAGTTTACAGGGGGA 59.152 38.462 19.58 0.00 32.61 4.81
703 705 7.016268 TGCTCTAATATTAGTTTACAGGGGGAG 59.984 40.741 19.58 8.43 32.61 4.30
704 706 7.016366 GCTCTAATATTAGTTTACAGGGGGAGT 59.984 40.741 19.58 0.00 32.61 3.85
705 707 9.597681 CTCTAATATTAGTTTACAGGGGGAGTA 57.402 37.037 19.58 0.00 32.61 2.59
722 724 7.505923 AGGGGGAGTATAAAATATTTCAACTGC 59.494 37.037 15.01 15.01 0.00 4.40
868 877 0.644380 AGTCCATCATCTCCCTCCCA 59.356 55.000 0.00 0.00 0.00 4.37
874 901 1.003442 CATCTCCCTCCCACTCCCA 59.997 63.158 0.00 0.00 0.00 4.37
893 942 2.695585 CACCCTCCCTCCTATAAAGCT 58.304 52.381 0.00 0.00 0.00 3.74
1460 1546 0.314302 AAGTTCGTCTGGTGACTCCG 59.686 55.000 0.00 0.00 40.86 4.63
1743 1844 1.411041 ACTTAGTAGTGCCGGGGATC 58.589 55.000 2.18 0.00 31.99 3.36
1817 1921 7.792508 CGAATAATTCACCGTTGTAAATAGCTC 59.207 37.037 0.00 0.00 0.00 4.09
1858 1962 2.253603 GCCGACATTGCAAGTGAATTC 58.746 47.619 4.94 0.00 0.00 2.17
1945 2090 1.799121 GTCGTACGCACCGTTCTCC 60.799 63.158 11.24 0.00 41.54 3.71
1982 2127 1.002888 ACTCAGAAGTGCAGATGGGTG 59.997 52.381 0.00 0.00 33.32 4.61
1985 2130 1.065926 CAGAAGTGCAGATGGGTGCTA 60.066 52.381 0.00 0.00 44.32 3.49
1990 2135 1.757118 GTGCAGATGGGTGCTAGTCTA 59.243 52.381 0.00 0.00 44.32 2.59
1991 2136 2.034878 TGCAGATGGGTGCTAGTCTAG 58.965 52.381 2.18 2.18 44.32 2.43
2024 2169 2.764314 GCATGTGGTAGGGCAAGCG 61.764 63.158 0.00 0.00 0.00 4.68
2054 2199 7.653311 AGAAGATTTGAACTTGCATGGTTTAAC 59.347 33.333 4.44 0.00 0.00 2.01
2062 2207 5.329399 ACTTGCATGGTTTAACTAATGGGA 58.671 37.500 4.44 0.00 0.00 4.37
2064 2209 5.186256 TGCATGGTTTAACTAATGGGAGA 57.814 39.130 11.22 0.00 0.00 3.71
2065 2210 5.575157 TGCATGGTTTAACTAATGGGAGAA 58.425 37.500 11.22 0.00 0.00 2.87
2066 2211 5.417580 TGCATGGTTTAACTAATGGGAGAAC 59.582 40.000 11.22 0.00 0.00 3.01
2067 2212 5.163550 GCATGGTTTAACTAATGGGAGAACC 60.164 44.000 11.22 0.00 40.81 3.62
2077 2222 4.892002 GGAGAACCCAACAACGGT 57.108 55.556 0.00 0.00 34.07 4.83
2078 2223 3.105187 GGAGAACCCAACAACGGTT 57.895 52.632 0.00 0.00 46.41 4.44
2079 2224 1.395635 GGAGAACCCAACAACGGTTT 58.604 50.000 0.00 0.00 43.75 3.27
2080 2225 1.066454 GGAGAACCCAACAACGGTTTG 59.934 52.381 0.00 0.00 43.75 2.93
2096 2241 3.816523 CGGTTTGGGAGCTTAAGTACAAA 59.183 43.478 4.02 7.86 0.00 2.83
2101 2246 7.262772 GTTTGGGAGCTTAAGTACAAACTTTT 58.737 34.615 23.49 0.00 43.60 2.27
2102 2247 6.385649 TGGGAGCTTAAGTACAAACTTTTG 57.614 37.500 4.02 0.00 43.60 2.44
2104 2249 5.533528 GGGAGCTTAAGTACAAACTTTTGGA 59.466 40.000 4.02 0.00 43.60 3.53
2152 2300 0.682209 AGGCTGGTGGCAATGATCAC 60.682 55.000 0.00 0.00 44.01 3.06
2157 2305 1.340893 TGGTGGCAATGATCACGGAAT 60.341 47.619 0.00 0.00 34.93 3.01
2158 2306 1.750778 GGTGGCAATGATCACGGAATT 59.249 47.619 0.00 0.00 34.93 2.17
2159 2307 2.948979 GGTGGCAATGATCACGGAATTA 59.051 45.455 0.00 0.00 34.93 1.40
2160 2308 3.569701 GGTGGCAATGATCACGGAATTAT 59.430 43.478 0.00 0.00 34.93 1.28
2161 2309 4.320494 GGTGGCAATGATCACGGAATTATC 60.320 45.833 0.00 0.00 34.93 1.75
2171 2319 6.267699 TGATCACGGAATTATCACCATCTACT 59.732 38.462 0.00 0.00 0.00 2.57
2221 2369 8.684386 TCTATTATTGGCAATAATTCGTTCCA 57.316 30.769 36.75 22.45 40.27 3.53
2242 2390 5.068329 TCCACAACTGCAACAATCAACATAA 59.932 36.000 0.00 0.00 0.00 1.90
2243 2391 5.403166 CCACAACTGCAACAATCAACATAAG 59.597 40.000 0.00 0.00 0.00 1.73
2244 2392 5.978919 CACAACTGCAACAATCAACATAAGT 59.021 36.000 0.00 0.00 0.00 2.24
2250 2398 7.878127 ACTGCAACAATCAACATAAGTAGTAGT 59.122 33.333 0.00 0.00 0.00 2.73
2292 2440 0.447801 CCGCTATTGTGCAGTCAACC 59.552 55.000 0.00 0.00 0.00 3.77
2306 2454 5.359576 TGCAGTCAACCAAGTATTTTTCAGT 59.640 36.000 0.00 0.00 0.00 3.41
2307 2455 6.127479 TGCAGTCAACCAAGTATTTTTCAGTT 60.127 34.615 0.00 0.00 0.00 3.16
2309 2457 7.043391 GCAGTCAACCAAGTATTTTTCAGTTTC 60.043 37.037 0.00 0.00 0.00 2.78
2349 2527 0.400213 GGATGATCCCCCGCATGTAA 59.600 55.000 0.00 0.00 0.00 2.41
2370 2548 0.692419 ATCGGATGTCAGGGCCTCTT 60.692 55.000 0.95 0.00 0.00 2.85
2371 2549 1.144936 CGGATGTCAGGGCCTCTTC 59.855 63.158 0.95 0.87 0.00 2.87
2372 2550 1.333636 CGGATGTCAGGGCCTCTTCT 61.334 60.000 0.95 0.00 0.00 2.85
2373 2551 0.467804 GGATGTCAGGGCCTCTTCTC 59.532 60.000 0.95 0.00 0.00 2.87
2374 2552 0.103937 GATGTCAGGGCCTCTTCTCG 59.896 60.000 0.95 0.00 0.00 4.04
2375 2553 0.324738 ATGTCAGGGCCTCTTCTCGA 60.325 55.000 0.95 0.00 0.00 4.04
2408 2591 2.097202 CACGCTCTCTCAAAAGTGTTCG 60.097 50.000 0.00 0.00 34.13 3.95
2447 2630 3.947834 GGTGGTTTGTATGGAATCCTGAG 59.052 47.826 0.00 0.00 0.00 3.35
2448 2631 4.324254 GGTGGTTTGTATGGAATCCTGAGA 60.324 45.833 0.00 0.00 0.00 3.27
2449 2632 4.878397 GTGGTTTGTATGGAATCCTGAGAG 59.122 45.833 0.00 0.00 0.00 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 5.498393 ACCGTAGAAGTCTTCTGTAGATCA 58.502 41.667 22.95 0.38 40.94 2.92
15 16 8.370182 TGGAAAAGAAGTAATAACCGTAGAAGT 58.630 33.333 0.00 0.00 0.00 3.01
80 81 4.262635 CCCTGATATTGTATCTTGCGGTCT 60.263 45.833 0.00 0.00 0.00 3.85
97 98 2.260822 ACCTAATATCGCTGCCCTGAT 58.739 47.619 0.00 0.00 0.00 2.90
101 102 0.875059 GCAACCTAATATCGCTGCCC 59.125 55.000 0.00 0.00 0.00 5.36
104 105 2.808543 GGAAGGCAACCTAATATCGCTG 59.191 50.000 0.00 0.00 31.13 5.18
105 106 2.438021 TGGAAGGCAACCTAATATCGCT 59.562 45.455 2.07 0.00 31.13 4.93
116 117 0.037232 ACGAGCTAGTGGAAGGCAAC 60.037 55.000 0.00 0.00 0.00 4.17
126 127 2.345124 AATCTACCGGACGAGCTAGT 57.655 50.000 9.46 0.00 0.00 2.57
185 186 7.939039 ACTTTCAACGATATATGACATTCCCAT 59.061 33.333 0.00 0.00 0.00 4.00
260 261 3.863424 GTCTTTGCAATGCCTCATCAATG 59.137 43.478 1.53 0.00 0.00 2.82
271 272 2.226437 ACGCCAAGTAGTCTTTGCAATG 59.774 45.455 0.00 2.27 40.79 2.82
282 283 1.393539 GTGTATGTGCACGCCAAGTAG 59.606 52.381 13.13 0.00 0.00 2.57
313 314 6.853720 TGAGGTAGTCTCTTTATCAAGTTCG 58.146 40.000 0.00 0.00 42.86 3.95
358 359 4.338118 CACCGAAAATAGTATGCCATGGTT 59.662 41.667 14.67 3.97 0.00 3.67
450 451 9.507280 CTGTATTTAGTGATCGAATTGCAAAAT 57.493 29.630 1.71 0.00 0.00 1.82
514 516 9.210426 GTTGTACGCTTTCTTCATAAATACATG 57.790 33.333 0.00 0.00 0.00 3.21
549 551 5.083533 AGATAGGTTCAGCAGACTTTGAG 57.916 43.478 0.00 0.00 0.00 3.02
674 676 9.574516 CCCCTGTAAACTAATATTAGAGCATTT 57.425 33.333 25.83 17.69 34.84 2.32
675 677 8.164070 CCCCCTGTAAACTAATATTAGAGCATT 58.836 37.037 25.83 16.63 34.84 3.56
676 678 7.516209 TCCCCCTGTAAACTAATATTAGAGCAT 59.484 37.037 25.83 12.36 34.84 3.79
677 679 6.847567 TCCCCCTGTAAACTAATATTAGAGCA 59.152 38.462 25.83 16.58 34.84 4.26
678 680 7.016366 ACTCCCCCTGTAAACTAATATTAGAGC 59.984 40.741 25.83 13.66 34.84 4.09
679 681 8.493787 ACTCCCCCTGTAAACTAATATTAGAG 57.506 38.462 25.83 13.50 34.84 2.43
693 695 9.856162 GTTGAAATATTTTATACTCCCCCTGTA 57.144 33.333 1.43 0.00 0.00 2.74
694 696 8.566109 AGTTGAAATATTTTATACTCCCCCTGT 58.434 33.333 1.43 0.00 0.00 4.00
695 697 8.850156 CAGTTGAAATATTTTATACTCCCCCTG 58.150 37.037 1.43 0.00 0.00 4.45
696 698 7.505923 GCAGTTGAAATATTTTATACTCCCCCT 59.494 37.037 1.43 0.00 0.00 4.79
697 699 7.286775 TGCAGTTGAAATATTTTATACTCCCCC 59.713 37.037 1.43 0.00 0.00 5.40
698 700 8.232913 TGCAGTTGAAATATTTTATACTCCCC 57.767 34.615 1.43 0.00 0.00 4.81
722 724 8.268052 CGGCTTTTAAATATGTACATGCATTTG 58.732 33.333 18.81 6.68 0.00 2.32
728 730 6.142817 GCTCCGGCTTTTAAATATGTACATG 58.857 40.000 18.81 0.00 35.22 3.21
767 769 6.349363 GGACTTCATTCCTACATTTTCCACAC 60.349 42.308 0.00 0.00 32.24 3.82
769 771 5.125578 GGGACTTCATTCCTACATTTTCCAC 59.874 44.000 0.00 0.00 35.76 4.02
770 772 5.261216 GGGACTTCATTCCTACATTTTCCA 58.739 41.667 0.00 0.00 35.76 3.53
868 877 0.936863 ATAGGAGGGAGGGTGGGAGT 60.937 60.000 0.00 0.00 0.00 3.85
874 901 3.319220 GAAGCTTTATAGGAGGGAGGGT 58.681 50.000 0.00 0.00 0.00 4.34
893 942 1.686800 GTAGGTGGCGGGGTAGGAA 60.687 63.158 0.00 0.00 0.00 3.36
982 1060 4.020617 CGGCAGTTGAGGGGCTGA 62.021 66.667 0.00 0.00 35.98 4.26
1348 1434 1.135915 CTTGATGTCCTCGAGGGTGAG 59.864 57.143 30.80 15.69 32.37 3.51
1546 1644 1.595058 GGAGGGAGGGAGAGGGAAGA 61.595 65.000 0.00 0.00 0.00 2.87
1547 1645 1.074850 GGAGGGAGGGAGAGGGAAG 60.075 68.421 0.00 0.00 0.00 3.46
1858 1962 5.236478 ACGGTGAGTAGAAATGTTTCACTTG 59.764 40.000 8.09 0.26 39.61 3.16
1945 2090 8.024285 ACTTCTGAGTAGAATACAGTTTTCTCG 58.976 37.037 9.32 0.00 46.26 4.04
1982 2127 4.885325 AGCTCAGAAAGGTACTAGACTAGC 59.115 45.833 9.52 0.00 38.49 3.42
1985 2130 3.445805 GCAGCTCAGAAAGGTACTAGACT 59.554 47.826 0.00 0.00 38.49 3.24
1991 2136 2.417933 CACATGCAGCTCAGAAAGGTAC 59.582 50.000 0.00 0.00 33.36 3.34
2024 2169 5.632347 CCATGCAAGTTCAAATCTTCTTCAC 59.368 40.000 0.00 0.00 0.00 3.18
2062 2207 1.107945 CCAAACCGTTGTTGGGTTCT 58.892 50.000 0.00 0.00 46.75 3.01
2065 2210 0.753848 CTCCCAAACCGTTGTTGGGT 60.754 55.000 21.16 0.00 43.20 4.51
2066 2211 2.037871 CTCCCAAACCGTTGTTGGG 58.962 57.895 17.75 17.75 44.18 4.12
2067 2212 1.106944 AGCTCCCAAACCGTTGTTGG 61.107 55.000 2.77 2.77 34.13 3.77
2068 2213 0.744281 AAGCTCCCAAACCGTTGTTG 59.256 50.000 0.00 0.00 34.13 3.33
2069 2214 2.351706 TAAGCTCCCAAACCGTTGTT 57.648 45.000 0.00 0.00 35.82 2.83
2070 2215 2.227194 CTTAAGCTCCCAAACCGTTGT 58.773 47.619 0.00 0.00 32.40 3.32
2071 2216 2.227194 ACTTAAGCTCCCAAACCGTTG 58.773 47.619 1.29 0.00 34.25 4.10
2072 2217 2.651382 ACTTAAGCTCCCAAACCGTT 57.349 45.000 1.29 0.00 0.00 4.44
2073 2218 2.369532 TGTACTTAAGCTCCCAAACCGT 59.630 45.455 1.29 0.00 0.00 4.83
2074 2219 3.048337 TGTACTTAAGCTCCCAAACCG 57.952 47.619 1.29 0.00 0.00 4.44
2075 2220 4.825634 AGTTTGTACTTAAGCTCCCAAACC 59.174 41.667 22.69 13.10 41.39 3.27
2076 2221 6.387041 AAGTTTGTACTTAAGCTCCCAAAC 57.613 37.500 20.73 20.73 42.73 2.93
2077 2222 7.262048 CAAAAGTTTGTACTTAAGCTCCCAAA 58.738 34.615 1.29 4.16 43.74 3.28
2078 2223 6.183360 CCAAAAGTTTGTACTTAAGCTCCCAA 60.183 38.462 1.29 0.00 43.74 4.12
2079 2224 5.300792 CCAAAAGTTTGTACTTAAGCTCCCA 59.699 40.000 1.29 0.00 43.74 4.37
2080 2225 5.533528 TCCAAAAGTTTGTACTTAAGCTCCC 59.466 40.000 1.29 0.00 43.74 4.30
2096 2241 8.375506 TGAACACTCATATTCTACTCCAAAAGT 58.624 33.333 0.00 0.00 42.33 2.66
2101 2246 5.678871 GCGTGAACACTCATATTCTACTCCA 60.679 44.000 3.51 0.00 33.05 3.86
2102 2247 4.740695 GCGTGAACACTCATATTCTACTCC 59.259 45.833 3.51 0.00 33.05 3.85
2104 2249 5.105716 ACAGCGTGAACACTCATATTCTACT 60.106 40.000 3.51 0.00 33.05 2.57
2152 2300 5.621555 CGGGTAGTAGATGGTGATAATTCCG 60.622 48.000 0.00 0.00 0.00 4.30
2157 2305 3.840991 AGCGGGTAGTAGATGGTGATAA 58.159 45.455 0.00 0.00 0.00 1.75
2158 2306 3.520691 AGCGGGTAGTAGATGGTGATA 57.479 47.619 0.00 0.00 0.00 2.15
2159 2307 2.383442 AGCGGGTAGTAGATGGTGAT 57.617 50.000 0.00 0.00 0.00 3.06
2160 2308 2.579873 GTAGCGGGTAGTAGATGGTGA 58.420 52.381 0.00 0.00 0.00 4.02
2161 2309 1.612463 GGTAGCGGGTAGTAGATGGTG 59.388 57.143 0.00 0.00 0.00 4.17
2218 2366 2.757314 TGTTGATTGTTGCAGTTGTGGA 59.243 40.909 0.00 0.00 0.00 4.02
2220 2368 5.978919 ACTTATGTTGATTGTTGCAGTTGTG 59.021 36.000 0.00 0.00 0.00 3.33
2221 2369 6.147864 ACTTATGTTGATTGTTGCAGTTGT 57.852 33.333 0.00 0.00 0.00 3.32
2242 2390 5.688807 TCGGGAAATGCTACTACTACTACT 58.311 41.667 0.00 0.00 0.00 2.57
2243 2391 6.382869 TTCGGGAAATGCTACTACTACTAC 57.617 41.667 0.00 0.00 0.00 2.73
2244 2392 6.072838 CGATTCGGGAAATGCTACTACTACTA 60.073 42.308 0.00 0.00 0.00 1.82
2250 2398 2.101750 TGCGATTCGGGAAATGCTACTA 59.898 45.455 8.34 0.00 0.00 1.82
2292 2440 9.670719 GGAGAGAAAGAAACTGAAAAATACTTG 57.329 33.333 0.00 0.00 0.00 3.16
2306 2454 0.321653 GCGGGCAGGAGAGAAAGAAA 60.322 55.000 0.00 0.00 0.00 2.52
2307 2455 1.296715 GCGGGCAGGAGAGAAAGAA 59.703 57.895 0.00 0.00 0.00 2.52
2309 2457 2.124942 GGCGGGCAGGAGAGAAAG 60.125 66.667 0.00 0.00 0.00 2.62
2332 2505 1.434188 TCTTACATGCGGGGGATCAT 58.566 50.000 0.00 0.00 0.00 2.45
2337 2510 1.301716 CCGATCTTACATGCGGGGG 60.302 63.158 0.00 0.00 40.08 5.40
2340 2513 2.061773 GACATCCGATCTTACATGCGG 58.938 52.381 0.00 0.00 44.83 5.69
2349 2527 1.074926 AGGCCCTGACATCCGATCT 60.075 57.895 0.00 0.00 0.00 2.75
2370 2548 1.370609 GTGACGGTGATCTCTCGAGA 58.629 55.000 15.70 15.70 42.37 4.04
2371 2549 0.026933 CGTGACGGTGATCTCTCGAG 59.973 60.000 5.93 5.93 0.00 4.04
2372 2550 1.978712 GCGTGACGGTGATCTCTCGA 61.979 60.000 7.25 0.00 0.00 4.04
2373 2551 1.583967 GCGTGACGGTGATCTCTCG 60.584 63.158 7.25 0.00 0.00 4.04
2374 2552 0.248296 GAGCGTGACGGTGATCTCTC 60.248 60.000 16.53 2.27 37.83 3.20
2375 2553 0.678366 AGAGCGTGACGGTGATCTCT 60.678 55.000 16.53 10.40 37.83 3.10
2421 2604 0.956410 TTCCATACAAACCACCGCGG 60.956 55.000 26.86 26.86 42.50 6.46
2422 2605 1.063469 GATTCCATACAAACCACCGCG 59.937 52.381 0.00 0.00 0.00 6.46
2427 2610 4.080356 CCTCTCAGGATTCCATACAAACCA 60.080 45.833 5.29 0.00 37.67 3.67


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

AutoCloner maintained by Alex Coulton.